Small RNA sequencing of Rice leaves infected with strains of the oryzae or oryzicola pathovars of Xanthomonas oryzae

Summary

Name	Small RNA sequencing of Rice leaves infected with strains of the oryzae or oryzicola pathovars of Xanthomonas oryzae
Description	The sRNA-seq data for the Diversity dataset was generated by the Novogene company (Hong Kong, China) from total RNA extracted from triplicate samples collected at 24 hpi using a NEBNext Small RNA Library Prep Set for Illumina kit optimized by Novogene on the supplied total RNAs. Ultimately, size selected 18–47 bp inserts were sequenced on a Illumina HiSeq (1 × 50 bp).
Program, Pipeline, Workflow or Method Name	Mapping against IRGSP1 genome. sRNA reads coverage--based inferrence of small RNA loci and identification of differentially expressed ones with Deseq2
Program Version	NA
Organism	Oryza sativa subsp. japonica cv. Nipponbare (Oryza sativa japonica Nipponbare)
Author	Ganna Reshetnyak, Jonathan M. Jacobs Florence Auguy Coline Sciallano Lisa Claude Clemence Medina Alvaro L. Perez-Quintero Aurore Comte Emilie Thomas Adam Bogdanove Ralf Koebnik Boris Szurek Anne Dievart Christophe Brugidou Severine Lacombe Sebastien Cunnac
Date Performed	Friday, January 3, 2020 - 15:00
Data Source	Source Name : NCBI Source URI : https://www.ncbi.nlm.nih.gov/bioproject/PRJNA552731

Publication

Reshetnyak, G., Jacobs, J.M., Auguy, F. et al. An atypical class of non-coding small RNAs is produced in rice leaves upon bacterial infection. Sci Rep 11, 24141 (2021).

Download related data

Small RNA sequencing of Rice leaves infected with strains of the oryzae or oryzicola pathovars of Xanthomonas oryzae files

Dataset Name : Small RNA sequencing of Rice leaves infected with strains of the oryzae or oryzicola pathovars of Xanthomonas oryzae
Organism : O. Sativa Japonica Nipponbare
Date : 2018
Unit : PHIM
Contact : Sebastien Cunnac (sebastien.cunnac@ird.fr)
Pipeline : Mapping against IRGSP1 genome. sRNA reads coverage--based inferrence of small RNA loci and identification of differentially expressed ones with Deseq2
Description : The sRNA-seq data for the Diversity dataset was generated by the Novogene company (Hong Kong, China) from total RNA extracted from triplicate samples collected at 24 hpi using a NEBNext Small RNA Library Prep Set for Illumina kit optimized by Novogene on the supplied total RNAs. Ultimately, size selected 18–47 bp inserts were sequenced on a Illumina HiSeq (1 × 50 bp).
Bioproject : https://www.ncbi.nlm.nih.gov/bioproject/PRJNA552731

	Display name
	BAI3.bam
	BAI3.bam.bai
	BAI3H.bam
	BAI3H.bam.bai
	description.txt
	H2O.bam
	H2O.bam.bai
	metadata.txt
	myDEloci.gff3.gz
	myDEloci.gff3.gz.tbi

10 files - 2.09 GB

Small RNA sequencing of Rice leaves infected with strains of the oryzae or oryzicola pathovars of Xanthomonas oryzae

Small RNA sequencing of Rice leaves infected with strains of the oryzae or oryzicola pathovars of Xanthomonas oryzae files

Rice GH is a collaborative project among rice teams from IRD & CIRAD. Funding has been provided by CRP Rice, IRD and CIRAD Copyright @South Green Platform

Rice GH is a collaborative project among rice teams from IRD & CIRAD. Funding has been provided by CRP Rice, IRD and CIRAD

Copyright @South Green Platform