Genetic sequence data evidence that human faecal‐associated HF183 sequences are on human skin and in urine
Aims The DNA marker HF183 is a partial 16S rRNA gene sequence highly specific to human‐associated Bacteroides including Bacteroides dorei. While HF183 is used to assess human faecal contamination in aquatic environments worldwide, little is known about the existence of HF183 and B. dorei in human mi...
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| Veröffentlicht in: | Journal of applied microbiology 2022-08, Vol.133 (2), p.232-240 |
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| creator | Li, Dong Van De Werfhorst, Laurie C. Holden, Patricia A. |
| description | Aims
The DNA marker HF183 is a partial 16S rRNA gene sequence highly specific to human‐associated Bacteroides including Bacteroides dorei. While HF183 is used to assess human faecal contamination in aquatic environments worldwide, little is known about the existence of HF183 and B. dorei in human microbiomes outside of the human gastrointestinal tract and faeces.
Methods and Results
Previously published human skin and urine microbiome data sets from five independent human body skin studies, the Human Microbiome Project (HMP) and three independent human urine studies were analysed. The HF183 gene sequence was detected in all skin data sets, with the ratios of positive samples ranging from 0.5% to 36.3%. Popliteal fossa (knee), volar forearm and inguinal (groin) creases were identified as hot spots. HF183 was detected in two of three urine data sets, with ratios of positive samples ranging from 0% to 37.5%. All HF183‐containing sequences from these data sets were classified as associated with B. dorei.
Conclusions
HF183 is widespread on human skin and present in urine.
Significance and Impact of Study
Skin and urine microbiomes could be sources of HF183 to environmental waters. Such non‐faecal sources of HF183 might explain low concentrations of HF183 in recreational waters when swimmers are present. |
| doi_str_mv | 10.1111/jam.15577 |
| format | Article |
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The DNA marker HF183 is a partial 16S rRNA gene sequence highly specific to human‐associated Bacteroides including Bacteroides dorei. While HF183 is used to assess human faecal contamination in aquatic environments worldwide, little is known about the existence of HF183 and B. dorei in human microbiomes outside of the human gastrointestinal tract and faeces.
Methods and Results
Previously published human skin and urine microbiome data sets from five independent human body skin studies, the Human Microbiome Project (HMP) and three independent human urine studies were analysed. The HF183 gene sequence was detected in all skin data sets, with the ratios of positive samples ranging from 0.5% to 36.3%. Popliteal fossa (knee), volar forearm and inguinal (groin) creases were identified as hot spots. HF183 was detected in two of three urine data sets, with ratios of positive samples ranging from 0% to 37.5%. All HF183‐containing sequences from these data sets were classified as associated with B. dorei.
Conclusions
HF183 is widespread on human skin and present in urine.
Significance and Impact of Study
Skin and urine microbiomes could be sources of HF183 to environmental waters. Such non‐faecal sources of HF183 might explain low concentrations of HF183 in recreational waters when swimmers are present.</description><identifier>ISSN: 1364-5072</identifier><identifier>EISSN: 1365-2672</identifier><identifier>DOI: 10.1111/jam.15577</identifier><identifier>PMID: 35429105</identifier><language>eng</language><publisher>England: Oxford University Press</publisher><subject>Aquatic environment ; Bacteroides dorei ; Contamination ; Datasets ; DNA sequencing ; Feces ; Gastrointestinal system ; Gastrointestinal tract ; HF183 ; human faecal contamination ; human microbiomes ; Low concentrations ; Microbiomes ; Nucleotide sequence ; Recreational waters ; rRNA 16S ; Skin ; Urine</subject><ispartof>Journal of applied microbiology, 2022-08, Vol.133 (2), p.232-240</ispartof><rights>2022 The Authors. published by John Wiley & Sons Ltd on behalf of Society for Applied Microbiology.</rights><rights>2022 The Authors. Journal of Applied Microbiology published by John Wiley & Sons Ltd on behalf of Society for Applied Microbiology.</rights><rights>2022. This article is published under http://creativecommons.org/licenses/by-nc/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c3887-8f9d6bdf1997d4a27f2afe299062af2be9b23ef95d3eee34ceaeab310da56f3e3</citedby><cites>FETCH-LOGICAL-c3887-8f9d6bdf1997d4a27f2afe299062af2be9b23ef95d3eee34ceaeab310da56f3e3</cites><orcidid>0000-0001-9990-7742</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1111%2Fjam.15577$$EPDF$$P50$$Gwiley$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1111%2Fjam.15577$$EHTML$$P50$$Gwiley$$Hfree_for_read</linktohtml><link.rule.ids>314,776,780,1411,27901,27902,45550,45551</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/35429105$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Li, Dong</creatorcontrib><creatorcontrib>Van De Werfhorst, Laurie C.</creatorcontrib><creatorcontrib>Holden, Patricia A.</creatorcontrib><title>Genetic sequence data evidence that human faecal‐associated HF183 sequences are on human skin and in urine</title><title>Journal of applied microbiology</title><addtitle>J Appl Microbiol</addtitle><description>Aims
The DNA marker HF183 is a partial 16S rRNA gene sequence highly specific to human‐associated Bacteroides including Bacteroides dorei. While HF183 is used to assess human faecal contamination in aquatic environments worldwide, little is known about the existence of HF183 and B. dorei in human microbiomes outside of the human gastrointestinal tract and faeces.
Methods and Results
Previously published human skin and urine microbiome data sets from five independent human body skin studies, the Human Microbiome Project (HMP) and three independent human urine studies were analysed. The HF183 gene sequence was detected in all skin data sets, with the ratios of positive samples ranging from 0.5% to 36.3%. Popliteal fossa (knee), volar forearm and inguinal (groin) creases were identified as hot spots. HF183 was detected in two of three urine data sets, with ratios of positive samples ranging from 0% to 37.5%. All HF183‐containing sequences from these data sets were classified as associated with B. dorei.
Conclusions
HF183 is widespread on human skin and present in urine.
Significance and Impact of Study
Skin and urine microbiomes could be sources of HF183 to environmental waters. Such non‐faecal sources of HF183 might explain low concentrations of HF183 in recreational waters when swimmers are present.</description><subject>Aquatic environment</subject><subject>Bacteroides dorei</subject><subject>Contamination</subject><subject>Datasets</subject><subject>DNA sequencing</subject><subject>Feces</subject><subject>Gastrointestinal system</subject><subject>Gastrointestinal tract</subject><subject>HF183</subject><subject>human faecal contamination</subject><subject>human microbiomes</subject><subject>Low concentrations</subject><subject>Microbiomes</subject><subject>Nucleotide sequence</subject><subject>Recreational waters</subject><subject>rRNA 16S</subject><subject>Skin</subject><subject>Urine</subject><issn>1364-5072</issn><issn>1365-2672</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2022</creationdate><recordtype>article</recordtype><sourceid>24P</sourceid><recordid>eNp1kT1OxDAQhS0E4r_gAsgSDRRZ_BM7cYkQsCAQDdTRJB6LLIkDcQKi4wickZNgdhcKJKaZGembp6d5hOxxNuGxjmfQTrhSWbZCNrnUKhE6E6vzOU0Uy8QG2QphxhiXTOl1siFVKgxnapM0F-hxqCsa8HlEXyG1MADFl9rOt-EBBvowtuCpA6yg-Xz_gBC6qoYBLZ2e81z-3gYKPdLOLw_CY-0peEtjG_va4w5Zc9AE3F32bXJ_fnZ3Ok2uby8uT0-uk0rmeZbkzlhdWseNyWwKInMCHApjmI6DKNGUQqIzykpElGmFgFBKziwo7STKbXK40H3qu-gsDEVbhwqbBjx2YyiEVlznaWZ0RA_-oLNu7H10FymTG6VZnkbqaEFVfRdCj6546usW-reCs-I7giJGUMwjiOz-UnEsW7S_5M_PI3C8AF7rBt_-VyquTm4Wkl-vlJFh</recordid><startdate>202208</startdate><enddate>202208</enddate><creator>Li, Dong</creator><creator>Van De Werfhorst, Laurie C.</creator><creator>Holden, Patricia A.</creator><general>Oxford University Press</general><scope>24P</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7QO</scope><scope>7T7</scope><scope>7TM</scope><scope>7U7</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0001-9990-7742</orcidid></search><sort><creationdate>202208</creationdate><title>Genetic sequence data evidence that human faecal‐associated HF183 sequences are on human skin and in urine</title><author>Li, Dong ; Van De Werfhorst, Laurie C. ; Holden, Patricia A.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c3887-8f9d6bdf1997d4a27f2afe299062af2be9b23ef95d3eee34ceaeab310da56f3e3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2022</creationdate><topic>Aquatic environment</topic><topic>Bacteroides dorei</topic><topic>Contamination</topic><topic>Datasets</topic><topic>DNA sequencing</topic><topic>Feces</topic><topic>Gastrointestinal system</topic><topic>Gastrointestinal tract</topic><topic>HF183</topic><topic>human faecal contamination</topic><topic>human microbiomes</topic><topic>Low concentrations</topic><topic>Microbiomes</topic><topic>Nucleotide sequence</topic><topic>Recreational waters</topic><topic>rRNA 16S</topic><topic>Skin</topic><topic>Urine</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Dong</creatorcontrib><creatorcontrib>Van De Werfhorst, Laurie C.</creatorcontrib><creatorcontrib>Holden, Patricia A.</creatorcontrib><collection>Wiley Online Library Open Access</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Toxicology Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Journal of applied microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Dong</au><au>Van De Werfhorst, Laurie C.</au><au>Holden, Patricia A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genetic sequence data evidence that human faecal‐associated HF183 sequences are on human skin and in urine</atitle><jtitle>Journal of applied microbiology</jtitle><addtitle>J Appl Microbiol</addtitle><date>2022-08</date><risdate>2022</risdate><volume>133</volume><issue>2</issue><spage>232</spage><epage>240</epage><pages>232-240</pages><issn>1364-5072</issn><eissn>1365-2672</eissn><abstract>Aims
The DNA marker HF183 is a partial 16S rRNA gene sequence highly specific to human‐associated Bacteroides including Bacteroides dorei. While HF183 is used to assess human faecal contamination in aquatic environments worldwide, little is known about the existence of HF183 and B. dorei in human microbiomes outside of the human gastrointestinal tract and faeces.
Methods and Results
Previously published human skin and urine microbiome data sets from five independent human body skin studies, the Human Microbiome Project (HMP) and three independent human urine studies were analysed. The HF183 gene sequence was detected in all skin data sets, with the ratios of positive samples ranging from 0.5% to 36.3%. Popliteal fossa (knee), volar forearm and inguinal (groin) creases were identified as hot spots. HF183 was detected in two of three urine data sets, with ratios of positive samples ranging from 0% to 37.5%. All HF183‐containing sequences from these data sets were classified as associated with B. dorei.
Conclusions
HF183 is widespread on human skin and present in urine.
Significance and Impact of Study
Skin and urine microbiomes could be sources of HF183 to environmental waters. Such non‐faecal sources of HF183 might explain low concentrations of HF183 in recreational waters when swimmers are present.</abstract><cop>England</cop><pub>Oxford University Press</pub><pmid>35429105</pmid><doi>10.1111/jam.15577</doi><tpages>9</tpages><orcidid>https://orcid.org/0000-0001-9990-7742</orcidid><oa>free_for_read</oa></addata></record> |
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| source | Oxford University Press Journals All Titles (1996-Current); Wiley Online Library Journals Frontfile Complete |
| subjects | Aquatic environment Bacteroides dorei Contamination Datasets DNA sequencing Feces Gastrointestinal system Gastrointestinal tract HF183 human faecal contamination human microbiomes Low concentrations Microbiomes Nucleotide sequence Recreational waters rRNA 16S Skin Urine |
| title | Genetic sequence data evidence that human faecal‐associated HF183 sequences are on human skin and in urine |
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