The genome of a wild Medicago species provides insights into the tolerant mechanisms of legume forage to environmental stress

Tianzuo Wang, Lifei Ren, Caihong Li, Di Zhang, Xiuxiu Zhang, Gang Zhou, Dan Gao, Rujin Chen, Yuhui Chen, Zhaolan Wang, Fengling Shi, Andrew D. Farmer, Yansu Li, Mengyan Zhou, Nevin D. Young, Wen Hao Zhang

Research output: Contribution to journalArticlepeer-review

Abstract

Background: Medicago ruthenica, a wild and perennial legume forage widely distributed in semi-arid grasslands, is distinguished by its outstanding tolerance to environmental stress. It is a close relative of commonly cultivated forage of alfalfa (Medicago sativa). The high tolerance of M. ruthenica to environmental stress makes this species a valuable genetic resource for understanding and improving traits associated with tolerance to harsh environments. Results: We sequenced and assembled genome of M. ruthenica using an integrated approach, including PacBio, Illumina, 10×Genomics, and Hi-C. The assembled genome was 904.13 Mb with scaffold N50 of 99.39 Mb, and 50,162 protein-coding genes were annotated. Comparative genomics and transcriptomic analyses were used to elucidate mechanisms underlying its tolerance to environmental stress. The expanded FHY3/FAR1 family was identified to be involved in tolerance of M. ruthenica to drought stress. Many genes involved in tolerance to abiotic stress were retained in M. ruthenica compared to other cultivated Medicago species. Hundreds of candidate genes associated with drought tolerance were identified by analyzing variations in single nucleotide polymorphism using accessions of M. ruthenica with varying tolerance to drought. Transcriptomic data demonstrated the involvements of genes related to transcriptional regulation, stress response, and metabolic regulation in tolerance of M. ruthenica. Conclusions: We present a high-quality genome assembly and identification of drought-related genes in the wild species of M. ruthenica, providing a valuable resource for genomic studies on perennial legume forages.

Original languageEnglish (US)
Article number96
JournalBMC Biology
Volume19
Issue number1
DOIs
StatePublished - Dec 2021

Bibliographical note

Funding Information:
The research was supported by the National Natural Science Foundation of China (32070351, 31830011) and Chinese Academy of Sciences (KFJ-STS-ZDTP-056).

Publisher Copyright:
© 2021, The Author(s).

Keywords

  • Comparative genomics
  • Domestication
  • Drought tolerance
  • Evolution
  • Genome
  • Medicago ruthenica
  • Single-nucleotide polymorphism
  • Transcriptome
  • Wild genetic resource

PubMed: MeSH publication types

  • Journal Article

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