000120993 001__ 120993
000120993 005__ 20240319081019.0
000120993 0247_ $$2doi$$a10.1111/mec.16661
000120993 0248_ $$2sideral$$a131447
000120993 037__ $$aART-2022-131447
000120993 041__ $$aeng
000120993 100__ $$0(orcid)0000-0002-4845-4242$$aSancho, Rubén$$uUniversidad de Zaragoza
000120993 245__ $$aPatterns of pan-genome occupancy and gene coexpression under water-deficit in Brachypodium distachyon
000120993 260__ $$c2022
000120993 5060_ $$aAccess copy available to the general public$$fUnrestricted
000120993 5203_ $$aNatural 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
000120993 536__ $$9info:eu-repo/grantAgreement/ES/MICINN/CGL2016-79790-P$$9info:eu-repo/grantAgreement/ES/MICINN/PID2019-108195GB-I00
000120993 540__ $$9info:eu-repo/semantics/openAccess$$aby-nc-nd$$uhttp://creativecommons.org/licenses/by-nc-nd/3.0/es/
000120993 590__ $$a4.9$$b2022
000120993 592__ $$a1.937$$b2022
000120993 591__ $$aECOLOGY$$b32 / 171 = 0.187$$c2022$$dQ1$$eT1
000120993 593__ $$aGenetics$$c2022$$dQ1
000120993 591__ $$aEVOLUTIONARY BIOLOGY$$b8 / 52 = 0.154$$c2022$$dQ1$$eT1
000120993 593__ $$aEcology, Evolution, Behavior and Systematics$$c2022$$dQ1
000120993 591__ $$aBIOCHEMISTRY & MOLECULAR BIOLOGY$$b87 / 285 = 0.305$$c2022$$dQ2$$eT1
000120993 594__ $$a9.4$$b2022
000120993 655_4 $$ainfo:eu-repo/semantics/article$$vinfo:eu-repo/semantics/publishedVersion
000120993 700__ $$0(orcid)0000-0001-7793-5259$$aCatalán, Pilar$$uUniversidad de Zaragoza
000120993 700__ $$0(orcid)0000-0002-5462-907X$$aContreras-Moreira, Bruno$$uUniversidad de Zaragoza
000120993 700__ $$aJuenger, Thomas E.
000120993 700__ $$aDes Marais, David L.
000120993 7102_ $$15011$$2063$$aUniversidad de Zaragoza$$bDpto. CC.Agrar.y Medio Natural$$cÁrea Botánica
000120993 773__ $$g31, 20 (2022), 5285-5306$$pMol. ecol.$$tMOLECULAR ECOLOGY$$x0962-1083
000120993 8564_ $$s2201719$$uhttps://zaguan.unizar.es/record/120993/files/texto_completo.pdf$$yVersión publicada
000120993 8564_ $$s2323633$$uhttps://zaguan.unizar.es/record/120993/files/texto_completo.jpg?subformat=icon$$xicon$$yVersión publicada
000120993 909CO $$ooai:zaguan.unizar.es:120993$$particulos$$pdriver
000120993 951__ $$a2024-03-18-16:02:36
000120993 980__ $$aARTICLE