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Dissecting the root nodule transcriptome of chickpea (Cicer arietinum L.)

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Title Dissecting the root nodule transcriptome of chickpea (Cicer arietinum L.)
 
Creator Kant, Chandra
Pradhan, Seema
Bhatia, Sabhyata
 
Subject Chickpea
Cicer arietinum
Root Nodule
Transcriptome
 
Description Accepted date: June 7, 2016
A hallmark trait of chickpea (Cicer arietinum L.), like other legumes, is the capability to convert atmospheric nitrogen (N2) into ammonia (NH3) in symbiotic association with Mesorhizobium ciceri. However, the complexity of molecular networks associated with the dynamics of nodule development in chickpea need to be analyzed in depth. Hence, in order to gain insights into the chickpea nodule development, the transcriptomes of nodules at early, middle and late stages of development were sequenced using the Roche 454 platform. This generated 490.84 Mb sequence data comprising 1,360,251 reads which were assembled into 83,405 unigenes. Transcripts were annotated using Gene Ontology (GO), Cluster of Orthologous Groups (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) metabolic pathways analysis. Differential expression analysis revealed that a total of 3760 transcripts were differentially expressed in at least one of three stages, whereas 935, 117 and 2707 transcripts were found to be differentially expressed in the early, middle and late stages of nodule development respectively. MapMan analysis revealed enrichment of metabolic pathways such as transport, protein synthesis, signaling and carbohydrate metabolism during root nodulation. Transcription factors were predicted and analyzed for their differential expression during nodule development. Putative nodule specific transcripts were identified and enriched for GO categories using BiNGO which revealed many categories to be enriched during nodule development, including transcription regulators and transporters. Further, the assembled transcriptome was also used to mine for genic SSR markers. In conclusion, this study will help in enriching the transcriptomic resources implicated in understanding of root nodulation events in chickpea.
The study was funded by grant (BT/PR3305/AGR/2/816/2011) from Department of Biotechnology, India (http://www.dbtindia.nic.in). CK acknowledges the award of research fellowship from the Council of Scientific and Industrial Research (India). SP acknowledges the award of research fellowship from the Department of Biotechnology (India).
 
Date 2016-07-04T06:48:48Z
2016-07-04T06:48:48Z
2016
 
Type Article
 
Identifier PLoS One 11(6): e0157908
1932-6203
http://172.16.0.77:8080/jspui/handle/123456789/664
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0157908
10.1371/journal.pone.0157908
 
Language en_US
 
Publisher PLOS