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Leaf and root transcriptome sequencing of tomato accessions

dataset
posted on 2024-09-29, 06:57 authored by United States Department of Agriculture
RNAseq was performed on leaf and root tissue from two accessions of tomato to identify NLRs and their relative expression level. Leaves and roots were sampled at one month post germination. Leaf tissue was collected from all fully expanded leaves, whereas roots were sampled and washed in distilled water. Accessions were sequenced using 150 bp paired end reads. RNAseq read quality was assessed and trimmed using Trimmomatic (version 0.36) with the parameters ILLUMINACLIP:2:30:10, LEADING:3, TRAILING:3, SLIDINGWINDOW:4:15, and MINLEN:100. Transcriptome assembly was performed using Trinity (version 2013-11-10) with default parameters.

History

Data contact name

BioProject Curation Staff

Publisher

National Center for Biotechnology Information

Temporal Extent Start Date

2023-01-24

Theme

  • Non-geospatial

ISO Topic Category

  • biota

National Agricultural Library Thesaurus terms

sequence analysis

Pending citation

  • No

Public Access Level

  • Public

Accession Number

PRJNA927036

Preferred dataset citation

It is recommended to cite the accession numbers that are assigned to data submissions, e.g. the GenBank, WGS or SRA accession numbers. If individual BioProjects need to be referenced, state that "The data have been deposited with links to BioProject accession number PRJNA927036 in the NCBI BioProject database (https://www.ncbi.nlm.nih.gov/bioproject/)."

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