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Global transcriptome and co-expression network analyses reveal cultivar-specific molecular signatures associated with seed development and seed size/weight determination in chickpea

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Title Global transcriptome and co-expression network analyses reveal cultivar-specific molecular signatures associated with seed development and seed size/weight determination in chickpea
 
Creator Garg, Rohini
Singh, Vikash K.
Rajkumar, Mohan Singh
Kumar, Vinay
Jain, Mukesh
 
Subject Cicer arietinum
GSE79719
GSE79720
co-expression network
gene expression
seed development
seed size/weight
transcriptional modules
transcriptome dynamics
 
Description Accepted date: 22 June 2017
Seed development is an intricate process regulated via a complex transcriptional regulatory network. To understand the molecular mechanisms governing seed development and seed size/weight in chickpea, we performed a comprehensive analysis of transcriptome dynamics during seed development in two cultivars with contrasting seed size/weight (small seeded, Himchana 1 and large-seeded, JGK 3). Our analysis identified stage-specific expression for a significant proportion (>13%) of the genes. About one-fourth of total genes exhibited significant differential expression in JGK 3 as compared to Himchana 1. We found that different seed development stages can be delineated by modules of co-expressed genes. A comparative analysis revealed differential developmental stage specificity of some modules between the two cultivars. Furthermore, we constructed transcriptional regulatory networks and identified key components determining seed size/weight. The results suggested that extended period of cell division during embryogenesis and higher level of endoreduplication along with more accumulation of storage compounds during maturation determine large seed size/weight. Further, we identified quantitative trait loci-associated candidate genes harboring single nucleotide polymorphisms in the promoter sequences that differentiate small- and large-seeded chickpea cultivars. The results provide a valuable resource to dissect the role of candidate genes governing seed development and seed size/weight in chickpea.
This work was supported by the Department of Biotechnology, Government of India, New Delhi (BT/AB/NIPGR/SEED BIOLOGY/2012). RG acknowledges INSPIRE Faculty Award from the Department of Science and Technology, Government of India, New Delhi. VKS acknowledges research fellowship from the Department of Biotechnology, Government of India, New Delhi. The authors declare no conflict of interest.
 
Date 2017-06-28T09:51:25Z
2017-06-28T09:51:25Z
2017
 
Type Article
 
Identifier Plant Journal, (In Press)
1365-313X
http://59.163.192.83:8080/jspui/handle/123456789/762
http://onlinelibrary.wiley.com/doi/10.1111/tpj.13621/abstract
10.1111/tpj.13621
 
Language en_US
 
Publisher John Wiley & Sons