Soil bacterial communities and their associated functions for forest restoration on a limestone mine in northern Thailand
Opencast mining removes topsoil and associated bacterial communities that play crucial roles in soil ecosystem functioning. Understanding the community composition and functioning of these organisms may lead to improve mine-rehabilitation practices. We used a culture-dependent method, combined with...
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| creator | Sansupa, Chakriya Purahong, Witoon Wubet, Tesfaye Tiansawat, Pimonrat Pathom-Aree, Wasu Teaumroong, Neung Chantawannakul, Panuwan Buscot, François Elliott, Stephen Disayathanoowat, Terd |
| description | Opencast mining removes topsoil and associated bacterial communities that play crucial roles in soil ecosystem functioning. Understanding the community composition and functioning of these organisms may lead to improve mine-rehabilitation practices. We used a culture-dependent method, combined with Illumina sequencing, to compare the taxonomic richness and composition of living bacterial communities in opencast mine substrates and young mine-rehabilitation plots, with those of soil in adjacent remnant forest at a limestone mine in northern Thailand. We further investigated the effects of soil physico-chemical factors and ground-flora cover on the same. Although, loosened subsoil, brought in to initiate rehabilitation, improved water retention and facilitated plant re-establishment, it did not increase the population density of living microbes substantially within 9 months. Planted trees and sparse ground flora in young rehabilitation plots had not ameliorated the micro-habitat enough to change the taxonomic composition of the soil bacteria compared with non-rehabilitated mine sites. Viable microbes were significantly more abundant in forest soil than in mine substrates. The living bacterial community composition differed significantly, between the forest plots and both the mine and rehabilitation plots. Proteobacteria dominated in forest soil, whereas Firmicutes dominated in samples from both mine and rehabilitation plots. Although, several bacterial taxa could survive in the mine substrate, soil ecosystem functions were greatly reduced. Bacteria, capable of chitinolysis, aromatic compound degradation, ammonification and nitrate reduction were all absent or rare in the mine substrate. Functional redundancy of the bacterial communities in both mine substrate and young mine-rehabilitation soil was substantially reduced, compared with that of forest soil. Promoting the recovery of microbial biomass and functional diversity, early during mine rehabilitation, is recommended, to accelerate soil ecosystem restoration and support vegetation recovery. Moreover, if inoculation is included in mine rehabilitation programs, the genera: Bacillus, Streptomyces and Arthrobacter are likely to be of particular interest, since these genera can be cultivated easily and this study showed that they can survive under the extreme conditions that prevail on opencast mines. |
| doi_str_mv | 10.1371/journal.pone.0248806 |
| format | Article |
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Understanding the community composition and functioning of these organisms may lead to improve mine-rehabilitation practices. We used a culture-dependent method, combined with Illumina sequencing, to compare the taxonomic richness and composition of living bacterial communities in opencast mine substrates and young mine-rehabilitation plots, with those of soil in adjacent remnant forest at a limestone mine in northern Thailand. We further investigated the effects of soil physico-chemical factors and ground-flora cover on the same. Although, loosened subsoil, brought in to initiate rehabilitation, improved water retention and facilitated plant re-establishment, it did not increase the population density of living microbes substantially within 9 months. Planted trees and sparse ground flora in young rehabilitation plots had not ameliorated the micro-habitat enough to change the taxonomic composition of the soil bacteria compared with non-rehabilitated mine sites. Viable microbes were significantly more abundant in forest soil than in mine substrates. The living bacterial community composition differed significantly, between the forest plots and both the mine and rehabilitation plots. Proteobacteria dominated in forest soil, whereas Firmicutes dominated in samples from both mine and rehabilitation plots. Although, several bacterial taxa could survive in the mine substrate, soil ecosystem functions were greatly reduced. Bacteria, capable of chitinolysis, aromatic compound degradation, ammonification and nitrate reduction were all absent or rare in the mine substrate. Functional redundancy of the bacterial communities in both mine substrate and young mine-rehabilitation soil was substantially reduced, compared with that of forest soil. Promoting the recovery of microbial biomass and functional diversity, early during mine rehabilitation, is recommended, to accelerate soil ecosystem restoration and support vegetation recovery. Moreover, if inoculation is included in mine rehabilitation programs, the genera: Bacillus, Streptomyces and Arthrobacter are likely to be of particular interest, since these genera can be cultivated easily and this study showed that they can survive under the extreme conditions that prevail on opencast mines.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0248806</identifier><identifier>PMID: 33831034</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agricultural technology ; Bacteria ; Biodegradation ; Biodiversity ; Biology ; Biology and Life Sciences ; Biotechnology ; Chemical properties ; Composition ; Computer and Information Sciences ; Deoxyribonucleic acid ; DNA ; Earth Sciences ; Ecological restoration ; Ecology ; Ecology and Environmental Sciences ; Ecosystem biology ; Ecosystem structure ; Editing ; Environmental aspects ; Environmental research ; Environmental restoration ; Environmental science ; Flora ; Forest soils ; Forestry research ; Forests ; Land degradation ; Land use ; Limestone ; Methods ; Mines and mineral resources ; Mining ; Next-generation sequencing ; Physicochemical properties ; Plant communities ; Rehabilitation ; Research and analysis methods ; Research facilities ; Restoration ; Reviews ; Soil bacteria ; Soil chemistry ; Soil ecology ; Soil microbiology ; Soil microorganisms ; Soil properties ; Soils ; Substrates ; Taxonomy ; Trees ; Vegetation</subject><ispartof>PloS one, 2021-04, Vol.16 (4), p.e0248806-e0248806</ispartof><rights>COPYRIGHT 2021 Public Library of Science</rights><rights>2021 Sansupa et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. 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Understanding the community composition and functioning of these organisms may lead to improve mine-rehabilitation practices. We used a culture-dependent method, combined with Illumina sequencing, to compare the taxonomic richness and composition of living bacterial communities in opencast mine substrates and young mine-rehabilitation plots, with those of soil in adjacent remnant forest at a limestone mine in northern Thailand. We further investigated the effects of soil physico-chemical factors and ground-flora cover on the same. Although, loosened subsoil, brought in to initiate rehabilitation, improved water retention and facilitated plant re-establishment, it did not increase the population density of living microbes substantially within 9 months. Planted trees and sparse ground flora in young rehabilitation plots had not ameliorated the micro-habitat enough to change the taxonomic composition of the soil bacteria compared with non-rehabilitated mine sites. Viable microbes were significantly more abundant in forest soil than in mine substrates. The living bacterial community composition differed significantly, between the forest plots and both the mine and rehabilitation plots. Proteobacteria dominated in forest soil, whereas Firmicutes dominated in samples from both mine and rehabilitation plots. Although, several bacterial taxa could survive in the mine substrate, soil ecosystem functions were greatly reduced. Bacteria, capable of chitinolysis, aromatic compound degradation, ammonification and nitrate reduction were all absent or rare in the mine substrate. Functional redundancy of the bacterial communities in both mine substrate and young mine-rehabilitation soil was substantially reduced, compared with that of forest soil. Promoting the recovery of microbial biomass and functional diversity, early during mine rehabilitation, is recommended, to accelerate soil ecosystem restoration and support vegetation recovery. 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bacterial communities and their associated functions for forest restoration on a limestone mine in northern Thailand</title><author>Sansupa, Chakriya ; Purahong, Witoon ; Wubet, Tesfaye ; Tiansawat, Pimonrat ; Pathom-Aree, Wasu ; Teaumroong, Neung ; Chantawannakul, Panuwan ; Buscot, François ; Elliott, Stephen ; Disayathanoowat, Terd</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-442e2e947fc7cf7ef5f92684597280ee45df8343350752724ab5c8594352406d3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Agricultural technology</topic><topic>Bacteria</topic><topic>Biodegradation</topic><topic>Biodiversity</topic><topic>Biology</topic><topic>Biology and Life Sciences</topic><topic>Biotechnology</topic><topic>Chemical properties</topic><topic>Composition</topic><topic>Computer and Information Sciences</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Earth 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Science Collection</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sansupa, Chakriya</au><au>Purahong, Witoon</au><au>Wubet, Tesfaye</au><au>Tiansawat, Pimonrat</au><au>Pathom-Aree, Wasu</au><au>Teaumroong, Neung</au><au>Chantawannakul, Panuwan</au><au>Buscot, François</au><au>Elliott, Stephen</au><au>Disayathanoowat, Terd</au><au>Shahzad, Tanvir</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Soil bacterial communities and their associated functions for forest restoration on a limestone mine in northern Thailand</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2021-04-08</date><risdate>2021</risdate><volume>16</volume><issue>4</issue><spage>e0248806</spage><epage>e0248806</epage><pages>e0248806-e0248806</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Opencast mining removes topsoil and associated bacterial communities that play crucial roles in soil ecosystem functioning. Understanding the community composition and functioning of these organisms may lead to improve mine-rehabilitation practices. We used a culture-dependent method, combined with Illumina sequencing, to compare the taxonomic richness and composition of living bacterial communities in opencast mine substrates and young mine-rehabilitation plots, with those of soil in adjacent remnant forest at a limestone mine in northern Thailand. We further investigated the effects of soil physico-chemical factors and ground-flora cover on the same. Although, loosened subsoil, brought in to initiate rehabilitation, improved water retention and facilitated plant re-establishment, it did not increase the population density of living microbes substantially within 9 months. Planted trees and sparse ground flora in young rehabilitation plots had not ameliorated the micro-habitat enough to change the taxonomic composition of the soil bacteria compared with non-rehabilitated mine sites. Viable microbes were significantly more abundant in forest soil than in mine substrates. The living bacterial community composition differed significantly, between the forest plots and both the mine and rehabilitation plots. Proteobacteria dominated in forest soil, whereas Firmicutes dominated in samples from both mine and rehabilitation plots. Although, several bacterial taxa could survive in the mine substrate, soil ecosystem functions were greatly reduced. Bacteria, capable of chitinolysis, aromatic compound degradation, ammonification and nitrate reduction were all absent or rare in the mine substrate. Functional redundancy of the bacterial communities in both mine substrate and young mine-rehabilitation soil was substantially reduced, compared with that of forest soil. Promoting the recovery of microbial biomass and functional diversity, early during mine rehabilitation, is recommended, to accelerate soil ecosystem restoration and support vegetation recovery. Moreover, if inoculation is included in mine rehabilitation programs, the genera: Bacillus, Streptomyces and Arthrobacter are likely to be of particular interest, since these genera can be cultivated easily and this study showed that they can survive under the extreme conditions that prevail on opencast mines.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>33831034</pmid><doi>10.1371/journal.pone.0248806</doi><tpages>e0248806</tpages><orcidid>https://orcid.org/0000-0002-6416-2266</orcidid><orcidid>https://orcid.org/0000-0002-4113-6428</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2021-04, Vol.16 (4), p.e0248806-e0248806 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_2510234588 |
| source | DOAJ Directory of Open Access Journals; Public Library of Science (PLoS); EZB-FREE-00999 freely available EZB journals; PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Agricultural technology Bacteria Biodegradation Biodiversity Biology Biology and Life Sciences Biotechnology Chemical properties Composition Computer and Information Sciences Deoxyribonucleic acid DNA Earth Sciences Ecological restoration Ecology Ecology and Environmental Sciences Ecosystem biology Ecosystem structure Editing Environmental aspects Environmental research Environmental restoration Environmental science Flora Forest soils Forestry research Forests Land degradation Land use Limestone Methods Mines and mineral resources Mining Next-generation sequencing Physicochemical properties Plant communities Rehabilitation Research and analysis methods Research facilities Restoration Reviews Soil bacteria Soil chemistry Soil ecology Soil microbiology Soil microorganisms Soil properties Soils Substrates Taxonomy Trees Vegetation |
| title | Soil bacterial communities and their associated functions for forest restoration on a limestone mine in northern Thailand |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-01-12T18%3A46%3A01IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-gale_plos_&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Soil%20bacterial%20communities%20and%20their%20associated%20functions%20for%20forest%20restoration%20on%20a%20limestone%20mine%20in%20northern%20Thailand&rft.jtitle=PloS%20one&rft.au=Sansupa,%20Chakriya&rft.date=2021-04-08&rft.volume=16&rft.issue=4&rft.spage=e0248806&rft.epage=e0248806&rft.pages=e0248806-e0248806&rft.issn=1932-6203&rft.eissn=1932-6203&rft_id=info:doi/10.1371/journal.pone.0248806&rft_dat=%3Cgale_plos_%3EA657819744%3C/gale_plos_%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=2510234588&rft_id=info:pmid/33831034&rft_galeid=A657819744&rft_doaj_id=oai_doaj_org_article_5370482711454df1b36352e8ed809c42&rfr_iscdi=true |