Ruegeria lutea sp. nov., isolated from marine sediment, Masan Bay, South Korea
A Gram-stain-negative, non-motile, mesophilic, short rod-shaped, aerobic bacterium designated as 318-1 was isolated from a marine sediment collected from Masan Bay, South Korea. Strain 318-1 grew optimally at pH 6-7, at 30 °C and in the presence of 2-3 % (w/v) NaCl, tolerant of up to 8 % (w/v) NaCl,...
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| Veröffentlicht in: | International journal of systematic and evolutionary microbiology 2019-09, Vol.69 (9), p.2854-2861 |
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| creator | Kim, Jinsoo Kim, Da-Young Yang, Keun-Hyeok Kim, Sungchul Lee, Sang-Seob |
| description | A Gram-stain-negative, non-motile, mesophilic, short rod-shaped, aerobic bacterium designated as 318-1
was isolated from a marine sediment collected from Masan Bay, South Korea. Strain 318-1
grew optimally at pH 6-7, at 30 °C and in the presence of 2-3 % (w/v) NaCl, tolerant of up to 8 % (w/v) NaCl, and accumulated poly-
-hydroxybutyrate (PHB). A comparative analysis of 16S rRNA gene sequences revealed that strain 318-1
formed a distinct phyletic lineage in the genus
(family
, class
) and showed high sequence similarity to
DSM 27839
(96.5 %) and
DSM 28453
(96.3 %). Comparing the genome sequence of 318-1
with those of the type strains of seven species of the genus
and two species of the genus
the values obtained were below the thresholds with analysis of average nucleotide identities (ANI, 71.6-76.8 %) and
DNA-DNA hybridisation, Genome-to-Genome Distance Calculator (GGDC, 18.5-20.6 %). The DNA G
C content was 65.75 mol%. Chemotaxonomic data [predominant quinone ubiquinone Q10; polar lipid profile consisting of major compounds phosphatidylcholine (PC), phosphatidylglycerol (PG), an unidentified aminolipid and an unidentified lipid; major fatty acids summed feature 8 (C
ω
and/or C
ω
)] supported the affiliation of strain 318-1
to the genus
. Genomic, chemotaxonomic, and phenotypic differentiation of strain 318-1
from the members of the genus
support it as a novel species. On the basis of the results in this study, a novel species,
sp. nov., is proposed. The type strain is 318-1
(=JCM 30927
=KEMB 7306-525
=KCTC 72105
). |
| doi_str_mv | 10.1099/ijsem.0.003568 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_proquest_miscellaneous_2283976582</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2283976582</sourcerecordid><originalsourceid>FETCH-LOGICAL-c335t-550a93a0f991846cdcd8aee8f61a85304e7f1e2254276f6963c89ebd0a3b44143</originalsourceid><addsrcrecordid>eNo9kMtOwzAQRS0EoqWwZYm8ZNGE8SOOvYSKlygg8VhbbjKBVElc4gSpf0-gpasZjc690hxCThnEDIy5KJcB6xhiAJEovUfGTCoVJSDk_m7nakSOQlgCDAeAQzISjKdSgh6Tp5ceP7AtHa36Dh0Nq5g2_jue0jL4ynWY06L1Na1dWzZIA-ZljU03pY8uuIZeufWUvvq--6QPvkV3TA4KVwU82c4Jeb-5fpvdRfPn2_vZ5TzKhEi6KEnAGeGgMIZpqbI8y7VD1IViTicCJKYFQ84TyVNVKKNEpg0ucnBiISWTYkLON72r1n_1GDpblyHDqnIN-j5YzrUwqUo0H9B4g2atD6HFwq7acnhnbRnYX4f2z6EFu3E4BM623f2ixnyH_0sTP6Qpa-4</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2283976582</pqid></control><display><type>article</type><title>Ruegeria lutea sp. nov., isolated from marine sediment, Masan Bay, South Korea</title><source>MEDLINE</source><source>Microbiology Society</source><source>EZB-FREE-00999 freely available EZB journals</source><source>Alma/SFX Local Collection</source><creator>Kim, Jinsoo ; Kim, Da-Young ; Yang, Keun-Hyeok ; Kim, Sungchul ; Lee, Sang-Seob</creator><creatorcontrib>Kim, Jinsoo ; Kim, Da-Young ; Yang, Keun-Hyeok ; Kim, Sungchul ; Lee, Sang-Seob</creatorcontrib><description>A Gram-stain-negative, non-motile, mesophilic, short rod-shaped, aerobic bacterium designated as 318-1
was isolated from a marine sediment collected from Masan Bay, South Korea. Strain 318-1
grew optimally at pH 6-7, at 30 °C and in the presence of 2-3 % (w/v) NaCl, tolerant of up to 8 % (w/v) NaCl, and accumulated poly-
-hydroxybutyrate (PHB). A comparative analysis of 16S rRNA gene sequences revealed that strain 318-1
formed a distinct phyletic lineage in the genus
(family
, class
) and showed high sequence similarity to
DSM 27839
(96.5 %) and
DSM 28453
(96.3 %). Comparing the genome sequence of 318-1
with those of the type strains of seven species of the genus
and two species of the genus
the values obtained were below the thresholds with analysis of average nucleotide identities (ANI, 71.6-76.8 %) and
DNA-DNA hybridisation, Genome-to-Genome Distance Calculator (GGDC, 18.5-20.6 %). The DNA G
C content was 65.75 mol%. Chemotaxonomic data [predominant quinone ubiquinone Q10; polar lipid profile consisting of major compounds phosphatidylcholine (PC), phosphatidylglycerol (PG), an unidentified aminolipid and an unidentified lipid; major fatty acids summed feature 8 (C
ω
and/or C
ω
)] supported the affiliation of strain 318-1
to the genus
. Genomic, chemotaxonomic, and phenotypic differentiation of strain 318-1
from the members of the genus
support it as a novel species. On the basis of the results in this study, a novel species,
sp. nov., is proposed. The type strain is 318-1
(=JCM 30927
=KEMB 7306-525
=KCTC 72105
).</description><identifier>ISSN: 1466-5026</identifier><identifier>EISSN: 1466-5034</identifier><identifier>DOI: 10.1099/ijsem.0.003568</identifier><identifier>PMID: 31274408</identifier><language>eng</language><publisher>England</publisher><subject>Bacterial Typing Techniques ; Base Composition ; Bays ; DNA, Bacterial - genetics ; Fatty Acids - chemistry ; Geologic Sediments - microbiology ; Nucleic Acid Hybridization ; Phospholipids - chemistry ; Phylogeny ; Republic of Korea ; Rhodobacteraceae - classification ; Rhodobacteraceae - isolation & purification ; RNA, Ribosomal, 16S - genetics ; Seawater - microbiology ; Sequence Analysis, DNA ; Ubiquinone - analogs & derivatives ; Ubiquinone - chemistry</subject><ispartof>International journal of systematic and evolutionary microbiology, 2019-09, Vol.69 (9), p.2854-2861</ispartof><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c335t-550a93a0f991846cdcd8aee8f61a85304e7f1e2254276f6963c89ebd0a3b44143</citedby><cites>FETCH-LOGICAL-c335t-550a93a0f991846cdcd8aee8f61a85304e7f1e2254276f6963c89ebd0a3b44143</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,3733,27901,27902</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31274408$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kim, Jinsoo</creatorcontrib><creatorcontrib>Kim, Da-Young</creatorcontrib><creatorcontrib>Yang, Keun-Hyeok</creatorcontrib><creatorcontrib>Kim, Sungchul</creatorcontrib><creatorcontrib>Lee, Sang-Seob</creatorcontrib><title>Ruegeria lutea sp. nov., isolated from marine sediment, Masan Bay, South Korea</title><title>International journal of systematic and evolutionary microbiology</title><addtitle>Int J Syst Evol Microbiol</addtitle><description>A Gram-stain-negative, non-motile, mesophilic, short rod-shaped, aerobic bacterium designated as 318-1
was isolated from a marine sediment collected from Masan Bay, South Korea. Strain 318-1
grew optimally at pH 6-7, at 30 °C and in the presence of 2-3 % (w/v) NaCl, tolerant of up to 8 % (w/v) NaCl, and accumulated poly-
-hydroxybutyrate (PHB). A comparative analysis of 16S rRNA gene sequences revealed that strain 318-1
formed a distinct phyletic lineage in the genus
(family
, class
) and showed high sequence similarity to
DSM 27839
(96.5 %) and
DSM 28453
(96.3 %). Comparing the genome sequence of 318-1
with those of the type strains of seven species of the genus
and two species of the genus
the values obtained were below the thresholds with analysis of average nucleotide identities (ANI, 71.6-76.8 %) and
DNA-DNA hybridisation, Genome-to-Genome Distance Calculator (GGDC, 18.5-20.6 %). The DNA G
C content was 65.75 mol%. Chemotaxonomic data [predominant quinone ubiquinone Q10; polar lipid profile consisting of major compounds phosphatidylcholine (PC), phosphatidylglycerol (PG), an unidentified aminolipid and an unidentified lipid; major fatty acids summed feature 8 (C
ω
and/or C
ω
)] supported the affiliation of strain 318-1
to the genus
. Genomic, chemotaxonomic, and phenotypic differentiation of strain 318-1
from the members of the genus
support it as a novel species. On the basis of the results in this study, a novel species,
sp. nov., is proposed. The type strain is 318-1
(=JCM 30927
=KEMB 7306-525
=KCTC 72105
).</description><subject>Bacterial Typing Techniques</subject><subject>Base Composition</subject><subject>Bays</subject><subject>DNA, Bacterial - genetics</subject><subject>Fatty Acids - chemistry</subject><subject>Geologic Sediments - microbiology</subject><subject>Nucleic Acid Hybridization</subject><subject>Phospholipids - chemistry</subject><subject>Phylogeny</subject><subject>Republic of Korea</subject><subject>Rhodobacteraceae - classification</subject><subject>Rhodobacteraceae - isolation & purification</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>Seawater - microbiology</subject><subject>Sequence Analysis, DNA</subject><subject>Ubiquinone - analogs & derivatives</subject><subject>Ubiquinone - chemistry</subject><issn>1466-5026</issn><issn>1466-5034</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNo9kMtOwzAQRS0EoqWwZYm8ZNGE8SOOvYSKlygg8VhbbjKBVElc4gSpf0-gpasZjc690hxCThnEDIy5KJcB6xhiAJEovUfGTCoVJSDk_m7nakSOQlgCDAeAQzISjKdSgh6Tp5ceP7AtHa36Dh0Nq5g2_jue0jL4ynWY06L1Na1dWzZIA-ZljU03pY8uuIZeufWUvvq--6QPvkV3TA4KVwU82c4Jeb-5fpvdRfPn2_vZ5TzKhEi6KEnAGeGgMIZpqbI8y7VD1IViTicCJKYFQ84TyVNVKKNEpg0ucnBiISWTYkLON72r1n_1GDpblyHDqnIN-j5YzrUwqUo0H9B4g2atD6HFwq7acnhnbRnYX4f2z6EFu3E4BM623f2ixnyH_0sTP6Qpa-4</recordid><startdate>20190901</startdate><enddate>20190901</enddate><creator>Kim, Jinsoo</creator><creator>Kim, Da-Young</creator><creator>Yang, Keun-Hyeok</creator><creator>Kim, Sungchul</creator><creator>Lee, Sang-Seob</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></search><sort><creationdate>20190901</creationdate><title>Ruegeria lutea sp. nov., isolated from marine sediment, Masan Bay, South Korea</title><author>Kim, Jinsoo ; Kim, Da-Young ; Yang, Keun-Hyeok ; Kim, Sungchul ; Lee, Sang-Seob</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c335t-550a93a0f991846cdcd8aee8f61a85304e7f1e2254276f6963c89ebd0a3b44143</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Bacterial Typing Techniques</topic><topic>Base Composition</topic><topic>Bays</topic><topic>DNA, Bacterial - genetics</topic><topic>Fatty Acids - chemistry</topic><topic>Geologic Sediments - microbiology</topic><topic>Nucleic Acid Hybridization</topic><topic>Phospholipids - chemistry</topic><topic>Phylogeny</topic><topic>Republic of Korea</topic><topic>Rhodobacteraceae - classification</topic><topic>Rhodobacteraceae - isolation & purification</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>Seawater - microbiology</topic><topic>Sequence Analysis, DNA</topic><topic>Ubiquinone - analogs & derivatives</topic><topic>Ubiquinone - chemistry</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kim, Jinsoo</creatorcontrib><creatorcontrib>Kim, Da-Young</creatorcontrib><creatorcontrib>Yang, Keun-Hyeok</creatorcontrib><creatorcontrib>Kim, Sungchul</creatorcontrib><creatorcontrib>Lee, Sang-Seob</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>Kim, Jinsoo</au><au>Kim, Da-Young</au><au>Yang, Keun-Hyeok</au><au>Kim, Sungchul</au><au>Lee, Sang-Seob</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Ruegeria lutea sp. nov., isolated from marine sediment, Masan Bay, South Korea</atitle><jtitle>International journal of systematic and evolutionary microbiology</jtitle><addtitle>Int J Syst Evol Microbiol</addtitle><date>2019-09-01</date><risdate>2019</risdate><volume>69</volume><issue>9</issue><spage>2854</spage><epage>2861</epage><pages>2854-2861</pages><issn>1466-5026</issn><eissn>1466-5034</eissn><abstract>A Gram-stain-negative, non-motile, mesophilic, short rod-shaped, aerobic bacterium designated as 318-1
was isolated from a marine sediment collected from Masan Bay, South Korea. Strain 318-1
grew optimally at pH 6-7, at 30 °C and in the presence of 2-3 % (w/v) NaCl, tolerant of up to 8 % (w/v) NaCl, and accumulated poly-
-hydroxybutyrate (PHB). A comparative analysis of 16S rRNA gene sequences revealed that strain 318-1
formed a distinct phyletic lineage in the genus
(family
, class
) and showed high sequence similarity to
DSM 27839
(96.5 %) and
DSM 28453
(96.3 %). Comparing the genome sequence of 318-1
with those of the type strains of seven species of the genus
and two species of the genus
the values obtained were below the thresholds with analysis of average nucleotide identities (ANI, 71.6-76.8 %) and
DNA-DNA hybridisation, Genome-to-Genome Distance Calculator (GGDC, 18.5-20.6 %). The DNA G
C content was 65.75 mol%. Chemotaxonomic data [predominant quinone ubiquinone Q10; polar lipid profile consisting of major compounds phosphatidylcholine (PC), phosphatidylglycerol (PG), an unidentified aminolipid and an unidentified lipid; major fatty acids summed feature 8 (C
ω
and/or C
ω
)] supported the affiliation of strain 318-1
to the genus
. Genomic, chemotaxonomic, and phenotypic differentiation of strain 318-1
from the members of the genus
support it as a novel species. On the basis of the results in this study, a novel species,
sp. nov., is proposed. The type strain is 318-1
(=JCM 30927
=KEMB 7306-525
=KCTC 72105
).</abstract><cop>England</cop><pmid>31274408</pmid><doi>10.1099/ijsem.0.003568</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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| source | MEDLINE; Microbiology Society; EZB-FREE-00999 freely available EZB journals; Alma/SFX Local Collection |
| subjects | Bacterial Typing Techniques Base Composition Bays DNA, Bacterial - genetics Fatty Acids - chemistry Geologic Sediments - microbiology Nucleic Acid Hybridization Phospholipids - chemistry Phylogeny Republic of Korea Rhodobacteraceae - classification Rhodobacteraceae - isolation & purification RNA, Ribosomal, 16S - genetics Seawater - microbiology Sequence Analysis, DNA Ubiquinone - analogs & derivatives Ubiquinone - chemistry |
| title | Ruegeria lutea sp. nov., isolated from marine sediment, Masan Bay, South Korea |
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