---
identifier: ICC4958.gnm2.ann1.expr.ICC4958.Singh_Garg_2013

scientific_name: Cicer arietinum

taxid: 3827

scientific_name_abbrev: cicar

genotype:
  - ICC4958 (desi variety)
  
synopsis: "Chickpea Transcriptome Atlas - I"

description: "In this study, we aim to present a global view of transcriptome dynamics during flower development in chickpea. We generated around 234 million high-quality reads for eight flower development stages (ranging from 16 to 40 million reads for each stage) and 91 million high-quality reads from three vegetative tissues using Illumina high-throughput sequencing GAII platform. Because of non-availability of reference genome sequence, we mapped the reads to chickpea transcriptome comprised of 34,760 transcripts for estimation of their transcriptional activity in different tissue samples. The transcriptome dynamics was studied by comparison of gene expression during flower development stages with vegetative tissues. Overall design: We collected different tissue samples used in this study and total RNA isolated was subjected to Illumina sequencing. The sequenced data was further filtered using NGS QC Toolkit to obtain high-quality reads. The filtered reads were mapped to 34760 chickpea transcripts and reads per kilobase per million (RPKM) was calculated for each gene in all the sample to measure their gene expression. Differential expression analysis was performed using DESeq software. The genes preferentially expression during various stages of flower development as compared to vegetative stages and those with speciifc expression were identified."

bioproject: PRJNA182724

geoseries: GSE42679

sraproject: SRP017394

expression_unit: TPM

local_file_creation_date: "2022-07-08"

publication_doi: 10.1111/pbi.12059

publication_title: "A global view of transcriptome dynamics during flower development in chickpea by deep sequencing"

contributors: "Vikash K Singh, Rohini Garg, Mukesh Jain"

citation: "Singh, V.K., Garg, R. and Jain, M. (2013), A global view of transcriptome dynamics during flower development in chickpea by deep sequencing. Plant Biotechnol J, 11: 691-701"

license: public