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Authors Yadav, R; Lone, SA; Gaikwad, K; Singh, NK; Padaria, JC
Author Full Name Yadav, Radha; Lone, Showkat Ahmad; Gaikwad, Kishor; Singh, Nagendra Kumar; Padaria, Jasdeep Chatrath
Title Transcriptome sequence analysis and mining of SSRs in Jhar Ber (Ziziphus nummularia (Burm. f.) Wight & Arn) under drought stress
Source SCIENTIFIC REPORTS
Language English
Document Type Article
Keywords Plus RICE ORYZA-SATIVA; GENE-EXPRESSION; PLANT-RESPONSES; WATER-DEFICIT; ABSCISIC-ACID; SALT STRESS; TOLERANCE; BARLEY; EMBRYOGENESIS; TECHNOLOGIES
Abstract Ziziphus nummularia (Burm. f.) Wight & Arn., a perennial shrub that thrives in the arid regions, is naturally tolerant to drought. However, there are limited studies on the genomics of drought tolerance in Ziziphus sp. In this study, RNA-sequencing of one month old seedlings treated with PEG 6000 was performed using Roche GS-FLX454 Titanium pyrosequencing. A total of 367,176 raw sequence reads were generated, and upon adapter trimming and quality filtration 351,872 reads were assembled de novo into 32,739 unigenes. Further characterization of the unigenes indicated that 73.25% had significant hits in the protein database. Kyoto encyclopedia of genes and genomes database (KEGG) identified 113 metabolic pathways from the obtained unigenes. A large number of drought-responsive genes were obtained and among them differential gene expression of 16 highly induced genes was validated by qRT-PCR analysis. To develop genic-markers, 3,425 simple sequence repeats (SSRs) were identified in 2,813 unigene sequences. The data generated shall serve as an important reservoir for the identification and characterization of drought stress responsive genes for development of drought tolerant crops.
Author Address [Yadav, Radha; Lone, Showkat Ahmad; Gaikwad, Kishor; Singh, Nagendra Kumar; Padaria, Jasdeep Chatrath] NRCPB, ICAR, Biotechnol & Climate Change Grp, New Delhi 110012, India; [Lone, Showkat Ahmad] Aligarh Muslim Univ, Fac Agr Sci, Dept Agr Microbiol, Aligarh 202002, Uttar Pradesh, India
Reprint Address Padaria, JC (corresponding author), NRCPB, ICAR, Biotechnol & Climate Change Grp, New Delhi 110012, India.
E-mail Address jasdeep_kaur64@yahoo.co.in
ResearcherID Number Lone, Showkat/K-7652-2019; Padaria, Jasdeep Chatrath/B-4510-2012
ORCID Number Lone, Showkat/0000-0002-3712-917X;
Funding Agency and Grant Number National Agricultural Innovation Project (NAIP) [C30033]; National Innovations in Climate Resilient Agriculture (NICRA) of the Indian Council of Agricultural Research (ICAR), New Delhi, India
Funding Text This work was supported by the grants, C30033 of the National Agricultural Innovation Project (NAIP) and National Innovations in Climate Resilient Agriculture (NICRA) of the Indian Council of Agricultural Research (ICAR), New Delhi, India. We express sincere thanks to the Project Director, ICAR-National Research Centre on Plant Biotechnology for providing the 454 GS-FLX sequencing platform and other lab facilities to carry out this research work. We are also highly thankful to the Director, ICAR-Indian Agricultural Research Institute, New Delhi, India, for providing the facilities for seed germination and plant stress experiments at the National Phytotron Facility. We sincerely appreciate suggestions and encouragement by Dr. T. Mohapatra, Secretary, Department of Agricultural Research and Education & Director General, Indian Council of Agricultural Research, New Delhi, during the course of study.
Times Cited 2
Total Times Cited Count (WoS, BCI, and CSCD) 2
Publisher NATURE RESEARCH
Publisher City BERLIN
Publisher Address HEIDELBERGER PLATZ 3, BERLIN, 14197, GERMANY
ISSN 2045-2322
29-Character Source Abbreviation SCI REP-UK
ISO Source Abbreviation Sci Rep
Publication Date FEB 5
Year Published 2018
Volume 8
Article Number 2406
Digital Object Identifier (DOI) 10.1038/s41598-018-20548-1
Page Count 10
Web of Science Category Multidisciplinary Sciences
Subject Category Science & Technology - Other Topics
Document Delivery Number FU8FC
Unique Article Identifier WOS:000424087700078
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