Por favor, use este identificador para citar o enlazar a este item:
http://hdl.handle.net/10261/295662
COMPARTIR / EXPORTAR:
SHARE CORE BASE | |
Visualizar otros formatos: MARC | Dublin Core | RDF | ORE | MODS | METS | DIDL | DATACITE | |
Título: | Patterns of pan-genome occupancy and gene coexpression under water-deficit in Brachypodium distachyon |
Autor: | Sancho Cohen, Rubén CSIC ORCID; Catalán, Pilar; Contreras-Moreira, Bruno CSIC ORCID ; Juenger, Thomas E.; Des Marais, David L. | Palabras clave: | Genomics/proteomics Molecular evolution Phenotypic plasticity Transcriptomics |
Fecha de publicación: | oct-2022 | Editor: | Wiley-VCH | Citación: | Molecular Ecology 31 (20): 5285-5306 (2022) | Resumen: | Natural populations are characterized by abundant genetic diversity driven by a range of different types of mutation. The tractability of sequencing complete genomes has allowed new insights into the variable composition of genomes, summarized as a species pan-genome. These analyses demonstrate that many genes are absent from the first reference genomes, whose analysis dominated the initial years of the genomic era. Our field now turns towards understanding the functional consequence of these highly variable genomes. Here, we analysed weighted gene coexpression networks from leaf transcriptome data for drought response in the purple false brome Brachypodium distachyon and the differential expression of genes putatively involved in adaptation to this stressor. We specifically asked whether genes with variable “occupancy” in the pan-genome – genes which are either present in all studied genotypes or missing in some genotypes – show different distributions among coexpression modules. Coexpression analysis united genes expressed in drought-stressed plants into nine modules covering 72 hub genes (87 hub isoforms), and genes expressed under controlled water conditions into 13 modules, covering 190 hub genes (251 hub isoforms). We find that low occupancy pan-genes are under-represented among several modules, while other modules are over-enriched for low-occupancy pan-genes. We also provide new insight into the regulation of drought response in B. distachyon, specifically identifying one module with an apparent role in primary metabolism that is strongly responsive to drought. Our work shows the power of integrating pan-genomic analysis with transcriptomic data using factorial experiments to understand the functional genomics of environmental response. | Descripción: | 22 Pags.- 3 Figs.- 4 Tabls. © 2022 The Authors. Molecular Ecology published by John Wiley & Sons Ltd. This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License. , | Versión del editor: | https://doi.org/10.1111/mec.16661 | URI: | http://hdl.handle.net/10261/295662 | DOI: | 10.1111/mec.16661 | ISSN: | 0962-1083 | E-ISSN: | 1365-294X |
Aparece en las colecciones: | (EEAD) Artículos (IBF) Artículos |
Ficheros en este ítem:
Fichero | Descripción | Tamaño | Formato | |
---|---|---|---|---|
Contreras-MoreiraB_MolecularEcol_2022.pdf | 2,15 MB | Adobe PDF | Visualizar/Abrir |
CORE Recommender
SCOPUSTM
Citations
2
checked on 08-may-2024
WEB OF SCIENCETM
Citations
2
checked on 16-feb-2024
Page view(s)
38
checked on 15-may-2024
Download(s)
53
checked on 15-may-2024
Google ScholarTM
Check
Altmetric
Altmetric
Este item está licenciado bajo una Licencia Creative Commons