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Series GSE152857 Query DataSets for GSE152857
Status Public on Jun 20, 2020
Title A Comprehensive Transcriptional Profiling of Pepper Responses to Root Knot Nematode
Organism Capsicum annuum
Experiment type Expression profiling by high throughput sequencing
Summary We sequenced the transcriptomes of resistant and susceptible cultivar roots uninoculated and with RKN M. incognita, over three time points; 1-, 4-, and 7-days post inoculation. Over 300 million high quality reads from 36 samples were mapped to the pepper reference genome. Comparing inoculation and resistance profiles revealed generic biotic stress responses and specific nematode resistance responses. Comparisons along the time course revealed resistance responses are often induced early in the infection process and a large portion of these are restricted to chromosome P9, encoding the known nematode resistance loci
 
Overall design There are 35 samples included, each treatment has three replicates, negative control samples were also included into each treatment
 
Contributor(s) Hu W, Colantonio V, Kingsbury K, DiGennaro P
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Submission date Jun 19, 2020
Last update date Jun 20, 2020
Contact name Weiming Hu
E-mail(s) [email protected]
Organization name University of Florida
Department Entomology and Nematology
Street address 1881 Natural Area Dr.
City Gainesville
State/province FL
ZIP/Postal code 32608
Country USA
 
Platforms (1)
GPL26789 Illumina HiSeq 2500 (Capsicum annuum)
Samples (35)
GSM4628102 resistant.control.day1.rep1
GSM4628103 resistant.control.day1.rep2
GSM4628104 resistant.control.day1.rep3
Relations
BioProject PRJNA640653
SRA SRP268038

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE152857_all.wholedata.normalized.update.txt.gz 2.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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