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NSYSU

1. Chung, Chia-ying. Genetic diversity, genetic divergence and phylogeographical patterns in Calocedrus based on microsatellites.

Degree: Master, Biological Sciences, 2015, NSYSU

The genus Calocedrus is Eastern Asian â North American disjunctive distribution. Calocedrus formosana (Florin) Florin is restricted to Taiwan, Calocedrus macrolepis Kurz, and C. rupestris Aver., T.H. Nguyên & K.L. Phan are scattered throughout southwestern of China to northern of Indochina and Hainan Island, and Calocedrus decurrens Florin is native to western North America. According to fossil records, Calocedrus had been widespread in the Northern Hemisphere. In this study, we examined phylogeographical patterns, genetic diversity and genetic divergence in this genus based on 20 microsatellite markers. These 20 polymorphic microsatellite loci were used to evaluate genetic diversity among 627 samples from 27 populations of four taxa in Calocedrus, including 10 populations from C. formosana 265 individuals, 14 populations from C. macrolepis 314 individuals, 2 populations from C. rupestris 33 individuals, and 15 individuals from C. decurrens. Genetic diversity indices for 4 species based on 20 polymorphic loci, including the number of alleles (Na), the number of effective alleles (Ne) and the observed and expected heterozygosity (Ho and He), were estimated. The 4 species genetic diversity indices mean value range are: Na: from 3.65 to 8.05, Ne: from 2.04 to 2.66, Ho: from 0.14 to 0.26, He: from 0.48 to 0.54. In 10 C. formosana populations, genetic diversity indices mean value range are: Na: from 3.65 to 8.05, Na: from 2.35 to 4.4, Ne: from 1.76 to2.17, Ho: from 0.13 to 0.19, He: from 0.36 to 0.49. In 14 C. macrolepis populations, genetic diversity indices mean value range are: Na: from 4.25 to 2.45, Ne: from 1.83 to 2.39, Ho: from 0.18 to 0.35, He: from 0.36 to 0.53. AMOVA showed 78.12% genetic variation accumulated within population and high levels of genetic differentiation (FST =0.22). In C. formosana, C. macrolepis and C. rupestris AMOVA showed 61% and 48.72% genetic variation accumulated in among individuals within populations and with individuals and low levele of genetic differentiation (FSTï¼0.07&0.094). The results of PCoA showed high genetic divergence among species except between C. macrolepis and C. rupestris, also significant genetic divergence among populations in C. formosana and C. macrolepis. In STRUCTURE analysis at Kï¼2 and Kï¼3 significant genetic clustering for four Calocedrus species might caused by Neogene, Paleogene and Quaternary climatic oscillations. In IMa result, the ancestral effective population size (21 million) is greater than C. formosana and C. macrolepis (385 and 7048). This result indicated these two species retreated to refugia caused by Quaternary climatic oscillations. The migration rate from C. formosana to C. macrolepis (M12)was 1.08Ã10-3and migration rate from C. macrolepis to C. formosana (M21) was 2.55Ã10-5. This result indicated species migration path from island to mainland at Eastern Asian. In STRUCTURE result no significant geographical barrier caused by gene flow in C. formosana populations. In C. macrolepis populations, the population geographical differentiation and… Advisors/Committee Members: Kuo-Hsiang Hung (chair), Ho-Yih Liu (chair), Yu-Chung Chiang (committee member).

Subjects/Keywords: genetic diversity; genetic differentiation; microsatellite; phylogeographical; Calocedrus

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6th Edition):

Chung, C. (2015). Genetic diversity, genetic divergence and phylogeographical patterns in Calocedrus based on microsatellites. (Thesis). NSYSU. Retrieved from http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0724115-101740

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):

Chung, Chia-ying. “Genetic diversity, genetic divergence and phylogeographical patterns in Calocedrus based on microsatellites.” 2015. Thesis, NSYSU. Accessed July 10, 2020. http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0724115-101740.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

MLA Handbook (7th Edition):

Chung, Chia-ying. “Genetic diversity, genetic divergence and phylogeographical patterns in Calocedrus based on microsatellites.” 2015. Web. 10 Jul 2020.

Vancouver:

Chung C. Genetic diversity, genetic divergence and phylogeographical patterns in Calocedrus based on microsatellites. [Internet] [Thesis]. NSYSU; 2015. [cited 2020 Jul 10]. Available from: http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0724115-101740.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Council of Science Editors:

Chung C. Genetic diversity, genetic divergence and phylogeographical patterns in Calocedrus based on microsatellites. [Thesis]. NSYSU; 2015. Available from: http://etd.lib.nsysu.edu.tw/ETD-db/ETD-search/view_etd?URN=etd-0724115-101740

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

2. Gustavo Castro de Oliveira. Variações no gene yolk em moscas das frutas do grupo fraterculus.

Degree: 2009, Universidade Federal de São Carlos

Species of the fraterculus group are associated to the biggest damages to fruit crops due to the fact that they attack indiscriminately green and ripe fruits, making them pests of great economic importance. These species are hard to tell apart, even showing some potential criptic species. The understanding of the populational structure and biology of this species group is of paramount importance to strategies of management and control of these pests. Here, we investigate variation on the gene yolk em 37 individuals sampled throughout the species distribution in Brazil seeking to better understand the populational structure of this species group in Brazil. Our data indicated existence of recombination, which lead us to analyze three different regions in the gene, 5, mid, and 3. These regions show high levels of nucleotide diversity intra and interspecifically for all three gene regions investigated. The use of Nested Clade Phylogenetic Analysis independently used on these regions indicate two main results that occurred more than one throughout our analyses. The first is a range expansion from north-NE populations towards the south, mostly related to specimens of Anastrepha fraterculus. The second common event, detected eight times, is restricted gene flow with isolation by distance (IBD). Dating of such events indicated that they are temporarily congruent which might indicate that the lack of IBD in other levels of the analysis might be caused either by sampling limitations or an excess of local gene flow that tampers out as we move farther in space. Our results of the gene yolk have provided us with a better understanding of the levels of local variation of this marker of for the species that may help us determine the evolutionary processes that shaped the species group current distribution.

Espécies do grupo fraterculus estão relacionadas com os maiores danos a culturas de frutas carnosas por atacar frutos verdes e maduros indistintamente, o que as torna pragas de grande importância econômica. Contudo, estas espécies são de difícil distinção, com a existência potencial de diversas espécies crípticas. Dessa forma, o entendimento da biologia e, particularmente, da estrutura populacional desses insetos-praga tem grande importância para o desenvolvimento de novas estratégias de manejo. Neste trabalho, investigamos a variação no gene yolk em 37 indivíduos ao longo da distribuição do grupo no Brasil para conhecermos melhor o padrão estrutural das espécies do grupo fraterculus. Os dados indicam a existência de recombinação, de forma que analisamos a região amplificada separadamente por regiões distintas: 5, mid e 3. Análises de polimorfismos nestas regiões apontaram para altos valores de diversidade nucleotídicas intra e interespecíficas para as três regiões gênicas em questão, sendo estes valores maiores para a região 3. A metodologia da Análise dos Clados Aninhados (NCPA) foi utilizada para inferências de possíveis relações entre a configuração das redes haplotípicas com o padrão de distribuição geográfica…

Advisors/Committee Members: Reinaldo Otávio Alvarenga Alves de Brito.

Subjects/Keywords: Genética de populações; Mosca-das-frutas; Grupo fraterculus; Yolk; Filogeografia; GENETICA; Anastrepha; Yolk; Nested clade phylogeographical analysis; Group fraterculus

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6th Edition):

Oliveira, G. C. d. (2009). Variações no gene yolk em moscas das frutas do grupo fraterculus. (Thesis). Universidade Federal de São Carlos. Retrieved from http://www.bdtd.ufscar.br/htdocs/tedeSimplificado//tde_busca/arquivo.php?codArquivo=2874

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):

Oliveira, Gustavo Castro de. “Variações no gene yolk em moscas das frutas do grupo fraterculus.” 2009. Thesis, Universidade Federal de São Carlos. Accessed July 10, 2020. http://www.bdtd.ufscar.br/htdocs/tedeSimplificado//tde_busca/arquivo.php?codArquivo=2874.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

MLA Handbook (7th Edition):

Oliveira, Gustavo Castro de. “Variações no gene yolk em moscas das frutas do grupo fraterculus.” 2009. Web. 10 Jul 2020.

Vancouver:

Oliveira GCd. Variações no gene yolk em moscas das frutas do grupo fraterculus. [Internet] [Thesis]. Universidade Federal de São Carlos; 2009. [cited 2020 Jul 10]. Available from: http://www.bdtd.ufscar.br/htdocs/tedeSimplificado//tde_busca/arquivo.php?codArquivo=2874.

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation

Council of Science Editors:

Oliveira GCd. Variações no gene yolk em moscas das frutas do grupo fraterculus. [Thesis]. Universidade Federal de São Carlos; 2009. Available from: http://www.bdtd.ufscar.br/htdocs/tedeSimplificado//tde_busca/arquivo.php?codArquivo=2874

Note: this citation may be lacking information needed for this citation format:
Not specified: Masters Thesis or Doctoral Dissertation


Brigham Young University

3. Stutz, Heather Lynn. Inferring Dispersal of Aquatic Invertebrates from Genetic Variation: A Comparative Study of an Amphipod (Talitridae Hyalella azteca) and Mayfly (Baetidae Callibaetis americanus) in Great Basin Springs.

Degree: MS, 2009, Brigham Young University

Whether active or passive, dispersal accompanied by gene flow shapes the population genetics and evolutionary divergence of species. Indirect methods which use genetic markers have the ability to assess effective dispersal—that which resulted in gene flow. My objective was to see if an aquatic insect and an obligate aquatic invertebrate show similar phylogeographic patterns and genetic uniqueness. Hyalella azteca and Callibaetis americanus were collected from 4-5 springs in each of six basins in the Great Basin of western North America. No dispersal or genetic studies of C. americanus have been conducted to date. However, several studies focusing on mtDNA diversity of H. azteca have revealed a tremendous degree of cryptic diversity in the desert springs of the Great Basin. Nested clade phylogeographical analysis (NCPA), FST values, AMOVA, and Mantel tests were used to examine geographical associations. I also used traditional phylogenetic approaches including maximum parsimony (MP) and likelihood (ML) analyses using cytochrome c oxidase subunit I (COI), 28S, and 16S as genetic markers. The mitochondrial COI sequence divergences in C. americanus were higher than H. azteca COI divergences within springs but lower among springs. FST values were very high in H. azteca reaching near fixation for certain alleles. C. americanus FST values were lower suggesting greater gene flow and, consequently, greater dispersal rates. Even though Mantel tests did not detect significant isolation by distance when evaluating all haplotypes together, nested clade analysis was able to examine smaller networks of related haplotypes and detect significant isolation by distance. Whereas the genetic structure in C. americanus was dominated by restricted gene flow with isolation by distance, H. azteca was characterized more by gradual range expansion followed by fragmentation. Mayflies likely showed more gene flow than amphipods because of their flight capabilities, but movement was still restricted by long distances between isolated springs.

Subjects/Keywords: aquatic invertebrates; dispersal; Hyalella azteca; Callibaetis americanus; Great Basin; nested clade phylogeographical analysis; Biology

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APA · Chicago · MLA · Vancouver · CSE | Export to Zotero / EndNote / Reference Manager

APA (6th Edition):

Stutz, H. L. (2009). Inferring Dispersal of Aquatic Invertebrates from Genetic Variation: A Comparative Study of an Amphipod (Talitridae Hyalella azteca) and Mayfly (Baetidae Callibaetis americanus) in Great Basin Springs. (Masters Thesis). Brigham Young University. Retrieved from https://scholarsarchive.byu.edu/cgi/viewcontent.cgi?article=3017&context=etd

Chicago Manual of Style (16th Edition):

Stutz, Heather Lynn. “Inferring Dispersal of Aquatic Invertebrates from Genetic Variation: A Comparative Study of an Amphipod (Talitridae Hyalella azteca) and Mayfly (Baetidae Callibaetis americanus) in Great Basin Springs.” 2009. Masters Thesis, Brigham Young University. Accessed July 10, 2020. https://scholarsarchive.byu.edu/cgi/viewcontent.cgi?article=3017&context=etd.

MLA Handbook (7th Edition):

Stutz, Heather Lynn. “Inferring Dispersal of Aquatic Invertebrates from Genetic Variation: A Comparative Study of an Amphipod (Talitridae Hyalella azteca) and Mayfly (Baetidae Callibaetis americanus) in Great Basin Springs.” 2009. Web. 10 Jul 2020.

Vancouver:

Stutz HL. Inferring Dispersal of Aquatic Invertebrates from Genetic Variation: A Comparative Study of an Amphipod (Talitridae Hyalella azteca) and Mayfly (Baetidae Callibaetis americanus) in Great Basin Springs. [Internet] [Masters thesis]. Brigham Young University; 2009. [cited 2020 Jul 10]. Available from: https://scholarsarchive.byu.edu/cgi/viewcontent.cgi?article=3017&context=etd.

Council of Science Editors:

Stutz HL. Inferring Dispersal of Aquatic Invertebrates from Genetic Variation: A Comparative Study of an Amphipod (Talitridae Hyalella azteca) and Mayfly (Baetidae Callibaetis americanus) in Great Basin Springs. [Masters Thesis]. Brigham Young University; 2009. Available from: https://scholarsarchive.byu.edu/cgi/viewcontent.cgi?article=3017&context=etd

.