eprintid: 8669
rev_number: 12
eprint_status: archive
userid: 17
dir: disk0/00/00/86/69
datestamp: 2015-07-22 05:26:29
lastmod: 2016-10-21 06:41:58
status_changed: 2015-07-22 05:26:29
type: article
metadata_visibility: show
contact_email: Library-ICRISAT@CGIAR.ORG
creators_name: Srivastava, S
creators_name: Zheng, Y
creators_name: Kudapa, H
creators_name: Jagadeeswaran, G
creators_name: Hivrale, V
creators_name: Varshney, R K
creators_name: Sunkar, R
icrisatcreators_name: Kudapa, H
icrisatcreators_name: Varshney, R K
affiliation: Oklahoma State University (Stillwater)
affiliation: Kunming University of Science and Technology (Yunnan)
affiliation: ICRISAT (Patancheru)
affiliation: The University of Western Australia (Crawley)
country: USA
country: China
country: India
country: Australia
title: High throughput sequencing of small RNA component of leaves and inflorescence revealed conserved and novel miRNAs as well as phasiRNA loci in chickpea
ispublished: pub
subjects: s1.1
divisions: D3
crps: crp1.5
full_text_status: restricted
keywords: Chickpea, MicroRNAs, PhasiRNAs, Posttranscriptional gene regulation
abstract: Among legumes, chickpea (Cicer arietinum L.) is the second most important crop after soybean. MicroRNAs (miRNAs) play important roles by regulating target gene expression important for plant development and tolerance to stress conditions. Additionally, recently discovered phased siRNAs (phasiRNAs), a new class of small RNAs, are abundantly produced in legumes. Nevertheless, little is known about these regulatory molecules in chickpea. The small RNA population was sequenced from leaves and flowers of chickpea to identify conserved and novel miRNAs as well as phasiRNAs/phasiRNA loci. Bioinformatics analysis revealed 157 miRNA loci for the 96 highly conserved and known miRNA homologs belonging to 38 miRNA families in chickpea. Furthermore, 20 novel miRNAs belonging to 17 miRNA families were identified. Sequence analysis revealed approximately 60 phasiRNA loci. Potential target genes likely to be regulated by these miRNAs were predicted and some were confirmed by modified 5′ RACE assay. Predicted targets are mostly transcription factors that might be important for developmental processes, and others include superoxide dismutases, plantacyanin, laccases and F-box proteins that could participate in stress responses and protein degradation. Overall, this study provides an inventory of miRNA–target gene interactions for chickpea, useful for the comparative analysis of small RNAs among legumes.
date: 2015
date_type: published
publication: Plant Science
volume: 235
publisher: Elsevier
pagerange: 46-57
id_number: 10.1016/j.plantsci.2015.03.002
refereed: TRUE
issn: 0168-9452
official_url: http://dx.doi.org/10.1016/j.plantsci.2015.03.002
related_url_url: http://scholar.google.co.in/scholar?as_q=High+throughput+sequencing+of+small+RNA+component+of+leaves+and+inflorescence+revealed+conserved+and+novel+miRNAs+as+well+as+phasiRNA+loci+in+chickpea&as_epq=&as_oq=&as_eq=&as_occt=title&as_sauthors=&as_publication
related_url_type: pub
citation:   Srivastava, S and Zheng, Y and Kudapa, H and Jagadeeswaran, G and Hivrale, V and Varshney, R K and Sunkar, R  (2015) High throughput sequencing of small RNA component of leaves and inflorescence revealed conserved and novel miRNAs as well as phasiRNA loci in chickpea.  Plant Science, 235.  pp. 46-57.  ISSN 0168-9452     
document_url: http://oar.icrisat.org/8669/1/PlantScie_235_46%E2%80%9357_2015.pdf