Emendation of the Genus Auritidibacter Yassin et al. 2011 and Auritidibacter ignavus Yassin et al. 2011 based on features observed from Canadian and Swiss clinical isolates and whole-genome sequencing analysis
is a Gram-stain-positive bacillus derived from otorrhea. Four strains derived from ear discharges in Canada and Switzerland, with features consistent with but distinguishable from IMMIB L-1656 (accession number FN554542) by 16S rRNA gene sequencing (97.5 % similarity), were thought to represent a no...
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Veröffentlicht in: | International journal of systematic and evolutionary microbiology 2020-01, Vol.70 (1), p.83-88 |
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creator | Bernard, K A Pacheco, A L Burdz, T Wiebe, D Beniac, D R Hiebert, S L Booth, T F Jakopp, B Goldenberger, D Seth-Smith, H M B Egli, A Bernier, A-M |
description | is a Gram-stain-positive bacillus derived from otorrhea. Four strains derived from ear discharges in Canada and Switzerland, with features consistent with but distinguishable from
IMMIB L-1656
(accession number FN554542) by 16S rRNA gene sequencing (97.5 % similarity), were thought to represent a novel species of the genus
.
DSM 45359
(=IMMIB L-1656
) was acquired to compare with Canadian and Swiss strains by whole-genome sequencing (WGS). Unexpectedly, those isolates were observed to be consistent with
DSM 45359
by WGS (ANIb scores >98 %), MALDI-TOF (Bruker), cellular fatty acid analysis and biochemically (some differences were observed). A nearly full 16S rRNA gene sequence could not be readily prepared from
DSM 45359
, even after multiple attempts. A 16S rRNA gene chimeric consensus sequence created from the genome assembly of
DSM 45359
had only 97.5 % similarity to that of
IMMIB L-1656
, implying that 16S rRNA sequence accession number FN554542 could not be replicated. We concluded that our isolates of members of the genus
were consistent with
DSM 45359
, did not represent a novel species, and that the sequence corresponding to FN554542 was not reproducible. By WGS,
DSM 45359
had genome of 2.53×10
bp with a DNA G+C content of 59.34%, while genomes of Canadian and Swiss isolates ranged from 2.47 to 2.59×10
bp with DNA G+C contents of 59.3-59.52 %.
NML 100628 (=NCTC 14178=LMG 30897) did not demonstrate a rodcoccus cycle. Emendation of
was proposed based on these results. |
doi_str_mv | 10.1099/ijsem.0.003719 |
format | Article |
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IMMIB L-1656
(accession number FN554542) by 16S rRNA gene sequencing (97.5 % similarity), were thought to represent a novel species of the genus
.
DSM 45359
(=IMMIB L-1656
) was acquired to compare with Canadian and Swiss strains by whole-genome sequencing (WGS). Unexpectedly, those isolates were observed to be consistent with
DSM 45359
by WGS (ANIb scores >98 %), MALDI-TOF (Bruker), cellular fatty acid analysis and biochemically (some differences were observed). A nearly full 16S rRNA gene sequence could not be readily prepared from
DSM 45359
, even after multiple attempts. A 16S rRNA gene chimeric consensus sequence created from the genome assembly of
DSM 45359
had only 97.5 % similarity to that of
IMMIB L-1656
, implying that 16S rRNA sequence accession number FN554542 could not be replicated. We concluded that our isolates of members of the genus
were consistent with
DSM 45359
, did not represent a novel species, and that the sequence corresponding to FN554542 was not reproducible. By WGS,
DSM 45359
had genome of 2.53×10
bp with a DNA G+C content of 59.34%, while genomes of Canadian and Swiss isolates ranged from 2.47 to 2.59×10
bp with DNA G+C contents of 59.3-59.52 %.
NML 100628 (=NCTC 14178=LMG 30897) did not demonstrate a rodcoccus cycle. Emendation of
was proposed based on these results.</description><identifier>ISSN: 1466-5026</identifier><identifier>EISSN: 1466-5034</identifier><identifier>DOI: 10.1099/ijsem.0.003719</identifier><identifier>PMID: 31596191</identifier><language>eng</language><publisher>England</publisher><subject>Aged ; Bacterial Typing Techniques ; Base Composition ; Canada ; DNA, Bacterial - genetics ; Ear - microbiology ; Fatty Acids - chemistry ; Female ; Humans ; Male ; Micrococcaceae - classification ; Middle Aged ; Nucleic Acid Hybridization ; Phylogeny ; RNA, Ribosomal, 16S - genetics ; Sequence Analysis, DNA ; Switzerland</subject><ispartof>International journal of systematic and evolutionary microbiology, 2020-01, Vol.70 (1), p.83-88</ispartof><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c335t-390d8a20121603ac4caf409cf860df769815305c506c742088de79c56debefcb3</citedby><cites>FETCH-LOGICAL-c335t-390d8a20121603ac4caf409cf860df769815305c506c742088de79c56debefcb3</cites><orcidid>0000-0002-4807-424X ; 0000-0002-9796-2702 ; 0000-0002-3788-3818 ; 0000-0003-1420-8323 ; 0000-0002-6082-5114</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,3745,27923,27924</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31596191$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Bernard, K A</creatorcontrib><creatorcontrib>Pacheco, A L</creatorcontrib><creatorcontrib>Burdz, T</creatorcontrib><creatorcontrib>Wiebe, D</creatorcontrib><creatorcontrib>Beniac, D R</creatorcontrib><creatorcontrib>Hiebert, S L</creatorcontrib><creatorcontrib>Booth, T F</creatorcontrib><creatorcontrib>Jakopp, B</creatorcontrib><creatorcontrib>Goldenberger, D</creatorcontrib><creatorcontrib>Seth-Smith, H M B</creatorcontrib><creatorcontrib>Egli, A</creatorcontrib><creatorcontrib>Bernier, A-M</creatorcontrib><title>Emendation of the Genus Auritidibacter Yassin et al. 2011 and Auritidibacter ignavus Yassin et al. 2011 based on features observed from Canadian and Swiss clinical isolates and whole-genome sequencing analysis</title><title>International journal of systematic and evolutionary microbiology</title><addtitle>Int J Syst Evol Microbiol</addtitle><description>is a Gram-stain-positive bacillus derived from otorrhea. Four strains derived from ear discharges in Canada and Switzerland, with features consistent with but distinguishable from
IMMIB L-1656
(accession number FN554542) by 16S rRNA gene sequencing (97.5 % similarity), were thought to represent a novel species of the genus
.
DSM 45359
(=IMMIB L-1656
) was acquired to compare with Canadian and Swiss strains by whole-genome sequencing (WGS). Unexpectedly, those isolates were observed to be consistent with
DSM 45359
by WGS (ANIb scores >98 %), MALDI-TOF (Bruker), cellular fatty acid analysis and biochemically (some differences were observed). A nearly full 16S rRNA gene sequence could not be readily prepared from
DSM 45359
, even after multiple attempts. A 16S rRNA gene chimeric consensus sequence created from the genome assembly of
DSM 45359
had only 97.5 % similarity to that of
IMMIB L-1656
, implying that 16S rRNA sequence accession number FN554542 could not be replicated. We concluded that our isolates of members of the genus
were consistent with
DSM 45359
, did not represent a novel species, and that the sequence corresponding to FN554542 was not reproducible. By WGS,
DSM 45359
had genome of 2.53×10
bp with a DNA G+C content of 59.34%, while genomes of Canadian and Swiss isolates ranged from 2.47 to 2.59×10
bp with DNA G+C contents of 59.3-59.52 %.
NML 100628 (=NCTC 14178=LMG 30897) did not demonstrate a rodcoccus cycle. Emendation of
was proposed based on these results.</description><subject>Aged</subject><subject>Bacterial Typing Techniques</subject><subject>Base Composition</subject><subject>Canada</subject><subject>DNA, Bacterial - genetics</subject><subject>Ear - microbiology</subject><subject>Fatty Acids - chemistry</subject><subject>Female</subject><subject>Humans</subject><subject>Male</subject><subject>Micrococcaceae - classification</subject><subject>Middle Aged</subject><subject>Nucleic Acid Hybridization</subject><subject>Phylogeny</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>Sequence Analysis, DNA</subject><subject>Switzerland</subject><issn>1466-5026</issn><issn>1466-5034</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNptkb1u3TAMhY2iRfPTrh0LjV3sUpbta43BRZIWCNChzZDJoCX6RoEspaKdII_ZN6qSm2QoOpEgv3NI4BTFJwmVBK2_uhumuYIKQG2kflMcyqbryhZU8_a1r7uD4oj5BiAPAN4XB0q2upNaHhZ_TmcKFhcXg4iTWK5JnFNYWZysyS3OuhHNQklcIbMLghaBvhI1SCkw2H8ptwt4l8X_oUdksiJfmQiXNRGLODKluzycUpzFFgNah-HJ9ue9YxbGu-AMeuE4elyy5HF3fx09lTsKcSbB9HulYFzY5R36B3b8oXg3oWf6-FyPi8uz01_bb-XFj_Pv25OL0ijVLqXSYHvMr9WyA4WmMTg1oM3Ud2CnTad72SpoTQud2TQ19L2ljTZtZ2mkyYzquPiy971NMT_ByzA7NuQ9BoorD7UCVQM0dZ3Rao-aFJkTTcNtcjOmh0HC8Bjj8BTjAMM-xiz4_Oy9jjPZV_wlN_UXJQ-b_g</recordid><startdate>202001</startdate><enddate>202001</enddate><creator>Bernard, K A</creator><creator>Pacheco, A L</creator><creator>Burdz, T</creator><creator>Wiebe, D</creator><creator>Beniac, D R</creator><creator>Hiebert, S L</creator><creator>Booth, T F</creator><creator>Jakopp, B</creator><creator>Goldenberger, D</creator><creator>Seth-Smith, H M B</creator><creator>Egli, A</creator><creator>Bernier, A-M</creator><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><orcidid>https://orcid.org/0000-0002-4807-424X</orcidid><orcidid>https://orcid.org/0000-0002-9796-2702</orcidid><orcidid>https://orcid.org/0000-0002-3788-3818</orcidid><orcidid>https://orcid.org/0000-0003-1420-8323</orcidid><orcidid>https://orcid.org/0000-0002-6082-5114</orcidid></search><sort><creationdate>202001</creationdate><title>Emendation of the Genus Auritidibacter Yassin et al. 2011 and Auritidibacter ignavus Yassin et al. 2011 based on features observed from Canadian and Swiss clinical isolates and whole-genome sequencing analysis</title><author>Bernard, K A ; Pacheco, A L ; Burdz, T ; Wiebe, D ; Beniac, D R ; Hiebert, S L ; Booth, T F ; Jakopp, B ; Goldenberger, D ; Seth-Smith, H M B ; Egli, A ; Bernier, A-M</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c335t-390d8a20121603ac4caf409cf860df769815305c506c742088de79c56debefcb3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Aged</topic><topic>Bacterial Typing Techniques</topic><topic>Base Composition</topic><topic>Canada</topic><topic>DNA, Bacterial - genetics</topic><topic>Ear - microbiology</topic><topic>Fatty Acids - chemistry</topic><topic>Female</topic><topic>Humans</topic><topic>Male</topic><topic>Micrococcaceae - classification</topic><topic>Middle Aged</topic><topic>Nucleic Acid Hybridization</topic><topic>Phylogeny</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>Sequence Analysis, DNA</topic><topic>Switzerland</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Bernard, K A</creatorcontrib><creatorcontrib>Pacheco, A L</creatorcontrib><creatorcontrib>Burdz, T</creatorcontrib><creatorcontrib>Wiebe, D</creatorcontrib><creatorcontrib>Beniac, D R</creatorcontrib><creatorcontrib>Hiebert, S L</creatorcontrib><creatorcontrib>Booth, T F</creatorcontrib><creatorcontrib>Jakopp, B</creatorcontrib><creatorcontrib>Goldenberger, D</creatorcontrib><creatorcontrib>Seth-Smith, H M B</creatorcontrib><creatorcontrib>Egli, A</creatorcontrib><creatorcontrib>Bernier, A-M</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><jtitle>International journal of systematic and evolutionary microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Bernard, K A</au><au>Pacheco, A L</au><au>Burdz, T</au><au>Wiebe, D</au><au>Beniac, D R</au><au>Hiebert, S L</au><au>Booth, T F</au><au>Jakopp, B</au><au>Goldenberger, D</au><au>Seth-Smith, H M B</au><au>Egli, A</au><au>Bernier, A-M</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Emendation of the Genus Auritidibacter Yassin et al. 2011 and Auritidibacter ignavus Yassin et al. 2011 based on features observed from Canadian and Swiss clinical isolates and whole-genome sequencing analysis</atitle><jtitle>International journal of systematic and evolutionary microbiology</jtitle><addtitle>Int J Syst Evol Microbiol</addtitle><date>2020-01</date><risdate>2020</risdate><volume>70</volume><issue>1</issue><spage>83</spage><epage>88</epage><pages>83-88</pages><issn>1466-5026</issn><eissn>1466-5034</eissn><abstract>is a Gram-stain-positive bacillus derived from otorrhea. Four strains derived from ear discharges in Canada and Switzerland, with features consistent with but distinguishable from
IMMIB L-1656
(accession number FN554542) by 16S rRNA gene sequencing (97.5 % similarity), were thought to represent a novel species of the genus
.
DSM 45359
(=IMMIB L-1656
) was acquired to compare with Canadian and Swiss strains by whole-genome sequencing (WGS). Unexpectedly, those isolates were observed to be consistent with
DSM 45359
by WGS (ANIb scores >98 %), MALDI-TOF (Bruker), cellular fatty acid analysis and biochemically (some differences were observed). A nearly full 16S rRNA gene sequence could not be readily prepared from
DSM 45359
, even after multiple attempts. A 16S rRNA gene chimeric consensus sequence created from the genome assembly of
DSM 45359
had only 97.5 % similarity to that of
IMMIB L-1656
, implying that 16S rRNA sequence accession number FN554542 could not be replicated. We concluded that our isolates of members of the genus
were consistent with
DSM 45359
, did not represent a novel species, and that the sequence corresponding to FN554542 was not reproducible. By WGS,
DSM 45359
had genome of 2.53×10
bp with a DNA G+C content of 59.34%, while genomes of Canadian and Swiss isolates ranged from 2.47 to 2.59×10
bp with DNA G+C contents of 59.3-59.52 %.
NML 100628 (=NCTC 14178=LMG 30897) did not demonstrate a rodcoccus cycle. Emendation of
was proposed based on these results.</abstract><cop>England</cop><pmid>31596191</pmid><doi>10.1099/ijsem.0.003719</doi><tpages>6</tpages><orcidid>https://orcid.org/0000-0002-4807-424X</orcidid><orcidid>https://orcid.org/0000-0002-9796-2702</orcidid><orcidid>https://orcid.org/0000-0002-3788-3818</orcidid><orcidid>https://orcid.org/0000-0003-1420-8323</orcidid><orcidid>https://orcid.org/0000-0002-6082-5114</orcidid><oa>free_for_read</oa></addata></record> |
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source | MEDLINE; Microbiology Society; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Alma/SFX Local Collection |
subjects | Aged Bacterial Typing Techniques Base Composition Canada DNA, Bacterial - genetics Ear - microbiology Fatty Acids - chemistry Female Humans Male Micrococcaceae - classification Middle Aged Nucleic Acid Hybridization Phylogeny RNA, Ribosomal, 16S - genetics Sequence Analysis, DNA Switzerland |
title | Emendation of the Genus Auritidibacter Yassin et al. 2011 and Auritidibacter ignavus Yassin et al. 2011 based on features observed from Canadian and Swiss clinical isolates and whole-genome sequencing analysis |
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