Cold-shock gene cspC in the genome of Massilia polaris sp. nov. revealed cold-adaptation
A straw coloured, motile and Gram-stain-negative bacterium, designated RP-1-19 T was isolated from soil of Arctic station, Svalbard, Norway. Based on the phylogenetic analysis of its 16S rRNA gene sequence, strain RP-1-19 T formed a lineage within the family Oxalobacteraceae and clustered together w...
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| Veröffentlicht in: | Antonie van Leeuwenhoek 2021-08, Vol.114 (8), p.1275-1284 |
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| description | A straw coloured, motile and Gram-stain-negative bacterium, designated RP-1-19
T
was isolated from soil of Arctic station, Svalbard, Norway. Based on the phylogenetic analysis of its 16S rRNA gene sequence, strain RP-1-19
T
formed a lineage within the family
Oxalobacteraceae
and clustered together within the genus
Massilia
. The closest members were
M. violaceinigra
B2
T
(98.6% sequence similarity),
M. eurypsychrophilia
JCM 30074
T
(98.3%) and
M. atriviolacea
SOD
T
(98.1%). The only respiratory quinone was ubiquinone-8. The principal cellular fatty acids were summed feature 3 (iso-C
15:0
2-OH/C
16:1
ω
7
c
) and C
16:0
. The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The DNA G + C content of the type strain was 63.2%. The average nucleotide identity and in silico DNA–DNA hybridization values between strain RP-1-19
T
and closest members were ≤ 80 and 23.2%, respectively. The genome was 4,522,469 bp long with 30 scaffolds and 4076 protein-coding genes. The genome showed eight putative biosynthetic gene clusters responsible for various secondary metabolites. Genome analysis revealed the presence of cold-shock proteins CspA and CspC. Presence of
cspA
and
cspC
genes in the genome manifest ecophysiology of strain RP-1-19
T
that may help in cold-adaptation. Based on these data, strain RP-1-19
T
represents a novel species in the genus
Massilia
, for which the name
Massilia polaris
sp. nov. is proposed. The type strain is RP-1-19
T
(= KACC 21619
T
= NBRC 114359
T
). |
| doi_str_mv | 10.1007/s10482-021-01600-z |
| format | Article |
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T
was isolated from soil of Arctic station, Svalbard, Norway. Based on the phylogenetic analysis of its 16S rRNA gene sequence, strain RP-1-19
T
formed a lineage within the family
Oxalobacteraceae
and clustered together within the genus
Massilia
. The closest members were
M. violaceinigra
B2
T
(98.6% sequence similarity),
M. eurypsychrophilia
JCM 30074
T
(98.3%) and
M. atriviolacea
SOD
T
(98.1%). The only respiratory quinone was ubiquinone-8. The principal cellular fatty acids were summed feature 3 (iso-C
15:0
2-OH/C
16:1
ω
7
c
) and C
16:0
. The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The DNA G + C content of the type strain was 63.2%. The average nucleotide identity and in silico DNA–DNA hybridization values between strain RP-1-19
T
and closest members were ≤ 80 and 23.2%, respectively. The genome was 4,522,469 bp long with 30 scaffolds and 4076 protein-coding genes. The genome showed eight putative biosynthetic gene clusters responsible for various secondary metabolites. Genome analysis revealed the presence of cold-shock proteins CspA and CspC. Presence of
cspA
and
cspC
genes in the genome manifest ecophysiology of strain RP-1-19
T
that may help in cold-adaptation. Based on these data, strain RP-1-19
T
represents a novel species in the genus
Massilia
, for which the name
Massilia polaris
sp. nov. is proposed. The type strain is RP-1-19
T
(= KACC 21619
T
= NBRC 114359
T
).</description><identifier>ISSN: 0003-6072</identifier><identifier>EISSN: 1572-9699</identifier><identifier>DOI: 10.1007/s10482-021-01600-z</identifier><language>eng</language><publisher>Cham: Springer International Publishing</publisher><subject>Adaptation ; Biomedical and Life Sciences ; Cardiolipin ; Coenzyme Q8 ; Cold ; Cold shock ; Cold shock proteins ; Deoxyribonucleic acid ; DNA ; Ecophysiology ; Fatty acids ; Gene clusters ; Genes ; Genomes ; Gram stain ; Hybridization ; Life Sciences ; Lipids ; Medical Microbiology ; Metabolites ; Microbiology ; New species ; Nucleotides ; Original Paper ; Phosphatidylethanolamine ; Phosphatidylglycerol ; Phylogeny ; Plant Sciences ; Proteins ; Quinones ; rRNA 16S ; Secondary metabolites ; Soil Science & Conservation ; Ubiquinone</subject><ispartof>Antonie van Leeuwenhoek, 2021-08, Vol.114 (8), p.1275-1284</ispartof><rights>The Author(s), under exclusive licence to Springer Nature Switzerland AG 2021</rights><rights>The Author(s), under exclusive licence to Springer Nature Switzerland AG 2021.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c352t-d96e9692ecb9e0e85262c545b28a03dd3b659ed79ecc85dfbda53bcdf7f0f5553</citedby><cites>FETCH-LOGICAL-c352t-d96e9692ecb9e0e85262c545b28a03dd3b659ed79ecc85dfbda53bcdf7f0f5553</cites><orcidid>0000-0002-3876-3922</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10482-021-01600-z$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10482-021-01600-z$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,777,781,27905,27906,41469,42538,51300</link.rule.ids></links><search><creatorcontrib>Dahal, Ram Hari</creatorcontrib><creatorcontrib>Chaudhary, Dhiraj Kumar</creatorcontrib><creatorcontrib>Kim, Dong-Uk</creatorcontrib><creatorcontrib>Kim, Jaisoo</creatorcontrib><title>Cold-shock gene cspC in the genome of Massilia polaris sp. nov. revealed cold-adaptation</title><title>Antonie van Leeuwenhoek</title><addtitle>Antonie van Leeuwenhoek</addtitle><description>A straw coloured, motile and Gram-stain-negative bacterium, designated RP-1-19
T
was isolated from soil of Arctic station, Svalbard, Norway. Based on the phylogenetic analysis of its 16S rRNA gene sequence, strain RP-1-19
T
formed a lineage within the family
Oxalobacteraceae
and clustered together within the genus
Massilia
. The closest members were
M. violaceinigra
B2
T
(98.6% sequence similarity),
M. eurypsychrophilia
JCM 30074
T
(98.3%) and
M. atriviolacea
SOD
T
(98.1%). The only respiratory quinone was ubiquinone-8. The principal cellular fatty acids were summed feature 3 (iso-C
15:0
2-OH/C
16:1
ω
7
c
) and C
16:0
. The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The DNA G + C content of the type strain was 63.2%. The average nucleotide identity and in silico DNA–DNA hybridization values between strain RP-1-19
T
and closest members were ≤ 80 and 23.2%, respectively. The genome was 4,522,469 bp long with 30 scaffolds and 4076 protein-coding genes. The genome showed eight putative biosynthetic gene clusters responsible for various secondary metabolites. Genome analysis revealed the presence of cold-shock proteins CspA and CspC. Presence of
cspA
and
cspC
genes in the genome manifest ecophysiology of strain RP-1-19
T
that may help in cold-adaptation. Based on these data, strain RP-1-19
T
represents a novel species in the genus
Massilia
, for which the name
Massilia polaris
sp. nov. is proposed. The type strain is RP-1-19
T
(= KACC 21619
T
= NBRC 114359
T
).</description><subject>Adaptation</subject><subject>Biomedical and Life Sciences</subject><subject>Cardiolipin</subject><subject>Coenzyme Q8</subject><subject>Cold</subject><subject>Cold shock</subject><subject>Cold shock proteins</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Ecophysiology</subject><subject>Fatty acids</subject><subject>Gene clusters</subject><subject>Genes</subject><subject>Genomes</subject><subject>Gram stain</subject><subject>Hybridization</subject><subject>Life Sciences</subject><subject>Lipids</subject><subject>Medical Microbiology</subject><subject>Metabolites</subject><subject>Microbiology</subject><subject>New species</subject><subject>Nucleotides</subject><subject>Original Paper</subject><subject>Phosphatidylethanolamine</subject><subject>Phosphatidylglycerol</subject><subject>Phylogeny</subject><subject>Plant Sciences</subject><subject>Proteins</subject><subject>Quinones</subject><subject>rRNA 16S</subject><subject>Secondary metabolites</subject><subject>Soil Science & Conservation</subject><subject>Ubiquinone</subject><issn>0003-6072</issn><issn>1572-9699</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2021</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kE1LxDAQhoMouH78AU8BL16yTpNN2hxl8QsULwreQppMd6vdpiZdQX-9WVcQPHgaZnjel-Eh5KSAaQFQnqcCZhVnwAsGhQJgnztkUsiSM6203iUTABBMQcn3yUFKL3nVqion5HkeOs_SMrhXusAeqUvDnLY9HZe4OYQV0tDQe5tS27WWDqGzsU00DVPah_cpjfiOtkNP3abIejuMdmxDf0T2GtslPP6Zh-Tp6vJxfsPuHq5v5xd3zAnJR-a1wvwiR1drBKwkV9zJmax5ZUF4L2olNfpSo3OV9E3trRS1803ZQCOlFIfkbNs7xPC2xjSaVZscdp3tMayT4VJUMFPAq4ye_kFfwjr2-btMSV5KLVSRKb6lXAwpRWzMENuVjR-mALORbbayTZZtvmWbzxwS21DKcL_A-Fv9T-oLUhaCPw</recordid><startdate>20210801</startdate><enddate>20210801</enddate><creator>Dahal, Ram Hari</creator><creator>Chaudhary, Dhiraj Kumar</creator><creator>Kim, Dong-Uk</creator><creator>Kim, Jaisoo</creator><general>Springer International Publishing</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7T7</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>88I</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M2P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>Q9U</scope><scope>7X8</scope><orcidid>https://orcid.org/0000-0002-3876-3922</orcidid></search><sort><creationdate>20210801</creationdate><title>Cold-shock gene cspC in the genome of Massilia polaris sp. nov. revealed cold-adaptation</title><author>Dahal, Ram Hari ; Chaudhary, Dhiraj Kumar ; Kim, Dong-Uk ; Kim, Jaisoo</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c352t-d96e9692ecb9e0e85262c545b28a03dd3b659ed79ecc85dfbda53bcdf7f0f5553</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2021</creationdate><topic>Adaptation</topic><topic>Biomedical and Life Sciences</topic><topic>Cardiolipin</topic><topic>Coenzyme Q8</topic><topic>Cold</topic><topic>Cold shock</topic><topic>Cold shock proteins</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Ecophysiology</topic><topic>Fatty acids</topic><topic>Gene clusters</topic><topic>Genes</topic><topic>Genomes</topic><topic>Gram stain</topic><topic>Hybridization</topic><topic>Life Sciences</topic><topic>Lipids</topic><topic>Medical Microbiology</topic><topic>Metabolites</topic><topic>Microbiology</topic><topic>New species</topic><topic>Nucleotides</topic><topic>Original Paper</topic><topic>Phosphatidylethanolamine</topic><topic>Phosphatidylglycerol</topic><topic>Phylogeny</topic><topic>Plant Sciences</topic><topic>Proteins</topic><topic>Quinones</topic><topic>rRNA 16S</topic><topic>Secondary metabolites</topic><topic>Soil Science & Conservation</topic><topic>Ubiquinone</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Dahal, Ram Hari</creatorcontrib><creatorcontrib>Chaudhary, Dhiraj Kumar</creatorcontrib><creatorcontrib>Kim, Dong-Uk</creatorcontrib><creatorcontrib>Kim, Jaisoo</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Virology and AIDS Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>Science Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Science Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central Basic</collection><collection>MEDLINE - Academic</collection><jtitle>Antonie van Leeuwenhoek</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Dahal, Ram Hari</au><au>Chaudhary, Dhiraj Kumar</au><au>Kim, Dong-Uk</au><au>Kim, Jaisoo</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Cold-shock gene cspC in the genome of Massilia polaris sp. nov. revealed cold-adaptation</atitle><jtitle>Antonie van Leeuwenhoek</jtitle><stitle>Antonie van Leeuwenhoek</stitle><date>2021-08-01</date><risdate>2021</risdate><volume>114</volume><issue>8</issue><spage>1275</spage><epage>1284</epage><pages>1275-1284</pages><issn>0003-6072</issn><eissn>1572-9699</eissn><abstract>A straw coloured, motile and Gram-stain-negative bacterium, designated RP-1-19
T
was isolated from soil of Arctic station, Svalbard, Norway. Based on the phylogenetic analysis of its 16S rRNA gene sequence, strain RP-1-19
T
formed a lineage within the family
Oxalobacteraceae
and clustered together within the genus
Massilia
. The closest members were
M. violaceinigra
B2
T
(98.6% sequence similarity),
M. eurypsychrophilia
JCM 30074
T
(98.3%) and
M. atriviolacea
SOD
T
(98.1%). The only respiratory quinone was ubiquinone-8. The principal cellular fatty acids were summed feature 3 (iso-C
15:0
2-OH/C
16:1
ω
7
c
) and C
16:0
. The major polar lipids were phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol. The DNA G + C content of the type strain was 63.2%. The average nucleotide identity and in silico DNA–DNA hybridization values between strain RP-1-19
T
and closest members were ≤ 80 and 23.2%, respectively. The genome was 4,522,469 bp long with 30 scaffolds and 4076 protein-coding genes. The genome showed eight putative biosynthetic gene clusters responsible for various secondary metabolites. Genome analysis revealed the presence of cold-shock proteins CspA and CspC. Presence of
cspA
and
cspC
genes in the genome manifest ecophysiology of strain RP-1-19
T
that may help in cold-adaptation. Based on these data, strain RP-1-19
T
represents a novel species in the genus
Massilia
, for which the name
Massilia polaris
sp. nov. is proposed. The type strain is RP-1-19
T
(= KACC 21619
T
= NBRC 114359
T
).</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><doi>10.1007/s10482-021-01600-z</doi><tpages>10</tpages><orcidid>https://orcid.org/0000-0002-3876-3922</orcidid></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0003-6072 |
| ispartof | Antonie van Leeuwenhoek, 2021-08, Vol.114 (8), p.1275-1284 |
| issn | 0003-6072 1572-9699 |
| language | eng |
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| source | SpringerLink Journals |
| subjects | Adaptation Biomedical and Life Sciences Cardiolipin Coenzyme Q8 Cold Cold shock Cold shock proteins Deoxyribonucleic acid DNA Ecophysiology Fatty acids Gene clusters Genes Genomes Gram stain Hybridization Life Sciences Lipids Medical Microbiology Metabolites Microbiology New species Nucleotides Original Paper Phosphatidylethanolamine Phosphatidylglycerol Phylogeny Plant Sciences Proteins Quinones rRNA 16S Secondary metabolites Soil Science & Conservation Ubiquinone |
| title | Cold-shock gene cspC in the genome of Massilia polaris sp. nov. revealed cold-adaptation |
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