Traces of Introgression from cAus into Tropical Japonica Observed in African Upland Rice Varieties.

Autor: Beye A; CIRAD, UMR AGAP Institut, 34398, Montpellier, France.; UMR AGAP Institut, CIRAD, INRAE, Institut Agro, Université de Montpellier, 34398, Montpellier, France.; Laboratoire Campus de Biotechnologies Végétales, Département de Biologie Végétale, Faculté Des Sciences Et Techniques, Université Cheikh Anta Diop, 10700, Dakar-Fann, Dakar, Senegal., Billot C; CIRAD, UMR AGAP Institut, 34398, Montpellier, France.; UMR AGAP Institut, CIRAD, INRAE, Institut Agro, Université de Montpellier, 34398, Montpellier, France., Ronfort J; UMR AGAP Institut, CIRAD, INRAE, Institut Agro, Université de Montpellier, 34398, Montpellier, France., McNally KL; International Rice Research Institute, DAPO Box 7777, Metro Manila, 1301, The Philippines., Diouf D; Laboratoire Campus de Biotechnologies Végétales, Département de Biologie Végétale, Faculté Des Sciences Et Techniques, Université Cheikh Anta Diop, 10700, Dakar-Fann, Dakar, Senegal., Glaszmann JC; CIRAD, UMR AGAP Institut, 34398, Montpellier, France. glaszmann@cirad.fr.; UMR AGAP Institut, CIRAD, INRAE, Institut Agro, Université de Montpellier, 34398, Montpellier, France. glaszmann@cirad.fr.
Jazyk: angličtina
Zdroj: Rice (New York, N.Y.) [Rice (N Y)] 2023 Feb 28; Vol. 16 (1), pp. 12. Date of Electronic Publication: 2023 Feb 28.
DOI: 10.1186/s12284-023-00625-4
Abstrakt: Background: Asian rice Oryza sativa, first domesticated in East Asia, has considerable success in African fields. When and where this introduction occurred is unclear. Rice varieties of Asian origin may have evolved locally during and after migration to Africa, resulting in unique adaptations, particularly in relation to upland cultivation as frequently practiced in Africa.
Methods: We investigated the genetic differentiation between Asian and African varieties using the 3000 Rice Genomes SNP dataset. African upland cultivars were first characterized using principal component analysis among 292 tropical Japonica accessions from Africa and Asia. The particularities of African accessions were then explored using two inference techniques, PCA-KDE for supervised classification and chromosome painting, and ELAI for individual allelic dosage monitoring.
Key Results: Ambiguities of local differentiation between Japonica and other groups pointed at genomic segments that potentially resulted from genetic exchange. Those specific to West African upland accessions were concentrated on chromosome 6 and featured several cAus introgression signals, including a large one between 17.9 and 21.7 Mb. We found iHS statistics in support of positive selection in this region and we provide a list of candidate genes enriched in GO terms that have regulatory functions involved in stress responses that could have facilitated adaptation to harsh upland growing conditions.
(© 2023. The Author(s).)
Databáze: MEDLINE
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