TY - JOUR
T1 - Diversity analysis of 80,000 wheat accessions reveals consequences and opportunities of selection footprints
AU - Sansaloni, Carolina
AU - Franco, Jorge
AU - Santos, Bruno
AU - Percival-Alwyn, Lawrence
AU - Singh, Sukhwinder
AU - Petroli, Cesar
AU - Campos, Jaime
AU - Dreher, Kate
AU - Payne, Thomas
AU - Marshall, David
AU - Kilian, Benjamin
AU - Milne, Iain
AU - Raubach, Sebastian
AU - Shaw, Paul
AU - Stephen, Gordon
AU - Carling, Jason
AU - Saint Pierre, Carolina
AU - Burgueno, Juan
AU - Crosa, Jose
AU - Li, HuiHui
AU - Guzman, Carlos
AU - Kehel, Zakaria
AU - Amri, Ahmed
AU - Kilian, Andrzej
AU - Wenzl, Peter
AU - Uauy, Cristobal
AU - Banziger, Marianne
AU - Caccamo, Mario
AU - Pixley, Kevin
N1 - Funding Information:
This work was implemented by CIMMYT as part of the Seeds of Discovery, Sustainable Modernization of Traditional Agriculture (Mas-Agro), and CGIAR Research Program WHEAT, in collaboration with ICARDA, INIFAP, NIAB, EI, and DArT, and made possible by the generous support of the Secretariat of Agriculture and Rural Development (SADER), Mexico, and the Newton Fund—Biotechnology and Biological Research Council (BBSRC), United Kingdom. We thank Sarah Hearn, Mohamed Fawzy Nawar, Prashant Vikram, Masahiro Kishii, Julio Huerta, and Maria Itria Abba for their valuable suggestions and support. Our sincere gratitude and recognition go to colleagues who performed crucial work in DArT, SAGA, and CIMMYT laboratories and glasshouses. Any opinions, findings, conclusion, or recommendations expressed in this publication are those of the author(s) and do not necessarily reflect the views of SADER, BBSRC, CRP WHEAT, or our respective institutions.
Publisher Copyright:
© 2020, The Author(s).
PY - 2020/9/11
Y1 - 2020/9/11
N2 - Undomesticated wild species, crop wild relatives, and landraces represent sources of variation for wheat improvement to address challenges from climate change and the growing human population. Here, we study 56,342 domesticated hexaploid, 18,946 domesticated tetraploid and 3,903 crop wild relatives in a massive-scale genotyping and diversity analysis. Using DArTseq
TM technology, we identify more than 300,000 high-quality SNPs and SilicoDArT markers and align them to three reference maps: the IWGSC RefSeq v1.0 genome assembly, the durum wheat genome assembly (cv. Svevo), and the DArT genetic map. On average, 72% of the markers are uniquely placed on these maps and 50% are linked to genes. The analysis reveals landraces with unexplored diversity and genetic footprints defined by regions under selection. This provides fertile ground to develop wheat varieties of the future by exploring specific gene or chromosome regions and identifying germplasm conserving allelic diversity missing in current breeding programs.
AB - Undomesticated wild species, crop wild relatives, and landraces represent sources of variation for wheat improvement to address challenges from climate change and the growing human population. Here, we study 56,342 domesticated hexaploid, 18,946 domesticated tetraploid and 3,903 crop wild relatives in a massive-scale genotyping and diversity analysis. Using DArTseq
TM technology, we identify more than 300,000 high-quality SNPs and SilicoDArT markers and align them to three reference maps: the IWGSC RefSeq v1.0 genome assembly, the durum wheat genome assembly (cv. Svevo), and the DArT genetic map. On average, 72% of the markers are uniquely placed on these maps and 50% are linked to genes. The analysis reveals landraces with unexplored diversity and genetic footprints defined by regions under selection. This provides fertile ground to develop wheat varieties of the future by exploring specific gene or chromosome regions and identifying germplasm conserving allelic diversity missing in current breeding programs.
UR - http://www.scopus.com/inward/record.url?scp=85090762773&partnerID=8YFLogxK
U2 - 10.1038/s41467-020-18404-w
DO - 10.1038/s41467-020-18404-w
M3 - Article
SN - 2041-1723
VL - 11
SP - 1
EP - 12
JO - Nature Communications
JF - Nature Communications
IS - 1
M1 - 4572
ER -
