Summary
Name
Green Ash - Abiotic Stress Gene Expression
Resource Type
Gene Expression Profile
Organism
Publication
Lane T, Best T, Zembower N, Davitt J, Henry N, Xu Y, Koch J, Liang H, McGraw J, Schuster S, Shim D. The green ash transcriptome and identification of genes responding to abiotic and biotic stresses. BMC genomics. 2016 Dec;17(1):702.
Program, Pipeline, Workflow or Method Name
HTSeq; RPKM
Program Version
n/a
Date Performed
Thursday, July 17, 2014 - 21:00
Data Source
Source Name
: Fraxinus pennsylvanica 120313
Source Version
: 120313
Description and Download
Description: 

This project aims to elucidate the molecular response of hardwood tree seedlings to varying abiotic stresses. Stress experiments include ozone exposure, mechanical damage (wounding), heat, drought, and cold. A number of different adult tissue types were also profiled.

Expression profiles were determined by mapping reads to the set of assembled transcripts. Reads were mapped with Bowtie2 and counted using HTSeq. Values were normalized using RPKM (Reads Per Kilobase Million) for gene expression profiles.

Expression Data Files

Green Ash Raw Reads Counts

Biosamples
NameTissueTreatmentDescription
FS-12-eggphloem and barkEAB feedingFS Tree 12, fall sample of phloem and bark after EAB feeding
FS-11phloem and barknoneFS Tree 11, summer sample of phloem and bark
FS-10-eggphloem and barkafter EAB damageFS Tree 10, fall sample of phloem and bark after EAB feeding
FS-9phloem and barknoneFS Tree 9, summer sample of phloem and bark
FS-8-eggphloem and barkafter EAB damageFS Tree 8, fall sample of phloem and bark after EAB feeding
FS-7phloem and barknoneFS Tree 7, summer sample of phloem and bark
FS-5phloem and barknoneFS Tree 5, summer sample of phloem and bark
FS-4-eggphloem and barkafter EAB damageFS Tree 4, fall sample of phloem and bark after EAB feeding
FS-3phloem and barknoneFS Tree 3, summer sample of phloem and bark
FS-2-eggphloem and barkafter EAB damageFS Tree 2, fall sample of phloem and bark after EAB feeding

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