Comprehensive genomic resources related to domestication and crop improvement traits in Lima bean.

Publication Overview
TitleComprehensive genomic resources related to domestication and crop improvement traits in Lima bean.
AuthorsGarcia T, Duitama J, Zullo SS, Gil J, Ariani A, Dohle S, Palkovic A, Skeen P, Bermudez-Santana CI, Debouck DG, Martínez-Castillo J, Gepts P, Chacón-Sánchez MI
TypeJournal Article
Journal NameNature communications
Volume12
Issue1
Year2021
Page(s)702
CitationGarcia T, Duitama J, Zullo SS, Gil J, Ariani A, Dohle S, Palkovic A, Skeen P, Bermudez-Santana CI, Debouck DG, Martínez-Castillo J, Gepts P, Chacón-Sánchez MI. Comprehensive genomic resources related to domestication and crop improvement traits in Lima bean.. Nature communications. 2021 01 29; 12(1):702.

Abstract

Lima bean (Phaseolus lunatus L.), one of the five domesticated Phaseolus bean crops, shows a wide range of ecological adaptations along its distribution range from Mexico to Argentina. These adaptations make it a promising crop for improving food security under predicted scenarios of climate change in Latin America and elsewhere. In this work, we combine long and short read sequencing technologies with a dense genetic map from a biparental population to obtain the chromosome-level genome assembly for Lima bean. Annotation of 28,326 gene models show high diversity among 1917 genes with conserved domains related to disease resistance. Structural comparison across 22,180 orthologs with common bean reveals high genome synteny and five large intrachromosomal rearrangements. Population genomic analyses show that wild Lima bean is organized into six clusters with mostly non-overlapping distributions and that Mesomerican landraces can be further subdivided into three subclusters. RNA-seq data reveal 4275 differentially expressed genes, which can be related to pod dehiscence and seed development. We expect the resources presented here to serve as a solid basis to achieve a comprehensive view of the degree of convergent evolution of Phaseolus species under domestication and provide tools and information for breeding for climate change resiliency.

Properties
Additional details for this publication include:
Property NameValue
Publication ModelElectronic
ISSN2041-1723
eISSN2041-1723
Publication Date2021 01 29
Journal AbbreviationNat Commun
DOI10.1038/s41467-021-20921-1
Elocation10.1038/s41467-021-20921-1
LanguageEnglish
Language Abbreng
Publication TypeJournal Article
Journal CountryEngland
Publication TypeResearch Support, Non-U.S. Gov't
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DatabaseAccession
PMID: PubMedPMID:33514713