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Bacterial community composition and structure in an Urban River impacted by different pollutant sources
Microbial communities in terrestrial fresh water are diverse and dynamic in composition due to different environmental factors. The goal of this study was to undertake a comprehensive analysis of bacterial composition along different rivers and creeks and correlate these to land-use practices and po...
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| Published in: | The Science of the total environment 2016-10, Vol.566-567, p.1176-1185 |
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| creator | Ibekwe, A. Mark Ma, Jincai Murinda, Shelton E. |
| description | Microbial communities in terrestrial fresh water are diverse and dynamic in composition due to different environmental factors. The goal of this study was to undertake a comprehensive analysis of bacterial composition along different rivers and creeks and correlate these to land-use practices and pollutant sources. Here we used 454 pyrosequencing to determine the total bacterial community composition, and bacterial communities that are potentially of fecal origin, and of relevance to water quality assessment. The results were analyzed using UniFrac coupled with principal coordinate analysis (PCoA) to compare diversity, abundance, and community composition. Detrended correspondence analysis (DCA) and canonical correspondence analysis (CCA) were used to correlate bacterial composition in streams and creeks to different environmental parameters impacting bacterial communities in the sediment and surface water within the watershed. Bacteria were dominated by the phyla Proteobacteria, Bacteroidetes, Acidobacteria, and Actinobacteria, with Bacteroidetes significantly (P |
| doi_str_mv | 10.1016/j.scitotenv.2016.05.168 |
| format | article |
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[Display omitted]
•pH, N, and P were the main nutrient sources impacting fecal indicator bacteria.•Bacteria responded differently to chemical and physical parameters.•Low flow and contaminants from urban environments decreased microbial composition.]]></description><identifier>ISSN: 0048-9697</identifier><identifier>EISSN: 1879-1026</identifier><identifier>DOI: 10.1016/j.scitotenv.2016.05.168</identifier><identifier>PMID: 27267715</identifier><language>eng</language><publisher>Netherlands: Elsevier B.V</publisher><subject>Acidobacteria ; Actinobacteria ; agricultural runoff ; bacteria ; Bacteria - classification ; bacterial communities ; Bacteroidetes ; California ; community structure ; correspondence analysis ; DNA, Bacterial - genetics ; environmental factors ; Environmental Monitoring ; Freshwater ; indicator species ; land use ; Microbial diversity ; Microbiota ; nitrogen dioxide ; Non-point source pollution ; pollutants ; Proteobacteria ; Pyrosequencing ; rivers ; Rivers - microbiology ; Sediment ; sediments ; sequence analysis ; Sequence Analysis, DNA ; species diversity ; streams ; Surface water ; urban runoff ; Water Pollution, Chemical - analysis ; water quality ; Watershed ; watersheds</subject><ispartof>The Science of the total environment, 2016-10, Vol.566-567, p.1176-1185</ispartof><rights>2016</rights><rights>Published by Elsevier B.V.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c552t-2f2fd8769bcd2bedfc35a96f416703654e577ec0374fb71cc15dd9a026474c563</citedby><cites>FETCH-LOGICAL-c552t-2f2fd8769bcd2bedfc35a96f416703654e577ec0374fb71cc15dd9a026474c563</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27903,27904</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/27267715$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Ibekwe, A. Mark</creatorcontrib><creatorcontrib>Ma, Jincai</creatorcontrib><creatorcontrib>Murinda, Shelton E.</creatorcontrib><title>Bacterial community composition and structure in an Urban River impacted by different pollutant sources</title><title>The Science of the total environment</title><addtitle>Sci Total Environ</addtitle><description><![CDATA[Microbial communities in terrestrial fresh water are diverse and dynamic in composition due to different environmental factors. The goal of this study was to undertake a comprehensive analysis of bacterial composition along different rivers and creeks and correlate these to land-use practices and pollutant sources. Here we used 454 pyrosequencing to determine the total bacterial community composition, and bacterial communities that are potentially of fecal origin, and of relevance to water quality assessment. The results were analyzed using UniFrac coupled with principal coordinate analysis (PCoA) to compare diversity, abundance, and community composition. Detrended correspondence analysis (DCA) and canonical correspondence analysis (CCA) were used to correlate bacterial composition in streams and creeks to different environmental parameters impacting bacterial communities in the sediment and surface water within the watershed. Bacteria were dominated by the phyla Proteobacteria, Bacteroidetes, Acidobacteria, and Actinobacteria, with Bacteroidetes significantly (P<0.001) higher in all water samples than sediment, where as Acidobacteria and Actinobacteria where significantly higher (P<0.05) in all the sediment samples than surface water. Overall results, using the β diversity measures, coupled with PCoA and DCA showed that bacterial composition in sediment and surface water was significantly different (P<0.001). Also, there were differences in bacterial community composition between agricultural runoff and urban runoff based on parsimony tests using 454 pyrosequencing data. Fecal indicator bacteria in surface water along different creeks and channels were significantly correlated with pH (P<0.01), NO2 (P<0.03), and NH4N (P<0.005); and in the sediment with NO3 (P<0.015). Our results suggest that microbial community compositions were influenced by several environmental factors, and pH, NO2, and NH4 were the major environmental factors driving FIB in surface water based on CCA analysis, while NO3 was the only factor in sediment.
[Display omitted]
•pH, N, and P were the main nutrient sources impacting fecal indicator bacteria.•Bacteria responded differently to chemical and physical parameters.•Low flow and contaminants from urban environments decreased microbial composition.]]></description><subject>Acidobacteria</subject><subject>Actinobacteria</subject><subject>agricultural runoff</subject><subject>bacteria</subject><subject>Bacteria - classification</subject><subject>bacterial communities</subject><subject>Bacteroidetes</subject><subject>California</subject><subject>community structure</subject><subject>correspondence analysis</subject><subject>DNA, Bacterial - genetics</subject><subject>environmental factors</subject><subject>Environmental Monitoring</subject><subject>Freshwater</subject><subject>indicator species</subject><subject>land use</subject><subject>Microbial diversity</subject><subject>Microbiota</subject><subject>nitrogen dioxide</subject><subject>Non-point source pollution</subject><subject>pollutants</subject><subject>Proteobacteria</subject><subject>Pyrosequencing</subject><subject>rivers</subject><subject>Rivers - microbiology</subject><subject>Sediment</subject><subject>sediments</subject><subject>sequence analysis</subject><subject>Sequence Analysis, DNA</subject><subject>species diversity</subject><subject>streams</subject><subject>Surface water</subject><subject>urban runoff</subject><subject>Water Pollution, Chemical - analysis</subject><subject>water quality</subject><subject>Watershed</subject><subject>watersheds</subject><issn>0048-9697</issn><issn>1879-1026</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><recordid>eNqNkcFu3CAQhlGVqtmmfYWUYy92ABuwj2mUtpEiRaqaM8IwVKxs4wJead8-WJvkmsyBGY2--UfMj9A3SmpKqLja18n4HDLMh5qVRk14TUX3Ae1oJ_uKEibO0I6Qtqt60ctz9DmlPSkhO_oJnTPJhJSU79C_H9pkiF6P2IRpWmefj1u1hOSzDzPWs8Upx9XkNQL2WwM_xqG8f_wBIvbTsilYPByx9c5BhDnjJYzjmnWpUlijgfQFfXR6TPD1OV-gx5-3f29-V_cPv-5uru8rwznLFXPM2U6KfjCWDWCdabjuhWupkKQRvAUuJRjSyNYNkhpDubW9Lt9tZWu4aC7Q95PuEsP_FVJWk08GxlHPENakWLlBw2TP-Jso7SjtCeta8h6UNLwTfEPlCTUxpBTBqSX6ScejokRt3qm9evVObd4pwlXxrkxePi9Zhwns69yLWQW4PgFQDnjwEDchmA1YH8FkZYN_c8kTEmmwXg</recordid><startdate>20161001</startdate><enddate>20161001</enddate><creator>Ibekwe, A. Mark</creator><creator>Ma, Jincai</creator><creator>Murinda, Shelton E.</creator><general>Elsevier B.V</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>7QH</scope><scope>7ST</scope><scope>7T7</scope><scope>7TV</scope><scope>7UA</scope><scope>8FD</scope><scope>C1K</scope><scope>F1W</scope><scope>FR3</scope><scope>H97</scope><scope>L.G</scope><scope>P64</scope><scope>SOI</scope><scope>7S9</scope><scope>L.6</scope></search><sort><creationdate>20161001</creationdate><title>Bacterial community composition and structure in an Urban River impacted by different pollutant sources</title><author>Ibekwe, A. Mark ; Ma, Jincai ; Murinda, Shelton E.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c552t-2f2fd8769bcd2bedfc35a96f416703654e577ec0374fb71cc15dd9a026474c563</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2016</creationdate><topic>Acidobacteria</topic><topic>Actinobacteria</topic><topic>agricultural runoff</topic><topic>bacteria</topic><topic>Bacteria - classification</topic><topic>bacterial communities</topic><topic>Bacteroidetes</topic><topic>California</topic><topic>community structure</topic><topic>correspondence analysis</topic><topic>DNA, Bacterial - genetics</topic><topic>environmental factors</topic><topic>Environmental Monitoring</topic><topic>Freshwater</topic><topic>indicator species</topic><topic>land use</topic><topic>Microbial diversity</topic><topic>Microbiota</topic><topic>nitrogen dioxide</topic><topic>Non-point source pollution</topic><topic>pollutants</topic><topic>Proteobacteria</topic><topic>Pyrosequencing</topic><topic>rivers</topic><topic>Rivers - microbiology</topic><topic>Sediment</topic><topic>sediments</topic><topic>sequence analysis</topic><topic>Sequence Analysis, DNA</topic><topic>species diversity</topic><topic>streams</topic><topic>Surface water</topic><topic>urban runoff</topic><topic>Water Pollution, Chemical - analysis</topic><topic>water quality</topic><topic>Watershed</topic><topic>watersheds</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Ibekwe, A. Mark</creatorcontrib><creatorcontrib>Ma, Jincai</creatorcontrib><creatorcontrib>Murinda, Shelton E.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Aqualine</collection><collection>Environment Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Pollution Abstracts</collection><collection>Water Resources Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ASFA: Aquatic Sciences and Fisheries Abstracts</collection><collection>Engineering Research Database</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) 3: Aquatic Pollution & Environmental Quality</collection><collection>Aquatic Science & Fisheries Abstracts (ASFA) Professional</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environment Abstracts</collection><collection>AGRICOLA</collection><collection>AGRICOLA - Academic</collection><jtitle>The Science of the total environment</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Ibekwe, A. Mark</au><au>Ma, Jincai</au><au>Murinda, Shelton E.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Bacterial community composition and structure in an Urban River impacted by different pollutant sources</atitle><jtitle>The Science of the total environment</jtitle><addtitle>Sci Total Environ</addtitle><date>2016-10-01</date><risdate>2016</risdate><volume>566-567</volume><spage>1176</spage><epage>1185</epage><pages>1176-1185</pages><issn>0048-9697</issn><eissn>1879-1026</eissn><abstract><![CDATA[Microbial communities in terrestrial fresh water are diverse and dynamic in composition due to different environmental factors. The goal of this study was to undertake a comprehensive analysis of bacterial composition along different rivers and creeks and correlate these to land-use practices and pollutant sources. Here we used 454 pyrosequencing to determine the total bacterial community composition, and bacterial communities that are potentially of fecal origin, and of relevance to water quality assessment. The results were analyzed using UniFrac coupled with principal coordinate analysis (PCoA) to compare diversity, abundance, and community composition. Detrended correspondence analysis (DCA) and canonical correspondence analysis (CCA) were used to correlate bacterial composition in streams and creeks to different environmental parameters impacting bacterial communities in the sediment and surface water within the watershed. Bacteria were dominated by the phyla Proteobacteria, Bacteroidetes, Acidobacteria, and Actinobacteria, with Bacteroidetes significantly (P<0.001) higher in all water samples than sediment, where as Acidobacteria and Actinobacteria where significantly higher (P<0.05) in all the sediment samples than surface water. Overall results, using the β diversity measures, coupled with PCoA and DCA showed that bacterial composition in sediment and surface water was significantly different (P<0.001). Also, there were differences in bacterial community composition between agricultural runoff and urban runoff based on parsimony tests using 454 pyrosequencing data. Fecal indicator bacteria in surface water along different creeks and channels were significantly correlated with pH (P<0.01), NO2 (P<0.03), and NH4N (P<0.005); and in the sediment with NO3 (P<0.015). Our results suggest that microbial community compositions were influenced by several environmental factors, and pH, NO2, and NH4 were the major environmental factors driving FIB in surface water based on CCA analysis, while NO3 was the only factor in sediment.
[Display omitted]
•pH, N, and P were the main nutrient sources impacting fecal indicator bacteria.•Bacteria responded differently to chemical and physical parameters.•Low flow and contaminants from urban environments decreased microbial composition.]]></abstract><cop>Netherlands</cop><pub>Elsevier B.V</pub><pmid>27267715</pmid><doi>10.1016/j.scitotenv.2016.05.168</doi><tpages>10</tpages><oa>free_for_read</oa></addata></record> |
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| identifier | ISSN: 0048-9697 |
| ispartof | The Science of the total environment, 2016-10, Vol.566-567, p.1176-1185 |
| issn | 0048-9697 1879-1026 |
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| subjects | Acidobacteria Actinobacteria agricultural runoff bacteria Bacteria - classification bacterial communities Bacteroidetes California community structure correspondence analysis DNA, Bacterial - genetics environmental factors Environmental Monitoring Freshwater indicator species land use Microbial diversity Microbiota nitrogen dioxide Non-point source pollution pollutants Proteobacteria Pyrosequencing rivers Rivers - microbiology Sediment sediments sequence analysis Sequence Analysis, DNA species diversity streams Surface water urban runoff Water Pollution, Chemical - analysis water quality Watershed watersheds |
| title | Bacterial community composition and structure in an Urban River impacted by different pollutant sources |
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