Salojaervi J., Rambani A., Yu Z., Guyot Romain, Strickler S., Lepelley M., Wang C., Rajaraman S., Rastas P., Zheng C. F., Munoz D. S., Meidanis J., Paschoal A. R., Bawin Y., Krabbenhoft T. J., Wang Z. Q., Fleck S. J., Aussel R., Bellanger L., Charpagne A., Fournier C., Kassam M., Lefebvre G., Metairon S., Moine D., Rigoreau M., Stolte J., Hamon Perla, Couturon Emmanuel, Dubreuil Tranchant Christine, Mukherjee M., Lan T. Y., Engelhardt J., Stadler P., De Lemos S. M. C., Suzuki S. I., Sumirat U., Wai C. M., Dauchot N., Orozco-Arias S., Garavito A., Kiwuka C., Musoli P., Nalukenge A., Guichoux E., Reinout H., Smit M., Carretero-Paulet L., Guerreiro O., Braghini M. T., Padilha L., Sera G. H., Ruttink T., Henry R., Marraccini P., van de Peer Y., Andrade A., Domingues D., Giuliano G., Mueller L., Pereira L. F., Plaisance S., Poncet Valérie, Rombauts S., Sankoff D., Albert V. A., Crouzillat D., Kochko Alexandre de, Descombes P. (2024). The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars. Nature Genetics, 56 (4), p. 721-731. ISSN 1061-4036.
Titre du document
The genome and population genomics of allopolyploid Coffea arabica reveal the diversification history of modern coffee cultivars
Année de publication
2024
Auteurs
Salojaervi J., Rambani A., Yu Z., Guyot Romain, Strickler S., Lepelley M., Wang C., Rajaraman S., Rastas P., Zheng C. F., Munoz D. S., Meidanis J., Paschoal A. R., Bawin Y., Krabbenhoft T. J., Wang Z. Q., Fleck S. J., Aussel R., Bellanger L., Charpagne A., Fournier C., Kassam M., Lefebvre G., Metairon S., Moine D., Rigoreau M., Stolte J., Hamon Perla, Couturon Emmanuel, Dubreuil Tranchant Christine, Mukherjee M., Lan T. Y., Engelhardt J., Stadler P., De Lemos S. M. C., Suzuki S. I., Sumirat U., Wai C. M., Dauchot N., Orozco-Arias S., Garavito A., Kiwuka C., Musoli P., Nalukenge A., Guichoux E., Reinout H., Smit M., Carretero-Paulet L., Guerreiro O., Braghini M. T., Padilha L., Sera G. H., Ruttink T., Henry R., Marraccini P., van de Peer Y., Andrade A., Domingues D., Giuliano G., Mueller L., Pereira L. F., Plaisance S., Poncet Valérie, Rombauts S., Sankoff D., Albert V. A., Crouzillat D., Kochko Alexandre de, Descombes P.
Source
Nature Genetics, 2024,
56 (4), p. 721-731 ISSN 1061-4036
Coffea arabica, an allotetraploid hybrid of Coffea eugenioides and Coffea canephora, is the source of approximately 60% of coffee products worldwide, and its cultivated accessions have undergone several population bottlenecks. We present chromosome-level assemblies of a di-haploid C. arabica accession and modern representatives of its diploid progenitors, C. eugenioides and C. canephora. The three species exhibit largely conserved genome structures between diploid parents and descendant subgenomes, with no obvious global subgenome dominance. We find evidence for a founding polyploidy event 350,000-610,000 years ago, followed by several pre-domestication bottlenecks, resulting in narrow genetic variation. A split between wild accessions and cultivar progenitors occurred similar to 30.5 thousand years ago, followed by a period of migration between the two populations. Analysis of modern varieties, including lines historically introgressed with C. canephora, highlights their breeding histories and loci that may contribute to pathogen resistance, laying the groundwork for future genomics-based breeding of C. arabica.
Plan de classement
Amélioration des plantes, ressources génétiques [076AMEPLA]
Localisation
Fonds IRD [F B010090608]
Identifiant IRD
fdi:010090608
