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University of Minnesota
1.
Scott, Carolyn.
Peptide-functionalized hydrogels for three-dimensional cell culture.
Degree: PhD, Biomedical Engineering, 2016, University of Minnesota
URL: http://hdl.handle.net/11299/185633
► Biomimetic scaffolds have played a major role in the advancements in tissue engineering. In addition to mimicking the stiffness, nanofibrous structure, and biochemistry of the…
(more)
▼ Biomimetic scaffolds have played a major role in the advancements in tissue engineering. In addition to mimicking the stiffness, nanofibrous structure, and biochemistry of the native extracellular matrix (ECM), reproducing the three-dimensional (3D) environment of the ECM has been shown to be extremely important. To this end, we designed a co-assembling peptide-amphiphile hydrogel system containing the fibronectin-mimetic PR_g peptide-amphiphile and an E2 diluent peptide-amphiphile for the entrapment and culture of cells in 3D. The E2 diluent peptide amphiphile was designed to screen charges on the PR_g and increase the kinetics of self-assembly in physiologically relevant solutions. Our study investigated two weight percent formulations, 0.5 and 1.0 wt %, and found that in both, entrapped fibroblasts survived encapsulation, proliferated, and deposited collagen IV and fibronectin ECM proteins. The 0.5 wt % gels had a modulus of 429 Pa and supported significantly more fibroblasts proliferation than the 1.0 wt % gels, which had a modulus of 809 Pa. The 1.0 wt% gels though, supported significantly higher mRNA expression and production of ECM proteins. This result indicates by tuning the wt % of our peptide-amphiphile hydrogels, we can encourage either rapid proliferation or ECM deposition. While peptide-amphiphiles are an attractive material for the design of cell scaffolds due to their ability to self-assemble into nanofibrous hydrogels and incorporate multiple biomimetic peptides, there are some limitations associated with these physical hydrogels. One such limitation is that the kinetics of assembly and the mechanical properties of the resulting hydrogels are dependent upon the peptide sequence. We found that the modulus of multifunctional peptide-amphiphile hydrogels ranged from 1000 to 6500 Pa, which was too broad a range to deconvolute the effect of the peptide signal and the effect of mechanical properties. To simplify our system and study the effects of combining ECM protein-mimetic and growth factor-mimetic peptides on the proliferation and function of pancreatic β-cells, peptide mimetics were covalently immobilized on plates. This study found that β-cells proliferate more and secreted significantly more insulin on peptide-functionalized compared to non-functionalized controls. The specific peptide mimetic or combination of peptide mimetics did not significantly affect insulin secretions, but literature suggests that other signals, including cell-cell signaling may play a more significant role in insulin secretion than ECM protein or growth factor signaling. A poly(ethylene glycol) dimethacrylate (PEGDM) hydrogel was functionalized with the laminin-mimetic IKVAV peptide at a 20 µM concentration to match the modulus of non-functionalized hydrogels. This system was used to determine if peptide-functionalization also had an effect in 3D. We found β-cells in IKVAV-functionalized hydrogels proliferated significantly more than β-cells in non-functionalized scaffolds, but no differences in insulin secretion…
Subjects/Keywords: biomaterials; hydrogel; peptide; peptide-amphiphile
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APA (6th Edition):
Scott, C. (2016). Peptide-functionalized hydrogels for three-dimensional cell culture. (Doctoral Dissertation). University of Minnesota. Retrieved from http://hdl.handle.net/11299/185633
Chicago Manual of Style (16th Edition):
Scott, Carolyn. “Peptide-functionalized hydrogels for three-dimensional cell culture.” 2016. Doctoral Dissertation, University of Minnesota. Accessed March 04, 2021.
http://hdl.handle.net/11299/185633.
MLA Handbook (7th Edition):
Scott, Carolyn. “Peptide-functionalized hydrogels for three-dimensional cell culture.” 2016. Web. 04 Mar 2021.
Vancouver:
Scott C. Peptide-functionalized hydrogels for three-dimensional cell culture. [Internet] [Doctoral dissertation]. University of Minnesota; 2016. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/11299/185633.
Council of Science Editors:
Scott C. Peptide-functionalized hydrogels for three-dimensional cell culture. [Doctoral Dissertation]. University of Minnesota; 2016. Available from: http://hdl.handle.net/11299/185633

Wake Forest University
2.
Altamimi, Afnan M.
TESTING THE EFFECT OF A NOVEL HYDROGEN SULFIDE RELEASING PEPTIDE ON INFECTED BURN WOUNDS.
Degree: 2019, Wake Forest University
URL: http://hdl.handle.net/10339/93900
► Burn wounds are a devastating form of injury that leads to substantial morbidity, mortality, and cost. One of the critical complications of burn wounds is…
(more)
▼ Burn wounds are a devastating form of injury that leads to substantial morbidity, mortality, and cost. One of the critical complications of burn wounds is infections, especially with Staphylococcus aureus. Rising antimicrobial resistance is contributing to the complexity of wound management. According to the CDC, each year in the U.S. at least 2 million people are diagnosed with antibiotic-resistant bacteria, and more than 20,000 people die as a result.
Subjects/Keywords: Antimicrobial Peptide
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APA (6th Edition):
Altamimi, A. M. (2019). TESTING THE EFFECT OF A NOVEL HYDROGEN SULFIDE RELEASING PEPTIDE ON INFECTED BURN WOUNDS. (Thesis). Wake Forest University. Retrieved from http://hdl.handle.net/10339/93900
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Altamimi, Afnan M. “TESTING THE EFFECT OF A NOVEL HYDROGEN SULFIDE RELEASING PEPTIDE ON INFECTED BURN WOUNDS.” 2019. Thesis, Wake Forest University. Accessed March 04, 2021.
http://hdl.handle.net/10339/93900.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Altamimi, Afnan M. “TESTING THE EFFECT OF A NOVEL HYDROGEN SULFIDE RELEASING PEPTIDE ON INFECTED BURN WOUNDS.” 2019. Web. 04 Mar 2021.
Vancouver:
Altamimi AM. TESTING THE EFFECT OF A NOVEL HYDROGEN SULFIDE RELEASING PEPTIDE ON INFECTED BURN WOUNDS. [Internet] [Thesis]. Wake Forest University; 2019. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/10339/93900.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Altamimi AM. TESTING THE EFFECT OF A NOVEL HYDROGEN SULFIDE RELEASING PEPTIDE ON INFECTED BURN WOUNDS. [Thesis]. Wake Forest University; 2019. Available from: http://hdl.handle.net/10339/93900
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Université de Neuchâtel
3.
Montandon, Cyrille.
Identification and characterization of putative Toc159
interacting partners.
Degree: 2015, Université de Neuchâtel
URL: http://doc.rero.ch/record/257854
► Le chloroplaste est l’organelle qui caractérise les plantes terrestres ainsi que les autres eucaryotes photosynthétiques. Il remplit diverses fonctions métaboliques, mais la photosynthèse est son…
(more)
▼ Le chloroplaste est l’organelle qui caractérise les
plantes terrestres ainsi que les autres eucaryotes
photosynthétiques. Il remplit diverses fonctions métaboliques, mais
la photosynthèse est son activité principale, sa structure et sa
composition protéique en témoignent. Le chloroplaste est le
résultat d’une endosymbiose entre un eucaryote ancestral et une
cyanobactérie photosynthétique. Le génome du chloroplaste, vestige
de son ancienne autonomie, encode environ une centaine de
protéines. Les 2000-3000 autres protéines présentes dans le
chloroplaste sont codées dans le noyau et traduites dans le cytosol
et doivent donc être importées dans le chloroplaste. Le « transit
peptide » (
peptide de transit), une courte séquence à la
terminaison aminée des protéines destinées au chloroplaste, est
suffisant et nécessaire pour l’import spécifique dans le
chloroplaste. La voie Toc/Tic (Translocon at the Outer/Inner
membrane of the chloroplast envelope: « Translocon à la membrane
externe/interne de l’enveloppe du chloroplaste ») reconnait et
import ces protéines en présence d’ATP et de GTP. Le noyau du
complexe Toc est composé de Toc159 et Toc34/33, 2 récepteurs
possédant un domaine GTPase, et de Toc75 qui constitue le pore du
complexe. Toc159 est formé de 3 domaines, un domaine ancrant la
protéine dans la membrane à l’extrémité carboxyle (domaine M), un
domaine GTPase (domaine G) et un domaine acide (domaine A). Le taux
d’import des protéines et sa spécificité envers les protéines
clientes varient en fonction du développement de la plante, du
tissu ou du type de plaste. Les différents homologues de Toc159 et
de Toc34/33 chez <i>A. thaliana</i> forment des
complexes distincts. Ils montrent une spécificité d’import
différente et leur expression varie en fonction du stade de
développement ou de la partie de la plante. Le domaine A de Toc159
et de ses homologues détermine partiellement la spécificité envers
les différents types de protéines clientes. Le domaine A est
hyper-phosphorylé et existe sous une forme soluble, certainement le
résultat d’un clivage spécifique. Ces modifications
post-traductionnelles pourraient influencer la spécificité de
Toc159 envers les protéines clientes. Le contrôle de l’activité
GTPase de Toc159 ou de Toc34/33 pourrait également influencer
l’activité d’import. Le but de ce travail de thèse était la
caractérisation de protéines co-précipitées avec une version taguée
de Toc159 et identifiées par spectrométrie de masse, qui pourraient
être potentiellement responsable des modifications mentionnées
ci-dessus. L’effort principal a été fait sur Emb2004/AT1G10510, une
protéine LRR (Leucine Rich Repeat) et des contributions ont été
faites à la caractérisation d’une protéine kinase
potentielle/AT4G32250 et de Tic56/AT5G01590.
Advisors/Committee Members: Felix (Dir.).
Subjects/Keywords: transit peptide
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Montandon, C. (2015). Identification and characterization of putative Toc159
interacting partners. (Thesis). Université de Neuchâtel. Retrieved from http://doc.rero.ch/record/257854
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Montandon, Cyrille. “Identification and characterization of putative Toc159
interacting partners.” 2015. Thesis, Université de Neuchâtel. Accessed March 04, 2021.
http://doc.rero.ch/record/257854.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Montandon, Cyrille. “Identification and characterization of putative Toc159
interacting partners.” 2015. Web. 04 Mar 2021.
Vancouver:
Montandon C. Identification and characterization of putative Toc159
interacting partners. [Internet] [Thesis]. Université de Neuchâtel; 2015. [cited 2021 Mar 04].
Available from: http://doc.rero.ch/record/257854.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Montandon C. Identification and characterization of putative Toc159
interacting partners. [Thesis]. Université de Neuchâtel; 2015. Available from: http://doc.rero.ch/record/257854
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
4.
Cabalteja, Chino Cabasa.
Bioengineering alpha conotoxin ViI : from disulfide bonds to native chemical ligation.
Degree: 2015, University of Hawaii – Manoa
URL: http://hdl.handle.net/10125/100541
► M.S. University of Hawaii at Manoa 2014.
The paradigm of rational drug design has broadened its focus from classical small-molecule drugs and into larger biological…
(more)
▼ M.S. University of Hawaii at Manoa 2014.
The paradigm of rational drug design has broadened its focus from classical small-molecule drugs and into larger biological molecules (biologics). At the forefront of this change are peptide drugs with high potency, selectivity and efficacy toward a broader range of targets. Conotoxins isolated from the venom of marine cone snails have received much attention because they are highly specific and isoform selective towards their target receptors, making them ideal resources for potential drug leads.
Members of the α-conotoxin family have been extensively studied because they are competitive antagonists of nicotinic acetylcholine receptors (nAChRs) located in the central and peripheral nervous systems. Modulation of these receptors could aid in the control of pain and other associated pathologies. The characteristic receptor-ligand interaction of these peptides is contingent on their well-defined tertiary structure, which is stabilized by several disulfide bonds. In the venom duct, native α-conotoxins enzymatically fold into the globular conformation. However, permutation of the disulfide bond connections of α-conotoxins can theoretically yield three conformations/isomers: globular, ribbon, and beaded. In vitro studies on conotoxin folding have suggested that post-translational modifications (PTM) such as hydroxylated prolines aid in the folding of conotoxins. As such, it was hypothesized that elimination of this PTM would increase the likelihood of peptide isomer formation.
To investigate this connection, the novel peptide, α-conotoxin ViI from Conus virgo was utilized as it contained two hydroxyprolines at position 6 and 13 in its sequence. α-Conotoxin ViI and its non-post-translationally modified variant Vi1.1 were synthesized via fluorenylmethoxycarbonyl solid phase peptide synthesis. Random oxidation of Vi1.1 revealed two products of identical mass later identified as the ribbon and globular isomers. These isomers exhibited a degree of nAChR inhibition in a bovine chromaffin cell assay. Subsequently, both α-conotoxin ViI and Vi1.1 were allowed to oxidize in buffers containing chaotropic agents. It was found that oxidation of Vi1.1in various chaotropic agents increased the creation of non-native isomer as compared to oxidation in ammonium bicarbonate. Furthermore, oxidations of α-conotoxin ViI revealed that some portion of the peptides remained in the reduced form. This work provides an initial investigation for a long-term study on the connection between the generation of disulfide bond isomers and hydroxyprolines.
Efforts were also undertaken to connect the N-and C-terminal peptide fragments of the spider toxin Huwentoxin I via native chemical ligation. Assembly of the complete linear sequence of Huwentoxin I was subsequently verified through electrospray ionization mass spectrometry. This work will be utilized to create an intramolecular native chemical ligation strategy for the cyclization of α-conotoxin ViI and its analogues. Like their linear counterparts, these…
Subjects/Keywords: peptide isomers
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Cabalteja, C. C. (2015). Bioengineering alpha conotoxin ViI : from disulfide bonds to native chemical ligation. (Thesis). University of Hawaii – Manoa. Retrieved from http://hdl.handle.net/10125/100541
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Cabalteja, Chino Cabasa. “Bioengineering alpha conotoxin ViI : from disulfide bonds to native chemical ligation.” 2015. Thesis, University of Hawaii – Manoa. Accessed March 04, 2021.
http://hdl.handle.net/10125/100541.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Cabalteja, Chino Cabasa. “Bioengineering alpha conotoxin ViI : from disulfide bonds to native chemical ligation.” 2015. Web. 04 Mar 2021.
Vancouver:
Cabalteja CC. Bioengineering alpha conotoxin ViI : from disulfide bonds to native chemical ligation. [Internet] [Thesis]. University of Hawaii – Manoa; 2015. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/10125/100541.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Cabalteja CC. Bioengineering alpha conotoxin ViI : from disulfide bonds to native chemical ligation. [Thesis]. University of Hawaii – Manoa; 2015. Available from: http://hdl.handle.net/10125/100541
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

University of Sydney
5.
Wang, Xiaoyi.
Development and Application of Novel Methods for the Synthesis of Modified Proteins
.
Degree: 2018, University of Sydney
URL: http://hdl.handle.net/2123/19892
► Proteins are essential biomolecules that mediate a range of biological processes in humans. Many proteins contain post-translational modifications (PTMs) that are often vital to their…
(more)
▼ Proteins are essential biomolecules that mediate a range of biological processes in humans. Many proteins contain post-translational modifications (PTMs) that are often vital to their biological activity and these modified proteins have recently attracted significant attention as promising therapeutics for the treatment of a range of diseases. Currently, most protein therapeutics are expressed as mixtures of isoforms containing different PTMs, which have a spectrum of biological activities. Understanding the importance and function of individual PTMs requires access to homogeneous protein isoforms, which can often only be achieved by chemical synthesis. Solid phase peptide synthesis (SPPS) combined with native chemical ligation (NCL)- desulfurization chemistry has led to the synthesis of a large number of protein targets with defined structure and function. In recent years, a new methodology called the diselenide-selenoester ligation (DSL) has proven to be a powerful complementary technology to NCL for the ligation of unprotected fragments to create native amide bonds. However, DSL technology, coupled with deselenization chemistry, is currently limited to ligation at alanine junctions due to a lack of availability of β-selenoamino acids other than selenocysteine (Sec, U). The overarching goal of the research described in this thesis therefore is to expand the utility of DSL through the generation of new β-selenoamino acid building blocks, and to validate their use in DSL through the construction of therapeutic protein targets. By enabling access to two extra ligation junctions (leucine and phenylalanine) for the expedient construction of complex post-translationally modified proteins by DSL-deselenization chemistry, this thesis has made important contributions to the area of protein science.
Subjects/Keywords: peptide ligation
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Wang, X. (2018). Development and Application of Novel Methods for the Synthesis of Modified Proteins
. (Thesis). University of Sydney. Retrieved from http://hdl.handle.net/2123/19892
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Wang, Xiaoyi. “Development and Application of Novel Methods for the Synthesis of Modified Proteins
.” 2018. Thesis, University of Sydney. Accessed March 04, 2021.
http://hdl.handle.net/2123/19892.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Wang, Xiaoyi. “Development and Application of Novel Methods for the Synthesis of Modified Proteins
.” 2018. Web. 04 Mar 2021.
Vancouver:
Wang X. Development and Application of Novel Methods for the Synthesis of Modified Proteins
. [Internet] [Thesis]. University of Sydney; 2018. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/2123/19892.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Wang X. Development and Application of Novel Methods for the Synthesis of Modified Proteins
. [Thesis]. University of Sydney; 2018. Available from: http://hdl.handle.net/2123/19892
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

University of Manchester
6.
Arthanari, Yamini.
Study of cellular delivery of siRNA and shRNA targeting
bcr-abl in chronic myeloid leukemia using Tat derived
peptide.
Degree: 2011, University of Manchester
URL: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:119786
► Chronic Myeloid Leukemia is characterised by the formation of a fusion gene bcr-abl. The gene product BCR-ABL has deregulated tyrosine kinase activity that plays a…
(more)
▼ Chronic Myeloid Leukemia is characterised by the
formation of a fusion gene bcr-abl. The gene product BCR-ABL has
deregulated tyrosine kinase activity that plays a direct role in
the pathogenesis of the disease. Recently, use of siRNA in
leukaemic cells has led to effective gene silencing of bcr-abl.
Gene delivery systems like viral vectors, electroporation and lipid
based vectors have showed varying efficiencies but are limited by
their level of toxicity and immunogenicity. Developments in the
field of Cell Penetrating Peptides have shown effective cellular
uptake of nucleic acids and proteins by the CPPs in vitro and in
vivo. Report from our lab has shown the use of CPP Tat along with
membrane active
peptide LK15 to improve the transfection efficiency
of both Tat and LK15 peptides individually. Hence, this study will
focus on the use of Tat-LK15
peptide to study the delivery of siRNA
and shRNA plasmid in K562 cells and observe the BCR-ABL protein
expression. Cellular uptake studies using Tat-LK15 based complexes
of Cy5-labelled DNA and siRNA showed a concentration dependent
uptake leading to increase in percentage transfected cells.
Tat-LK15 based DNA complexes achieved 80% transfected cells (charge
ratio of 2:1) while siRNA complexes resulted in a maximum of 60%
(charge ratio of 3:1). However, Lipofectamine based DNA complexes
did not show a concentration dependent increase in percentage
transfected cells. Interestingly, Tat-LK15 based siRNA complexes
showed a similar level of uptake and percentage transfected cells
as that of Lipofectamine based siRNA complexes. Cellular uptake
studies using confocal microscopy 4 hours post transfection, showed
that when 1µg of DNA was transfected, the labelled DNA was
primarily localised on the cell membrane. Interestingly, using 5µg
of DNA led to increased intracellular localisation of the labelled
DNA, but this observation was not made with Lipofectamine based
complexes. The observation at 24 hours post transfection of
Tat-LK15/labelled DNA complexes was of higher intensity when
compared to that of Lipofectamine based DNA complexes. The reason
for this is however not known. Interestingly, the cellular uptake
profile using siRNA based complexes was different. At 4 hours post
transfection, there was intracellular localisation of labelled
siRNA. 24 hours post transfection, there was diffuse cytoplasmic
localisation using lower concentration of siRNA whereas using
higher concentration led to more high intensity punctate
localisations within the cell. Similar observations were made for
both Tat-LK15 and Lipofectamine based siRNA complexes.Gene
silencing studies of Tat-LK15/shRNA plasmid complex resulted in 80%
reduction in protein levels 96 hours post transfection for higher
concentrations of shRNA plasmid treated. Similar level of reduction
in BCR-ABL was observed with Lipofectamine based complex.
Supporting evidence of reduction in mRNA levels was observed using
qRT-PCR 48 hours post transfection. However, Tat-LK15/shRNA plasmid
complexes led to around 80% of protein reduction…
Advisors/Committee Members: AOJULA, HARMESH HS, DEMONACOS, CONSTANTINOS C, Aojula, Harmesh, Pluen, Alain, Demonacos, Constantinos.
Subjects/Keywords: Cell penetrating peptide; Tat peptide; RNA interference
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Arthanari, Y. (2011). Study of cellular delivery of siRNA and shRNA targeting
bcr-abl in chronic myeloid leukemia using Tat derived
peptide. (Doctoral Dissertation). University of Manchester. Retrieved from http://www.manchester.ac.uk/escholar/uk-ac-man-scw:119786
Chicago Manual of Style (16th Edition):
Arthanari, Yamini. “Study of cellular delivery of siRNA and shRNA targeting
bcr-abl in chronic myeloid leukemia using Tat derived
peptide.” 2011. Doctoral Dissertation, University of Manchester. Accessed March 04, 2021.
http://www.manchester.ac.uk/escholar/uk-ac-man-scw:119786.
MLA Handbook (7th Edition):
Arthanari, Yamini. “Study of cellular delivery of siRNA and shRNA targeting
bcr-abl in chronic myeloid leukemia using Tat derived
peptide.” 2011. Web. 04 Mar 2021.
Vancouver:
Arthanari Y. Study of cellular delivery of siRNA and shRNA targeting
bcr-abl in chronic myeloid leukemia using Tat derived
peptide. [Internet] [Doctoral dissertation]. University of Manchester; 2011. [cited 2021 Mar 04].
Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:119786.
Council of Science Editors:
Arthanari Y. Study of cellular delivery of siRNA and shRNA targeting
bcr-abl in chronic myeloid leukemia using Tat derived
peptide. [Doctoral Dissertation]. University of Manchester; 2011. Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:119786

Georgia Tech
7.
Sun, Yi.
The PH dependent mechanisms of peptide bond cleavage.
Degree: MS, Chemical and Biomolecular Engineering, 2019, Georgia Tech
URL: http://hdl.handle.net/1853/62365
► The origin of life under prebiotic conditions has been an unsolved mystery for decades. Amino acids were available under prebiotic conditions, and different approaches of…
(more)
▼ The origin of life under prebiotic conditions has been an unsolved mystery for decades. Amino acids were available under prebiotic conditions, and different approaches of amino acids condensation into proto-polypeptides have been well designed, giving rise to a prebiotic soup with various
peptide sequences. The emergence of functional biopolymers involves not only polymerization into longer species, but also the selective process with some species being protected and enriched over time. In this project, we treated
peptide bond cleavage as the driving force for the selection process, by reshuffling
peptide sequences and thus increasing the rate of search through sequence space. As a result, understanding the reaction mechanisms and quantifying the degradation kinetics of various
peptide species is necessary to design a prebiotically plausible system that can demonstrate chemical evolution. In this project, we conducted fundamental research studies to understand the impact of pH on the
peptide degradation reaction kinetics and mechanisms. The degradation rate of the amide bonds in oligopeptides in aqueous solution is pH-dependent and is suggested to involve two distinct mechanism: direct hydrolysis (herein termed “scission”) and backbiting. While amide degradation was studied previously using various peptides, no systematic study has been reported addressing the separate rates of amide bond degradation over a wide pH range via these two mechanisms. In this study, the degradation kinetics of several short oligopeptides, specifically the glycine dimer, trimer, and cyclic dimer, as well as the alanine trimer, were measured at 95 °C over a range of pH conditions using 1H NMR. The rate constants were obtained by solving the differential equations based on mechanistic models and elucidate the favored reaction pathway under acidic, neutral, and basic pH conditions. The degradation rate of the glycine trimer is much faster than the dimer under the acidic and neutral pH conditions. The glycine dimer degradation rate is highest under acidic and basic conditions, while the glycine trimer degradation rate is highest under neutral pH conditions. The results suggest that while the glycine dimer undergoes ring opening purely through a scission reaction mechanism, the glycine trimer is degraded through both backbiting and scission reaction mechanisms. At an acidic pH of 3, both mechanisms are active, while at neutral pH backbiting is dominant. In contrast, at a basic pH of 10, scission dominates.
Advisors/Committee Members: Grover, Martha (advisor), Liotta, Charles (advisor), Grover, Martha (advisor), Liotta, Charles (advisor), Paravastu, Anant (committee member).
Subjects/Keywords: Non-enzymatic peptide cleavage; Peptide degradation kinetics
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Sun, Y. (2019). The PH dependent mechanisms of peptide bond cleavage. (Masters Thesis). Georgia Tech. Retrieved from http://hdl.handle.net/1853/62365
Chicago Manual of Style (16th Edition):
Sun, Yi. “The PH dependent mechanisms of peptide bond cleavage.” 2019. Masters Thesis, Georgia Tech. Accessed March 04, 2021.
http://hdl.handle.net/1853/62365.
MLA Handbook (7th Edition):
Sun, Yi. “The PH dependent mechanisms of peptide bond cleavage.” 2019. Web. 04 Mar 2021.
Vancouver:
Sun Y. The PH dependent mechanisms of peptide bond cleavage. [Internet] [Masters thesis]. Georgia Tech; 2019. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/1853/62365.
Council of Science Editors:
Sun Y. The PH dependent mechanisms of peptide bond cleavage. [Masters Thesis]. Georgia Tech; 2019. Available from: http://hdl.handle.net/1853/62365

Tulane University
8.
Starr, Charles.
Development of Novel Antimicrobial Peptides with Improved Hemocompatibility Through Combinatorial Library Screening and Rational Sequence Engineering.
Degree: 2017, Tulane University
URL: https://digitallibrary.tulane.edu/islandora/object/tulane:77175
► Development of antimicrobial peptides (AMPs) as next generation clinical antibiotics has been a pursuit of the scientific community for several decades. AMPs are attractive drug…
(more)
▼ Development of antimicrobial peptides (AMPs) as next generation clinical antibiotics has been a pursuit of the scientific community for several decades. AMPs are attractive drug candidates because of their potent antibacterial activity and a low propensity for eliciting antibiotic resistant bacterial phenotypes. However, despite substantial efforts and myriad development approaches, AMPs have yet to make inroads in the clinic due to toxicity concerns and activity loss in vivo. We hypothesized that eukaryotic cytotoxicity and antibacterial activity loss are intricately related in that peptide-induced tissue or host cell damage corresponds to depletion of free peptide available to target bacterial cells. Using human red blood cells (RBCs) as a model eukaryotic cell, we demonstrate that a cross-section of AMPs lose appreciable antibacterial activity when preincubated with concentrated eukaryotic cells (1x109 red blood cells/mL) and that this behavior can be explained by plasma membrane binding. To approach this problem in a unique manner, we synthesized a combinatorial peptide library based on the potent AMP, ARVA, and screened the library for activity in the presence of concentrated RBCs. We isolated nine unique, but similar sequences from the screen. During the screening program, we discovered that RBC-peptide interactions lead to peptide degradation through the release of cytosolic proteases. We used this knowledge to design a consensus sequence based on the nine peptides isolated from the library screen and synthesized it using only D-isomer amino acids. The novel peptide displays excellent antimicrobial activity against several human pathogens in the presence and absence of concentrated RBCs, has reduced toxicity towards eukaryotic cells, and is not susceptible to cleavage by cellular proteases. We attempted to use this peptide, D-NOGCON, to combat P. aeruginosa in a mouse model of acute pneumonia, but were unable to ameliorate the negative outcomes associated with infection. We ultimately suggest alternative models of bacterial infection in which the peptide may be more effective and future approaches to further refining the sequence of D-NOGCON.
1
Charles Starr
Advisors/Committee Members: Wimley, William (Thesis advisor), School of Medicine Biomedical Sciences Graduate Program (Degree granting institution), NULL (Degree granting institution).
Subjects/Keywords: biochemistry; antimicrobial; peptide
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Starr, C. (2017). Development of Novel Antimicrobial Peptides with Improved Hemocompatibility Through Combinatorial Library Screening and Rational Sequence Engineering. (Thesis). Tulane University. Retrieved from https://digitallibrary.tulane.edu/islandora/object/tulane:77175
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Starr, Charles. “Development of Novel Antimicrobial Peptides with Improved Hemocompatibility Through Combinatorial Library Screening and Rational Sequence Engineering.” 2017. Thesis, Tulane University. Accessed March 04, 2021.
https://digitallibrary.tulane.edu/islandora/object/tulane:77175.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Starr, Charles. “Development of Novel Antimicrobial Peptides with Improved Hemocompatibility Through Combinatorial Library Screening and Rational Sequence Engineering.” 2017. Web. 04 Mar 2021.
Vancouver:
Starr C. Development of Novel Antimicrobial Peptides with Improved Hemocompatibility Through Combinatorial Library Screening and Rational Sequence Engineering. [Internet] [Thesis]. Tulane University; 2017. [cited 2021 Mar 04].
Available from: https://digitallibrary.tulane.edu/islandora/object/tulane:77175.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Starr C. Development of Novel Antimicrobial Peptides with Improved Hemocompatibility Through Combinatorial Library Screening and Rational Sequence Engineering. [Thesis]. Tulane University; 2017. Available from: https://digitallibrary.tulane.edu/islandora/object/tulane:77175
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Tulane University
9.
Guha, Shantanu.
The Ebola virus delta-peptides are enterotoxic viroporins in vivo and potentially druggable targets.
Degree: 2020, Tulane University
URL: https://digitallibrary.tulane.edu/islandora/object/tulane:119728
► [email protected]
During the 2013-2016 West African outbreak, severe gastrointestinal symptoms were common in Ebola patients and associated with poor outcome. The efficient spread of Ebola…
(more)
▼ [email protected]
During the 2013-2016 West African outbreak, severe gastrointestinal symptoms were common in Ebola patients and associated with poor outcome. The efficient spread of Ebola virus (EBOV) via vomitus and diarrheal fluids, which contain high concentrations of virus, likely contributed to the scale of the outbreak. The delta-peptide is a conserved product of post-translational processing of the abundant EBOV soluble glycoprotein (sGP). Here, the murine ligated ileal loop model, which is well-established for the study of diarrheal disease, was used to demonstrate that delta-peptide is a potent enterotoxin. Dramatic intestinal fluid accumulation peaked at 9-12 hours following injection of biologically relevant amounts of delta-peptide into ileal loops, along with gross destruction of the villous architecture, loss of goblet cell polysaccharides, and secretion of pro-inflammatory cytokines. Transcriptomic analyses showed that delta-peptide triggers immune and cell survival responses. Delta-peptide may contribute greatly to EBOV-induced gastrointestinal pathology in humans. These findings demonstrate that the EBOV delta-peptide is an enterotoxic viroporin and may be categorized as a novel virulence factor. We then hypothesized that the delta-peptide may also be a druggable target to explore a new avenue for novel EBOV therapeutics, which are direly needed. An unconventional coupling strategy was employed to conjugate a modified version of the 23-residue delta-peptide to a carrier protein Keyhole Limpet Hemocyanin (KLH) in order to immunize rabbits so that they may generate high-affinity binding antibodies against the delta-peptide. Antisera was collected from the rabbits after regular immunizations and the IgG fraction of the antisera demonstrated binding and recognition against several delta-peptide variants confirmed by Western blotting and ELISAs. We then used this knowledge to determine therapeutic index in vitro by testing the antibody against the delta-peptide in the context of synthetic PC-PG vesicles and CHO cells. The purified IgG was then tested against the peptide in vivo to determine therapeutic efficacy by returning to the mouse model of diarrheal pathology mentioned previously. In a small pilot experiment, we were able to successfully block the enterotoxic activity of the delta-peptide and did not observe gastrointestinal distress in the mice that were treated with the peptide and antibody together versus just the peptide alone, signifying that the delta-peptide is a druggable target and may reveal a new therapeutic avenue against EBOV pathogenesis.
1
Shantanu Guha
Advisors/Committee Members: Wimley, William (Thesis advisor), School of Medicine Biomedical Sciences Graduate Program (Degree granting institution).
Subjects/Keywords: ebola; peptide; antibody
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Guha, S. (2020). The Ebola virus delta-peptides are enterotoxic viroporins in vivo and potentially druggable targets. (Thesis). Tulane University. Retrieved from https://digitallibrary.tulane.edu/islandora/object/tulane:119728
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Guha, Shantanu. “The Ebola virus delta-peptides are enterotoxic viroporins in vivo and potentially druggable targets.” 2020. Thesis, Tulane University. Accessed March 04, 2021.
https://digitallibrary.tulane.edu/islandora/object/tulane:119728.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Guha, Shantanu. “The Ebola virus delta-peptides are enterotoxic viroporins in vivo and potentially druggable targets.” 2020. Web. 04 Mar 2021.
Vancouver:
Guha S. The Ebola virus delta-peptides are enterotoxic viroporins in vivo and potentially druggable targets. [Internet] [Thesis]. Tulane University; 2020. [cited 2021 Mar 04].
Available from: https://digitallibrary.tulane.edu/islandora/object/tulane:119728.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Guha S. The Ebola virus delta-peptides are enterotoxic viroporins in vivo and potentially druggable targets. [Thesis]. Tulane University; 2020. Available from: https://digitallibrary.tulane.edu/islandora/object/tulane:119728
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

University of Alberta
10.
Lohans, Christopher T.
Structural Characterization of Bacterial Antimicrobial
Peptides.
Degree: PhD, Department of Chemistry, 2014, University of Alberta
URL: https://era.library.ualberta.ca/files/8g84mn557
► Paenibacillus polymyxa NRRL B-30509, Paenibacillus terrae NRRL B-30644 and P. polymyxa NRRL B-30507 were found to produce several bacteriocins and non-ribosomal peptides. All three strains…
(more)
▼ Paenibacillus polymyxa NRRL B-30509, Paenibacillus
terrae NRRL B-30644 and P. polymyxa NRRL B-30507 were found to
produce several bacteriocins and non-ribosomal peptides. All three
strains produce tridecaptins, non-ribosomal lipopeptides
antimicrobially active against food pathogen Campylobacter jejuni.
Two of these strains also produce polymyxins, lipopeptides also
active against Gram-negative bacteria. Highly cyclized lantibiotics
paenicidins A and B were isolated from P. polymyxa NRRL B-30509 and
P. terrae NRRL B-30644, respectively. The lanthionine (Lan) and
methyllanthionine (MeLan) post-translational modifications of
paenicidin A were characterized by a novel partial desulfurization
strategy, revealing the connectivity of three interlocking
thioether-containing rings. Biosynthetic gene clusters responsible
for the production of the tridecaptins and paenicidins were
identified in the genome sequences of these strains. Carnobacterium
maltaromaticum C2 produces carnolysin, a novel two-component
lantibiotic with homology to enterococcal cytolysin. The
post-translational modifications of carnolysins A1′ and A2′ were
characterized with NMR spectroscopy and tandem mass spectrometry,
revealing the Lan and MeLan bridging patterns. Like cytolysin,
carnolysin contains unusual LL-Lan and LL-MeLan stereoisomers in
the corresponding positions. However, carnolysin also contains
D-alanine and D-aminobutyrate residues not found in cytolysin. The
carnolysin biosynthetic gene cluster was identified in the genome
of C. maltaromaticum C2. Heterologous expression of carnolysin in
Escherichia coli was achieved by expressing the carnolysin
precursor peptides with lantibiotic synthetase CrnM and reductase
CrnJ. Antimicrobially active products were obtained by
proteolytically removing the N-terminal leader sequences of the
carnolysins isolated from C. maltaromaticum C2. These digested
peptides were active against an array of Gram-positive indicator
organisms, while not demonstrating the hemolytic activity
associated with cytolysin at the levels tested. Enterocin 7A and 7B
are leaderless bacteriocins produced by Enterococcus faecalis 710C.
The impact of solvent on the secondary structure of enterocin 7A
was examined by circular dichroism spectroscopy, revealing a high
degree of α-helicity in fully aqueous conditions. The solution
structure of enterocin 7A was solved based on NMR spectroscopic
data, demonstrating that this peptide consists primarily of three
amphiphilic α-helices burying a hydrophobic core. The structures of
enterocins 7A and 7B resembled a region of the circular bacteriocin
carnocyclin A, potentially having implications regarding the mode
of action of these leaderless bacteriocins. The cysteines involved
in the N-terminal disulfide bridge of class IIa bacteriocin
leucocin A were replaced with leucine residues to probe the impact
of this substitution on structure. While this mutant peptide
retained antimicrobial activity, consistent with similar leucocin A
mutants. The solution structure of (C9L,C14L)-leucocin A in…
Subjects/Keywords: peptide; bacteriocin; antimicrobial
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Lohans, C. T. (2014). Structural Characterization of Bacterial Antimicrobial
Peptides. (Doctoral Dissertation). University of Alberta. Retrieved from https://era.library.ualberta.ca/files/8g84mn557
Chicago Manual of Style (16th Edition):
Lohans, Christopher T. “Structural Characterization of Bacterial Antimicrobial
Peptides.” 2014. Doctoral Dissertation, University of Alberta. Accessed March 04, 2021.
https://era.library.ualberta.ca/files/8g84mn557.
MLA Handbook (7th Edition):
Lohans, Christopher T. “Structural Characterization of Bacterial Antimicrobial
Peptides.” 2014. Web. 04 Mar 2021.
Vancouver:
Lohans CT. Structural Characterization of Bacterial Antimicrobial
Peptides. [Internet] [Doctoral dissertation]. University of Alberta; 2014. [cited 2021 Mar 04].
Available from: https://era.library.ualberta.ca/files/8g84mn557.
Council of Science Editors:
Lohans CT. Structural Characterization of Bacterial Antimicrobial
Peptides. [Doctoral Dissertation]. University of Alberta; 2014. Available from: https://era.library.ualberta.ca/files/8g84mn557

University of Manchester
11.
Wu, Ming-Cheng.
Bio-engineering of Antibiotic Enduracidin Biosynthetic
Pathways and PreQ1 Riboswitch.
Degree: 2011, University of Manchester
URL: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:138266
► Non-ribosomally synthesised natural products derived mainly from bacteria and fungi act as important therapeutic agents. Due to their complex structures it is difficult to chemically…
(more)
▼ Non-ribosomally synthesised natural products
derived mainly from bacteria and fungi act as important therapeutic
agents. Due to their complex structures it is difficult to
chemically synthesise such compounds, therefore the engineering of
biosynthetic and biocatalytic pathways that are vital for their
production are the aims of this thesis. The first project involved
the study of the biosynthesis of 3-O-methyl aspartic acid (OmAsp)
in the antibiotic A54145. We demonstrated that LptL functions as an
asparagine hydroxylase. We also predicted that LptJ and LptK are
involved in the biosynthesis of OmAsp, although we did not find
evidence of this non-standard amino acid in the antibiotic CDA when
we over-expressed both proteins in Streptomyces coelicolor. The
second project involved the study of the chlorination and
mannosylation of hydroxyphenyl glycine (Hpg) residues in
ramoplanin. We over-expressed the putative chlorinase and mannosyl
transferase separately in the enduracidin-producer, in which the
production of enduracidin has been characterised. We then found
that trichlorinated and mannosylated enduracidin analogues were
produced.The final project involved the re-engineering of a preQ1
riboswitch. We successfully created ten preQ1 riboswitch mutants
fused to the reporter gene lacZ in Bacillus subtilis, all of which
showed different levels of β-galactosidase activity. Subsequently,
we found that the preQ1 C17U mutant riboswitch can respond
specifically to the synthetic ligands
5-(aminomethyl)furo[2,3-d]pyrimidine-2,4-diamine (D6) and
2,4-diamino-7H-pyrrolo[2,3-d]pyrimidine-5-carbonitrile (D9) to
control gene expression in a dose dependent manner. The results
described here show the successful production of variant
antibiotics by bio-engineering and the use of an engineered preQ1
riboswitch as a tool for regulating gene
expression.
Advisors/Committee Members: Micklefield, Jason.
Subjects/Keywords: non-ribosomal peptide
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Wu, M. (2011). Bio-engineering of Antibiotic Enduracidin Biosynthetic
Pathways and PreQ1 Riboswitch. (Doctoral Dissertation). University of Manchester. Retrieved from http://www.manchester.ac.uk/escholar/uk-ac-man-scw:138266
Chicago Manual of Style (16th Edition):
Wu, Ming-Cheng. “Bio-engineering of Antibiotic Enduracidin Biosynthetic
Pathways and PreQ1 Riboswitch.” 2011. Doctoral Dissertation, University of Manchester. Accessed March 04, 2021.
http://www.manchester.ac.uk/escholar/uk-ac-man-scw:138266.
MLA Handbook (7th Edition):
Wu, Ming-Cheng. “Bio-engineering of Antibiotic Enduracidin Biosynthetic
Pathways and PreQ1 Riboswitch.” 2011. Web. 04 Mar 2021.
Vancouver:
Wu M. Bio-engineering of Antibiotic Enduracidin Biosynthetic
Pathways and PreQ1 Riboswitch. [Internet] [Doctoral dissertation]. University of Manchester; 2011. [cited 2021 Mar 04].
Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:138266.
Council of Science Editors:
Wu M. Bio-engineering of Antibiotic Enduracidin Biosynthetic
Pathways and PreQ1 Riboswitch. [Doctoral Dissertation]. University of Manchester; 2011. Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:138266

Mahatma Gandhi University
12.
Sasikumar, P G.
Solid phase peptide synthesis using glycerol based cross
linked polymer supports.
Degree: 2010, Mahatma Gandhi University
URL: http://shodhganga.inflibnet.ac.in/handle/10603/302
► An important objective of the modem biochemical research is to understand the molecular basis of the numerous and intricate biological activities of peptides and proteins…
(more)
▼ An important objective of the modem biochemical
research is to understand the molecular basis of the numerous and
intricate biological activities of peptides and proteins and
therefore able to predict and control these activities. The
impc~rtance dramatically increased today because of the explosive
success ofthe gtnome-sequencing project, which revealed hundreds of
thousands of new proteins, but only as predicted sequence data. The
chemical synthesis and elucidation of the biological function of a
predicted protein molecule is thus a challenge of great
significance. The introduction of unnatural chemical group; into
the covalent structure of a
peptide or protein molecule can provide
valuable insight into questions about peptidelprotein functions and
enzyme activity. The most efficient way of introducing these
unnatural amino acids into peptides and small proteins through the
complementary approach of total chemical synthesis is by the
stepwise solid phase
peptide syn1:hesis. The yield and the purity
of these products are depending upon various factors of which the
most important one is the choice of solid support, its mechanical
and chemical stability, swellability and compatibility with a range
of solvents with different polarity. For a successful synthesis,
the reaction should go to completion in each step at a higher rate.
The physicochemic:al incompatibility of the support with the
growing
peptide chain is considered as another major factor that
affects the performance of the resin in polypeptide synthesis. The
design and synthesis of an efficient polymer support depends on the
judicious selection of monomers, their structure and polarity and
the net hydrophobic/l~ydrophilic balance of the polymer. The work.
presented in the thesis describes the development of a new TRPGGDA
cross-linked polystyrene support with a view to approaching the
above mentioned problems. A brief ov':rviea of the key
characteristics of various solid supports and their modific:ation
with suitable linkers, protection strategies, carboxyl activation
reagent:; and the difficulties encountered in SPPS are described in
the first and second chapters. This review aims to give a
comprehensive outline of the recent developments and refinements in
the field of polymer Summary 188 supported polypepticle synthesis
and various factors ~nvolved in optimising the purity and the yield
of the synthetic
peptide. The third chapter describes the synthesis
of the new polymer support, PS-TRPGGDA. This has been designed to
increase the flexibility of the polymer backbone allowicg better
diffusion of reagents through the matrix. The polymer is
synthe5ised by the aqueous free radical suspension polymerisation
of siyrene and TRPGGDA. The resultant polymers have
propyleneglycol-like character, which provides a spacer effect from
the rigid polystyrene core, and the glycerol moiety present in the
cross-linker serves as the growth site for the polypeptide
synthesis. The hydrophillicity of the crosslinker and its content
in the resin determines the…
Advisors/Committee Members: Pillai, V N Rajasekharan.
Subjects/Keywords: Polimers; Peptide Synthesis
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Sasikumar, P. G. (2010). Solid phase peptide synthesis using glycerol based cross
linked polymer supports. (Thesis). Mahatma Gandhi University. Retrieved from http://shodhganga.inflibnet.ac.in/handle/10603/302
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Sasikumar, P G. “Solid phase peptide synthesis using glycerol based cross
linked polymer supports.” 2010. Thesis, Mahatma Gandhi University. Accessed March 04, 2021.
http://shodhganga.inflibnet.ac.in/handle/10603/302.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Sasikumar, P G. “Solid phase peptide synthesis using glycerol based cross
linked polymer supports.” 2010. Web. 04 Mar 2021.
Vancouver:
Sasikumar PG. Solid phase peptide synthesis using glycerol based cross
linked polymer supports. [Internet] [Thesis]. Mahatma Gandhi University; 2010. [cited 2021 Mar 04].
Available from: http://shodhganga.inflibnet.ac.in/handle/10603/302.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Sasikumar PG. Solid phase peptide synthesis using glycerol based cross
linked polymer supports. [Thesis]. Mahatma Gandhi University; 2010. Available from: http://shodhganga.inflibnet.ac.in/handle/10603/302
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
13.
Erhardt, Nola Marlene.
The role of pituitary adenylate cyclase-activating polypeptide (PACAP) in cell cycle exit, differentiation and apoptosis during early chick brain development.
Degree: Department of Biology, 2017, University of Victoria
URL: http://hdl.handle.net/1828/7910
► Regulated survival, proliferation and differentiation of cells in the nervous system is crucial for development. Much of regulation is controlled by hormones. There is abundant…
(more)
▼ Regulated survival, proliferation and differentiation of cells in the nervous
system is crucial for development. Much of regulation is controlled by hormones.
There is abundant evidence that a member of the glucagon superfamily, pituitary
adenylate cyclase-activating polypeptide (PACAP), is important in this process. PACAP
functions have been described in the peripheral and central nervous systems of many
species. Although the primary function of PACAP is not known, its high conservation
and presence in all species examined to date suggest it is vital to normal development.
My thesis objective was to determine the response of early CNS neuroblasts to
PACAP, in conjunction with another glucagon superfamily member, growth hormone releasing hormone (GHRH). GHRH is best known for causing release of growth hormone from the pituitary, but it also has functions in nervous system development.
Because PACAP and GHRH are encoded on the same gene in non-mammalian vertebrates, it is possible that they have similar or coordinated functions. PACAP affects development by altering levels of proliferation and differentiation and decreasing
apoptosis. For these reasons, I focused my research in these areas.
Using neuroblast-enriched cultures from embryonic day 3.5 chick, my first goal was to show that PACAP and GHRH affected these cells. Radioimmunoassays for cAMP revealed that all but one form of PACAP, and only one form of GHRH, caused an
increase in cAMP relative to controls. As to the former, comparison of differing PACAP structures suggested that conservation at the amino terminus was important in binding the hormone to the receptor. The fact that PACAP, but not GHRH, increased
cAMP, indicated that evolution of PACAP and GHRH had altered their functions. Chick neuroblasts were also shown to produce PACAP and its primary receptor, suggesting an autocrine/paracrine role for PACAP.
My next goal was to examine the nature of the downstream effects of increased cAMP. To study cell cycle, I developed a protocol using proliferating cell nuclear antigen (PCNA) and propidium iodide (PI), in fixed cell populations. PCNA is present
in low amounts in non-cycling cells, but rises sharply in actively proliferating cells. The PI helped delineate cell cycle compartments, because in permeabilized cells it binds to and quantifies DNA. Changes in G0, G1, S and G2/M were recorded using flow cytometry. Because the cells were producing PACAP and most were cycling, rather than add more PACAP I chose to block the PACAP receptor. This caused cell cycle exit. I also blocked the cell cycle at two points, and showed that exogenous PACAP could release some cells from the block, and return them to cycling. PACAP affected apoptosis also, but because the protocol was not designed to measure this, I adopted another protocol using flow cytometry. With live cells, and fluorescein diacetate, which is retained and fluoresces in healthy cells, and PI, which enters only cells with damaged membranes, I used the characteristic of apoptotic cells to die…
Advisors/Committee Members: Sherwood, Nancy (supervisor).
Subjects/Keywords: Peptide hormones; Hormones
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Erhardt, N. M. (2017). The role of pituitary adenylate cyclase-activating polypeptide (PACAP) in cell cycle exit, differentiation and apoptosis during early chick brain development. (Thesis). University of Victoria. Retrieved from http://hdl.handle.net/1828/7910
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Erhardt, Nola Marlene. “The role of pituitary adenylate cyclase-activating polypeptide (PACAP) in cell cycle exit, differentiation and apoptosis during early chick brain development.” 2017. Thesis, University of Victoria. Accessed March 04, 2021.
http://hdl.handle.net/1828/7910.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Erhardt, Nola Marlene. “The role of pituitary adenylate cyclase-activating polypeptide (PACAP) in cell cycle exit, differentiation and apoptosis during early chick brain development.” 2017. Web. 04 Mar 2021.
Vancouver:
Erhardt NM. The role of pituitary adenylate cyclase-activating polypeptide (PACAP) in cell cycle exit, differentiation and apoptosis during early chick brain development. [Internet] [Thesis]. University of Victoria; 2017. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/1828/7910.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Erhardt NM. The role of pituitary adenylate cyclase-activating polypeptide (PACAP) in cell cycle exit, differentiation and apoptosis during early chick brain development. [Thesis]. University of Victoria; 2017. Available from: http://hdl.handle.net/1828/7910
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

University of Florida
14.
Brice, David C.
Innate Antiviral Defenses of Oral Epithelial Cells.
Degree: PhD, Medical Sciences - Immunology and Microbiology (IDP), 2018, University of Florida
URL: https://ufdc.ufl.edu/UFE0054013
► With many viruses spread via saliva, oral epithelial cells (OECs) act as one of the first barriers against infection of these pathogens. However, the defenses…
(more)
▼ With many viruses spread via saliva, oral epithelial cells (OECs) act as one of the first barriers against infection of these pathogens. However, the defenses against viral infections are not well characterized in OECs. Antiviral activity can be categorized into preventing either initial infection or successful replication of infectious virus. One of the main methods cells use to defend against infection is through the production of host defense peptides (HDPs.) These small proteins are expressed in many parts of the body, including the oral cavity, and have broad spectrum activity against bacteria and fungi as well as both enveloped and nonenveloped viruses. The ability of one of these HDPs, LL-37, to inhibit infection in an oral epithelial cell line OKF6/Tert-1 of a certain saliva-spread virus not before studied in the context of HDP inhibition, Kaposi's sarcoma-associated herpesvirus (KSHV.) LL-37 was found to inhibit KSHV infection via a decrease in viral internalization, most likely through the disruption of the viral envelope structure. LL-37 binding to and disruption of downstream enveloped virion mimetic exosomes suggested a size- or membrane curvature-dependent activity of the
peptide.
Advisors/Committee Members: DIAMOND,GILL (committee chair), KARST,STEPHANIE M (committee member), TOTH,ZSOLT (committee member), NELSON,CORWIN D (committee member).
Subjects/Keywords: immunity – peptide – virus
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APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
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APA (6th Edition):
Brice, D. C. (2018). Innate Antiviral Defenses of Oral Epithelial Cells. (Doctoral Dissertation). University of Florida. Retrieved from https://ufdc.ufl.edu/UFE0054013
Chicago Manual of Style (16th Edition):
Brice, David C. “Innate Antiviral Defenses of Oral Epithelial Cells.” 2018. Doctoral Dissertation, University of Florida. Accessed March 04, 2021.
https://ufdc.ufl.edu/UFE0054013.
MLA Handbook (7th Edition):
Brice, David C. “Innate Antiviral Defenses of Oral Epithelial Cells.” 2018. Web. 04 Mar 2021.
Vancouver:
Brice DC. Innate Antiviral Defenses of Oral Epithelial Cells. [Internet] [Doctoral dissertation]. University of Florida; 2018. [cited 2021 Mar 04].
Available from: https://ufdc.ufl.edu/UFE0054013.
Council of Science Editors:
Brice DC. Innate Antiviral Defenses of Oral Epithelial Cells. [Doctoral Dissertation]. University of Florida; 2018. Available from: https://ufdc.ufl.edu/UFE0054013

University of Manchester
15.
Szkolar, Laura.
The Development of Functional Peptide Scaffolds for Cell
Culture.
Degree: 2016, University of Manchester
URL: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:298798
► Peptides and peptide derivatives have shown great scope as biomaterials and for biomedicaltherapy application. It has been demonstrated that classes of these peptides can form…
(more)
▼ Peptides and
peptide derivatives have shown great
scope as biomaterials and for biomedicaltherapy application. It has
been demonstrated that classes of these peptides can form fibrillar
hydrogels making them a good candidate for ECM mimics. In
particular, the ionic complementary peptides, composed of
alternating hydrophobic and hydrophilic amino acidshave been
reported as successful cell scaffolds. The simple structure of such
ionic complementary peptides is generally seen to spontaneously
self-assemble into β-sheet richfibrils in the presence of water.
The highly aqueous environment, along with the inter meshing of
fibres, results in an architecture akin to the natural ECM of the
body, making
peptide hydrogels highly suitable as cell culture
scaffolds. The structure of such hydrogels, usually comprising 8-32
amino acids, has been widely reported as easily modifiable, thus,
allowing for control of the final material properties.This study
explores the potential use of a range of ionic-complementary
peptides for the culture of primary bovine chondrocytes.
Modifications and additions to
peptide sequence, such as charge and
amino acid substitution, were investigated. In all studies only 1
design parameter (sequence, charge etc.) was varied, to allow for
better understanding of the effect of materials properties upon
cell response.The encapsulation of primary bovine chondrocytes was
undertaken, with the aim of providing a suitable cell scaffold
capable of maintaining chondrocyte viability and function in vitro.
Despite in vivo work being beyond the scope of this thesis, the
properties of the hydrogel scaffold were designed with final aim of
being suitable for use with matrix associated autologous
chondrocyte implantation (MACI) in clinical
therapy.
Advisors/Committee Members: GOUGH, JULIE JE, Gough, Julie, Saiani, Alberto.
Subjects/Keywords: peptide; chondrocyte; hydrogel
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Szkolar, L. (2016). The Development of Functional Peptide Scaffolds for Cell
Culture. (Doctoral Dissertation). University of Manchester. Retrieved from http://www.manchester.ac.uk/escholar/uk-ac-man-scw:298798
Chicago Manual of Style (16th Edition):
Szkolar, Laura. “The Development of Functional Peptide Scaffolds for Cell
Culture.” 2016. Doctoral Dissertation, University of Manchester. Accessed March 04, 2021.
http://www.manchester.ac.uk/escholar/uk-ac-man-scw:298798.
MLA Handbook (7th Edition):
Szkolar, Laura. “The Development of Functional Peptide Scaffolds for Cell
Culture.” 2016. Web. 04 Mar 2021.
Vancouver:
Szkolar L. The Development of Functional Peptide Scaffolds for Cell
Culture. [Internet] [Doctoral dissertation]. University of Manchester; 2016. [cited 2021 Mar 04].
Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:298798.
Council of Science Editors:
Szkolar L. The Development of Functional Peptide Scaffolds for Cell
Culture. [Doctoral Dissertation]. University of Manchester; 2016. Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:298798

University of New South Wales
16.
Wang, Zhiyong.
RGD peptide derivatives as tools for tumour imaging and therapy.
Degree: Chemical Sciences & Engineering, 2013, University of New South Wales
URL: http://handle.unsw.edu.au/1959.4/52850
;
https://unsworks.unsw.edu.au/fapi/datastream/unsworks:11523/SOURCE01?view=true
► The first project is a tumour imaging method based on iodinated micelle which can be applied as contrast agent for CT. the obtained micelle solution…
(more)
▼ The first project is a tumour imaging method based on iodinated micelle which can be applied as contrast agent for CT. the obtained micelle solution was tested by x-ray instrument and shows acceptable contrast ability in comparison with commercial samples. The second project is to develop a novel tumour therapy aimed at blocking angiogenesis process which has been proved to be crucial for growth of tumour cells. RGD as common cell recognition topic is employed in the project to synthesize fluorinated tetra-
peptide abridged by fluorinated GABA amino aicds. Fluorinated amino acid is synthesized according to previous literature, efforts have also been made to optimise reaction conditions. A rationale is proposed for vital second fluorination reactions during condition optimization. We observed a cyclization efficiency difference owing to conformational variation of fluorinated amino acids. Fluorinated cyclic RGD peptides is synthesized and after deprotection peptides will be tested on angiogenesis assay and integrin adhesion assay in collaboration with GSK England and CCIA in Sydney
Advisors/Committee Members: Hunter, Luke, Chemistry, Faculty of Science, UNSW.
Subjects/Keywords: Peptide; RGD; Fluorine
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Wang, Z. (2013). RGD peptide derivatives as tools for tumour imaging and therapy. (Masters Thesis). University of New South Wales. Retrieved from http://handle.unsw.edu.au/1959.4/52850 ; https://unsworks.unsw.edu.au/fapi/datastream/unsworks:11523/SOURCE01?view=true
Chicago Manual of Style (16th Edition):
Wang, Zhiyong. “RGD peptide derivatives as tools for tumour imaging and therapy.” 2013. Masters Thesis, University of New South Wales. Accessed March 04, 2021.
http://handle.unsw.edu.au/1959.4/52850 ; https://unsworks.unsw.edu.au/fapi/datastream/unsworks:11523/SOURCE01?view=true.
MLA Handbook (7th Edition):
Wang, Zhiyong. “RGD peptide derivatives as tools for tumour imaging and therapy.” 2013. Web. 04 Mar 2021.
Vancouver:
Wang Z. RGD peptide derivatives as tools for tumour imaging and therapy. [Internet] [Masters thesis]. University of New South Wales; 2013. [cited 2021 Mar 04].
Available from: http://handle.unsw.edu.au/1959.4/52850 ; https://unsworks.unsw.edu.au/fapi/datastream/unsworks:11523/SOURCE01?view=true.
Council of Science Editors:
Wang Z. RGD peptide derivatives as tools for tumour imaging and therapy. [Masters Thesis]. University of New South Wales; 2013. Available from: http://handle.unsw.edu.au/1959.4/52850 ; https://unsworks.unsw.edu.au/fapi/datastream/unsworks:11523/SOURCE01?view=true

University of Edinburgh
17.
Svensen, Nina.
Cellular analysis and PNA encoded libraries.
Degree: PhD, 2011, University of Edinburgh
URL: http://hdl.handle.net/1842/9605
► A peptide nucleic acid (PNA) encoded 1296 member peptide library was synthesised and incubated with a variety of cell types. Library members entering cells were…
(more)
▼ A peptide nucleic acid (PNA) encoded 1296 member peptide library was synthesised and incubated with a variety of cell types. Library members entering cells were extracted, hybridised onto DNA microarrays and the peptide identity was determined via deconvolution. Global consensus analysis highlighted the tetrapepide, Glu-Llp- Glu-Glu (Llp is 6-hexamine-N-aminoacetic acid), a surprise in view of the basic residues typically observed in cell penetrating peptides. When evaluated, Glu-Llp- Glu-Glu revealed cellular uptake comparable to a known basic peptide (tetraLlp). In depth delineation via clustering analysis allowed assessment of differential cellular uptake, with the identified peptides showing clear cellular specificity. This was verified by peptide synthesis and cellular uptake analysis by flow-cytometry, and in all cases an endocytic uptake mechanism was confirmed. This approach establishes a strategy for the identification of short peptides as tools for selective delivery into specific cell types. The incubation of a 10,000 member PNA-encoded peptide library with D54 and HEK293T transfected with CCR6 cells followed by microarray analysis allowed detailed information on the interaction between peptide-ligands and cell surface receptors to be extracted. This allowed the identification of new ligands for integrins and G-protein coupled receptors and offers a novel approach to ligand discovery allowing the comparative analysis of different cell types for the identification of differences in surface-receptor ligands and/or receptor expression between various cell types. In addition, this work included the development of a novel method for the indirect amplification of a PNA library by amplification of a complementary DNA library hybridised to the PNA. The generation of 10,000 defined pieces of DNA would have a myriad of applications, not least in the area of defined or directed sequencing and synthetic biology, but also in applications associated with encoding and tagging. By this approach DNA microarrays were used to allow the linear amplification of immobilised DNA sequences on an array followed by PCR amplification. Arrays of increasing sophistication (1; 10; 3875; 10,000 defined oligonucleotides) were used to validate the process, with sequences verified by selective hybridisation to a complementary DNA microarray with DNA sequencing demonstrating error rates of ca ≈ 0.2%. This technique offers an economical and efficient way of producing hundreds to thousands of specific DNA primers, while the DNA-arrays can be used as “factories” allowing specific DNA oligonucleotide pools to be generated with or without masking. This study also demonstrated a significant variance observed between the sequence frequencies found via Solexa sequencing compared to microarray analysis.
Subjects/Keywords: 572.8; peptide nucleic acid; peptide library; endocytic uptake mechanism; peptide-ligands
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Svensen, N. (2011). Cellular analysis and PNA encoded libraries. (Doctoral Dissertation). University of Edinburgh. Retrieved from http://hdl.handle.net/1842/9605
Chicago Manual of Style (16th Edition):
Svensen, Nina. “Cellular analysis and PNA encoded libraries.” 2011. Doctoral Dissertation, University of Edinburgh. Accessed March 04, 2021.
http://hdl.handle.net/1842/9605.
MLA Handbook (7th Edition):
Svensen, Nina. “Cellular analysis and PNA encoded libraries.” 2011. Web. 04 Mar 2021.
Vancouver:
Svensen N. Cellular analysis and PNA encoded libraries. [Internet] [Doctoral dissertation]. University of Edinburgh; 2011. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/1842/9605.
Council of Science Editors:
Svensen N. Cellular analysis and PNA encoded libraries. [Doctoral Dissertation]. University of Edinburgh; 2011. Available from: http://hdl.handle.net/1842/9605

University of Cambridge
18.
Brichtova, Eva.
Studies on the physical stability of a C-terminally amidated variant of GLP-1.
Degree: MPhil, 2019, University of Cambridge
URL: https://www.repository.cam.ac.uk/handle/1810/296886
► The phenomenon of peptide and protein aggregation is of great biochemical importance. Not only is it a key feature of numerous neurodegenerative diseases such as…
(more)
▼ The phenomenon of peptide and protein aggregation is of great biochemical importance. Not only is it a key feature of numerous neurodegenerative diseases such as Alzheimer's, Parkinson's or Huntington's disease, but it also plays a significant role in the manufacturing and processing of therapeutic peptides. In the process of producing pharmaceutical peptides, molecules are exposed to a wide variety of conditions, some of which enhance aggregation, such as high peptide concentrations. In addition, the long-term physical stability of therapeutic peptides is essential for storage and use of these drugs, and also influences their half-lives in vivo. Therefore, aggregation of peptide-based therapeutics remains a great challenge for the pharmaceutical industry.
Aggregation is typically defined as a process involving the non-covalent association of polypeptide chains, however, in some cases aggregates can also be linked covalently. The process of aggregation proceeds via a multi-step mechanism: First, the monomeric peptide self-associates to oligomeric structures, and these can form nucleating species which then further elongate to form amyloid fibrils. When a peptide aggregates, it leads not only to the loss of its biological activity but it can also give rise to other critical problems, e.g. toxicity and immunogenicity, associated with the formation of intermediate oligomeric species.
This work is focused on the C-terminal amidated analogue of the commonly used peptide therapeutic, glucagon-like peptide 1 (GLP-1). This peptide is responsible for many regulatory mechanisms affecting the level of glucose in the bloodstream. Unfortunately, it was shown that GLP-1 has a great propensity to aggregate over a wide pH range that inhibits its function. The studies presented here establish that C-terminal amidation of this peptide hormone significantly slows its fibril formation at neutral and basic pH. It was found that during the significantly prolonged lag times, small stable soluble peptide oligomers start to form. These oligomers, which were characterised using a number of different biophysical techniques, may be off-pathway species of amyloid fibril formation or products of partial peptide degradation. The aggregation kinetics were shown to differ below and above pH 8. However, it was demonstrated that oligomers formed during the process have similar structural characteristics. While amyloid fibrils have a characteristic cross β-sheet structure, the structure of small oligomers formed mainly during the lag and elongation and growth phases is highly disordered. Surprisingly, these small oligomers show a great stability. The exact role of these small, soluble disordered aggregates in fibrillation processes requires further investigation.
These results contribute to the understanding of a complex pathway of aggregation and misfolding processes by providing size and structural characterization of oligomeric species formed during the lag, elongation and growth phases.
Subjects/Keywords: peptide aggregation; glucagon-like peptide 1; GLP-1; peptide therapeutics; peptide stability; off-pathway oligomers; peptide oligomers; amyloid fibrils; metastable oligomers; amyloid aggregates; peptide degradation; fibrillation; misfolding; diabetes
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Brichtova, E. (2019). Studies on the physical stability of a C-terminally amidated variant of GLP-1. (Masters Thesis). University of Cambridge. Retrieved from https://www.repository.cam.ac.uk/handle/1810/296886
Chicago Manual of Style (16th Edition):
Brichtova, Eva. “Studies on the physical stability of a C-terminally amidated variant of GLP-1.” 2019. Masters Thesis, University of Cambridge. Accessed March 04, 2021.
https://www.repository.cam.ac.uk/handle/1810/296886.
MLA Handbook (7th Edition):
Brichtova, Eva. “Studies on the physical stability of a C-terminally amidated variant of GLP-1.” 2019. Web. 04 Mar 2021.
Vancouver:
Brichtova E. Studies on the physical stability of a C-terminally amidated variant of GLP-1. [Internet] [Masters thesis]. University of Cambridge; 2019. [cited 2021 Mar 04].
Available from: https://www.repository.cam.ac.uk/handle/1810/296886.
Council of Science Editors:
Brichtova E. Studies on the physical stability of a C-terminally amidated variant of GLP-1. [Masters Thesis]. University of Cambridge; 2019. Available from: https://www.repository.cam.ac.uk/handle/1810/296886

University of Illinois – Chicago
19.
Jaishankar, Dinesh.
Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an Entry-Based Antiviral Therapy.
Degree: 2017, University of Illinois – Chicago
URL: http://hdl.handle.net/10027/22031
► Primary and recurring herpes simplex virus-1 (HSV-1) infections can cause different pathologies in the eye and in severe cases it can result in permanent blindness.…
(more)
▼ Primary and recurring herpes simplex virus-1 (HSV-1) infections can cause different pathologies in the eye and in severe cases it can result in permanent blindness. The current antiviral treatments for HSV-1 belong to a class of nucleoside analogs that inhibit viral DNA polymerase and block viral replication. Since they all target the same step in viral lifecycle, emergence of drug resistance is on the rise. Topical antivirals get eliminated through absorbance from ocular tissues or through the nasolacrimal duct resulting in lower bioavailability and frequent applications to reduce symptoms. These challenges need to be addressed by developing newer treatment options that target different stages in the viral lifecycle and by utilizing innovative technologies to enhance the efficacy and residence time of a drug on the cornea. Previous work from our lab discovered a unique arginine-rich
peptide called G2. The
peptide was specifically isolated against heparan sulfate (HS). HSV-1 used HS for attaching to cells and initiating entry. The G2
peptide binds to HS and inhibits viral entry and subsequent infection. Although peptides are fast growing as potential therapeutic molecules due to their high specificity, they are susceptible to protease degradation resulting in low activity and availability. The goal of this study is to increase the efficacy and/or stability of the G2
peptide that can either be used as a standalone preventive management or as a therapeutic in combination with existing antiviral treatments in controlling ocular herpes infection. Using
peptide conjugation and
peptide structure modification strategies and contact lenses as a drug delivery system, this study shows that the modified peptides are stable and significantly block viral entry and subsequent infection. The modified peptides are the first of its kind and may represent a new class of antiviral compounds. Additionally, other microorganisms such as fungi and bacteria also use HS for their pathogenesis. Thus, these efficacious forms of G2 may represent a broad-spectrum drug against these microbes.
Advisors/Committee Members: Shukla, Deepak (advisor), Royston, Thomas (committee member), Valyi-Nagy, Tibor (committee member), Djalilian, Ali (committee member), Lee, James (committee member), Shukla, Deepak (chair).
Subjects/Keywords: peptide engineering; herpes simplex virus; contact lens; d-peptide; peptide therapeutics; cornea
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Jaishankar, D. (2017). Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an Entry-Based Antiviral Therapy. (Thesis). University of Illinois – Chicago. Retrieved from http://hdl.handle.net/10027/22031
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Jaishankar, Dinesh. “Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an Entry-Based Antiviral Therapy.” 2017. Thesis, University of Illinois – Chicago. Accessed March 04, 2021.
http://hdl.handle.net/10027/22031.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Jaishankar, Dinesh. “Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an Entry-Based Antiviral Therapy.” 2017. Web. 04 Mar 2021.
Vancouver:
Jaishankar D. Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an Entry-Based Antiviral Therapy. [Internet] [Thesis]. University of Illinois – Chicago; 2017. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/10027/22031.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Jaishankar D. Engineering a Higher Efficacy Anti-Heparan Sulfate Peptide for an Entry-Based Antiviral Therapy. [Thesis]. University of Illinois – Chicago; 2017. Available from: http://hdl.handle.net/10027/22031
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

NSYSU
20.
Huang, Huei-Jhen.
Influence of chemical conditions on human insulin fibril structure.
Degree: Master, Chemistry, 2013, NSYSU
URL: http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0713113-113753
► Many proteins can misfold to form non-native structures and induce aggregation. Previous studies had found that more than 20 kinds of proteins may cause specific…
(more)
▼ Many proteins can misfold to form non-native structures and induce aggregation. Previous studies had found that more than 20 kinds of proteins may cause specific diseases that under ineffective prevention and treatment, and greatly perplexed many patients and researchers. Either the amino acid sequences, or molecular size, or the folded three-dimensional conformation of these pathogenic proteins is quite different, all of them will lead to the formation of insoluble amyloid fibers after misfolding. Herein, we investigated the environmental changes by the alcohol contentãpH value and adding short peptides and dendrimers in solvent incubated with human insulin. We used circular dichroism (CD) spectroscopyãfourier transform infrared spectroscopy (FT-IR) and fluoresce spectroscopy to obtain the structural transition of the insulin, and gain the morphology information of fibril by atomic force microscopy (AFM). The results showed that the increasing percentage of alcohol or increasing carbon chain length of alcohols can cause a difference CD spectra. The surface morphology of insulin fibers by AFM imaging indicated that either increasing the percentage of alcohol or increasing alcohol carbon chain length will inhibit insulin fiber formation. This phenomenon was attributing to hydrophobic group expose to solution and solvent molecular may prevent nucleus to contact. And lowering the pH will undergo conformational change from α-helix to β-sheet form that causes the formation of amyloid plaques. This result may be attributed to Cl- that covered the surface charge of insulin fibril, then weaken the original electrostatic repulsion among insulin fibrils and result in their aggregation.
Advisors/Committee Members: Po-Chiao Lin (chair), Shu-chen Hsieh (committee member), Chai-Lin Kao (chair).
Subjects/Keywords: alcohol; amyloid; pH; peptide; insulin
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Huang, H. (2013). Influence of chemical conditions on human insulin fibril structure. (Thesis). NSYSU. Retrieved from http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0713113-113753
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Huang, Huei-Jhen. “Influence of chemical conditions on human insulin fibril structure.” 2013. Thesis, NSYSU. Accessed March 04, 2021.
http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0713113-113753.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Huang, Huei-Jhen. “Influence of chemical conditions on human insulin fibril structure.” 2013. Web. 04 Mar 2021.
Vancouver:
Huang H. Influence of chemical conditions on human insulin fibril structure. [Internet] [Thesis]. NSYSU; 2013. [cited 2021 Mar 04].
Available from: http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0713113-113753.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Huang H. Influence of chemical conditions on human insulin fibril structure. [Thesis]. NSYSU; 2013. Available from: http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0713113-113753
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Ruhr Universität Bochum
21.
Penkova, Maya.
Arginine and Tryptophan rich antimicrobial peptides
(AMPs) : modifications, application and mode of action.
Degree: 2010, Ruhr Universität Bochum
URL: http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-30249
► Da multiresistente Bakterienstämme ein häufiges Problem darstellen, besteht Bedarf an neuen Verbindungen, die keine Resistenzen hervorrufen. Eine solche Verbindungsklasse stellen die kationischen antimikrobiellen Peptide dar…
(more)
▼ Da multiresistente Bakterienstämme ein häufiges
Problem darstellen, besteht Bedarf an neuen Verbindungen, die keine
Resistenzen hervorrufen. Eine solche Verbindungsklasse stellen die
kationischen antimikrobiellen
Peptide dar (cationic antimicrobial
peptides, AMPs). Mithilfe von Festphasenpeptidsynthese wurden
Peptide und deren Metallocenanaloga (Ferrocen- und
Ruthenocenbiokonjugate) hergestellt und auf ihre biologische
Aktivität untersucht. Alle hergestellten Verbindungen zeigten
antimikrobielle Eigenschaften. Um den Wirkmechanismus aufzuklären,
wurden MudPit-Analysen und Proteomik verwendet. Nach der Behandlung
von B. Subtilis mit AMPs war dessen Proteinprofil vergleichbar zu
dem wie nach der Behandlung mit Triton X-100. Desweiteren wurden
Proteinmarker gefunden wie bei Valinomycin und Bacitracin. Diese
Ergebnisse weisen darauf hin, dass das Target der AMPs die
Zytoplasmamembran ist.
Advisors/Committee Members: Chemie.
Subjects/Keywords: Arginin; Tryptophan; Ferrocen; Peptide
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Penkova, M. (2010). Arginine and Tryptophan rich antimicrobial peptides
(AMPs) : modifications, application and mode of action. (Thesis). Ruhr Universität Bochum. Retrieved from http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-30249
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Penkova, Maya. “Arginine and Tryptophan rich antimicrobial peptides
(AMPs) : modifications, application and mode of action.” 2010. Thesis, Ruhr Universität Bochum. Accessed March 04, 2021.
http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-30249.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Penkova, Maya. “Arginine and Tryptophan rich antimicrobial peptides
(AMPs) : modifications, application and mode of action.” 2010. Web. 04 Mar 2021.
Vancouver:
Penkova M. Arginine and Tryptophan rich antimicrobial peptides
(AMPs) : modifications, application and mode of action. [Internet] [Thesis]. Ruhr Universität Bochum; 2010. [cited 2021 Mar 04].
Available from: http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-30249.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Penkova M. Arginine and Tryptophan rich antimicrobial peptides
(AMPs) : modifications, application and mode of action. [Thesis]. Ruhr Universität Bochum; 2010. Available from: http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-30249
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Ruhr Universität Bochum
22.
Jaouhar, Mohamed.
Expressionsanalyse antimikrobieller Peptide beim kutanen
Lupus erythematodes.
Degree: 2013, Ruhr Universität Bochum
URL: http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-39305
► In dieser Arbeit wurde die Expression sechs verschiedener antimikrobieller Peptide (hBD-1, -2, -3, RNase7, LL-37 und Psoriasin) bei drei Subtypen des kutanen Lupus erythematodes (CLE),…
(more)
▼ In dieser Arbeit wurde die Expression sechs
verschiedener antimikrobieller
Peptide (hBD-1, -2, -3, RNase7,
LL-37 und Psoriasin) bei drei Subtypen des kutanen Lupus
erythematodes (CLE), bei Psoriasis-Patienten und einer gesunden
Kontrollgruppe untersucht. Bei den drei Subtypen des CLE handelte
es sich um den subakut kutanen LE (SCLE), den diskoiden LE (DLE)
und den LE tumidus (LET). Die Expression von hBD-2, -3, LL-37 und
Psoriasin war beim CLE im Vergleich zur gesunden Kontrollgruppe
signifikant erhöht. Von den untersuchten CLE-Subtypen konnte bei
den SCLE-Patienten im Mittel die höchste Expression der
antimikrobiellen
Peptide nachgewiesen werden. Zudem konnten beim
SCLE und DLE Gemeinsamkeiten bezüglich des Expressionsmusters
einiger antimikrobieller
Peptide nachgewiesen
werden.
Advisors/Committee Members: Medizin.
Subjects/Keywords: Genexpression; Immunsystem; Peptide; Hautkrankheit;
Bindegewebskrankheit
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Jaouhar, M. (2013). Expressionsanalyse antimikrobieller Peptide beim kutanen
Lupus erythematodes. (Thesis). Ruhr Universität Bochum. Retrieved from http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-39305
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Chicago Manual of Style (16th Edition):
Jaouhar, Mohamed. “Expressionsanalyse antimikrobieller Peptide beim kutanen
Lupus erythematodes.” 2013. Thesis, Ruhr Universität Bochum. Accessed March 04, 2021.
http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-39305.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
MLA Handbook (7th Edition):
Jaouhar, Mohamed. “Expressionsanalyse antimikrobieller Peptide beim kutanen
Lupus erythematodes.” 2013. Web. 04 Mar 2021.
Vancouver:
Jaouhar M. Expressionsanalyse antimikrobieller Peptide beim kutanen
Lupus erythematodes. [Internet] [Thesis]. Ruhr Universität Bochum; 2013. [cited 2021 Mar 04].
Available from: http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-39305.
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation
Council of Science Editors:
Jaouhar M. Expressionsanalyse antimikrobieller Peptide beim kutanen
Lupus erythematodes. [Thesis]. Ruhr Universität Bochum; 2013. Available from: http://nbn-resolving.de/urn/resolver.pl?urn=urn:nbn:de:hbz:294-39305
Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Oregon State University
23.
Blanchard, David, L. (David Lee).
Advanced studies on cyclic amino acids in neurological signaling and peptide antibiotics.
Degree: PhD, Pharmacy, 2009, Oregon State University
URL: http://hdl.handle.net/1957/11418
► L-pipecolic acid (L-PA) is the higher homolog of proline. It occurs naturally in many organisms, including primates, as an intermediate in lysine degradation. The pathway…
(more)
▼ L-pipecolic acid (L-PA) is the higher homolog of proline. It occurs naturally in
many organisms, including primates, as an intermediate in lysine degradation. The
pathway by which lysine is converted into L-pipecolic acid employs the enzyme Lpipecolate
oxidase (L-PO), and appears to be tissue specific to the central nervous system
(CNS). The oxidation facilitated by L-PO is the rate limiting step of lysine degradation
in the CNS. For this reason, the mechanism of action for L-PO may be useful in the
development of neuromodulation. This thesis describes efforts to probe the mechanism
of action of L-PO through the synthesis of substrate analogs as alternate substrates and
inhibitors of L-PO.
Analogs that contain heteroatoms and other functionalities at key positions have
been synthesized and analyzed as both alternate substrates and inhibitors of L-PO. The
4,5-methanopipecolic acid has been shown to be an excellent substrate for L-PO. The 5-
keto analog was not a substrate or inhibitor of the enzyme. The 5-hydroxy and 5,5-
2
difluoro analogs have been shown to be weak inhibitors of L-PO. 6S-methyl-L-pipecolic
acid (35) was shown to be a weak substrate and strong inhibitor while the enantiomeric
6R methyl-D-pipecolic acid (36) was neither a substrate nor inhibitor.
These results suggest flexibility within the binding pocket of L-pipecolate oxidase
toward analogs containing substituents at the 5-position. Additionally, these studies
demonstrate the potential to develop mechanism-based inhibitors that could be used to
control the rate of L-pipecolic acid consumption as well as the production of downstream
products.
A hallmark of
peptide antibiotics are the varied and unique amino acids they
employ. Capreomycidine and enduracididine are two such examples found in the
peptide
antibiotics muraymycin and enduracidin, respectively. Both are cyclic amino acids
derived from arginine.
Muraymycin is produced by Streptomyces sp. 30471 and has been shown to be
active against a number of Gram-positive bacteria including Methicillin-resistant
Staphylococcus aureus (MRSA). In an effort to further our understanding of this
antibiotic, efforts to isolate the muraymycin gene cluster have begun. A genomic library
has been constructed in the pCCFos1 Copy Control vector. Efforts to identify the genes
encoding for the enzyme involved in the conversion of L-arginine to capreomycidine are
described.
Enduracidin is another
peptide antibiotic which contains a cyclized form of
arginine, enduracididine. Enduracidin has potent activity against Gram-positive bacteria
including Methicillin-resistant Staphylococcus aureus. The enduracidin gene cluster has
been cloned and sequenced by Yin and Zabriskie . Efforts to express and characterized
the genes involve in the biosynthesis of enduracididine are described. Labeled feeding
studies were also employed to determine the precursor to enduracididine. ¹³C-γ-hydroxyarginine was synthesized and β- and γ-hydroxyarginine were used in feeding
experiments to determine which,…
Advisors/Committee Members: Zabriskie, T. Mark (advisor), Proteau, Philip, J. (committee member).
Subjects/Keywords: enduracidin; Peptide antibiotics – Development
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Blanchard, David, L. (. L. (2009). Advanced studies on cyclic amino acids in neurological signaling and peptide antibiotics. (Doctoral Dissertation). Oregon State University. Retrieved from http://hdl.handle.net/1957/11418
Chicago Manual of Style (16th Edition):
Blanchard, David, L (David Lee). “Advanced studies on cyclic amino acids in neurological signaling and peptide antibiotics.” 2009. Doctoral Dissertation, Oregon State University. Accessed March 04, 2021.
http://hdl.handle.net/1957/11418.
MLA Handbook (7th Edition):
Blanchard, David, L (David Lee). “Advanced studies on cyclic amino acids in neurological signaling and peptide antibiotics.” 2009. Web. 04 Mar 2021.
Vancouver:
Blanchard, David L(L. Advanced studies on cyclic amino acids in neurological signaling and peptide antibiotics. [Internet] [Doctoral dissertation]. Oregon State University; 2009. [cited 2021 Mar 04].
Available from: http://hdl.handle.net/1957/11418.
Council of Science Editors:
Blanchard, David L(L. Advanced studies on cyclic amino acids in neurological signaling and peptide antibiotics. [Doctoral Dissertation]. Oregon State University; 2009. Available from: http://hdl.handle.net/1957/11418

University of Alberta
24.
Etayash, Hashem Ra.
Engineering Surface-tethered Bacteriocins for Studying
Peptide-bacteria Interactions.
Degree: MS, Faculty of Pharmacy and Pharmaceutical
Sciences, 2012, University of Alberta
URL: https://era.library.ualberta.ca/files/5q47rq047
► Identification and quantification of pathogenic bacteria has become one of the key elements in biodefense, food safety, diagnostic and drug discovery. The aim of the…
(more)
▼ Identification and quantification of pathogenic
bacteria has become one of the key elements in biodefense, food
safety, diagnostic and drug discovery. The aim of the thesis is to
investigate interactions between bacteria and peptides in order to
utilize the potential of antimicrobial peptides (AMPs) in specific
recognition of pathogenic bacteria. Leucocin A (LeuA) is an AMP
that exhibits specific activity against L. monocytogenes at
nanomolar concentrations. Here, we have synthesized full length
LeuA and a shorter fragment using solid phase peptide synthesis.
The peptides were characterized and individually immobilized on
gold substrate. The bacterial specificity of the anchored peptides
was tested against various strains and the results reveal that the
adsorbed AMPs display significant binding towards Gram-positive
bacteria with various binding affinities from one strain to
another. Further, molecular dynamics simulation studies were
conducted to provide atomistic insight on the mechanism of
peptide-peptide and peptide lipid interactions in a membrane
mimicking environment.
Subjects/Keywords: Peptide-immobilizatios; Leucocin A; Peptide-bacteria Interactions; Antimicrobial Peptides; Leucocin A;
Peptide-Immobilization; Peptide-bacteria Interactions; Antimicrobial Peptides
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Etayash, H. R. (2012). Engineering Surface-tethered Bacteriocins for Studying
Peptide-bacteria Interactions. (Masters Thesis). University of Alberta. Retrieved from https://era.library.ualberta.ca/files/5q47rq047
Chicago Manual of Style (16th Edition):
Etayash, Hashem Ra. “Engineering Surface-tethered Bacteriocins for Studying
Peptide-bacteria Interactions.” 2012. Masters Thesis, University of Alberta. Accessed March 04, 2021.
https://era.library.ualberta.ca/files/5q47rq047.
MLA Handbook (7th Edition):
Etayash, Hashem Ra. “Engineering Surface-tethered Bacteriocins for Studying
Peptide-bacteria Interactions.” 2012. Web. 04 Mar 2021.
Vancouver:
Etayash HR. Engineering Surface-tethered Bacteriocins for Studying
Peptide-bacteria Interactions. [Internet] [Masters thesis]. University of Alberta; 2012. [cited 2021 Mar 04].
Available from: https://era.library.ualberta.ca/files/5q47rq047.
Council of Science Editors:
Etayash HR. Engineering Surface-tethered Bacteriocins for Studying
Peptide-bacteria Interactions. [Masters Thesis]. University of Alberta; 2012. Available from: https://era.library.ualberta.ca/files/5q47rq047

Universiteit Utrecht
25.
Tjong, C.T.F.
Immobilization strategies for peptide microarrrays.
Degree: 2012, Universiteit Utrecht
URL: http://dspace.library.uu.nl:8080/handle/1874/256506
► Peptide microarrays have been developed over the last decade into a technology that can profile biomolecules. It has proven to be a versatile tool for…
(more)
▼ Peptide microarrays have been developed over the last decade into a technology that can profile biomolecules. It has proven to be a versatile tool for epitope-mapping, substrate profiling and probing antigen-antibody, protein-protein and protein-ligand interactions, which all can lead or have led to the discovery of new drugs and drug targets. Microarrays are convenient to use because only miniscule quantities are needed for screening a high number of substances. Peptides used in
peptide microarrays are synthesized in such a way that they can bind via either a covalent or non-covalent bond to the microarray surface. These peptides often need a special functionality, but there are also strategies that make use of the occurring moieties in the
peptide to achieve immobilization. This thesis gives a short summary of the development of
peptide microarrays and discusses the strategies that have been developed for the immobilization of peptides on glass microscopic slides.
Advisors/Committee Members: Kruijtzer, J.A.W., Rijkers, D.T.S..
Subjects/Keywords: Immobilization strategies; Peptide Microarrays; Peptides
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Tjong, C. T. F. (2012). Immobilization strategies for peptide microarrrays. (Masters Thesis). Universiteit Utrecht. Retrieved from http://dspace.library.uu.nl:8080/handle/1874/256506
Chicago Manual of Style (16th Edition):
Tjong, C T F. “Immobilization strategies for peptide microarrrays.” 2012. Masters Thesis, Universiteit Utrecht. Accessed March 04, 2021.
http://dspace.library.uu.nl:8080/handle/1874/256506.
MLA Handbook (7th Edition):
Tjong, C T F. “Immobilization strategies for peptide microarrrays.” 2012. Web. 04 Mar 2021.
Vancouver:
Tjong CTF. Immobilization strategies for peptide microarrrays. [Internet] [Masters thesis]. Universiteit Utrecht; 2012. [cited 2021 Mar 04].
Available from: http://dspace.library.uu.nl:8080/handle/1874/256506.
Council of Science Editors:
Tjong CTF. Immobilization strategies for peptide microarrrays. [Masters Thesis]. Universiteit Utrecht; 2012. Available from: http://dspace.library.uu.nl:8080/handle/1874/256506

Mississippi State University
26.
Gyamfi, Hawa.
Understanding binding-induced conformational change in the Pin1 Prolyl Isomerase.
Degree: MS, Chemistry, 2013, Mississippi State University
URL: http://sun.library.msstate.edu/ETD-db/theses/available/etd-10302013-204949/
;
► Pin1 is a Prolyl Isomerase that catalyzes cis-trans isomerization of peptides with pSer/Thr-Pro motifs in many cell signaling proteins. This conformational switch is implicated…
(more)
▼ Pin1 is a Prolyl Isomerase that catalyzes cis-trans isomerization of peptides with
pSer/Thr-Pro motifs in many cell signaling proteins. This conformational switch is
implicated in diseases. Pin1 activity is considered a target for therapeutic applications.
Pin1 targets motifs by its N-terminal WW-binding domain. A C-terminal PPIase domain
is responsible for catalysis. To understand how Pin1 coordinates its enzymatic activities,
it is necessary to probe how the domains behave in the presence of substrates.
Here, we used novel (Histone H1 and Sic1) and other existing peptides to characterize the
dynamics of Pin1 and impact of substrate binding on inter-domain interactions. Pin1-
peptide complexes have been used to show that
peptide addition causes a conformational
change in the two domains.
15N-relaxation data suggest that the flexibility of these
domains depends on the substrate
peptide We have constructed a hypothesis about which
substrate residues may be important for conferring tight binding and inter-domain
interactions.
Advisors/Committee Members: DR.Niclolas C.Fitzkee (chair).
Subjects/Keywords: Pin1; Phospho-peptide; 15NTROSY; 15NRelaxation
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Gyamfi, H. (2013). Understanding binding-induced conformational change in the Pin1 Prolyl Isomerase. (Masters Thesis). Mississippi State University. Retrieved from http://sun.library.msstate.edu/ETD-db/theses/available/etd-10302013-204949/ ;
Chicago Manual of Style (16th Edition):
Gyamfi, Hawa. “Understanding binding-induced conformational change in the Pin1 Prolyl Isomerase.” 2013. Masters Thesis, Mississippi State University. Accessed March 04, 2021.
http://sun.library.msstate.edu/ETD-db/theses/available/etd-10302013-204949/ ;.
MLA Handbook (7th Edition):
Gyamfi, Hawa. “Understanding binding-induced conformational change in the Pin1 Prolyl Isomerase.” 2013. Web. 04 Mar 2021.
Vancouver:
Gyamfi H. Understanding binding-induced conformational change in the Pin1 Prolyl Isomerase. [Internet] [Masters thesis]. Mississippi State University; 2013. [cited 2021 Mar 04].
Available from: http://sun.library.msstate.edu/ETD-db/theses/available/etd-10302013-204949/ ;.
Council of Science Editors:
Gyamfi H. Understanding binding-induced conformational change in the Pin1 Prolyl Isomerase. [Masters Thesis]. Mississippi State University; 2013. Available from: http://sun.library.msstate.edu/ETD-db/theses/available/etd-10302013-204949/ ;

University of Alberta
27.
Binazadeh, Mojtaba.
Effect of Secondary Structure on Surface Adsorption of
Peptides.
Degree: PhD, Department of Chemical and Materials
Engineering, 2013, University of Alberta
URL: https://era.library.ualberta.ca/files/jh343v004
► Protein adsorption at the biomaterial-tissue interface has several detrimental consequences which undermines the widespread application of engineered materials. Herein, it was asked what role protein…
(more)
▼ Protein adsorption at the biomaterial-tissue interface
has several detrimental consequences which undermines the
widespread application of engineered materials. Herein, it was
asked what role protein secondary structures play in the adsorption
of peptides, as well as how these structures affect the
physicochemical properties of the final adsorbed layer on bare gold
(Au) and poly (ethylene glycol) (PEG) modified Au surfaces. To this
end, α-helices and -sheets were induced in poly-L-Lysine (PLL) and
persistence of these structures in solution and adsorbed state was
confirmed by circular dichroism (CD). PLL adsorption to Au surfaces
was monitored using quartz crystal microbalance with dissipation
(QCM-D). PLL adsorption on bare Au resulted in higher initial
adsorption rates for α-helices as compared to β-sheets but the
final adsorbed amount of β-sheets was higher than α-helices
regardless of solution salt concentration. Viscosities for films
formed from α-helices were ~2x that of β-sheets films, regardless
of solution ionic strength. β-sheets have higher zeta potential as
compared to α-helices. The interaction energy between PLL and Au
surface was found to be driven by electrostatic and van der Waals
forces. Presence of PEG grafted brush layers on the Au surface
drastically reduced the adsorbed amount of different PLL structures
and PLL layers adsorbed on PEG coated surfaces had similar layer
viscosities. To further understand PLL adsorption mechanism and
adsorbed layer properties, the interacting forces between PLL-Au,
PLL-PLL, PEG-mica, and PEG-PLL surfaces were studied by surface
forces apparatus (SFA). SFA results revealed that the adhesion
energy of β-sheet vs. Au and β-sheet vs. β-sheet was considerably
more than α-helix vs. Au and α-helix vs. α-helix systems
respectively. The substrate surface adhesion energy of β-sheet was
more dependent on the solution salt concentration as compared to
α-helix due to the higher electrostatic interactions of β-sheet PLL
film with Au (higher zeta potential value of β-sheet PLL). It was
found that presence of PEG grafted layer eliminated the PLL
secondary structure effect on adsorption due to the purely
repulsive force that governed the PEG vs. PLL
interaction.
Subjects/Keywords: Peptide; Surface Adsorption; Secondary Structure
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Binazadeh, M. (2013). Effect of Secondary Structure on Surface Adsorption of
Peptides. (Doctoral Dissertation). University of Alberta. Retrieved from https://era.library.ualberta.ca/files/jh343v004
Chicago Manual of Style (16th Edition):
Binazadeh, Mojtaba. “Effect of Secondary Structure on Surface Adsorption of
Peptides.” 2013. Doctoral Dissertation, University of Alberta. Accessed March 04, 2021.
https://era.library.ualberta.ca/files/jh343v004.
MLA Handbook (7th Edition):
Binazadeh, Mojtaba. “Effect of Secondary Structure on Surface Adsorption of
Peptides.” 2013. Web. 04 Mar 2021.
Vancouver:
Binazadeh M. Effect of Secondary Structure on Surface Adsorption of
Peptides. [Internet] [Doctoral dissertation]. University of Alberta; 2013. [cited 2021 Mar 04].
Available from: https://era.library.ualberta.ca/files/jh343v004.
Council of Science Editors:
Binazadeh M. Effect of Secondary Structure on Surface Adsorption of
Peptides. [Doctoral Dissertation]. University of Alberta; 2013. Available from: https://era.library.ualberta.ca/files/jh343v004

University of Alberta
28.
Shahin, Mostafa H.
Development of polymer and lipid based nano-delivery systems
for targeted cancer chemotherapy.
Degree: PhD, Faculty of Pharmacy and Pharmaceutical
Sciences, 2012, University of Alberta
URL: https://era.library.ualberta.ca/files/k0698856b
► Conventional chemotherapy agents can kill tumor cells and inhibit tumor growth, but they produce severe side effects on normal cells at the same time. To…
(more)
▼ Conventional chemotherapy agents can kill tumor cells
and inhibit tumor growth, but they produce severe side effects on
normal cells at the same time. To shift the balance towards tumoral
effects, it would be desirable to direct the anti-cancer drug
towards tumor while restricting drug access to normal tissues. The
main objective of this thesis was to develop tumor targeted drug
delivery system that can take on this task and as a result, improve
the specificity and anticancer activity of the incorporated
anticancer drugs towards tumor. To this end, lipid and block
copolymer based nano-delivery systems of two conventional
anti-cancer agents doxorubicin (DOX) and paclitaxel (PTX) are
developed, respectively, and modified on their surface with a 12mer
breast tumor interacting peptide, namely p160, or its engineered
derivatives developed in our research team. The effect of peptide
decoration on the specific interaction as well as anti-cancer
activity of developed nano-formulations against human breast tumor
cells over normal epithelial breast cells or endothelial cells was
characterized, in vitro. In this study, micelles of poly(ethylene
oxide)-b-poly(-caprolactone) were prepared and modified with
either c(RGDfK) or p160 and loaded with paclitaxel (PTX). Peptide
decoration enhanced the selective cytotoxicity of encapsulated PTX
against cancer cells over normal cells. The extent of this increase
in cancer cell specificity for encapsulated PTX was more for
p160-modified micelles. At the end, the anti-cancer activity of
liposomal formulations of DOX, having different density of an
engineered breast tumor targeting peptide, namely p-18-4, was
assessed in vitro for cellular uptake and selective cytotoxicity,
and in vivo using animal model of human breast tumor xenograft and
compared to that for liposomal formulations of DOX with no peptide
decoration. Liposomal DOX formulations bearing low p18-4 density
showed better in vitro selective cytotoxicity and in vivo
therapeutic efficacy. Our results points to the potential of p160
and its engineered derivatives as efficient ligands on lipid and
block copolymer based nanocarriers for active targeting of
anticancer agents to breast tumors. The results also show the
success of this strategy in enhancing the specific anti-cancer
effects of the incorporated drug against breast tumor
models.
Subjects/Keywords: peptide; liposomes; chemotherapy; polymeric micelle
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Shahin, M. H. (2012). Development of polymer and lipid based nano-delivery systems
for targeted cancer chemotherapy. (Doctoral Dissertation). University of Alberta. Retrieved from https://era.library.ualberta.ca/files/k0698856b
Chicago Manual of Style (16th Edition):
Shahin, Mostafa H. “Development of polymer and lipid based nano-delivery systems
for targeted cancer chemotherapy.” 2012. Doctoral Dissertation, University of Alberta. Accessed March 04, 2021.
https://era.library.ualberta.ca/files/k0698856b.
MLA Handbook (7th Edition):
Shahin, Mostafa H. “Development of polymer and lipid based nano-delivery systems
for targeted cancer chemotherapy.” 2012. Web. 04 Mar 2021.
Vancouver:
Shahin MH. Development of polymer and lipid based nano-delivery systems
for targeted cancer chemotherapy. [Internet] [Doctoral dissertation]. University of Alberta; 2012. [cited 2021 Mar 04].
Available from: https://era.library.ualberta.ca/files/k0698856b.
Council of Science Editors:
Shahin MH. Development of polymer and lipid based nano-delivery systems
for targeted cancer chemotherapy. [Doctoral Dissertation]. University of Alberta; 2012. Available from: https://era.library.ualberta.ca/files/k0698856b

University of Alberta
29.
Bodapati, Krishna Chaitanya.
Synthesis and SAR studies of antimicrobial peptide Leucocin
A.
Degree: MS, Faculty of Pharmacy and Pharmaceutical
Sciences, 2011, University of Alberta
URL: https://era.library.ualberta.ca/files/cc08hg66t
► In this study, we report the synthesis of a potent antimicrobial peptide Leucocin A (LeuA) using two solid phase peptide synthesis methods. One of the…
(more)
▼ In this study, we report the synthesis of a potent
antimicrobial peptide Leucocin A (LeuA) using two solid phase
peptide synthesis methods. One of the methods, native chemical
ligation, gave high yield (12.5%) of 37-residue LeuA and can be
utilized in the synthesis of LeuA to perform structure-activity
relationship (SAR) studies. Three analogues (1-3) of LeuA were
designed and synthesized to explore the SAR in the N-terminal
domain of LeuA. In the analogues, N-terminal -sheet residues
Cys9-Ser15 of the native peptide were replaced with shorter -turn
motifs. Such replacement abolished the antimicrobial activity in
all the analogues. Circular dichroism spectroscopy suggested that
only analogue 1 adopted similar folding as LeuA. Therefore, 1 was
able to competitively inhibit the activity of native LeuA. However,
analysis of the secondary structure of 1 using molecular dynamics
simulations suggested lack of -sheet formation in the N-terminal
region compared to LeuA emphasizing the role of proper folding and
sequence in the activity of class IIa bacteriocins.
Subjects/Keywords: antimicrobial peptide, leucocin a, bacteriocin
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❌
APA ·
Chicago ·
MLA ·
Vancouver ·
CSE |
Export
to Zotero / EndNote / Reference
Manager
APA (6th Edition):
Bodapati, K. C. (2011). Synthesis and SAR studies of antimicrobial peptide Leucocin
A. (Masters Thesis). University of Alberta. Retrieved from https://era.library.ualberta.ca/files/cc08hg66t
Chicago Manual of Style (16th Edition):
Bodapati, Krishna Chaitanya. “Synthesis and SAR studies of antimicrobial peptide Leucocin
A.” 2011. Masters Thesis, University of Alberta. Accessed March 04, 2021.
https://era.library.ualberta.ca/files/cc08hg66t.
MLA Handbook (7th Edition):
Bodapati, Krishna Chaitanya. “Synthesis and SAR studies of antimicrobial peptide Leucocin
A.” 2011. Web. 04 Mar 2021.
Vancouver:
Bodapati KC. Synthesis and SAR studies of antimicrobial peptide Leucocin
A. [Internet] [Masters thesis]. University of Alberta; 2011. [cited 2021 Mar 04].
Available from: https://era.library.ualberta.ca/files/cc08hg66t.
Council of Science Editors:
Bodapati KC. Synthesis and SAR studies of antimicrobial peptide Leucocin
A. [Masters Thesis]. University of Alberta; 2011. Available from: https://era.library.ualberta.ca/files/cc08hg66t

University of Manchester
30.
Forbes, Sarah.
Assessment of Apolipoprotein E Derived Peptides as Novel
Antimicrobials for the Coating of Biomedical Devices.
Degree: 2013, University of Manchester
URL: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:185610
► The microbial contamination of biomedical devices is a leading cause of hospital- acquired infection. A number of strategies aimed at developing device coatings that are…
(more)
▼ The microbial contamination of biomedical devices
is a leading cause of hospital- acquired infection. A number of
strategies aimed at developing device coatings that are refractory
to microbial adhesion, colonisation and biofilm formation have been
developed, but the problem remains. The incorporation of biocides
into biomedical device surface coatings has shown promising results
in preventing the establishment of infection. Current controversy
over the possibility that extensive use of biocides could
potentially lead to antimicrobial resistance has fuelled the search
for new actives with good antimicrobial activity and low
cytotoxicity, that maintain marked efficacy after prolonged use.
This doctoral thesis aims to evaluate the antimicrobial potential
of a novel
peptide based on human apolipoprotein E receptor binding
region (apoEdpL-W). The spectrum of antimicrobial activity and
anti-biofilm efficacy of apoEdpL-W was compared to that of common
biocides polyhexamethylene biguanide, triclosan, cetrimide and
chlorhexidine. The potential to induce bacterial insusceptibility
towards these agents after long-term sub-lethal level exposure was
assessed. Initial examination against 18 test microorganisms,
commonly associated with device infection, showed that apoEdpL-W
displayed broad-range antimicrobial and anti-biofilm efficacy.
ApoEdpL-W also maintained marked antibacterial activity after
incorporation onto various biomaterial polymers, often used in
device surface coatings. Alterations in bacterial susceptibility
after prolonged exposure to apoEdpL-W, as well as to the other
biocides, were often temporary and partially reverted once the
bacteria had been grown in the absence of the antimicrobial agent.
The adaption of Staphylococcus aureus to the presence of triclosan
resulted in the formation of small colony variants (SVCs) with
reduced triclosan susceptibility. Analysis of the physiological
characteristics of the triclosan induced SCVs revealed the loss of
virulence determinants and potentially reduced pathogenic
capability, when compared to the parent strain. The
biocompatibility index values of the test actives were determined
by the parallel assessment of their antibacterial activity and in
vitro cytotoxicity. ApoEdpL-W showed good antibacterial efficacy
whilst remaining relatively less toxic to mammalian cells than
triclosan or chlorhexidine. We studied the interactions of the test
antimicrobials with a preformed phospholipid bilayer using the
quartz crystal microbalance device and dual polarisation
interferometry, to better understand potential mode of action.
Analysis revealed that ApoEdpL-W and PHMB induced the highest level
of bilayer disruption, of all the antimicrobials tested. These data
suggest that apoEdpL-W demonstrates antibacterial activity;
biocompatibility and long-term efficacy on a level that compares
favourably to that of currently used biocides. The
peptide
demonstrates good antimicrobial efficacy when incorporated into a
range of biomaterial polymers and shows the potential to be
developed as an…
Advisors/Committee Members: MCBAIN, ANDREW AJ, Dobson, Curtis, Mcbain, Andrew.
Subjects/Keywords: Biocide; Antimicrobial peptide; Medical device
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APA (6th Edition):
Forbes, S. (2013). Assessment of Apolipoprotein E Derived Peptides as Novel
Antimicrobials for the Coating of Biomedical Devices. (Doctoral Dissertation). University of Manchester. Retrieved from http://www.manchester.ac.uk/escholar/uk-ac-man-scw:185610
Chicago Manual of Style (16th Edition):
Forbes, Sarah. “Assessment of Apolipoprotein E Derived Peptides as Novel
Antimicrobials for the Coating of Biomedical Devices.” 2013. Doctoral Dissertation, University of Manchester. Accessed March 04, 2021.
http://www.manchester.ac.uk/escholar/uk-ac-man-scw:185610.
MLA Handbook (7th Edition):
Forbes, Sarah. “Assessment of Apolipoprotein E Derived Peptides as Novel
Antimicrobials for the Coating of Biomedical Devices.” 2013. Web. 04 Mar 2021.
Vancouver:
Forbes S. Assessment of Apolipoprotein E Derived Peptides as Novel
Antimicrobials for the Coating of Biomedical Devices. [Internet] [Doctoral dissertation]. University of Manchester; 2013. [cited 2021 Mar 04].
Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:185610.
Council of Science Editors:
Forbes S. Assessment of Apolipoprotein E Derived Peptides as Novel
Antimicrobials for the Coating of Biomedical Devices. [Doctoral Dissertation]. University of Manchester; 2013. Available from: http://www.manchester.ac.uk/escholar/uk-ac-man-scw:185610
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