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In silico analysis of functional linkage among arsenic induced MATE genes in rice
MATE genes play an important role in cellular detoxification processes. Nine MATE genes were identified by a transcriptomics study previously. Candidate gene prioritization was done where 29 new genes were found to interact with 09 guide genes. Therefore, a total of 38 genes were analyzed here to pr...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7231838/ https://www.ncbi.nlm.nih.gov/pubmed/32435604 http://dx.doi.org/10.1016/j.btre.2019.e00390 |
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author | Seth, Snigdhamayee Debnath, Sandip Chakraborty, N.R. |
author_facet | Seth, Snigdhamayee Debnath, Sandip Chakraborty, N.R. |
author_sort | Seth, Snigdhamayee |
collection | PubMed |
description | MATE genes play an important role in cellular detoxification processes. Nine MATE genes were identified by a transcriptomics study previously. Candidate gene prioritization was done where 29 new genes were found to interact with 09 guide genes. Therefore, a total of 38 genes were analyzed here to predict a concise model by gene prioritization study. Those genes were analyzed further in Rice Interactions Viewer programme, and based on high ICV, 10 new genes were found to interact among themselves at protein level. Surprisingly, only 05 genes were found to play a key role at protein level. These 15 genes were analyzed for their interaction with soil available inorganic arsenic species. Maximum expression levels were found mostly at young inflorescence and seed development stage for those genes. So, these genes may have a direct role in arsenic sequestration from cells and thereby providing safety to the developing embryo within the seed. |
format | Online Article Text |
id | pubmed-7231838 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-72318382020-05-20 In silico analysis of functional linkage among arsenic induced MATE genes in rice Seth, Snigdhamayee Debnath, Sandip Chakraborty, N.R. Biotechnol Rep (Amst) Research Article MATE genes play an important role in cellular detoxification processes. Nine MATE genes were identified by a transcriptomics study previously. Candidate gene prioritization was done where 29 new genes were found to interact with 09 guide genes. Therefore, a total of 38 genes were analyzed here to predict a concise model by gene prioritization study. Those genes were analyzed further in Rice Interactions Viewer programme, and based on high ICV, 10 new genes were found to interact among themselves at protein level. Surprisingly, only 05 genes were found to play a key role at protein level. These 15 genes were analyzed for their interaction with soil available inorganic arsenic species. Maximum expression levels were found mostly at young inflorescence and seed development stage for those genes. So, these genes may have a direct role in arsenic sequestration from cells and thereby providing safety to the developing embryo within the seed. Elsevier 2019-10-24 /pmc/articles/PMC7231838/ /pubmed/32435604 http://dx.doi.org/10.1016/j.btre.2019.e00390 Text en © 2019 Published by Elsevier B.V. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Research Article Seth, Snigdhamayee Debnath, Sandip Chakraborty, N.R. In silico analysis of functional linkage among arsenic induced MATE genes in rice |
title | In silico analysis of functional linkage among arsenic induced MATE genes in rice |
title_full | In silico analysis of functional linkage among arsenic induced MATE genes in rice |
title_fullStr | In silico analysis of functional linkage among arsenic induced MATE genes in rice |
title_full_unstemmed | In silico analysis of functional linkage among arsenic induced MATE genes in rice |
title_short | In silico analysis of functional linkage among arsenic induced MATE genes in rice |
title_sort | in silico analysis of functional linkage among arsenic induced mate genes in rice |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7231838/ https://www.ncbi.nlm.nih.gov/pubmed/32435604 http://dx.doi.org/10.1016/j.btre.2019.e00390 |
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