RNA-Seq of Zea mays: resistant genotype TP0 - SRA

SRX6578859: RNA-Seq of Zea mays: resistant genotype TP0
1 ILLUMINA (Illumina HiSeq 1500) run: 4.6M spots, 869.1M bases, 398.9Mb downloads

Design: Illumina Casava v1.8 used for basecalling; Raw reads were filtered to remove reads containing adapters or reads of low quality; mapped to B73_RefGen_v4 using TopHat2; HTSeq v0.6.1 was used to count the read numbers mapped to each gene and the fragments per kilobase of exon model per million mapped reads (FPKM) of each gene calculated; EdgeR was used to adjust the read counts for each sequenced library through one scaling normalized factor and differential expression analysis performed using the DEGSeq R package (1.20.0).

Submitted by: Stellenbosch University

Study: Transcriptome analysis of resistant and susceptible maize inbred lines to Fusarium ear rot

PRJNA556349 • SRP216184 • All experiments • All runs

show Abstracthide Abstract

A resistant (CML390) and susceptible (R2565y) maize inbred line were challenged with Fusarium verticillioides and the plant's response was studied 28, 42, and 52 days after infection using RNAseq. This genome-wide overview of gene expression during the Fusarium verticillioides-maize interaction provides novel insights into the host defence response over the course of infection.

Sample: Harvested before artificial inoculation (TP0) - resistant genotype

SAMN12347844 • SRS5144650 • All experiments • All runs

Organism: Zea mays

Library:

Name: CML_TO

Instrument: Illumina HiSeq 1500

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PolyA

Layout: PAIRED

Runs: 1 run, 4.6M spots, 869.1M bases, 398.9Mb

Run	# of Spots	# of Bases	Size	Published
SRR9822046	4,634,861	869.1M	398.9Mb	2020-07-31

ID:: 8682475

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