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You searched for subject:(Grain Genome mapping). Showing records 1 – 2 of 2 total matches.

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Rutgers University

1. Calviño Torterolo, Martĺn. Comparative genomics of the stem transcriptome from grain and sweet sorghum.

Degree: PhD, Plant Biology, 2014, Rutgers University

The current dissertation relates to comparative genomics of grain and sweet sorghum, in particular, to their stem’s transcriptome at the time of flowering, when soluble sugars accumulate more abundantly in the sweet sorghum cultivar Rio than in the grain sorghum cultivar BTx623. The accumulation of soluble sugars in the stem of sorghum is a valuable agronomic trait because their fermentation into ethanol is currently being used as source of biofuel. High soluble sugar content in stems is a trait also present in the closely related grass sugarcane. Thus, it is reasonable to assume that sweet sorghum and sugarcane may use the same gene products that leads to high soluble sugar content is stems. My dissertation consists of five chapters, the results of which are five publications as first author. In Chapter 1 I summarized the current status of sweet sorghum genomics and highlighted future research directions. My scientific contribution to the field was also mentioned. In Chapters 2 and 3 I described the first characterization of the stem’s transcriptome from grain and sweet sorghum cultivars using sugarcane Affymetrix arrays, and the use of this transcriptome data to develop molecular markers based on the differences in hybridization intensity from grain and sweet sorghum RNAs to the arrays. In Chapter 4, I described the first characterization of the small RNA component of the stem from grain sorghum BTx623 and sweet sorghum Rio cultivars, and from F2 plants derived from their cross that segregated for sugar content and flowering time. I was able to identify the microRNA family miR169, whose expression co-segregated with sugar content in stems. I also discovered nine new microRNAs in the sorghum genome. In Chapter 5 I described the genomic comparison of MIR169 gene clusters among five different grasses and identified five new MIR169 gene copies in the sorghum genome.

Advisors/Committee Members: Messing, Joachim (chair), Maliga, Pal (internal member), Tumer, Nilgun (internal member), Chen, Kevin (outside member).

Subjects/Keywords: Grain – Genome mapping; Sorghum – Genome mapping; Botanical chemistry

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APA (6th Edition):

Calviño Torterolo, M. (2014). Comparative genomics of the stem transcriptome from grain and sweet sorghum. (Doctoral Dissertation). Rutgers University. Retrieved from https://rucore.libraries.rutgers.edu/rutgers-lib/45214/

Chicago Manual of Style (16th Edition):

Calviño Torterolo, Martĺn. “Comparative genomics of the stem transcriptome from grain and sweet sorghum.” 2014. Doctoral Dissertation, Rutgers University. Accessed November 29, 2020. https://rucore.libraries.rutgers.edu/rutgers-lib/45214/.

MLA Handbook (7th Edition):

Calviño Torterolo, Martĺn. “Comparative genomics of the stem transcriptome from grain and sweet sorghum.” 2014. Web. 29 Nov 2020.

Vancouver:

Calviño Torterolo M. Comparative genomics of the stem transcriptome from grain and sweet sorghum. [Internet] [Doctoral dissertation]. Rutgers University; 2014. [cited 2020 Nov 29]. Available from: https://rucore.libraries.rutgers.edu/rutgers-lib/45214/.

Council of Science Editors:

Calviño Torterolo M. Comparative genomics of the stem transcriptome from grain and sweet sorghum. [Doctoral Dissertation]. Rutgers University; 2014. Available from: https://rucore.libraries.rutgers.edu/rutgers-lib/45214/

2. Frachon, Léa. Génomique écologique de l'adaptation d'Arabidopsis thaliana dans un environnement hétérogène : Ecological genomics of adaptation of arabidopsis thaliana in a spatially heterogeneous environment.

Degree: Docteur es, Interactions plantes-organismes, 2017, Université Toulouse III – Paul Sabatier

Dans le contexte des changements globaux, un des enjeux majeurs en génomique écologique est d'estimer le potentiel adaptatif des populations naturelles. Répondre à cet enjeu nécessite 3 étapes: identification des agents sélectifs et de leurs échelles spatiales de variation, identification des bases génétiques de l'adaptation et étude de la dynamique adaptative sur une courte échelle de temps. Durant ma thèse, je me suis intéressé à étudier le potentiel adaptatif de la plante modèle Arabidopsis thaliana. A partir de 168 populations naturelles d'A. thaliana caractérisées pour 24 traits phénotypiques et 60 facteurs abiotiques (climat, sol) et biotiques (communautés végétales et microbiote), j'ai pu mettre en évidence que les communautés végétales étaient les principaux agents sélectifs associés à la fitness. Après avoir séquencé le génome de ces 168 populations (~ 4.8 millions de SNPs), j'ai effectué des analyses de type 'association génome-environnement' couplé à des scans génomiques de différenciation génétique spatiale. Ces analyses ont confirmé l'importance de considérer les interactions plante-plante dans l'étude de l'adaptation chez A. thaliana. Afin d'étudier le potentiel adaptatif d'A. thaliana sur le court terme dans le contexte d'un réchauffement climatique, j'ai combiné une étude de résurrection in situ avec une étude de Genome Wide Association mapping, à partir de 195 accessions locales caractérisées pour 29 traits phénotypiques et pour environ 1.9 million de SNPs. J'ai identifié une architecture originale de l'adaptation vers un nouvel optimum phénotypique combinant (i) de rares QTLs avec des degrés de pléiotropie intermédiaires fortement sélectionnés et (ii) de très nombreux QTLs spécifiques d'un micro-habitat et faiblement sélectionnés. A travers les différents projets abordés pendant ma thèse, j'ai pu suggérer qu'une architecture génétique flexible pouvait permettre à A. thaliana de s'adapter rapidement aux changements globaux, tout en maintenant de la diversité génétique au sein des populations naturelles d'A. thaliana.

In the context of global changes, one of the challenges in ecological genomics is to estimate the adaptive potential of natural populations. Three steps are requested to address this challenge: identification of the selective agents and their associated spatial grains, identification of the genetic bases of adaptation and monitoring the adaptive dynamics of natural population over a short time period. Here, I aimed at studying the adaptive potential of the model plant Arabidopsis thaliana. Based on 168 natural populations of A. thaliana characterized for 24 phenotypic traits and 60 abiotic (climate, soil) and biotic (plant communities and microbiota) factors, plant communities were found to be the main selective agents. Based on 4.8 million SNPs, I combined Genome Environment Association analysis with genome scans for signatures of selection. I confirmed the importance to consider plant-plant interactions when studying adaptation in A. thaliana. To monitor the adaptive dynamics of a…

Advisors/Committee Members: Roux, Fabrice (thesis director).

Subjects/Keywords: Génomique écologique; Adaptation locale; Agents sélectifs; Grain de l'environnement; Populations naturelles; Arabidopsis thaliana; Association Génome-Environnement; GWA mapping; Ecological genomics; Local adaptation; Selective agents; Spatial grain; Natural populations; Arabidopsis thaliana; Genome-Environment Association; GWA mapping

Record DetailsSimilar RecordsGoogle PlusoneFacebookTwitterCiteULikeMendeleyreddit

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

APA (6th Edition):

Frachon, L. (2017). Génomique écologique de l'adaptation d'Arabidopsis thaliana dans un environnement hétérogène : Ecological genomics of adaptation of arabidopsis thaliana in a spatially heterogeneous environment. (Doctoral Dissertation). Université Toulouse III – Paul Sabatier. Retrieved from http://www.theses.fr/2017TOU30098

Chicago Manual of Style (16th Edition):

Frachon, Léa. “Génomique écologique de l'adaptation d'Arabidopsis thaliana dans un environnement hétérogène : Ecological genomics of adaptation of arabidopsis thaliana in a spatially heterogeneous environment.” 2017. Doctoral Dissertation, Université Toulouse III – Paul Sabatier. Accessed November 29, 2020. http://www.theses.fr/2017TOU30098.

MLA Handbook (7th Edition):

Frachon, Léa. “Génomique écologique de l'adaptation d'Arabidopsis thaliana dans un environnement hétérogène : Ecological genomics of adaptation of arabidopsis thaliana in a spatially heterogeneous environment.” 2017. Web. 29 Nov 2020.

Vancouver:

Frachon L. Génomique écologique de l'adaptation d'Arabidopsis thaliana dans un environnement hétérogène : Ecological genomics of adaptation of arabidopsis thaliana in a spatially heterogeneous environment. [Internet] [Doctoral dissertation]. Université Toulouse III – Paul Sabatier; 2017. [cited 2020 Nov 29]. Available from: http://www.theses.fr/2017TOU30098.

Council of Science Editors:

Frachon L. Génomique écologique de l'adaptation d'Arabidopsis thaliana dans un environnement hétérogène : Ecological genomics of adaptation of arabidopsis thaliana in a spatially heterogeneous environment. [Doctoral Dissertation]. Université Toulouse III – Paul Sabatier; 2017. Available from: http://www.theses.fr/2017TOU30098

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