Chryseobacterium populi sp. nov., isolated from Populus deltoides endosphere.
Identifieur interne : 000A81 ( Main/Exploration ); précédent : 000A80; suivant : 000A82Chryseobacterium populi sp. nov., isolated from Populus deltoides endosphere.
Auteurs : Victoria L. Bortniak [États-Unis] ; Dale A. Pelletier [États-Unis] ; Jeffrey D. Newman [Afrique du Sud, États-Unis]Source :
- International journal of systematic and evolutionary microbiology [ 1466-5034 ] ; 2019.
Descripteurs français
- KwdFr :
- ADN bactérien (génétique), ARN ribosomique 16S (génétique), Acides gras (composition chimique), Analyse de séquence d'ADN (MeSH), Chryseobacterium (classification), Chryseobacterium (isolement et purification), Composition en bases nucléiques (MeSH), Hybridation d'acides nucléiques (MeSH), Phylogenèse (MeSH), Pigmentation (MeSH), Populus (microbiologie), Techniques de typage bactérien (MeSH), Tennessee (MeSH), Vitamine K2 (composition chimique).
- MESH :
- composition chimique : Acides gras, Chryseobacterium, Vitamine K2.
- génétique : ADN bactérien, ARN ribosomique 16S.
- isolement et purification : Chryseobacterium.
- microbiologie : Populus.
- Analyse de séquence d'ADN, Composition en bases nucléiques, Hybridation d'acides nucléiques, Phylogenèse, Pigmentation, Techniques de typage bactérien, Tennessee.
English descriptors
- KwdEn :
- Bacterial Typing Techniques (MeSH), Base Composition (MeSH), Chryseobacterium (classification), Chryseobacterium (isolation & purification), DNA, Bacterial (genetics), Fatty Acids (chemistry), Nucleic Acid Hybridization (MeSH), Phylogeny (MeSH), Pigmentation (MeSH), Populus (microbiology), RNA, Ribosomal, 16S (genetics), Sequence Analysis, DNA (MeSH), Tennessee (MeSH), Vitamin K 2 (chemistry).
- MESH :
- chemical , chemistry : Fatty Acids, Vitamin K 2.
- chemical , genetics : DNA, Bacterial, RNA, Ribosomal, 16S.
- geographic : Tennessee.
- classification : Chryseobacterium.
- isolation & purification : Chryseobacterium.
- microbiology : Populus.
- Bacterial Typing Techniques, Base Composition, Nucleic Acid Hybridization, Phylogeny, Pigmentation, Sequence Analysis, DNA.
Abstract
As part of a study investigating the rhizosphere and endosphere of the Eastern cottonwood tree, Populus deltoides, a number of isolates were subjected to genome sequencing. The genome-derived 16S rRNA gene sequence of strain CF314T was 97.0 % similar to those of the Chryseobacterium daecheongense and Chryseobacterium polytrichastri type strains, but was essentially equidistant from many other Chryseobacterium type strains. Overall genome similarity metrics (average nucleotide identity, digital DNA-DNA hybridization, average amino acid identity) revealed greatest similarity to the Chryseobacterium daecheongense, Chryseobacterium piperi and Chryseobacterium soldanellicola type strains, but were well below the species thresholds. Strain CF314T had a typical fatty acid composition for Chryseobacterium species and produced flexirubin pigments, but not carotenoids. The genome encodes a number of proteins such as a C-type lectin and terpene synthases that are also found in other plant-associated Bacteroidetes. Based on phenotypic and genomic characteristics of the strain, we propose the new species Chryseobacteriumpopuli. The type strain is CF314T=KCTC 62722T=LMG 30786T.
DOI: 10.1099/ijsem.0.003140
PubMed: 30570477
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
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The genome-derived 16S rRNA gene sequence of strain CF314<sup>T</sup> was 97.0 % similar to those of the Chryseobacterium daecheongense and Chryseobacterium polytrichastri type strains, but was essentially equidistant from many other Chryseobacterium type strains. Overall genome similarity metrics (average nucleotide identity, digital DNA-DNA hybridization, average amino acid identity) revealed greatest similarity to the Chryseobacterium daecheongense, Chryseobacterium piperi and Chryseobacterium soldanellicola type strains, but were well below the species thresholds. Strain CF314<sup>T</sup> had a typical fatty acid composition for Chryseobacterium species and produced flexirubin pigments, but not carotenoids. The genome encodes a number of proteins such as a C-type lectin and terpene synthases that are also found in other plant-associated Bacteroidetes. Based on phenotypic and genomic characteristics of the strain, we propose the new species Chryseobacteriumpopuli. The type strain is CF314<sup>T</sup>=KCTC 62722<sup>T</sup>=LMG 30786<sup>T</sup>.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">30570477</PMID><DateCompleted><Year>2019</Year><Month>05</Month><Day>14</Day></DateCompleted><DateRevised><Year>2019</Year><Month>05</Month><Day>14</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Electronic">1466-5034</ISSN><JournalIssue CitedMedium="Internet"><Volume>69</Volume><Issue>2</Issue><PubDate><Year>2019</Year><Month>Feb</Month></PubDate></JournalIssue><Title>International journal of systematic and evolutionary microbiology</Title><ISOAbbreviation>Int J Syst Evol Microbiol</ISOAbbreviation></Journal><ArticleTitle>Chryseobacterium populi sp. nov., isolated from Populus deltoides endosphere.</ArticleTitle><Pagination><MedlinePgn>356-362</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1099/ijsem.0.003140</ELocationID><Abstract><AbstractText>As part of a study investigating the rhizosphere and endosphere of the Eastern cottonwood tree, Populus deltoides, a number of isolates were subjected to genome sequencing. The genome-derived 16S rRNA gene sequence of strain CF314<sup>T</sup> was 97.0 % similar to those of the Chryseobacterium daecheongense and Chryseobacterium polytrichastri type strains, but was essentially equidistant from many other Chryseobacterium type strains. Overall genome similarity metrics (average nucleotide identity, digital DNA-DNA hybridization, average amino acid identity) revealed greatest similarity to the Chryseobacterium daecheongense, Chryseobacterium piperi and Chryseobacterium soldanellicola type strains, but were well below the species thresholds. Strain CF314<sup>T</sup> had a typical fatty acid composition for Chryseobacterium species and produced flexirubin pigments, but not carotenoids. The genome encodes a number of proteins such as a C-type lectin and terpene synthases that are also found in other plant-associated Bacteroidetes. Based on phenotypic and genomic characteristics of the strain, we propose the new species Chryseobacteriumpopuli. The type strain is CF314<sup>T</sup>=KCTC 62722<sup>T</sup>=LMG 30786<sup>T</sup>.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Bortniak</LastName><ForeName>Victoria L</ForeName><Initials>VL</Initials><AffiliationInfo><Affiliation>1Biology Department, Lycoming College, Williamsport PA 17701, USA.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>†Present address: Trivergent Health Alliance, MSO, Meritus Medical Center, Hagerstown, MD 21742, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Pelletier</LastName><ForeName>Dale A</ForeName><Initials>DA</Initials><AffiliationInfo><Affiliation>2Biosciences Division, Oak Ridge National Laboratory, 1 Bethyl Valley Rd. MS-6036, Oak Ridge, TN 37831, USA.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Newman</LastName><ForeName>Jeffrey D</ForeName><Initials>JD</Initials><AffiliationInfo><Affiliation>3Department of Microbial, Biochemical and Food Biotechnology, University of the Free State, Bloemfontein 9300, Republic of South Africa.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>1Biology Department, Lycoming College, Williamsport PA 17701, USA.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2018</Year><Month>12</Month><Day>20</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Int J Syst Evol Microbiol</MedlineTA><NlmUniqueID>100899600</NlmUniqueID><ISSNLinking>1466-5026</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D004269">DNA, Bacterial</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D005227">Fatty Acids</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012336">RNA, Ribosomal, 16S</NameOfSubstance></Chemical><Chemical><RegistryNumber>11032-49-8</RegistryNumber><NameOfSubstance UI="D024482">Vitamin K 2</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D015373" MajorTopicYN="N">Bacterial Typing Techniques</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D001482" MajorTopicYN="N">Base Composition</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D045247" MajorTopicYN="N">Chryseobacterium</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D004269" MajorTopicYN="N">DNA, Bacterial</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D005227" MajorTopicYN="N">Fatty Acids</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D009693" MajorTopicYN="N">Nucleic Acid Hybridization</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010858" MajorTopicYN="N">Pigmentation</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D012336" MajorTopicYN="N">RNA, Ribosomal, 16S</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D013714" MajorTopicYN="N" Type="Geographic">Tennessee</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D024482" MajorTopicYN="N">Vitamin K 2</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName></MeshHeading></MeshHeadingList><KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Chryseobacterium</Keyword><Keyword MajorTopicYN="N">endosphere</Keyword><Keyword MajorTopicYN="N">populus deltoides</Keyword></KeywordList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2018</Year><Month>12</Month><Day>21</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2019</Year><Month>5</Month><Day>15</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2018</Year><Month>12</Month><Day>21</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">30570477</ArticleId><ArticleId IdType="doi">10.1099/ijsem.0.003140</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list><country><li>Afrique du Sud</li><li>États-Unis</li></country><region><li>Maryland</li><li>Tennessee</li></region></list><tree><country name="États-Unis"><noRegion><name sortKey="Bortniak, Victoria L" sort="Bortniak, Victoria L" uniqKey="Bortniak V" first="Victoria L" last="Bortniak">Victoria L. Bortniak</name></noRegion><name sortKey="Bortniak, Victoria L" sort="Bortniak, Victoria L" uniqKey="Bortniak V" first="Victoria L" last="Bortniak">Victoria L. Bortniak</name><name sortKey="Newman, Jeffrey D" sort="Newman, Jeffrey D" uniqKey="Newman J" first="Jeffrey D" last="Newman">Jeffrey D. Newman</name><name sortKey="Pelletier, Dale A" sort="Pelletier, Dale A" uniqKey="Pelletier D" first="Dale A" last="Pelletier">Dale A. Pelletier</name></country><country name="Afrique du Sud"><noRegion><name sortKey="Newman, Jeffrey D" sort="Newman, Jeffrey D" uniqKey="Newman J" first="Jeffrey D" last="Newman">Jeffrey D. Newman</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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