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Sample GSM5692461 Query DataSets for GSM5692461
Status Public on Nov 18, 2021
Title A_3
Sample type SRA
Source name Fusarium graminearum-infected wheat grains
Organisms Triticum aestivum; Fusarium graminearum
Characteristics tissue: wheat grains
infection status: infected with Fusarium graminearum
cultivar: Annong 0711
Treatment protocol One portion for every 25 g of Sumai 3, Zhongmai 66B and Annong 0711 wheat grains was plated into a 100 mL sterile conical flask, and the initial aw of the wheat kernel was 0.572, which was confirmed by using a Novasina Labmaster-Neo water activity meter (Novasina, Inc., WA, Swit). Then, sterile distilled water was added to rehydrate to aw: 0.99. The incubation process was carried out in 20 ℃ and humidity (50%) incubator.
Growth protocol Two 5 mm-diameter colonies taken from the edge of F. graminearum strains that were cultivated on PDA medium at 25 ℃ for 5 days.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using RNAiso Plus Kits (Takara, China) according to the manufacturer’s recommendation. To eliminate genomic DNA contamination, the DNase I (TaKara, China) was used.
RNA libraries were prepared for sequencing using standard Illumina protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model HiSeq X Ten
Description two paired-end sequencing
Data processing Illumina HiSeq X Ten (2×150bp) sequencer with two paired-end was used for sequencing
Sequenced reads were trimmed for adaptor sequence, mapped with reference genome Triticum aestivum (Taxonomy ID 4565) and Fusarium graminearum (Taxonomy ID 5518)
Software RSEM was used to quantitatively analyze gene expression levels respectively
Genome_build: Triticum aestivum (Taxonomy ID 4565) and Fusarium graminearum (Taxonomy ID 5518)
Supplementary_files_format_and_content: tab-delimited text files include TPM values for every gene and every sample
Submission date Nov 16, 2021
Last update date Nov 18, 2021
Contact name Kailin Li
Organization name Chinese Academy of Sciences
Department Shanghai Institute of Nutrtion and Health
Lab CAS Key Laboratory of Nutrtion, Metabolism and Food Safety
Street address Tian Ping
City Shanghai
ZIP/Postal code 200031
Country China
Platform ID GPL30964
Series (1)
GSE188959 Transcriptome of different cultivars of Fusarium graminearum-infected wheat grains
BioSample SAMN23198528
SRA SRX13150011

Supplementary file Size Download File type/resource
GSM5692461_A_3.txt.gz 316.4 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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