Three new genome assemblies support a rapid radiation in Musa acuminata (wild banana)

TitleThree new genome assemblies support a rapid radiation in Musa acuminata (wild banana)
Publication TypeJournal Article
Year of Publication2018
AuthorsRouard M., Droc G., Martin G., Sardos J., Hueber Y., Guignon V., Cenci A., Geigle B., Hibbins M.S, Yahiaoui N., Baurens F.-C., Berry V., Hahn M.W, D’Hont A., Roux N.
JournalGenome Biology and Evolution
Date Published10/2018
Abstract

Edible bananas result from interspecific hybridization between Musa acuminata and Musa balbisiana, as well as among subspecies in M. acuminata. Four particular M. acuminata subspecies have been proposed as the main contributors of edible bananas, all of which radiated in a short period of time in southeastern Asia. Clarifying the evolution of these lineages at a whole-genome scale is therefore an important step toward understanding the domestication and diversification of this crop. This study reports the de novo genome assembly and gene annotation of a representative genotype from three different subspecies of M. acuminata. These data are combined with the previously published genome of the fourth subspecies to investigate phylogenetic relationships. Analyses of shared and unique gene families reveal that the four subspecies are quite homogenous, with a core genome representing at least 50% of all genes and very few M. acuminata species-specific gene families. Multiple alignments indicate high sequence identity between homologous single copy-genes, supporting the close relationships of these lineages. Interestingly, phylogenomic analyses demonstrate high levels of gene tree discordance, due to both incomplete lineage sorting and introgression. This pattern suggests rapid radiation within Musa acuminata subspecies that occurred after the divergence with M. balbisiana. Introgression between M. a. ssp. malaccensis and M. a. ssp. burmannica was detected across the genome, though multiple approaches to resolve the subspecies tree converged on the same topology. To support evolutionary and functional analyses, we introduce the PanMusa database, which enables researchers to exploration of individual gene families and trees.

URLhttps://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evy227/5129088
DOI10.1093/gbe/evy227
Showing 4 of 4 accessions
Accession Name Pictures Accession number Species / Group SubSpecies / SubGroup Origin Collection Available for distribution
Banksii PT-BA-00024 acuminata subsp. banksii Unknown CIRAD
Calcutta 4 PT-BA-00051 acuminata subsp. burmannicoides Unknown CIRAD
CIRAD 930
ITC1511 acuminata subsp. malaccensis Guadeloupe ITC
Maia Oa
PT-BA-00182 acuminata subsp. zebrina Martinique CIRAD