ArticleGenomics, proteomics & bioinformatics2022
Genome Assembly of Alfalfa Cultivar Zhongmu-4 and Identification of SNPs Associated with Agronomic Traits.
Article in Genomics, proteomics & bioinformatics, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 52 papers.
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52 citing papers in PubMed, 96 citations in OpenAlex.
- Genome-wide characterization and expression analysis of the B3 superfamily in response to abiotic stresses in alfalfa (Medicago sativa L.).BMC plant biology · 2026Article
- Alfalfa andPhysiology and molecular biology of plants : an international journal of functional plant biology · 2026Article
- The haplotype-resolved and near-telomere-to-telomere genome assembly for the autotetraploid alfalfa.Plant communications · 2026Article
- Identification of symbiotic nitrogen fixation-modulating factors in alfalfa and mechanism elucidation of MsHHO3.The Plant journal : for cell and molecular biology · 2026Article
- Exploring the genetic diversity of the IPK Medicago germplasm collection using GBS.Plant biology (Stuttgart, Germany) · 2026Article
- Effect of phosphorus deficiency on biomass and root system architecture in diverseFrontiers in plant science · 2026Article
- Implications of morphological and molecular distinctness on the registration of alfalfa candidate varieties issued by a breeding program: a case study.Frontiers in plant science · 2026Article
- Medicago super-pangenome reveals adaptive advantages and evolutionary constraints in autotetraploid alfalfa.Nature communications · 2025Article
- Elucidation of genetic architecture for aphid resistance in alfalfa (Medicago sativa) via genome-wide association study.BMC plant biology · 2025Article
- DU-Net-L: an effective and lightweight segmentation model for alfalfa images that integrates the strengths of DeepLabV3+ and U-Net.aBIOTECH · 2025Article
- Genome-wide identification and analysis of the abiotic stress responsiveness of the heat shock protein 90 gene family in Medicago sativa L.BMC plant biology · 2025Article
- Chromosome-scale haplotype-resolved genome assembly of the autotetraploid alfalfa cultivar Bolivia.Plant biotechnology journal · 2025Article
- Genome-wide identification and expression analysis of the GARP superfamily in response to abiotic stresses in alfalfa (Medicago sativa L.).BMC plant biology · 2025Article
- QTL detection and genomic prediction for resistance to anthracnose in alfalfa (Medicago sativa).The plant genome · 2025Article
- The down-regulation of MsWOX13-2 promotes enhanced waterlogging resilience in alfalfa.The Plant journal : for cell and molecular biology · 2025Article
- Genome-wide identification and expression pattern of the phytochrome-interacting factors (PIFs) family in three alfalfa varieties.BMC genomics · 2025Article
- Forage Crop Research in the Modern Age.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Review
- Advances in basic biology of alfalfa (Horticulture research · 2025Article
- Article
- Pan-genomic analysis highlights genes associated with agronomic traits and enhances genomics-assisted breeding in alfalfa.Nature genetics · 2025Article
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Authors and funding
16 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alfalfa (Medicago sativa L.) is the most important legume forage crop worldwide with high nutritional value and yield. For a long time, the breeding of alfalfa was hampered by lacking reliable information on the autotetraploid genome and molecular markers linked to important agronomic traits. We herein reported the de novo assembly of the allele-aware chromosome-level genome of Zhongmu-4, a cultivar widely cultivated in China, and a comprehensive database of genomic variations based on resequencing of 220 germplasms. Approximate 2.74 Gb contigs (N50 of 2.06 Mb), accounting for 88.39% of the estimated genome, were assembled, and 2.56 Gb contigs were anchored to 32 pseudo-chromosomes. A total of 34,922 allelic genes were identified from the allele-aware genome. We observed the expansion of gene families, especially those related to the nitrogen metabolism, and the increase of repetitive elements including transposable elements, which probably resulted in the increase of Zhongmu-4 genome compared with Medicago truncatula. Population structure analysis revealed that the accessions from Asia and South America had relatively lower genetic diversity than those from Europe, suggesting that geography may influence alfalfa genetic divergence during local adaption. Genome-wide association studies identified 101 single nucleotide polymorphisms (SNPs) associated with 27 agronomic traits. Two candidate genes were predicted to be correlated with fall dormancy and salt response. We believe that the allele-aware chromosome-level genome sequence of Zhongmu-4 combined with the resequencing data of the diverse alfalfa germplasms will facilitate genetic research and genomics-assisted breeding in variety improvement of alfalfa.
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