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

  • [H. vulgare (gene)]
  • Detail of Experiment mapped on Hordeum vulgare vulgare L Hvulgare462r1

Details

NameBarley transcriptional responses to specialist and generalist spider mite herbivores
DescriptionSpider mites, including the two-spotted spider mite (Tetranychus urticae, TSSM) and the Banks grass mite (Oligonychus pratensis, BGM), are becoming increasingly important agricultural pests. The TSSM is an extreme generalist documented to feed on more than 1100 plant hosts. In contrast, the BGM is a grass specialist, with hosts including important cereal crops like maize, wheat, sorghum and barley. Historically, studies of plant-herbivore interactions have focused largely on insects. However, far less is known about plant responses to spider mite herbivores, especially in grasses, and whether responses differ between generalists and specialists. To identify plant defense pathways responding to spider mites, we collected time course RNA-seq data from barley (Hordeum vulgare L.) infested with TSSMs and BGMs. Additionally, and as a comparison to the physical damage caused by spider mite feeding, a wounding treatment was also included. Overall design: The experiment was performed with four biological replicates across each of the following (28 samples in total): no infestation (C, control), 2hr after wounding (W2), 24hr after wounding (W24), 2hr after TSSM infestation (T2), 24hr after TSSM infestation (T24), 2hr after BGM infestation (B2), and 24hr after BGM infestation (B24).
ContactClark Laboratory, Department of Biology, University of Utah
XrefPRJNA326683
Reference
Conditions7
SpeciesHordeum vulgare
Metadata export .CSV   .JSON

Analysis

Mapped Genomes Hvulgare462r1    
Expression Analysis Expression Profile /  Differential Expression /  Co-expression

Conditions

Name Genotype Mutation Stage Tissue Treatment Level Time Samples Xref Download alignments
BGMinfested24hr V5-30 days old leaf Leaf BGM-infested 24hr rep1
  • BGMinfested24hr_1
  • BGMinfested24hr_2
  • BGMinfested24hr_3
  • BGMinfested24hr_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
BGMinfested2hr V5-30 days old leaf Leaf BGM-infested 2hr rep1
  • BGMinfested2hr_1
  • BGMinfested2hr_2
  • BGMinfested2hr_3
  • BGMinfested2hr_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
LeafNonInfested V5-30 days old leaf Leaf non-infested rep1
  • LeafNonInfested_1
  • LeafNonInfested_2
  • LeafNonInfested_3
  • LeafNonInfested_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
LeafWounded24hr V5-30 days old leaf Leaf wounded 24hr rep1
  • LeafWounded24hr_1
  • LeafWounded24hr_2
  • LeafWounded24hr_3
  • LeafWounded24hr_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
LeafWounded2hr V5-30 days old leaf Leaf wounded 2hr rep1
  • LeafWounded2hr_1
  • LeafWounded2hr_2
  • LeafWounded2hr_3
  • LeafWounded2hr_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
TSSMinfested24hr V5-30 days old leaf Leaf TSSM-infested 24hr rep1
  • TSSMinfested24hr_1
  • TSSMinfested24hr_2
  • TSSMinfested24hr_3
  • TSSMinfested24hr_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
TSSMinfested2hr V5-30 days old leaf Leaf TSSM-infested 2hr rep1
  • TSSMinfested2hr_1
  • TSSMinfested2hr_2
  • TSSMinfested2hr_3
  • TSSMinfested2hr_4
 .bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi   
.bam    .bai    .csi