Titre:	Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes
Auteur(s):	Vlasova, Anna Capella Gutiérrez, Salvador Rendón Anaya, Martha Hernández Oñate, Miguel Minoche, André E. Erb, Ionas Câmara, Francisco Prieto Barja, Pablo Corvelo, André Sanseverino, Walter Westergaard, Gastón Dohm, Juliane C. Pappas Júnior, Georgios Joannis Saburido Alvarez, Soledad Kedra, Darek Gonzalez, Irene Cozzuto, Luca Gómez Garrido, Jessica Aguilar Morón, María A. Andreu, Nuria Aguilar, O. Mario Garcia Mas, Jordi Zehnsdorf, Maik Vázquez, Martín P. Delgado Salinas, Alfonso Delaye, Luis Lowy, Ernesto Mentaberry, Alejandro Vianello Brondani, Rosana P. García, José Luís Alioto, Tyler Sánchez, Federico Himmelbauer, Heinz Santalla, Marta Notredame, Cedric Gabaldón, Toni Herrera Estrella, Alfredo Guigó, Roderic
Assunto::	Leguminosas Angiosperma Genomas Feijão
Date de publication:	25-fév-2016
Editeur:	BioMed Central
Référence bibliographique:	VLASOVA, Anna et al. Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes. Genome Biology, v. 17, Article 32, 25 fev. 2016. Disponível em: <https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0883-6>. Acesso em: 28 jun. 2017. doi: https://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0883-6.
Abstract:	Background: Legumes are the third largest family of angiosperms and the second most important crop class. Legume genomes have been shaped by extensive large-scale gene duplications, including an approximately 58 million year old whole genome duplication shared by most crop legumes. Results: We report the genome and the transcription atlas of coding and non-coding genes of a Mesoamerican genotype of common bean (Phaseolus vulgaris L., BAT93). Using a comprehensive phylogenomics analysis, we assessed the past and recent evolution of common bean, and traced the diversification of patterns of gene expression following duplication. We find that successive rounds of gene duplications in legumes have shaped tissue and developmental expression, leading to increased levels of specialization in larger gene families. We also find that many long non-coding RNAs are preferentially expressed in germ-line-related tissues (pods and seeds), suggesting that they play a significant role in fruit development. Our results also suggest that most bean-specific gene family expansions, including resistance gene clusters, predate the split of the Mesoamerican and Andean gene pools. Conclusions: The genome and transcriptome data herein generated for a Mesoamerican genotype represent a counterpart to the genomic resources already available for the Andean gene pool. Altogether, this information will allow the genetic dissection of the characters involved in the domestication and adaptation of the crop, and their further implementation in breeding strategies for this important crop.
Licença::	© 2016 Vlasova et al. Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
DOI:	https://dx.doi.org/10.1186/s13059-016-0883-6
Collection(s) :	Artigos publicados em periódicos e afins

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