Gene Expression Resources Available for Peanut

Microarray and high throughput sequencing data sets at NCBI GEO, Array Express and Seq Read Archive

• Arachis Platforms at NCBI GEO
• Arachis Series at NCBI GEO
• Arachis Microarrays at ArrayExpress
• NCBI Seq Read Archive
• Gene expression in eFP Browser from BAR.

Gene expression atlases

Tissue expression atlas: Comparison of RNA-Seq read counts from 22 Arachis hypogaea tissues against Arachis hypogaea genome. This analysis includes a table of counts of genes with differential expression from each tissue comparison. From differentially expressed genes, there are links to gene sequences, gene annotations, and views of expression in the genome browsers. This is the work of Dr. Peggy Ozias-Akins and colleagues.
Tissue expression atlas on A. duraensis and A. ipaensis: Comparison of RNA-Seq read counts from 22 Arachis hypogaea tissues against Arachis ipaensis and A. duranensis genomes combined. This analysis includes a table of counts of genes with differential expression from each tissue comparison. From differentially expressed genes, there are links to gene sequences, gene annotations, and views of expression in the genome browsers. This is the work of Dr. Peggy Ozias-Akins and colleagues.
Arachis hypogaea transcriptome assembly [assembly download file]. Data for A Developmental Transcriptome Map for Allotetraploid Arachis hypogaea. Josh Paul Clevenger, Ye Chu, Brian Scheffler and Peggy Ozias-Akins. (2016) Frontiers in Plant Biology. (GenBank) [Mapped to A. duranensis and A. ipaensis gene models]
Nematode expression experiment: Root transcriptome data for A. duranensis and A. stenosperma infected with Meloidogyne arenaria. Reference: Guimaraes PM, et al. (2015) Root Transcriptome Analysis of Wild Peanut Reveals Candidate Genes for Nematode Resistance. PLoS ONE 10(10): e0140937. (PubMed)
Drought expression experiment: Comparison of RNA-Seq read counts from A. duranensis and A. stenosperma under drought treatment and control conditions. Reference: Guimaraes PM, et al. (2015) Transcriptome Profiling of Wild Arachis from Water-Limited Environments Uncovers Drought Tolerance Candidate Genes. (PubMed)
Symbiosis expression experiment: Root transcriptome data for A. hypogaea infected with Bradyrhizobium sp. SEMIA 6144. Reference: Karmakar K., et al. (2018) Transcriptomic analysis with the progress of symbiosis in 'crack-entry' legume Arachis hypogaea highlights its contrast with 'infected thread' adapted legumes. Mol Plant Microbe Interact. (PubMed)