Orphan genes are involved in drought adaptations and ecoclimatic-oriented selections in domesticated cowpea

Bibliographische Detailangaben
Veröffentlicht in:	Journal of experimental botany. - 1985. - 70(2019), 12 vom: 28. Juni, Seite 3101-3110
1. Verfasser:	Li, Guojing (VerfasserIn)
Weitere Verfasser:	Wu, Xinyi, Hu, Yaowen, Muñoz-Amatriaín, Maria, Luo, Jie, Zhou, Wen, Wang, Baogen, Wang, Ying, Wu, Xiaohua, Huang, Lijuan, Lu, Zhongfu, Xu, Pei
Format:	Online-Aufsatz
Sprache:	English
Veröffentlicht:	2019
Zugriff auf das übergeordnete Werk:	Journal of experimental botany
Schlagworte:	Journal Article Research Support, Non-U.S. Gov't Capture-sequencing Tajima’s D cowpea drought adaptation hairy-root transformation lineage-specific gene orphan gene Plant Proteins

Beschreibung
Zusammenfassung:	© The Author(s) 2019. Published by Oxford University Press on behalf of the Society for Experimental Biology. All rights reserved. For permissions, please email: journals.permissionsoup.com. Orphan genes (OGs) are genes that are restricted to a single species or a particular taxonomic group. To date, little is known about the functions of OGs in domesticated crops. Here, we report our findings on the relationships between OGs and environmental adaptation in cowpea (Vigna unguiculata). We identified 578 expressed OGs, of which 73.2% were predicted to be non-coding. Transcriptomic analyses revealed a high rate of OGs that were drought inducible in roots when compared with conserved genes. Co-expression analysis further revealed the possible involvement of OGs in stress response pathways. Overexpression of UP12_8740, a drought-inducible OG, conferred enhanced tolerance to osmotic stresses and soil drought. By combining Capture-Seq and fluorescence-based Kompetitive allele-specific PCR (KASP), we efficiently genotyped single nucleotide polymorphisms (SNPs) on OGs across a 223 accession cowpea germplasm collection. Population genomic parameters, including polymorphism information content (PIC), expected heterozygosity (He), nucleotide diversity (π), and Tajima's D statistics, that were calculated based on these SNPs, showed distinct signatures between the grain- and vegetable-type subpopulations of cowpea. This study reinforces the idea that OGs are a valuable resource for identifying new genes related to species-specific environmental adaptations and fosters new insights that artificial selection on OGs might have contributed to balancing the adaptive and agronomic traits in domesticated crops in various ecoclimatic conditions
Beschreibung:	Date Completed 13.07.2020 Date Revised 13.07.2020 published: Print Citation Status MEDLINE
ISSN:	1460-2431
DOI:	10.1093/jxb/erz145