eprintid: 11053
rev_number: 12
eprint_status: archive
userid: 1305
dir: disk0/00/01/10/53
datestamp: 2019-01-30 11:05:23
lastmod: 2019-01-30 11:05:23
status_changed: 2019-01-30 11:05:23
type: article
metadata_visibility: show
creators_name: Nagaraj, M
creators_name: Anil Kumar, S
creators_name: Reddy, P S
creators_name: Kumar, A
creators_name: Manohar Rao, D
creators_name: Kavi Kishor, P B
icrisatcreators_name: Reddy, P S
affiliation: Department of Genetics, Osmania University (Hyderabad)
affiliation: Department of Biotechnology, Vignan’s Foundation for Science, Technology and Research (Guntur)
affiliation: ICRISAT (Patancheru)
affiliation: Advance Center for Computational & Applied Biotechnology, Uttarakhand Council for Biotechnology (UCB) (Dehradun)
country: India
title: Genome-scale identification, classification, and tissue specific expression analysis of late embryogenesis abundant (LEA) genes under abiotic stress conditions in Sorghum bicolor L.
ispublished: pub
subjects: ABio
subjects: s1.4
subjects: s2.13
subjects: s2.18
divisions: CRPS3
full_text_status: public
keywords: environmental stresses, abiotic stress, Sorghum bicolor, genome scale identification, genome classification
note: MN is thankful to the UGC, New Delhi, for providing fellowship. PBK is thankful to the CSIR,
New Delhi, for providing CSIR-Emeritus Scientist Fellowship.
abstract: Late embryogenesis abundant (LEA) proteins, the space fillers or molecular shields, are the hydrophilic protective proteins which play an important role during plant development and abiotic stress. The systematic survey and characterization revealed a total of 68 LEA genes, belonging to 8 families in Sorghum bicolor. The LEA-2, a typical hydrophobic family is the most abundant family. All of them are evenly distributed on all 10 chromosomes and chromosomes 1, 2, and 3 appear to be the hot spots. Majority of the S. bicolor LEA (SbLEA) genes are intron less or have fewer introns. A total of 22 paralogous events were observed and majority of them appear to be segmental duplications. Segmental duplication played an important role in SbLEA-2 family expansion. A total of 12 orthologs were observed with Arabidopsis and 13 with Oryza sativa. Majority of them are basic in nature, and targeted by chloroplast subcellular localization. Fifteen miRNAs targeted to 25 SbLEAs appear to participate in development, as well as in abiotic stress tolerance. Promoter analysis revealed the presence of abiotic stress-responsive DRE, MYB, MYC, and GT1, biotic stress-responsive W-Box, hormone-responsive ABA, ERE, and TGA, and development-responsive SKn cis-elements. This reveals that LEA proteins play a vital role during stress tolerance and developmental processes. Using microarray data, 65 SbLEA genes were analyzed in different tissues (roots, pith, rind, internode, shoot, and leaf) which show clear tissue specific expression. qRT-PCR analysis of 23 SbLEA genes revealed their abundant expression in various tissues like roots, stems and leaves. Higher expression was noticed in stems compared to roots and leaves. Majority of the SbLEA family members were up-regulated at least in one tissue under different stress conditions. The SbLEA3-2 is the regulator, which showed abundant expression under diverse stress conditions. Present study provides new insights into the formation of LEAs in S. bicolor and to understand their role in developmental processes under stress conditions, which may be a valuable source for future research.
date: 2019-01
date_type: published
publication: PLoS ONE (TSI)
publisher: Public Library of Science
pagerange: 1-27
id_number: 10.1371/journal.pone.0209980
refereed: TRUE
issn: 1932-6203
official_url: https://doi.org/10.1371/journal.pone.0209980
citation:   Nagaraj, M and Anil Kumar, S and Reddy, P S and Kumar, A and Manohar Rao, D and Kavi Kishor, P B  (2019) Genome-scale identification, classification, and tissue specific expression analysis of late embryogenesis abundant (LEA) genes under abiotic stress conditions in Sorghum bicolor L.  PLoS ONE (TSI).  pp. 1-27.  ISSN 1932-6203     
document_url: http://oar.icrisat.org/11053/1/Genome-scale%20identification.pdf