LegumeIP V3: From Models to Crops - An Integrative Gene Discovery Platform for Translational Genomics in Legumes

  • [M. truncatula (gene)]
  • Detail of Experiment mapped on Medicago truncatula A17 MtV4.0

Details

NameThe U-box family genes in Medicago truncatula: key elements in response to salt, cold, and drought stresses
DescriptionThe ubiquitination pathway regulates growth, development, and stress responses in plants, and the U-box protein family of ubiquitin ligases has important roles in this pathway. Here, 64 putative U-box proteins were identified in the Medicago truncatula genome. In addition to the conserved U-box motif, other functional domains, such as the ARM, kinase, KAP, and WD40 domains, were also detected. Phylogenetic analysis of the M. truncatula U-box proteins grouped them into six subfamilies, and chromosomal mapping and synteny analyses indicated that tandem and segmental duplications may have contributed to the expansion and evolution of the U-box gene family in this species. Using RNA-seq data from M. truncatula seedlings subjected to three different abiotic stresses, we identified 33 stress-inducible plant U-box genes (MtPUBs). Specifically, 25 salinity-, 15 drought-, and 16 cold-regulated MtPUBs were detected. Among them, MtPUB10, MtPUB17, MtPUB18, MtPUB35, MtPUB42, and MtPUB44 responded to all three stress conditions. Expression profiling by real-time PCR was consistent with the RNA-seq data, and stress-related elements were identified in the promoter regions. The present findings strongly indicate that U-box proteins play critical roles in abiotic stress response in M. truncatula. Overall design: RNA-seq in Medicago truncatula
ContactJiang Xi Agricultural University
XrefPRJNA563553
Reference
Conditions12
SpeciesMedicago truncatula
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Analysis

Mapped Genomes MtrunA17r5.0     MtV4.0    
Expression Analysis Expression Profile /  Differential Expression /  Co-expression

Conditions

Name Genotype Mutation Stage Tissue Treatment Level Time Samples Xref Download alignments
Cold_0h Wild type Jemalong A17 4 weeks seedling Cold 0h
  • Cold_0h_1
 .bam    .bai    .csi   
Cold_12h Wild type Jemalong A17 4 weeks seedling Cold 12h
  • Cold_12h_1
 .bam    .bai    .csi   
Cold_2h Wild type Jemalong A17 4 weeks seedling Cold 2h
  • Cold_2h_1
 .bam    .bai    .csi   
Cold_6h Wild type Jemalong A17 4 weeks seedling Cold 6h
  • Cold_6h_1
 .bam    .bai    .csi   
Drought_0h Wild type Jemalong A17 4 weeks seedling Drought 0h
  • Drought_0h_1
 .bam    .bai    .csi   
Drought_12h Wild type Jemalong A17 4 weeks seedling Drought 12h
  • Drought_12h_1
 .bam    .bai    .csi   
Drought_2h Wild type Jemalong A17 4 weeks seedling Drought 2h
  • Drought_2h_1
 .bam    .bai    .csi   
Drought_6h Wild type Jemalong A17 4 weeks seedling Drought 6h
  • Drought_6h_1
 .bam    .bai    .csi   
Salt_0h Wild type Jemalong A17 4 weeks seedling Salt 0h
  • Salt_0h_1
 .bam    .bai    .csi   
Salt_12h Wild type Jemalong A17 4 weeks seedling Salt 12h
  • Salt_12h_1
 .bam    .bai    .csi   
Salt_2h Wild type Jemalong A17 4 weeks seedling Salt 2h
  • Salt_2h_1
 .bam    .bai    .csi   
Salt_6h Wild type Jemalong A17 4 weeks seedling Salt 6h
  • Salt_6h_1
 .bam    .bai    .csi