Critical review on unraveling uncultivable pesticide degraders via stable isotope probing (SIP)

Jiang, Bo and Jin, Naifu and Su, Yuping and Zhang, Dayi (2018) Critical review on unraveling uncultivable pesticide degraders via stable isotope probing (SIP). Critical Reviews in Biotechnology, 38 (7). pp. 1025-1048. ISSN 0738-8551

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Abstract

Uncultivable microorganisms account for over 99% of all species on earth, playing essential roles in ecological processes such as carbon/nitrogen cycle and chemical mineralization. Their functions remain unclear in ecosystems and natural habitats, requiring cutting-edge biotechnologies for a deeper understanding. Stable isotope probing (SIP) incorporates isotope-labeled elements, e.g. 13 C, 18 O or 15 N, into the cellular components of active microorganisms, serving as a powerful tool to link phylogenetic identities to their ecological functions in situ. Pesticides raise increasing attention for their persistence in the environment, leading to severe damage and risks to the ecosystem and human health. Cultivation and metagenomics help to identify either cultivable pesticide degraders or potential pesticide metabolisms within microbial communities, from various environmental media including the soil, groundwater, activated sludge, plant rhizosphere, etc. However, the application of SIP in characterizing pesticide degraders is limited, leaving considerable space in understanding the natural pesticide mineralization process. In this review, we try to comprehensively summarize the fundamental principles, successful cases and technical protocols of SIP in unraveling functional-yet-uncultivable pesticide degraders, by raising its shining lights and shadows. Particularly, this study provides deeper insights into various feasible isotope-labeled substrates in SIP studies, including pesticides, pesticide metabolites, and similar compounds. Coupled with other techniques, such as next-generation sequencing, nanoscale secondary ion mass spectrometry (NanoSIMS), single cell genomics, magnetic-nanoparticle-mediated isolation (MMI) and compound-specific isotope analysis (CSIA), SIP will significantly broaden our understanding of pesticide biodegradation process in situ.

Item Type:
Journal Article
Journal or Publication Title:
Critical Reviews in Biotechnology
Additional Information:
This is an Accepted Manuscript of an article published by Taylor & Francis in Critical Reviews in Biotechnology on 01/02/2018, available online: http://www.tandfonline.com/10.1080/07388551.2018.1427697
Uncontrolled Keywords:
/dk/atira/pure/subjectarea/asjc/1300/1305
Subjects:
ID Code:
89769
Deposited By:
Deposited On:
18 Jan 2018 11:38
Refereed?:
Yes
Published?:
Published
Last Modified:
10 Jul 2020 05:44