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Morphological and transcriptomic analysis reveal robust nonhost resistance response during chickpea interaction with Alternaria brassicae

ABSTRACT: Morphological and transcriptomic analysis reveal robust nonhost resistance response during chickpea interaction with Alternaria brassicae

PROVIDER: PRJNA490503 | ENA |

REPOSITORIES: ENA

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Morphological and transcriptomic analysis reveal robust nonhost resistance response during chickpea interaction with Alternaria brassicae

Project description:Alternaria brassicae is a necrotrophic fungal pathogen which infects brassica crops and lead to huge loss in crop production. There is a need to exploit the novel resistance mechanism against A. brassicae. Under field condition, chickpea is the potential nonhost plant for A. brassicae. At molecular level, it is not known how the NHR in chickpea operates against A. brassicae. In present study, we did the transcriptomic analysis in chickpea plants exposed to nonhost pathogen, A. brassicae by using microarray. Chickpea plants were spray inoculated with the spore suspension of A. brassicae. The leaf samples were harvested after 24 hpi and 48 hpi from pathogen treated plants and from the mock-treated control plants. The Transcriptome analysis were done from the leaf samples obtained at both the time-points by microarray using Agilent ChickpeaGXP_8X60K chip. Our result suggested the robust transcriptional reprogramming leading to defense response against A. brassicae.

2019-09-01 | GSE119865 | GEO

Alternaria brassicae

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Alternaria brassicae strain:J3

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Alternaria brassicae strain:BTP

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Brassica nigra challenged by Pieris brassicae, eggs of Pieris brassicae, Xanthomonas campestris pv. raphani, Brevicoryne brassicae or by combined stresses eggs of P. brassicae / P. brassicae, X. campestris / P. brassicae, B. brassicae / P. brassicae

Project description:Brassica nigra plants, a Brassicaceae close to Arabidopsis thaliana, was used for combined stresses experiments. In this study, we performed a whole-genome microarray analysis on five-week-old plants and compared untreated plants and plants treated different single or dual stresses: the larvae Pieris brassicae, egg extract of Pieris brassicae, the bacterial Xanthomonas campestris pv. raphani, the aphid Brevicoryne brassicae or by combined stresses eggs of P. brassicae / P. brassicae, X. campestris / P. brassicae, B. brassicae / P. brassicae.

2017-03-31 | E-MTAB-5059 | biostudies-arrayexpress

Chickpea Transcriptome Atlas - I

Project 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. 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.

2014-01-09 | E-GEOD-42679 | biostudies-arrayexpress

Small RNA Solexa sequencing of chickpea (Cicer arietinum)

Project description:The total RNA were extracted from pooled tissues of leaves and flowers from several plants of chickpea (Cicer arietinum) using TRIzol reagent (Invitrogen) according to the manufacturer's instructions. Then small RNAs ranging in 18–30 nucleotides were size fractionated electrophoretically, isolated from the gel, ligated with the 5′ and 3′ RNA adapters. The ligated product was reverse transcribed and subsequently amplified using 10–12 PCR cycles. The purified PCR product was sequenced using Illumina Genome Analyzer II. The qualified reads were used to predict microRNAs and phased small interfering RNAs from chickpea. Identification of microRNAs and phased small inferfering RNAs in chickpea (Cicer arietinum) by analyzing small RNA sequencing profiles of leaves and flowers using Illumina GAII.

2015-05-08 | E-GEOD-62216 | biostudies-arrayexpress

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