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Title: | Transcriptome landscape of perennial wild Cicer microphyllum uncovers functionally relevant molecular tags regulating agronomic traits in chickpea |
Authors: | Srivastava, Rishi Bajaj, Deepak Malik, Ayushi Singh, Mohar Parida, Swarup K. |
Keywords: | Gene expression Natural variation in plants Cicer microphyllum |
Issue Date: | 2016 |
Publisher: | Nature Publishing Group |
Citation: | Scientific Reports, 6: 33616 |
Abstract: | The RNA-sequencing followed by de-novo transcriptome assembly identified 11621 genes differentially xpressed in roots vs. shoots of a wild perennial Cicer microphyllum. Comparative analysis of transcriptomes between microphyllum and cultivated desi cv. ICC4958 detected 12772 including 3242 root- and 1639 shoot-specific microphyllum genes with 85% expression validation success rate. Transcriptional reprogramming of microphyllum root-specific genes implicates their possible role in regulating differential natural adaptive characteristics between wild and cultivated chickpea. The transcript-derived 5698 including 282 in-silico polymorphic SSR and 127038 SNP markers annotated at a genome-wide scale exhibited high amplification and polymorphic potential among cultivated (desi and kabuli) and wild accessions suggesting their utility in chickpea genomics-assisted breeding applications. The functional significance of markers was assessed based on their localization in non-synonymous coding and regulatory regions of microphyllum root-specific genes differentially expressed predominantly in ICC 4958 roots under drought stress. A high-density 490 genic SSR- and SNP markers-anchored genetic linkage map identified six major QTLs regulating drought tolerance-related traits, yield per plant and harvest-index in chickpea. The integration of high-resolution QTL mapping with comparative transcriptome profiling delineated five microphyllum root-specific genes with non-synonymous and regulatory SNPs governing drought-responsive yield traits. Multiple potential key regulators and functionally relevant molecular tags delineated can drive translational research and drought tolerance-mediated chickpea genetic enhancement. |
Description: | Accepted date: 26 August 2016 |
URI: | http://59.163.192.83:8080/jspui/handle/123456789/686 |
ISSN: | 2045-2322 |
Appears in Collections: | Institutional Publications |
Files in This Item:
File | Description | Size | Format | |
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Parida SK_2016_8.pdf | 2.46 MB | Adobe PDF | View/Open |
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