Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review
While chemical fertilisers and pesticides indeed enhance agricultural productivity, their excessive usage has been detrimental to environmental health. In addressing this matter, the use of environmental microbiomes has been greatly favoured as a ‘greener’ alternative to these inorganic chemicals’ a...
| Main Authors: | , , , , , |
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| Format: | Article |
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Multidisciplinary Digital Publishing Institute
2022
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| Online Access: | http://psasir.upm.edu.my/id/eprint/100137/ |
| _version_ | 1848863243470110720 |
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| author | Sharuddin, Siti Suhailah Ramli, Norhayati Mohd Yusoff, Mohd Zulkhairi Nor Muhammad, Nor Azlan Li, Sim Ho Maeda, Toshinari |
| author_facet | Sharuddin, Siti Suhailah Ramli, Norhayati Mohd Yusoff, Mohd Zulkhairi Nor Muhammad, Nor Azlan Li, Sim Ho Maeda, Toshinari |
| author_sort | Sharuddin, Siti Suhailah |
| building | UPM Institutional Repository |
| collection | Online Access |
| description | While chemical fertilisers and pesticides indeed enhance agricultural productivity, their excessive usage has been detrimental to environmental health. In addressing this matter, the use of environmental microbiomes has been greatly favoured as a ‘greener’ alternative to these inorganic chemicals’ application. Challenged by a significant proportion of unidentified microbiomes with unknown ecological functions, advanced high throughput metatranscriptomics is prudent to overcome the technological limitations in unfolding the previously undiscovered functional profiles of the beneficial microbiomes. Under this context, this review begins by summarising (1) the evolution of next-generation sequencing and metatranscriptomics in leveraging the microbiome transcriptome profiles through whole gene expression profiling. Next, the current environmental metatranscriptomics studies are reviewed, with the discussion centred on (2) the emerging application of the beneficial microbiomes in developing fertile soils and (3) the development of disease-suppressive soils as greener alternatives against biotic stress. As sustainable agriculture focuses not only on crop productivity but also long-term environmental sustainability, the second half of the review highlights the metatranscriptomics’ contribution in (4) revolutionising the pollution monitoring systems via specific bioindicators. Overall, growing knowledge on the complex microbiome functional profiles is imperative to unlock the unlimited potential of agricultural microbiome-based practices, which we believe hold the key to productive agriculture and sustainable environment. |
| first_indexed | 2025-11-15T13:29:49Z |
| format | Article |
| id | upm-100137 |
| institution | Universiti Putra Malaysia |
| institution_category | Local University |
| last_indexed | 2025-11-15T13:29:49Z |
| publishDate | 2022 |
| publisher | Multidisciplinary Digital Publishing Institute |
| recordtype | eprints |
| repository_type | Digital Repository |
| spelling | upm-1001372024-07-17T02:46:18Z http://psasir.upm.edu.my/id/eprint/100137/ Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review Sharuddin, Siti Suhailah Ramli, Norhayati Mohd Yusoff, Mohd Zulkhairi Nor Muhammad, Nor Azlan Li, Sim Ho Maeda, Toshinari While chemical fertilisers and pesticides indeed enhance agricultural productivity, their excessive usage has been detrimental to environmental health. In addressing this matter, the use of environmental microbiomes has been greatly favoured as a ‘greener’ alternative to these inorganic chemicals’ application. Challenged by a significant proportion of unidentified microbiomes with unknown ecological functions, advanced high throughput metatranscriptomics is prudent to overcome the technological limitations in unfolding the previously undiscovered functional profiles of the beneficial microbiomes. Under this context, this review begins by summarising (1) the evolution of next-generation sequencing and metatranscriptomics in leveraging the microbiome transcriptome profiles through whole gene expression profiling. Next, the current environmental metatranscriptomics studies are reviewed, with the discussion centred on (2) the emerging application of the beneficial microbiomes in developing fertile soils and (3) the development of disease-suppressive soils as greener alternatives against biotic stress. As sustainable agriculture focuses not only on crop productivity but also long-term environmental sustainability, the second half of the review highlights the metatranscriptomics’ contribution in (4) revolutionising the pollution monitoring systems via specific bioindicators. Overall, growing knowledge on the complex microbiome functional profiles is imperative to unlock the unlimited potential of agricultural microbiome-based practices, which we believe hold the key to productive agriculture and sustainable environment. Multidisciplinary Digital Publishing Institute 2022-03-29 Article PeerReviewed Sharuddin, Siti Suhailah and Ramli, Norhayati and Mohd Yusoff, Mohd Zulkhairi and Nor Muhammad, Nor Azlan and Li, Sim Ho and Maeda, Toshinari (2022) Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review. International Journal of Molecular Sciences, 23 (7). art. no. 3737. pp. 1-22. ISSN 1661-6596; ESSN: 1422-0067 https://www.mdpi.com/1422-0067/23/7/3737 10.3390/ijms23073737 |
| spellingShingle | Sharuddin, Siti Suhailah Ramli, Norhayati Mohd Yusoff, Mohd Zulkhairi Nor Muhammad, Nor Azlan Li, Sim Ho Maeda, Toshinari Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| title | Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| title_full | Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| title_fullStr | Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| title_full_unstemmed | Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| title_short | Advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| title_sort | advancement of metatranscriptomics towards productive agriculture and sustainable environment: a review |
| url | http://psasir.upm.edu.my/id/eprint/100137/ http://psasir.upm.edu.my/id/eprint/100137/ http://psasir.upm.edu.my/id/eprint/100137/ |