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

NameNodule Development 1
DescriptionRNA-seq libraries were obtained from roots and nodules at varying developmental stages of nodulation with Sinorhizobium meliloti. The stages were: pre-inoculated root; root at 4 dpi, harboring the initial nodule bump during initiation; nodule at 10 dpi (expanding nodule); nodule at 14 dpi (actively-fixing nodule), and 28 dpi (senescing nodule). Additional samples were collected from nodules that were re-supplied with nitrogen at 14 dpi, to suppress nitrogen fixation.
ContactRebecca Dickstein (Rebecca.Dickstein@unt.edu) or Vijay Veerappan (veerappanv@easternct.edu)
XrefPRJNA391316
Reference
Conditions7
SpeciesMedicago truncatula
Metadata export .CSV   .JSON

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
Mt4wkNod A17 root nodule Inoculated with Rhizobia (sm1021) 28 days
  • Mt4wkNod_1
  • Mt4wkNod_2
  • Mt4wkNod_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
MtNod0dpi A17 6 days after germination root No Inoculation
  • MtNod0dpi_1
  • MtNod0dpi_2
  • MtNod0dpi_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
MtNod10dpi A17 16 days after germination root nodule Inoculated with Rhizobia (sm1021) 10 days
  • MtNod10dpi_1
  • MtNod10dpi_2
  • MtNod10dpi_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
MtNod14dpi A17 20 days after germination root nodule Inoculated with Rhizobia (sm1021) 14 days
  • MtNod14dpi_1
  • MtNod14dpi_2
  • MtNod14dpi_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
MtNod14dpi_12h A17 20 days after germination root nodule Inoculated with Rhizobia (sm1021);
Potassium nitrate supplemented 		;
10 mM KNO3 		14 days;
12 Hours
  • MtNod14dpi_12h_1
  • MtNod14dpi_12h_2
  • MtNod14dpi_12h_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
MtNod14dpi_48h A17 28 days after germination root nodule Inoculated with Rhizobia (sm1021);
Potassium nitrate supplemented 		;
10 mM KNO3 		14 days;
48 Hours
  • MtNod14dpi_48h_1
  • MtNod14dpi_48h_2
  • MtNod14dpi_48h_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
MtNod4dpi A17 10 days after germination root nodule Inoculated with Rhizobia (sm1021) 4 days
  • MtNod4dpi_1
  • MtNod4dpi_2
  • MtNod4dpi_3
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi