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Chryseobacterium phosphatilyticum sp. nov., a phosphate-solubilizing endophyte isolated from cucumber (Cucumis sativus L.) root.

Identifieur interne : 000562 ( Main/Exploration ); précédent : 000561; suivant : 000563

Chryseobacterium phosphatilyticum sp. nov., a phosphate-solubilizing endophyte isolated from cucumber (Cucumis sativus L.) root.

Auteurs : Jin-Ju Jeong [Corée du Sud] ; Mee Kyung Sang [Corée du Sud] ; Dong Wan Lee [Corée du Sud] ; In-Geol Choi [Corée du Sud] ; Ki Deok Kim [Corée du Sud]

Source :

RBID : pubmed:30372407

Descripteurs français

English descriptors

Abstract

A bacterial strain, designated as ISE14T, with Gram-stain-negative and non-motile rod-shaped cells, was isolated from the root of a cucumber plant collected in a field in Iksan, Republic of Korea and was characterized using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ISE14T represented a member of the genus Chryseobacterium and was closely related to Chryseobacterium viscerum 687B-08T (16S rRNA gene sequence similarity of 98.50 %), Chryseobacterium lactis NCTC 11390T (98.49 %), Chryseobacterium ureilyticum F-Fue-04IIIaaaaT (98.49 %) and Chryseobacterium oncorhynchi 701B-08T (98.04 %). Average nucleotide identity values between genome sequences of strain ISE14T and the closely related species ranged from 81.44 to 83.15 %, which were lower than the threshold of 95 % (corresponding to a DNA-DNA hybridization value of 70 %). The DNA G+C content of strain ISE14T was 36.3 mol%. The dominant fatty acids were iso-C15 : 0, summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c) and iso-C17 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, three unidentified aminolipids and eight unidentified lipids; the predominant respiratory quinone was MK-6. On the basis of the evidence presented in this study, strain ISE14T can be distinguished from closely related species belonging to the genus Chryseobacterium. Thus, strain ISE14T is a novel species of the genus Chryseobacterium, for which the name Chryseobacteriumphosphatilyticum sp. nov. is proposed. The type strain is ISE14T (=KACC 19820T=JCM 32876T).

DOI: 10.1099/ijsem.0.003091
PubMed: 30372407


Affiliations:


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Le document en format XML

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<name sortKey="Jeong, Jin Ju" sort="Jeong, Jin Ju" uniqKey="Jeong J" first="Jin-Ju" last="Jeong">Jin-Ju Jeong</name>
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<nlm:affiliation>1​Department of Biosystems and Biotechnology, Korea University, Seoul, Republic of Korea.</nlm:affiliation>
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<settlement type="city">Séoul</settlement>
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<term>Bacterial Typing Techniques (MeSH)</term>
<term>Base Composition (MeSH)</term>
<term>Chryseobacterium (classification)</term>
<term>Chryseobacterium (isolation & purification)</term>
<term>Cucumis sativus (microbiology)</term>
<term>DNA, Bacterial (genetics)</term>
<term>Endophytes (classification)</term>
<term>Endophytes (isolation & purification)</term>
<term>Fatty Acids (chemistry)</term>
<term>Nucleic Acid Hybridization (MeSH)</term>
<term>Phosphates (MeSH)</term>
<term>Phosphatidylethanolamines (chemistry)</term>
<term>Phylogeny (MeSH)</term>
<term>Plant Roots (microbiology)</term>
<term>RNA, Ribosomal, 16S (genetics)</term>
<term>Republic of Korea (MeSH)</term>
<term>Sequence Analysis, DNA (MeSH)</term>
<term>Vitamin K 2 (analogs & derivatives)</term>
<term>Vitamin K 2 (chemistry)</term>
</keywords>
<keywords scheme="KwdFr" xml:lang="fr">
<term>ADN bactérien (génétique)</term>
<term>ARN ribosomique 16S (génétique)</term>
<term>Acides gras (composition chimique)</term>
<term>Analyse de séquence d'ADN (MeSH)</term>
<term>Chryseobacterium (classification)</term>
<term>Chryseobacterium (isolement et purification)</term>
<term>Composition en bases nucléiques (MeSH)</term>
<term>Cucumis sativus (microbiologie)</term>
<term>Endophytes (classification)</term>
<term>Endophytes (isolement et purification)</term>
<term>Hybridation d'acides nucléiques (MeSH)</term>
<term>Phosphates (MeSH)</term>
<term>Phosphatidyléthanolamine (composition chimique)</term>
<term>Phylogenèse (MeSH)</term>
<term>Racines de plante (microbiologie)</term>
<term>République de Corée (MeSH)</term>
<term>Techniques de typage bactérien (MeSH)</term>
<term>Vitamine K2 (analogues et dérivés)</term>
<term>Vitamine K2 (composition chimique)</term>
</keywords>
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<term>Vitamin K 2</term>
</keywords>
<keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en">
<term>Fatty Acids</term>
<term>Phosphatidylethanolamines</term>
<term>Vitamin K 2</term>
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<keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en">
<term>DNA, Bacterial</term>
<term>RNA, Ribosomal, 16S</term>
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<term>Republic of Korea</term>
</keywords>
<keywords scheme="MESH" qualifier="analogues et dérivés" xml:lang="fr">
<term>Vitamine K2</term>
</keywords>
<keywords scheme="MESH" qualifier="classification" xml:lang="en">
<term>Chryseobacterium</term>
<term>Endophytes</term>
</keywords>
<keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr">
<term>Acides gras</term>
<term>Chryseobacterium</term>
<term>Endophytes</term>
<term>Phosphatidyléthanolamine</term>
<term>Vitamine K2</term>
</keywords>
<keywords scheme="MESH" qualifier="génétique" xml:lang="fr">
<term>ADN bactérien</term>
<term>ARN ribosomique 16S</term>
</keywords>
<keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en">
<term>Chryseobacterium</term>
<term>Endophytes</term>
</keywords>
<keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr">
<term>Chryseobacterium</term>
<term>Endophytes</term>
</keywords>
<keywords scheme="MESH" qualifier="microbiologie" xml:lang="fr">
<term>Cucumis sativus</term>
<term>Racines de plante</term>
</keywords>
<keywords scheme="MESH" qualifier="microbiology" xml:lang="en">
<term>Cucumis sativus</term>
<term>Plant Roots</term>
</keywords>
<keywords scheme="MESH" xml:lang="en">
<term>Bacterial Typing Techniques</term>
<term>Base Composition</term>
<term>Nucleic Acid Hybridization</term>
<term>Phosphates</term>
<term>Phylogeny</term>
<term>Sequence Analysis, DNA</term>
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<term>Analyse de séquence d'ADN</term>
<term>Composition en bases nucléiques</term>
<term>Hybridation d'acides nucléiques</term>
<term>Phosphates</term>
<term>Phylogenèse</term>
<term>République de Corée</term>
<term>Techniques de typage bactérien</term>
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<front>
<div type="abstract" xml:lang="en">A bacterial strain, designated as ISE14
<sup>T</sup>
, with Gram-stain-negative and non-motile rod-shaped cells, was isolated from the root of a cucumber plant collected in a field in Iksan, Republic of Korea and was characterized using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ISE14
<sup>T</sup>
represented a member of the genus Chryseobacterium and was closely related to Chryseobacterium viscerum 687B-08
<sup>T</sup>
(16S rRNA gene sequence similarity of 98.50 %), Chryseobacterium lactis NCTC 11390
<sup>T</sup>
(98.49 %), Chryseobacterium ureilyticum F-Fue-04IIIaaaa
<sup>T</sup>
(98.49 %) and Chryseobacterium oncorhynchi 701B-08
<sup>T</sup>
(98.04 %). Average nucleotide identity values between genome sequences of strain ISE14
<sup>T</sup>
and the closely related species ranged from 81.44 to 83.15 %, which were lower than the threshold of 95 % (corresponding to a DNA-DNA hybridization value of 70 %). The DNA G+C content of strain ISE14
<sup>T</sup>
was 36.3 mol%. The dominant fatty acids were iso-C15 : 0, summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c) and iso-C17 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, three unidentified aminolipids and eight unidentified lipids; the predominant respiratory quinone was MK-6. On the basis of the evidence presented in this study, strain ISE14
<sup>T</sup>
can be distinguished from closely related species belonging to the genus Chryseobacterium. Thus, strain ISE14
<sup>T</sup>
is a novel species of the genus Chryseobacterium, for which the name Chryseobacteriumphosphatilyticum sp. nov. is proposed. The type strain is ISE14
<sup>T</sup>
(=KACC 19820
<sup>T</sup>
=JCM 32876
<sup>T</sup>
).</div>
</front>
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<Day>02</Day>
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<ArticleTitle>Chryseobacterium phosphatilyticum sp. nov., a phosphate-solubilizing endophyte isolated from cucumber (Cucumis sativus L.) root.</ArticleTitle>
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<AbstractText>A bacterial strain, designated as ISE14
<sup>T</sup>
, with Gram-stain-negative and non-motile rod-shaped cells, was isolated from the root of a cucumber plant collected in a field in Iksan, Republic of Korea and was characterized using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain ISE14
<sup>T</sup>
represented a member of the genus Chryseobacterium and was closely related to Chryseobacterium viscerum 687B-08
<sup>T</sup>
(16S rRNA gene sequence similarity of 98.50 %), Chryseobacterium lactis NCTC 11390
<sup>T</sup>
(98.49 %), Chryseobacterium ureilyticum F-Fue-04IIIaaaa
<sup>T</sup>
(98.49 %) and Chryseobacterium oncorhynchi 701B-08
<sup>T</sup>
(98.04 %). Average nucleotide identity values between genome sequences of strain ISE14
<sup>T</sup>
and the closely related species ranged from 81.44 to 83.15 %, which were lower than the threshold of 95 % (corresponding to a DNA-DNA hybridization value of 70 %). The DNA G+C content of strain ISE14
<sup>T</sup>
was 36.3 mol%. The dominant fatty acids were iso-C15 : 0, summed feature 9 (iso-C17 : 1ω9c and/or C16 : 0 10-methyl), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c) and iso-C17 : 0 3-OH. The major polar lipids were phosphatidylethanolamine, three unidentified aminolipids and eight unidentified lipids; the predominant respiratory quinone was MK-6. On the basis of the evidence presented in this study, strain ISE14
<sup>T</sup>
can be distinguished from closely related species belonging to the genus Chryseobacterium. Thus, strain ISE14
<sup>T</sup>
is a novel species of the genus Chryseobacterium, for which the name Chryseobacteriumphosphatilyticum sp. nov. is proposed. The type strain is ISE14
<sup>T</sup>
(=KACC 19820
<sup>T</sup>
=JCM 32876
<sup>T</sup>
).</AbstractText>
</Abstract>
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<LastName>Jeong</LastName>
<ForeName>Jin-Ju</ForeName>
<Initials>JJ</Initials>
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<Affiliation>1​Department of Biosystems and Biotechnology, Korea University, Seoul, Republic of Korea.</Affiliation>
</AffiliationInfo>
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<LastName>Sang</LastName>
<ForeName>Mee Kyung</ForeName>
<Initials>MK</Initials>
<AffiliationInfo>
<Affiliation>1​Department of Biosystems and Biotechnology, Korea University, Seoul, Republic of Korea.</Affiliation>
</AffiliationInfo>
<AffiliationInfo>
<Affiliation>2​Division of Agricultural Microbiology, National Academy of Agricultural Science, Rural Development Administration, Wanju, Republic of Korea.</Affiliation>
</AffiliationInfo>
</Author>
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<LastName>Lee</LastName>
<ForeName>Dong Wan</ForeName>
<Initials>DW</Initials>
<AffiliationInfo>
<Affiliation>1​Department of Biosystems and Biotechnology, Korea University, Seoul, Republic of Korea.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Choi</LastName>
<ForeName>In-Geol</ForeName>
<Initials>IG</Initials>
<AffiliationInfo>
<Affiliation>3​Department of Biotechnology, Korea University, Seoul, Republic of Korea.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y">
<LastName>Kim</LastName>
<ForeName>Ki Deok</ForeName>
<Initials>KD</Initials>
<AffiliationInfo>
<Affiliation>1​Department of Biosystems and Biotechnology, Korea University, Seoul, Republic of Korea.</Affiliation>
</AffiliationInfo>
</Author>
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</PublicationTypeList>
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<Year>2018</Year>
<Month>11</Month>
<Day>29</Day>
</ArticleDate>
</Article>
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<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="D010710">Phosphates</NameOfSubstance>
</Chemical>
<Chemical>
<RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D010714">Phosphatidylethanolamines</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>
<Chemical>
<RegistryNumber>39382-08-6</RegistryNumber>
<NameOfSubstance UI="C483858">phosphatidylethanolamine</NameOfSubstance>
</Chemical>
<Chemical>
<RegistryNumber>71ANL51TLA</RegistryNumber>
<NameOfSubstance UI="C042455">menaquinone 6</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="D018553" MajorTopicYN="N">Cucumis sativus</DescriptorName>
<QualifierName UI="Q000382" MajorTopicYN="Y">microbiology</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D004269" MajorTopicYN="N">DNA, Bacterial</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="N">genetics</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D060026" MajorTopicYN="N">Endophytes</DescriptorName>
<QualifierName UI="Q000145" MajorTopicYN="N">classification</QualifierName>
<QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</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="D010710" MajorTopicYN="N">Phosphates</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D010714" MajorTopicYN="N">Phosphatidylethanolamines</DescriptorName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D010802" MajorTopicYN="Y">Phylogeny</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D018517" MajorTopicYN="N">Plant Roots</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="D056910" MajorTopicYN="N" Type="Geographic">Republic of Korea</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName>
</MeshHeading>
<MeshHeading>
<DescriptorName UI="D024482" MajorTopicYN="N">Vitamin K 2</DescriptorName>
<QualifierName UI="Q000031" MajorTopicYN="N">analogs & derivatives</QualifierName>
<QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName>
</MeshHeading>
</MeshHeadingList>
<KeywordList Owner="NOTNLM">
<Keyword MajorTopicYN="N">Chryseobacterium phosphatilyticum</Keyword>
<Keyword MajorTopicYN="N">Phytophthora blight</Keyword>
<Keyword MajorTopicYN="N">average nucleotide identity</Keyword>
<Keyword MajorTopicYN="N">biological control</Keyword>
<Keyword MajorTopicYN="N">phosphate solubilizer</Keyword>
</KeywordList>
</MedlineCitation>
<PubmedData>
<History>
<PubMedPubDate PubStatus="pubmed">
<Year>2018</Year>
<Month>10</Month>
<Day>30</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="medline">
<Year>2019</Year>
<Month>5</Month>
<Day>3</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
<PubMedPubDate PubStatus="entrez">
<Year>2018</Year>
<Month>10</Month>
<Day>30</Day>
<Hour>6</Hour>
<Minute>0</Minute>
</PubMedPubDate>
</History>
<PublicationStatus>ppublish</PublicationStatus>
<ArticleIdList>
<ArticleId IdType="pubmed">30372407</ArticleId>
<ArticleId IdType="doi">10.1099/ijsem.0.003091</ArticleId>
</ArticleIdList>
</PubmedData>
</pubmed>
<affiliations>
<list>
<country>
<li>Corée du Sud</li>
</country>
<region>
<li>Région capitale de Séoul</li>
</region>
<settlement>
<li>Séoul</li>
</settlement>
</list>
<tree>
<country name="Corée du Sud">
<region name="Région capitale de Séoul">
<name sortKey="Jeong, Jin Ju" sort="Jeong, Jin Ju" uniqKey="Jeong J" first="Jin-Ju" last="Jeong">Jin-Ju Jeong</name>
</region>
<name sortKey="Choi, In Geol" sort="Choi, In Geol" uniqKey="Choi I" first="In-Geol" last="Choi">In-Geol Choi</name>
<name sortKey="Kim, Ki Deok" sort="Kim, Ki Deok" uniqKey="Kim K" first="Ki Deok" last="Kim">Ki Deok Kim</name>
<name sortKey="Lee, Dong Wan" sort="Lee, Dong Wan" uniqKey="Lee D" first="Dong Wan" last="Lee">Dong Wan Lee</name>
<name sortKey="Sang, Mee Kyung" sort="Sang, Mee Kyung" uniqKey="Sang M" first="Mee Kyung" last="Sang">Mee Kyung Sang</name>
<name sortKey="Sang, Mee Kyung" sort="Sang, Mee Kyung" uniqKey="Sang M" first="Mee Kyung" last="Sang">Mee Kyung Sang</name>
</country>
</tree>
</affiliations>
</record>

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