Please use this identifier to cite or link to this item:
http://223.31.159.10:8080/jspui/handle/123456789/1547
Full metadata record
DC Field | Value | Language |
---|---|---|
dc.contributor.author | Shekhawat, Pooja Kanwar | - |
dc.contributor.author | Sardar, Shaswati | - |
dc.contributor.author | Yadav, Banita | - |
dc.contributor.author | Salvi, Prafull | - |
dc.contributor.author | Soni, Praveen | - |
dc.contributor.author | Ram, Hasthi | - |
dc.date.accessioned | 2023-11-21T06:46:30Z | - |
dc.date.available | 2023-11-21T06:46:30Z | - |
dc.date.issued | 2023 | - |
dc.identifier.citation | Functional & Integrative Genomics, 23(4): 336 | en_US |
dc.identifier.issn | 1438-7948 | - |
dc.identifier.other | https://doi.org/10.1007/s10142-023-01265-z | - |
dc.identifier.uri | https://link.springer.com/article/10.1007/s10142-023-01265-z | - |
dc.identifier.uri | http://223.31.159.10:8080/jspui/handle/123456789/1547 | - |
dc.description | Accepted date: 06 November 2023 | en_US |
dc.description.abstract | Iron (Fe) is an important micronutrient for humans as well as for plant growth and development. Rice employs multiple mechanisms to counteract the negative effects of Fe deficiency and Fe toxicity. Previously, many transcriptomics studies have identified hundreds of genes affected by Fe deficiency and/or Fe toxicity. These studies are highly valuable to identify novel genes involved in Fe homeostasis. However, in the absence of their systematic integration, they remain underutilized. A systematic meta-analysis of transcriptomics data from such ten previous studies was performed here to identify various common attributes. From this meta-analysis, it is revealed that under Fe deficiency conditions, root transcriptome is more sensitive and exhibits greater similarity across multiple studies than the shoot transcriptome. Furthermore, under Fe toxicity conditions, upregulated genes are more reliable and consistent than downregulated genes in susceptible cultivars. The integration of data from Fe deficiency and Fe toxicity conditions helped to identify key marker genes for Fe stress. As a proof-of-concept of the analysis, among the genes consistently regulated in opposite directions under Fe deficiency and toxicity conditions, two genes were selected: a proton-dependent oligopeptide transporter (POT) family protein and Vacuolar Iron Transporter (VIT)-Like (VTL) gene, and validated their expression and sub-cellular localization. Since VIT genes are known to play an important role in Fe homeostasis in plants, the entire OsVTL gene family in rice was characterized. This meta-analysis has identified many novel candidate genes that exhibit consistent expression patterns across multiple tissues, conditions, and studies. This makes them potential targets for future research aimed at developing Fe-biofortified rice varieties, as well as varieties tolerant to sub-optimal Fe levels in soil. | en_US |
dc.description.sponsorship | HR would like acknowledge the funding received from Department of Biotechnology (DBT), Govt of India (Grant no. BT/ PR39021/AGIII/103/1226/2020), and Science and Engineering Research Board (SERB), Govt of India (Grant no. SRG/2021/001495), and Core research Grant from National Institute of Plant Genome Research (NIPGR), India. PS would like to acknowledge the Ministry of human resource development, Department of higher education, Government of India for the RUSA 2.0 programme (Thematic Project III), awarded to the Department of Botany, University of Rajasthan. BY acknowledges the Council of Scientifc and Industrial Research (CSIR), Govt. of India for research fellowship. The authors are thankful to DBT-eLibrary Consortium (DeLCON) for providing access to e-resources. The online version contains supplementary material available at https://doi.org/10.1007/s10142-023-01265-z. | en_US |
dc.language.iso | en_US | en_US |
dc.publisher | Springer Nature Publishing AG | en_US |
dc.subject | Gene expression | en_US |
dc.subject | Iron | en_US |
dc.subject | Meta-analysis | en_US |
dc.subject | Rice | en_US |
dc.subject | Transcriptomics | en_US |
dc.title | Meta-analysis of transcriptomics studies identifies novel attributes and set of genes involved in iron homeostasis in rice | en_US |
dc.type | Article | en_US |
Appears in Collections: | Institutional Publications |
Files in This Item:
File | Description | Size | Format | |
---|---|---|---|---|
Ram H_2023_4.pdf Restricted Access | 4.05 MB | Adobe PDF | View/Open Request a copy |
Items in IR@NIPGR are protected by copyright, with all rights reserved, unless otherwise indicated.