Leaf and root transcriptome sequencing of tomato accessions

Leaf and root transcriptome sequencing of tomato accessions

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.

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Bibliographic Details
Main Author: United States Department of Agriculture (18794677)
Format: Dataset biblioteca
Published: 2023
Subjects:Genetics, Solanum lycopersicum, eEukaryotes, raw sequence reads, assembly,
Online Access:https://figshare.com/articles/dataset/Leaf_and_root_transcriptome_sequencing_of_tomato_accessions/25156064
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id dat-usda-us-article25156064
record_format figshare
spelling dat-usda-us-article251560642023-01-24T00:00:00Z Leaf and root transcriptome sequencing of tomato accessions United States Department of Agriculture (18794677) Genetics Solanum lycopersicum eEukaryotes raw sequence reads assembly 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. 2023-01-24T00:00:00Z Dataset Dataset 10113/AF25156064 https://figshare.com/articles/dataset/Leaf_and_root_transcriptome_sequencing_of_tomato_accessions/25156064 Copyright Undetermined
institution USDA US
collection Figshare
country Estados Unidos
countrycode US
component Datos de investigación
access En linea
databasecode dat-usda-us
tag biblioteca
region America del Norte
libraryname National Agricultural Library of USDA
topic Genetics
Solanum lycopersicum
eEukaryotes
raw sequence reads
assembly
spellingShingle Genetics
Solanum lycopersicum
eEukaryotes
raw sequence reads
assembly
United States Department of Agriculture (18794677)
Leaf and root transcriptome sequencing of tomato accessions
description 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.
format Dataset
author United States Department of Agriculture (18794677)
author_facet United States Department of Agriculture (18794677)
author_sort United States Department of Agriculture (18794677)
title Leaf and root transcriptome sequencing of tomato accessions
title_short Leaf and root transcriptome sequencing of tomato accessions
title_full Leaf and root transcriptome sequencing of tomato accessions
title_fullStr Leaf and root transcriptome sequencing of tomato accessions
title_full_unstemmed Leaf and root transcriptome sequencing of tomato accessions
title_sort leaf and root transcriptome sequencing of tomato accessions
publishDate 2023
url https://figshare.com/articles/dataset/Leaf_and_root_transcriptome_sequencing_of_tomato_accessions/25156064
work_keys_str_mv AT unitedstatesdepartmentofagriculture18794677 leafandroottranscriptomesequencingoftomatoaccessions
_version_ 1807157368632377344

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