Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al . 2017) as Allorhizobium oryziradicis comb. nov
A polyphasic taxonomic approach was used to characterize a nitrogen-fixing bacterium, designated strain CC-HIH110 , isolated from paddy soil in Taiwan. Cells of strain CC-HIH110 were Gram-stain-negative, rod-shaped, motile with polar flagella, catalase-positive and oxidase-positive. Optimal growth o...
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| creator | Lin, Shih-Yao Hameed, Asif Huang, Hsin-I Young, Chiu-Chung |
| description | A polyphasic taxonomic approach was used to characterize a nitrogen-fixing bacterium, designated strain CC-HIH110
, isolated from paddy soil in Taiwan. Cells of strain CC-HIH110
were Gram-stain-negative, rod-shaped, motile with polar flagella, catalase-positive and oxidase-positive. Optimal growth occurred at 30 °С, pH 7 and 1 % NaCl. Phylogenetic analyses based on 16S rRNA genes revealed a distinct taxonomic position attained by strain CC-HIH110
associated with
(98.4 % sequence identity),
(97.8 %),
(97.7 %) and
(96.0 %), and lower sequence similarity to other species. Average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain CC-HIH110
and the type strains of other closely related species were 71.5-88.6 % and 19.6-35.5 %, respectively. Strain CC-HIH110
contained C
3-OH, C
3-OH/iso C
I and C
7
/C
6
as the predominant fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, phosphatidylcholine, three unknown aminophospholipids, two unknown phospholipids and an unknown lipid. The major polyamine was homospermidine. The DNA G+C content was 55.0 mol% and the predominant quinone was ubiquinone (Q-10). Based on its distinct phylogenetic, phenotypic and chemotaxonomic traits together with results of comparative 16S rRNA gene sequence, ANI and dDDH analyses, strain CC-HIH110
is proposed to represent a novel
species, for which the name
sp. nov. (type strain CC-HIH110
=BCRC 80932
=JCM 31228
). In addition,
is reclassified as
(type strain N19
=ACCC 19962
=KCTC 52413
) comb. nov. |
| doi_str_mv | 10.1099/ijsem.0.003770 |
| format | Article |
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, isolated from paddy soil in Taiwan. Cells of strain CC-HIH110
were Gram-stain-negative, rod-shaped, motile with polar flagella, catalase-positive and oxidase-positive. Optimal growth occurred at 30 °С, pH 7 and 1 % NaCl. Phylogenetic analyses based on 16S rRNA genes revealed a distinct taxonomic position attained by strain CC-HIH110
associated with
(98.4 % sequence identity),
(97.8 %),
(97.7 %) and
(96.0 %), and lower sequence similarity to other species. Average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain CC-HIH110
and the type strains of other closely related species were 71.5-88.6 % and 19.6-35.5 %, respectively. Strain CC-HIH110
contained C
3-OH, C
3-OH/iso C
I and C
7
/C
6
as the predominant fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, phosphatidylcholine, three unknown aminophospholipids, two unknown phospholipids and an unknown lipid. The major polyamine was homospermidine. The DNA G+C content was 55.0 mol% and the predominant quinone was ubiquinone (Q-10). Based on its distinct phylogenetic, phenotypic and chemotaxonomic traits together with results of comparative 16S rRNA gene sequence, ANI and dDDH analyses, strain CC-HIH110
is proposed to represent a novel
species, for which the name
sp. nov. (type strain CC-HIH110
=BCRC 80932
=JCM 31228
). In addition,
is reclassified as
(type strain N19
=ACCC 19962
=KCTC 52413
) comb. nov.</description><identifier>ISSN: 1466-5026</identifier><identifier>EISSN: 1466-5034</identifier><identifier>DOI: 10.1099/ijsem.0.003770</identifier><identifier>PMID: 31626583</identifier><language>eng</language><publisher>England</publisher><subject>Bacterial Typing Techniques ; Base Composition ; DNA, Bacterial - genetics ; Fatty Acids - chemistry ; Nucleic Acid Hybridization ; Oryza ; Phospholipids - chemistry ; Phylogeny ; Polyamines - chemistry ; Rhizobiaceae - classification ; Rhizobiaceae - isolation & purification ; Rhizobium ; RNA, Ribosomal, 16S - genetics ; Sequence Analysis, DNA ; Soil Microbiology ; Taiwan ; Ubiquinone - analogs & derivatives ; Ubiquinone - chemistry</subject><ispartof>International journal of systematic and evolutionary microbiology, 2020-01, Vol.70 (1), p.397-405</ispartof><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c401t-e3472618dcb07b460d642865b89fe0896dbc65c43bb40b7526427d667cf5bbd03</citedby><cites>FETCH-LOGICAL-c401t-e3472618dcb07b460d642865b89fe0896dbc65c43bb40b7526427d667cf5bbd03</cites><orcidid>0000-0002-4364-0505 ; 0000-0003-0828-3802</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,3746,27924,27925</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31626583$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Lin, Shih-Yao</creatorcontrib><creatorcontrib>Hameed, Asif</creatorcontrib><creatorcontrib>Huang, Hsin-I</creatorcontrib><creatorcontrib>Young, Chiu-Chung</creatorcontrib><title>Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al . 2017) as Allorhizobium oryziradicis comb. nov</title><title>International journal of systematic and evolutionary microbiology</title><addtitle>Int J Syst Evol Microbiol</addtitle><description>A polyphasic taxonomic approach was used to characterize a nitrogen-fixing bacterium, designated strain CC-HIH110
, isolated from paddy soil in Taiwan. Cells of strain CC-HIH110
were Gram-stain-negative, rod-shaped, motile with polar flagella, catalase-positive and oxidase-positive. Optimal growth occurred at 30 °С, pH 7 and 1 % NaCl. Phylogenetic analyses based on 16S rRNA genes revealed a distinct taxonomic position attained by strain CC-HIH110
associated with
(98.4 % sequence identity),
(97.8 %),
(97.7 %) and
(96.0 %), and lower sequence similarity to other species. Average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain CC-HIH110
and the type strains of other closely related species were 71.5-88.6 % and 19.6-35.5 %, respectively. Strain CC-HIH110
contained C
3-OH, C
3-OH/iso C
I and C
7
/C
6
as the predominant fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, phosphatidylcholine, three unknown aminophospholipids, two unknown phospholipids and an unknown lipid. The major polyamine was homospermidine. The DNA G+C content was 55.0 mol% and the predominant quinone was ubiquinone (Q-10). Based on its distinct phylogenetic, phenotypic and chemotaxonomic traits together with results of comparative 16S rRNA gene sequence, ANI and dDDH analyses, strain CC-HIH110
is proposed to represent a novel
species, for which the name
sp. nov. (type strain CC-HIH110
=BCRC 80932
=JCM 31228
). In addition,
is reclassified as
(type strain N19
=ACCC 19962
=KCTC 52413
) comb. nov.</description><subject>Bacterial Typing Techniques</subject><subject>Base Composition</subject><subject>DNA, Bacterial - genetics</subject><subject>Fatty Acids - chemistry</subject><subject>Nucleic Acid Hybridization</subject><subject>Oryza</subject><subject>Phospholipids - chemistry</subject><subject>Phylogeny</subject><subject>Polyamines - chemistry</subject><subject>Rhizobiaceae - classification</subject><subject>Rhizobiaceae - isolation & purification</subject><subject>Rhizobium</subject><subject>RNA, Ribosomal, 16S - genetics</subject><subject>Sequence Analysis, DNA</subject><subject>Soil Microbiology</subject><subject>Taiwan</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>2020</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpVkU1LAzEQhoMoWqtXjzJHBbtONrvJ9liKX1AQRC9elnwtjWSbmmyF-nf8o65WCz3NMPPOOzM8hJxRzCiOx9fuLdk2wwyRCYF7ZEALzkclsmJ_m-f8iByn9IbYFxAPyRGjPOdlxQbka-J9iHP3GZRbtdDZGKWFtMxgET6yK3ApeNlZA00MLSylMWtIwfkrkAsD0WovU3KN07JzYQGhgaetWYjrTxelcdoluHidywC2A-khgxypuASZYHf9zoQOrfo944QcNNIne_oXh-Tl9uZ5ej-aPd49TCezkS6QdiPLCpFzWhmtUKj-U8OLvOKlqsaNxWrMjdK81AVTqkAlyrxvC8O50E2plEE2JBcb32UM7yuburp1SVvv5cKGVapzhoLmAlnVS7ONVMeQUrRNvYyulXFdU6x_wNS_YGqsN2D6gfM_75VqrdnK_0mwbzj1i0Y</recordid><startdate>202001</startdate><enddate>202001</enddate><creator>Lin, Shih-Yao</creator><creator>Hameed, Asif</creator><creator>Huang, Hsin-I</creator><creator>Young, Chiu-Chung</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/0000-0002-4364-0505</orcidid><orcidid>https://orcid.org/0000-0003-0828-3802</orcidid></search><sort><creationdate>202001</creationdate><title>Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al . 2017) as Allorhizobium oryziradicis comb. nov</title><author>Lin, Shih-Yao ; Hameed, Asif ; Huang, Hsin-I ; Young, Chiu-Chung</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c401t-e3472618dcb07b460d642865b89fe0896dbc65c43bb40b7526427d667cf5bbd03</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Bacterial Typing Techniques</topic><topic>Base Composition</topic><topic>DNA, Bacterial - genetics</topic><topic>Fatty Acids - chemistry</topic><topic>Nucleic Acid Hybridization</topic><topic>Oryza</topic><topic>Phospholipids - chemistry</topic><topic>Phylogeny</topic><topic>Polyamines - chemistry</topic><topic>Rhizobiaceae - classification</topic><topic>Rhizobiaceae - isolation & purification</topic><topic>Rhizobium</topic><topic>RNA, Ribosomal, 16S - genetics</topic><topic>Sequence Analysis, DNA</topic><topic>Soil Microbiology</topic><topic>Taiwan</topic><topic>Ubiquinone - analogs & derivatives</topic><topic>Ubiquinone - chemistry</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Lin, Shih-Yao</creatorcontrib><creatorcontrib>Hameed, Asif</creatorcontrib><creatorcontrib>Huang, Hsin-I</creatorcontrib><creatorcontrib>Young, Chiu-Chung</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>Lin, Shih-Yao</au><au>Hameed, Asif</au><au>Huang, Hsin-I</au><au>Young, Chiu-Chung</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al . 2017) as Allorhizobium oryziradicis comb. nov</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>397</spage><epage>405</epage><pages>397-405</pages><issn>1466-5026</issn><eissn>1466-5034</eissn><abstract>A polyphasic taxonomic approach was used to characterize a nitrogen-fixing bacterium, designated strain CC-HIH110
, isolated from paddy soil in Taiwan. Cells of strain CC-HIH110
were Gram-stain-negative, rod-shaped, motile with polar flagella, catalase-positive and oxidase-positive. Optimal growth occurred at 30 °С, pH 7 and 1 % NaCl. Phylogenetic analyses based on 16S rRNA genes revealed a distinct taxonomic position attained by strain CC-HIH110
associated with
(98.4 % sequence identity),
(97.8 %),
(97.7 %) and
(96.0 %), and lower sequence similarity to other species. Average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain CC-HIH110
and the type strains of other closely related species were 71.5-88.6 % and 19.6-35.5 %, respectively. Strain CC-HIH110
contained C
3-OH, C
3-OH/iso C
I and C
7
/C
6
as the predominant fatty acids. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine, phosphatidyldimethylethanolamine, phosphatidylcholine, three unknown aminophospholipids, two unknown phospholipids and an unknown lipid. The major polyamine was homospermidine. The DNA G+C content was 55.0 mol% and the predominant quinone was ubiquinone (Q-10). Based on its distinct phylogenetic, phenotypic and chemotaxonomic traits together with results of comparative 16S rRNA gene sequence, ANI and dDDH analyses, strain CC-HIH110
is proposed to represent a novel
species, for which the name
sp. nov. (type strain CC-HIH110
=BCRC 80932
=JCM 31228
). In addition,
is reclassified as
(type strain N19
=ACCC 19962
=KCTC 52413
) comb. nov.</abstract><cop>England</cop><pmid>31626583</pmid><doi>10.1099/ijsem.0.003770</doi><tpages>9</tpages><orcidid>https://orcid.org/0000-0002-4364-0505</orcidid><orcidid>https://orcid.org/0000-0003-0828-3802</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1466-5026 |
| ispartof | International journal of systematic and evolutionary microbiology, 2020-01, Vol.70 (1), p.397-405 |
| issn | 1466-5026 1466-5034 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_2307127038 |
| source | MEDLINE; Microbiology Society; Alma/SFX Local Collection; EZB Electronic Journals Library |
| subjects | Bacterial Typing Techniques Base Composition DNA, Bacterial - genetics Fatty Acids - chemistry Nucleic Acid Hybridization Oryza Phospholipids - chemistry Phylogeny Polyamines - chemistry Rhizobiaceae - classification Rhizobiaceae - isolation & purification Rhizobium RNA, Ribosomal, 16S - genetics Sequence Analysis, DNA Soil Microbiology Taiwan Ubiquinone - analogs & derivatives Ubiquinone - chemistry |
| title | Allorhizobium terrae sp. nov., isolated from paddy soil, and reclassification of Rhizobium oryziradicis (Zhao et al . 2017) as Allorhizobium oryziradicis comb. nov |
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