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Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources
Pearl millet, (Pennisetum glaucum L.), an efficient (C4) crop of arid/semi-arid regions is known for hardiness. Crop is valuable for bio-fortification combating malnutrition and diabetes, higher caloric value and wider climatic resilience. Limited studies are done in pot-based experiments for drough...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5821703/ https://www.ncbi.nlm.nih.gov/pubmed/29467369 http://dx.doi.org/10.1038/s41598-018-21560-1 |
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author | Jaiswal, Sarika Antala, Tushar J. Mandavia, M. K. Chopra, Meenu Jasrotia, Rahul Singh Tomar, Rukam S. Kheni, Jashminkumar Angadi, U. B. Iquebal, M. A. Golakia, B. A. Rai, Anil Kumar, Dinesh |
author_facet | Jaiswal, Sarika Antala, Tushar J. Mandavia, M. K. Chopra, Meenu Jasrotia, Rahul Singh Tomar, Rukam S. Kheni, Jashminkumar Angadi, U. B. Iquebal, M. A. Golakia, B. A. Rai, Anil Kumar, Dinesh |
author_sort | Jaiswal, Sarika |
collection | PubMed |
description | Pearl millet, (Pennisetum glaucum L.), an efficient (C4) crop of arid/semi-arid regions is known for hardiness. Crop is valuable for bio-fortification combating malnutrition and diabetes, higher caloric value and wider climatic resilience. Limited studies are done in pot-based experiments for drought response at gene-expression level, but field-based experiment mimicking drought by withdrawal of irrigation is still warranted. We report de novo assembly-based transcriptomic signature of drought response induced by irrigation withdrawal in pearl millet. We found 19983 differentially expressed genes, 7595 transcription factors, gene regulatory network having 45 hub genes controlling drought response. We report 34652 putative markers (4192 simple sequence repeats, 12111 SNPs and 6249 InDels). Study reveals role of purine and tryptophan metabolism in ABA accumulation mediating abiotic response in which MAPK acts as major intracellular signal sensing drought. Results were validated by qPCR of 13 randomly selected genes. We report the first web-based genomic resource (http://webtom.cabgrid.res.in/pmdtdb/) which can be used for candidate genes-based SNP discovery programs and trait-based association studies. Looking at climatic change, nutritional and pharmaceutical importance of this crop, present investigation has immense value in understanding drought response in field condition. This is important in germplasm management and improvement in endeavour of pearl millet productivity. |
format | Online Article Text |
id | pubmed-5821703 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-58217032018-02-26 Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources Jaiswal, Sarika Antala, Tushar J. Mandavia, M. K. Chopra, Meenu Jasrotia, Rahul Singh Tomar, Rukam S. Kheni, Jashminkumar Angadi, U. B. Iquebal, M. A. Golakia, B. A. Rai, Anil Kumar, Dinesh Sci Rep Article Pearl millet, (Pennisetum glaucum L.), an efficient (C4) crop of arid/semi-arid regions is known for hardiness. Crop is valuable for bio-fortification combating malnutrition and diabetes, higher caloric value and wider climatic resilience. Limited studies are done in pot-based experiments for drought response at gene-expression level, but field-based experiment mimicking drought by withdrawal of irrigation is still warranted. We report de novo assembly-based transcriptomic signature of drought response induced by irrigation withdrawal in pearl millet. We found 19983 differentially expressed genes, 7595 transcription factors, gene regulatory network having 45 hub genes controlling drought response. We report 34652 putative markers (4192 simple sequence repeats, 12111 SNPs and 6249 InDels). Study reveals role of purine and tryptophan metabolism in ABA accumulation mediating abiotic response in which MAPK acts as major intracellular signal sensing drought. Results were validated by qPCR of 13 randomly selected genes. We report the first web-based genomic resource (http://webtom.cabgrid.res.in/pmdtdb/) which can be used for candidate genes-based SNP discovery programs and trait-based association studies. Looking at climatic change, nutritional and pharmaceutical importance of this crop, present investigation has immense value in understanding drought response in field condition. This is important in germplasm management and improvement in endeavour of pearl millet productivity. Nature Publishing Group UK 2018-02-21 /pmc/articles/PMC5821703/ /pubmed/29467369 http://dx.doi.org/10.1038/s41598-018-21560-1 Text en © The Author(s) 2018 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Jaiswal, Sarika Antala, Tushar J. Mandavia, M. K. Chopra, Meenu Jasrotia, Rahul Singh Tomar, Rukam S. Kheni, Jashminkumar Angadi, U. B. Iquebal, M. A. Golakia, B. A. Rai, Anil Kumar, Dinesh Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources |
title | Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources |
title_full | Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources |
title_fullStr | Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources |
title_full_unstemmed | Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources |
title_short | Transcriptomic signature of drought response in pearl millet (Pennisetum glaucum (L.) and development of web-genomic resources |
title_sort | transcriptomic signature of drought response in pearl millet (pennisetum glaucum (l.) and development of web-genomic resources |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5821703/ https://www.ncbi.nlm.nih.gov/pubmed/29467369 http://dx.doi.org/10.1038/s41598-018-21560-1 |
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