Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat
Abstract Background Tartary buckwheat, Fagopyrum tataricum, is a pseudocereal crop with worldwide distribution and high nutritional value. However, the origin and domestication history of this crop remain to be elucidated. Results Here, by analyzing the population genomics of 567 accessions collecte...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2024-02-01
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| Series: | Genome Biology |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s13059-024-03203-z |
| _version_ | 1797274482440667136 |
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| author | Yuqi He Kaixuan Zhang Yaliang Shi Hao Lin Xu Huang Xiang Lu Zhirong Wang Wei Li Xibo Feng Taoxiong Shi Qingfu Chen Junzhen Wang Yu Tang Mark A. Chapman Mateja Germ Zlata Luthar Ivan Kreft Dagmar Janovská Vladimir Meglič Sun-Hee Woo Muriel Quinet Alisdair R. Fernie Xu Liu Meiliang Zhou |
| author_facet | Yuqi He Kaixuan Zhang Yaliang Shi Hao Lin Xu Huang Xiang Lu Zhirong Wang Wei Li Xibo Feng Taoxiong Shi Qingfu Chen Junzhen Wang Yu Tang Mark A. Chapman Mateja Germ Zlata Luthar Ivan Kreft Dagmar Janovská Vladimir Meglič Sun-Hee Woo Muriel Quinet Alisdair R. Fernie Xu Liu Meiliang Zhou |
| author_sort | Yuqi He |
| collection | DOAJ |
| description | Abstract Background Tartary buckwheat, Fagopyrum tataricum, is a pseudocereal crop with worldwide distribution and high nutritional value. However, the origin and domestication history of this crop remain to be elucidated. Results Here, by analyzing the population genomics of 567 accessions collected worldwide and reviewing historical documents, we find that Tartary buckwheat originated in the Himalayan region and then spread southwest possibly along with the migration of the Yi people, a minority in Southwestern China that has a long history of planting Tartary buckwheat. Along with the expansion of the Mongol Empire, Tartary buckwheat dispersed to Europe and ultimately to the rest of the world. The different natural growth environments resulted in adaptation, especially significant differences in salt tolerance between northern and southern Chinese Tartary buckwheat populations. By scanning for selective sweeps and using a genome-wide association study, we identify genes responsible for Tartary buckwheat domestication and differentiation, which we then experimentally validate. Comparative genomics and QTL analysis further shed light on the genetic foundation of the easily dehulled trait in a particular variety that was artificially selected by the Wa people, a minority group in Southwestern China known for cultivating Tartary buckwheat specifically for steaming as a staple food to prevent lysine deficiency. Conclusions This study provides both comprehensive insights into the origin and domestication of, and a foundation for molecular breeding for, Tartary buckwheat. |
| first_indexed | 2024-03-07T14:59:00Z |
| format | Article |
| id | doaj.art-f40a18c2d596494fb1ea66ce8668abd9 |
| institution | Directory Open Access Journal |
| issn | 1474-760X |
| language | English |
| last_indexed | 2024-03-07T14:59:00Z |
| publishDate | 2024-02-01 |
| publisher | BMC |
| record_format | Article |
| series | Genome Biology |
| spelling | doaj.art-f40a18c2d596494fb1ea66ce8668abd92024-03-05T19:17:15ZengBMCGenome Biology1474-760X2024-02-0125112410.1186/s13059-024-03203-zGenomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheatYuqi He0Kaixuan Zhang1Yaliang Shi2Hao Lin3Xu Huang4Xiang Lu5Zhirong Wang6Wei Li7Xibo Feng8Taoxiong Shi9Qingfu Chen10Junzhen Wang11Yu Tang12Mark A. Chapman13Mateja Germ14Zlata Luthar15Ivan Kreft16Dagmar Janovská17Vladimir Meglič18Sun-Hee Woo19Muriel Quinet20Alisdair R. Fernie21Xu Liu22Meiliang Zhou23State Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesTibet Key Experiments of Crop Cultivation and Farming/College of Plant Science, Tibet Agriculture and Animal Husbandry UniversityResearch Center of Buckwheat Industry Technology, Guizhou Normal UniversityResearch Center of Buckwheat Industry Technology, Guizhou Normal UniversityXichang Institute of Agricultural Science, Liangshan Yi People Autonomous PrefectureState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesBiological Sciences, University of SouthamptonBiotechnical Faculty, University of LjubljanaBiotechnical Faculty, University of LjubljanaNutrition InstituteGene Bank, Crop Research InstituteAgricultural Institute of SloveniaDepartment of Crop Science, Chungbuk National UniversityGroupe de Recherche en Physiologie Végétale (GRPV), Earth and Life Institute-Agronomy (ELI-A), Université catholique de LouvainDepartment of Molecular Physiology, Max-Planck-Institute of Molecular Plant PhysiologyState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesState Key Laboratory of Crop Gene Resources and Breeding, Institute of Crop Sciences, Chinese Academy of Agricultural SciencesAbstract Background Tartary buckwheat, Fagopyrum tataricum, is a pseudocereal crop with worldwide distribution and high nutritional value. However, the origin and domestication history of this crop remain to be elucidated. Results Here, by analyzing the population genomics of 567 accessions collected worldwide and reviewing historical documents, we find that Tartary buckwheat originated in the Himalayan region and then spread southwest possibly along with the migration of the Yi people, a minority in Southwestern China that has a long history of planting Tartary buckwheat. Along with the expansion of the Mongol Empire, Tartary buckwheat dispersed to Europe and ultimately to the rest of the world. The different natural growth environments resulted in adaptation, especially significant differences in salt tolerance between northern and southern Chinese Tartary buckwheat populations. By scanning for selective sweeps and using a genome-wide association study, we identify genes responsible for Tartary buckwheat domestication and differentiation, which we then experimentally validate. Comparative genomics and QTL analysis further shed light on the genetic foundation of the easily dehulled trait in a particular variety that was artificially selected by the Wa people, a minority group in Southwestern China known for cultivating Tartary buckwheat specifically for steaming as a staple food to prevent lysine deficiency. Conclusions This study provides both comprehensive insights into the origin and domestication of, and a foundation for molecular breeding for, Tartary buckwheat.https://doi.org/10.1186/s13059-024-03203-zDomesticationMigrationArtificial selectionBuckwheatGenomics |
| spellingShingle | Yuqi He Kaixuan Zhang Yaliang Shi Hao Lin Xu Huang Xiang Lu Zhirong Wang Wei Li Xibo Feng Taoxiong Shi Qingfu Chen Junzhen Wang Yu Tang Mark A. Chapman Mateja Germ Zlata Luthar Ivan Kreft Dagmar Janovská Vladimir Meglič Sun-Hee Woo Muriel Quinet Alisdair R. Fernie Xu Liu Meiliang Zhou Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat Genome Biology Domestication Migration Artificial selection Buckwheat Genomics |
| title | Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat |
| title_full | Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat |
| title_fullStr | Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat |
| title_full_unstemmed | Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat |
| title_short | Genomic insight into the origin, domestication, dispersal, diversification and human selection of Tartary buckwheat |
| title_sort | genomic insight into the origin domestication dispersal diversification and human selection of tartary buckwheat |
| topic | Domestication Migration Artificial selection Buckwheat Genomics |
| url | https://doi.org/10.1186/s13059-024-03203-z |
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