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

  • [M. sativa (gene)]
  • Detail of Experiment mapped on Medicago sativa CADL MsV1NR

Details

NameDrought: Wild type and WXP1
DescriptionThe aboveground biomass of alfalfa genotypes with the <i>WXP1</i> transcription factor (TF) and without the <i>WXP1</i> (control), and F1 and backcrossed (BC) progenies were grown under well-watered and water-stressed conditions. Six-week-old clones (cuttings) were transplanted to pots (2.5 gallon pots with Metro-mix 350 and Quikrete all-purpose sand mixed 2:1 v/v) and randomly distributed to each watering treatment using a randomized complete block design with three replications. Treatments include: 1. Well-watered: 600 ml of 0.5X B&D solution (Broughton and Dilworth, 1971) during establishment. Each pot was then watered with 1.2 L of 0.5X B&D solution at day 11, 14, 21, 24 and 28; Treatment 2. Drought stress: No solution was added to any of the pots in this treatment for 28 days. The tissues from plants grown in all replications were harvested when the volumetric water content (VWC) was greater than 30% for the well-watered treatment and less than 12% for the drought treatment, flash frozen in liquid nitrogen and stored at -80⁰C. A total of 80 to 100 mg of ground tissue was placed in a pre-chilled 2 ml microfuge tube and used for RNA extraction with the Spectrum Plant Total RNA kit (Sigma-Aldrich Co., St. Louis, Missouri). The libraries were constructed using Illumina’s TruSeq RNA Sample Preparation v2 Guide (Illumina, San Diego, California), validated using the Agilent 2100 Bioanalyzer with the DNA 1000 assay and used for HiSeq™2000 sequencing with six samples per lane.
ContactMaria Monteros (mjmonteros@noble.org)
Xref
Reference
  • unpublished;
Conditions22
SpeciesMedicago sativa
Metadata export .CSV   .JSON

Analysis

Mapped Genomes MsV1NR    
Expression Analysis Expression Profile /  Differential Expression /  Co-expression

Conditions

Name Genotype Mutation Stage Tissue Treatment Level Time Samples Xref Download alignments
Ms1R_D 208Ms-1 6w shoot drought environment
  • Ms1R_D_1
  • Ms1R_D_2
  • Ms1R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
Ms1R_W 208Ms-1 6w shoot control
  • Ms1R_W_1
  • Ms1R_W_2
  • Ms1R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
SY4DR_D RegenSY4D 6w shoot drought environment
  • SY4DR_D_1
  • SY4DR_D_2
  • SY4DR_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
SY4DR_W RegenSY4D 6w shoot control
  • SY4DR_W_1
  • SY4DR_W_2
  • SY4DR_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W14141F1R_D WXP1 #14-14 #1 F1 6w shoot drought environment
  • W14141F1R_D_1
  • W14141F1R_D_2
  • W14141F1R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W14141F1R_W WXP1 #14-14 #1 F1 6w shoot control
  • W14141F1R_W_1
  • W14141F1R_W_2
  • W14141F1R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W1414251R_D 1 #14-14 #251 MBC1 6w shoot drought environment
  • W1414251R_D_1
  • W1414251R_D_2
  • W1414251R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W1414251R_W 1 #14-14 #251 MBC1 6w shoot control
  • W1414251R_W_1
  • W1414251R_W_2
  • W1414251R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W14156F1R_D WXP1 #14-15 #6 F1 6w shoot drought environment
  • W14156F1R_D_1
  • W14156F1R_D_2
  • W14156F1R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W14156F1R_W WXP1 #14-15 #6 F1 6w shoot control
  • W14156F1R_W_1
  • W14156F1R_W_2
  • W14156F1R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W14R_D WXP1 #14 6w shoot drought environment
  • W14R_D_1
  • W14R_D_2
  • W14R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W14R_W WXP1 #14 6w shoot control
  • W14R_W_1
  • W14R_W_2
  • W14R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W17_153F1R_D WXP1 #17-15 #3 F1 6w shoot drought environment
  • W17_153F1R_D_1
  • W17_153F1R_D_2
  • W17_153F1R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W17_153F1R_W WXP1 #17-15 #3 F1 6w shoot control
  • W17_153F1R_W_1
  • W17_153F1R_W_2
  • W17_153F1R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W17151F1R_D WXP1 #17-15 #1 F1 6w shoot drought environment
  • W17151F1R_D_1
  • W17151F1R_D_2
  • W17151F1R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W17151F1R_W WXP1 #17-15 #1 F1 6w shoot control
  • W17151F1R_W_1
  • W17151F1R_W_2
  • W17151F1R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W1715629R_D WXP1#17-15 #629 MBC1 6w shoot drought environment
  • W1715629R_D_1
  • W1715629R_D_2
  • W1715629R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W1715629R_W WXP1#17-15 #629 MBC1 6w shoot control
  • W1715629R_W_1
  • W1715629R_W_2
  • W1715629R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W17R_D WXP1 #17 6w shoot drought environment
  • W17R_D_1
  • W17R_D_2
  • W17R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
W17R_W WXP1 #17 6w shoot control
  • W17R_W_1
  • W17R_W_2
  • W17R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
WN8F1R_D Waxy Null (208Ms-1 x RegenSY4D) #8 F1 6w shoot drought environment
  • WN8F1R_D_1
  • WN8F1R_D_2
  • WN8F1R_D_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
WN8F1R_W Waxy Null (208Ms-1 x RegenSY4D) #8 F1 6w shoot control
  • WN8F1R_W_1
  • WN8F1R_W_2
  • WN8F1R_W_3
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi