scholarly journals Tamlana crocina gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae, isolated from beach sediment in Korea

2007 ◽  
Vol 57 (4) ◽  
pp. 764-769 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
Marine Bacterium ◽  
Sequence Similarity ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
Natural Seawater ◽  
Phylogenetic Distance ◽  
Phenotypic Characteristics ◽  
Beach Sediment ◽  
The Family ◽  
Novel Genus And Species

A Gram-negative, aerobic, saffron-coloured marine bacterium, designated HST1-43T, was isolated from beach sediment on the coast in Jeju, Korea, and its taxonomic status was established in a polyphasic study. 16S rRNA gene sequence analyses revealed that the isolate belonged to the family Flavobacteriaceae. The closest phylogenetic neighbours of strain HST1-43T were members of the genera Algibacter, Gaetbulibacter and Yeosuana, with levels of sequence similarity in the range 96.3–96.5 %. The isolate was non-motile and required sea salts or natural seawater for growth. The optimum temperature and pH ranges for growth were 25–30 °C and pH 6.1–8.1, respectively. MK-6 was the major menaquinone. The dominant cellular fatty acids were iso-C15 : 0, C18 : 0, C16 : 0, iso-C15 : 1 and iso-C17 : 0 3-OH. The DNA G+C content was 36.2±0.4 mol%. On the basis of phylogenetic distance and phenotypic characteristics, the isolate is considered to represent a novel genus and species in the family Flavobacteriaceae, for which the name Tamlana crocina gen. nov., sp. nov. is proposed. The type strain is HST1-43T (=KCTC 12721T=JCM 14021T).

Devosia subaequoris sp. nov., isolated from beach sediment

2007 ◽  
Vol 57 (10) ◽  
pp. 2212-2215 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Bacterium ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Natural Seawater ◽  
Phenotypic Data ◽  
Beach Sediment ◽  
Type Strains

A novel marine bacterium was isolated from a sediment sample from Hwasun Beach in Jeju, Republic of Korea. The cells were found to be Gram-negative, aerobic, oxidase-positive, catalase-positive, motile rods. The organism required natural seawater or artificial sea salts for growth. The temperature and pH ranges for growth were 20–42 °C and pH 5.1–12.1, respectively. Phylogenetic analyses based on 16S rRNA gene sequences showed that the organism belonged to the order Rhizobiales and formed a robust cluster with members of the genus Devosia. Its phylogenetic neighbours were the type strains of Devosia riboflavina (96.8 % 16S rRNA gene sequence similarity), Devosia neptuniae (96.7 %), Devosia soli (96.5 %) and Devosia limi (96.2 %), ‘Devosia terrae’ DCY11 (96.2 %) and ‘Candidatus Devosia euplotis’ (96.2 %). The predominant ubiquinone was Q-10, the major fatty acids were C18 : 1, C18 : 0 and C16 : 0 and the G+C content of the DNA was 59.1 mol%. On the basis of phenotypic data and the results of phylogenetic analyses, strain HST3-14T represents a novel species of the genus Devosia, for which the name Devosia subaequoris sp. nov. is proposed. The type strain is strain HST3-14T (=KCTC 12772T =JCM 14206T).

scholarly journals Marixanthomonas ophiurae gen. nov., sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from a deep-sea brittle star

2007 ◽  
Vol 57 (3) ◽  
pp. 457-462 ◽  
Author(s):  
Lyudmila A. Romanenko ◽  
Masataka Uchino ◽  
Galina M. Frolova ◽  
Valery V. Mikhailov
Keyword(s):  
Deep Sea ◽  
Marine Bacterium ◽  
Sequence Similarity ◽  
Brittle Star ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Distinct Evolutionary Lineage ◽  
The Family ◽  
Novel Genus And Species ◽  
Bacterium Strain

An aerobic, Gram-negative, non-motile, yellow-pigmented bacterium, strain KMM 3046T, was isolated from a deep-sea brittle star from the Fiji Sea and was subjected to a polyphasic taxonomic analysis. Strain KMM 3046T grew at 5–32 °C and in the presence of 1–12 % (w/v) NaCl. It contained MK-6 as the predominant menaquinone and 3-OH i16 : 0, 3-OH i17 : 0 and 3-OH a17 : 0 as the major fatty acids. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain KMM 3046T forms a distinct evolutionary lineage within the family Flavobacteriaceae (phylum Bacteroidetes), displaying 92.3–91.9 % sequence similarity with respect to Salegentibacter species. On the basis of the phenotypic and phylogenetic data, strain KMM 3046T represents a novel genus and species of the family Flavobacteriaceae, for which the name Marixanthomonas ophiurae gen. nov., sp. nov. is proposed. The type strain of Marixanthomonas ophiurae is KMM 3046T (=NRIC 0684T=JCM 14121T).

scholarly journals Lewinella agarilytica sp. nov., a novel marine bacterium of the phylum Bacteroidetes, isolated from beach sediment

2007 ◽  
Vol 57 (12) ◽  
pp. 2814-2818 ◽  
Author(s):  
Soon Dong Lee
Keyword(s):  
Fatty Acids ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Marine Bacterium ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Rrna Gene ◽  
Beach Sediment ◽  
The Family

A Gram-negative, aerobic, light-orange-coloured, marine bacterium (designated SST-19T) was isolated from beach sediment in Jeju, Korea, and its taxonomic position was determined by means of a polyphasic approach. In a neighbour-joining phylogenetic tree based on 16S rRNA gene sequences, strain SST-19T was positioned within the family ‘Saprospiraceae’, class Sphingobacteria, and formed a consistent cluster with Lewinella persica ATCC 23167T (94.7 % sequence similarity). The levels of 16S rRNA gene sequence similarity between the isolate and recognized members of the family ranged from 84 to 89 %, with Lewinella cohaerens ATCC 23123T, Lewinella nigricans ATCC 23147T, Haliscomenobacter hydrossis DSM 1100T and Saprospira grandis ATCC 23119T showing values of 89.0 , 88.4 , 86.4 and 84.1 %, respectively. Strain SST-19T required seawater for growth and its cells were unbranched, flexible rods or filaments with gliding motility. The cellular fatty acids consisted mainly of saturated, unsaturated and iso-branched fatty acids, the major components being C16 : 1 ω7c and/or iso-C15 : 0 2-OH (24.1 %), C18 : 0 (13.5 %), iso-C15 : 0 (11.1 %) and C16 : 0 (10.9 %). The G+C content of the DNA was found to be 51.3 mol%. On the basis of the results from phenotypic and phylogenetic analyses, the isolate represents a novel species of the genus Lewinella, for which the name Lewinella agarilytica sp. nov. is proposed. The type strain is SST-19T (=JBRI 2009T=KCTC 12774T=JCM 14216T).

scholarly journals Mesoflavibacter aestuarii sp. nov., a zeaxanthin-producing marine bacterium isolated from seawater

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1932-1937 ◽  
Author(s):  
Ji Hee Lee ◽  
Yeoung Min Hwang ◽  
Keun Sik Baik ◽  
Kap Seong Choi ◽  
Jong-Ok Ka ◽  
...  
Keyword(s):  
Marine Bacterium ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Carotenoid Pigment ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Gwangyang Bay

An orange, rod-shaped, Gram-reaction-negative, aerobic and gliding bacterial strain devoid of flagella, designated strain KYW614T, was isolated from seawater collected from Gwangyang Bay, Republic of Korea. Zeaxanthin was the major carotenoid pigment produced and flexirubin-type pigments were not produced. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain KYW614T belonged to the family Flavobacteriaceae and it was most closely related to Mesoflavibacter zeaxanthinifaciens TD-ZX30T (96.5 %, sequence similarity). The predominant cellular fatty acids of strain KYW614T were iso-C15 : 1 G (10.5 %), summed feature 3 (C16 : 1ω7c/C16 : 1ω6c; 10.0 %), iso-C15 : 0 (9.5 %), C15 : 0 (7.5 %) and iso-C17 : 0 3-OH (7.4 %). MK-6 was the only isoprenoid quinone and the DNA G+C content was 32.6 mol%. Data from a polyphasic taxonomic study suggested that the isolate represents a novel species in the genus Mesoflavibacter , for which the name Mesoflavibacter aestuarii sp. nov. is proposed. The type strain is KYW614T ( = KCTC 32269T = JCM 19524T).

scholarly journals Aurantimicrobium minutum gen. nov., sp. nov., a novel ultramicrobacterium of the family Microbacteriaceae, isolated from river water

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 4072-4079 ◽  
Author(s):  
Ryosuke Nakai ◽  
Tomoya Baba ◽  
Hironori Niki ◽  
Miyuki Nishijima ◽  
Takeshi Naganuma
Keyword(s):  
River Water ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Phenotypic Characteristics ◽  
High Sequence Similarity ◽  
The Family ◽  
Western Japan ◽  
Unidentified Species ◽  
Diamino Acid ◽  
Ph Range

A Gram-stain-positive, aerobic, non-motile, curved (selenoid), rod-shaped actinobacterium, designated KNCT, was isolated from the 0.2 μm-filtrate of river water in western Japan. Cells of strain KNCT were ultramicrosized (0.04–0.05 μm3). The strain grew at 15–37 °C, with no observable growth at 10 °C or 40 °C. The pH range for growth was 7–9, with weaker growth at pH 10. Growth was impeded by the presence of NaCl at concentrations greater than 1 %. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain KNCT showed relatively high sequence similarity (97.2 %) to Alpinimonas psychrophila Cr8-25T in the family Microbacteriaceae. However, strain KNCT formed an independent cluster with cultured, but as-yet-unidentified, species and environmental clones on the phylogenetic tree. The major cellular fatty acids were anteiso-C15 : 0 (41.0 %), iso-C16 : 0 (21.8 %), C16 : 0 (18.0 %) and anteiso-C17 : 0 (12.9 %), and the major menaquinones were MK-11 (71.3 %) and MK-12 (13.6 %). The major polar lipids were phosphatidylglycerol and two unknown glycolipids. The cell-wall muramic acid acyl type was acetyl. The peptidoglycan was B-type, and contained 3-hydroxyglutamic acid, glutamic acid, aspartic acid, glycine, alanine and lysine, with the latter being the diagnostic diamino acid. The G+C content of the genome was unusually low for actinobacteria (52.1 mol%), compared with other genera in the family Microbacteriaceae. Based on the phenotypic characteristics and phylogenetic evidence, strain KNCT represents a novel species of a new genus within the family Microbacteriaceae, for which the name Aurantimicrobium minutum gen. nov., sp. nov. is proposed. The type strain of the type species is KNCT ( = NBRC 105389T = NCIMB 14875T).

Acerihabitans arboris gen. nov., sp. nov., a new member of the family Pectobacteriaceae isolated from sap drawn from Acer pictum

2021 ◽  
Author(s):  
Soon Dong Lee ◽  
In Seop Kim ◽  
Hanna Choe ◽  
Ji-Sun Kim
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Taxonomic Status ◽  
Amino Acid Identity ◽  
Core Gene ◽  
Phylogenomic Analysis ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family

A Gram-negative, facultatively anaerobic bacterium, designated SAP-6T, was isolated from sap extracted from Acer pictum in Mt. Halla in Jeju, Republic of Korea and its precise taxonomic status was determined by a polyphasic approach. Cells were non-sporulating, motile, short rods and showed growth at 4–37 °C, pH 6.0–8.0 and 0–4% NaCl. Phylogenomic analysis based on 92 core gene sequences showed that strain SAP-6T belonged to the family Pectobacteriaceae and formed a distinct clade between members of the genera Sodalis and Biostraticola with gene support index of 89. The closest phylogenetic neighbours were Biostraticola tofi DSM 19580T (97.3% 16S rRNA gene sequence similarity) and Sodalis praecaptivus HS1T (96.8%), with the average amino acid identity values of 75.3% and 74.0%, respectively. The major polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminophospholipid. The major isoprenoid quinones were Q-7 and Q-8. The predominant fatty acids were C16:0, C17:0 cyclo and summed feature 3. The DNA G+C content was 57.0%. On the basis of data presented here, strain SAP-6T (=KCTC 52622T=DSM 104038T) represents a novel species of a new genus in the family Pectobacteriaceae , for which the name Acerihabitans arboris gen. nov., sp. nov. is proposed.

Naasia aerilata gen. nov., sp. nov., a member of the family Microbacteriaceae isolated from air

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2436-2441 ◽  
Author(s):  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yun-Hee Jang ◽  
Moriyuki Hamada ◽  
Tomohiko Tamura ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Novel Genus And Species ◽  
Unknown Lipid ◽  
High Bootstrap ◽  
Unknown Phospholipid

A Gram-positive, aerobic, rod-shaped bacterial strain, 5116S-4T, was isolated from an air sample collected in Suwon city, Republic of Korea. Phylogenetic analysis based on 16S rRNA gene sequences indicated that this strain was a new member of the family Microbacteriaceae . The sequence similarities of this strain to the members of the family Microbacteriaceae were less than 97 %, with the highest values observed with Cryobacterium mesophilum MSL-15T (96.3 %), Cryobacterium roopkundense RuGl7T (96.2 %), Labedella gwakjiensis KSW2-17T (96.2 %), Cryobacterium luteum Hh15T (96.2 %), Cryobacterium psychrophilum DSM 4854T (96.2 %), Klugiella xanthotipulae 44C3T (96.0 %) and Amnibacterium kyonggiense KSL51201-037T (96.0 %). According to the phylogenetic tree, strain 5116S-4T formed a cluster with A. kyonggiense KSL51201-037T, Labedella gwakjiensis KSW2-17T and Lysinimonas soli SGM3-12T (95.3 % sequence similarity) on the support of high bootstrap values. Cells were motile with single polar flagellum and showed optimum growth at 30 °C and pH 7 without NaCl. Predominant cellular fatty acids were anteiso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. Polar lipids were diphosphatidylglycerol, dimannosyldiacylglycerol, phosphatidylglycerol, one unknown glycolipid, one unknown phospholipid and one unknown lipid. The acyl type of the cell-wall muramic acid was the acetyl type. Peptidoglycan was supposed to be the type B1 with 2,4-diaminobutyric acid on position 3. Strain 5116S-4T was clearly distinguishable from the phylogenetically related genera in the family Microbacteriaceae in terms of chemotaxonomic characteristics. On the basis of the chemotaxonomic and phylogenetic characteristics, a novel genus and species are proposed, Naasia aerilata gen. nov., sp. nov. The type strain of Naasia aerilata is 5116S-4T ( = KACC 15517T  = NBRC 108725T).

scholarly journals Pontibaca methylaminivorans gen. nov., sp. nov., a member of the family Rhodobacteraceae

2010 ◽  
Vol 60 (9) ◽  
pp. 2170-2175 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Song-Gun Kim
Keyword(s):  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
The Family ◽  
Novel Genus And Species ◽  
Unknown Phospholipid ◽  
Rrna Gene Sequencing ◽  
Family Rhodobacteraceae

The alphaproteobacterial strains GRP21T and PH34, which were isolated from coastal sediment of the East Sea, Korea, were subjected to a polyphasic taxonomic investigation. The strains were Gram-negative, non-motile, non-spore-forming, oval-shaped rods that produced creamy-white colonies on tryptic soy agar, required NaCl for growth, contained Q-10 as the predominant ubiquinone, contained 16 : 0, 18 : 1ω7c and 19 : 0 cyclo ω8c as major fatty acids and had polar lipid profiles consisting of phosphatidylcholine, phosphatidylglycerol, an unknown aminolipid, an unknown phospholipid and three unknown lipids. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that the strains were most closely related to Donghicola eburneus KCTC 12735T, with 94.5 % sequence similarity, but formed a separate lineage within the family Rhodobacteraceae. The combined genotypic and phenotypic data supported the conclusion that the strains represent a novel genus and species, for which the name Pontibaca methylaminivorans gen. nov., sp. nov. is proposed. The type strain of Pontibaca methylaminivorans is GRP21T (=KCTC 22497T =DSM 21219T).

scholarly journals Paenibacillus panacisoli sp. nov., a xylanolytic bacterium isolated from soil in a ginseng field in South Korea

2006 ◽  
Vol 56 (11) ◽  
pp. 2677-2681 ◽  
Author(s):  
Leonid N. Ten ◽  
Sang-Hoon Baek ◽  
Wan-Taek Im ◽  
Myungjin Lee ◽  
Hyun Woo Oh ◽  
...  
Keyword(s):  
South Korea ◽  
Sequence Similarity ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
The Family ◽  
Paenibacillus Illinoisensis ◽  
Signature Sequences ◽  
Type Strains

A Gram-positive, facultatively anaerobic, motile, spore-forming bacterium, designated Gsoil 1411T, was isolated from soil of a ginseng field in Pocheon Province (South Korea) and was characterized using a polyphasic approach. Comparative analysis of 16S rRNA gene sequences revealed that strain Gsoil 1411T belongs to the family Paenibacillaceae, with closest sequence similarity to the type strains of Paenibacillus xylanilyticus (95.7 %), Paenibacillus illinoisensis (95.2 %) and Paenibacillus pabuli (94.8 %). Strain Gsoil 1411T showed less than 94 % sequence similarity to the type strains of other recognized members of the genus Paenibacillus. In addition, the presence of MK-7 as the major menaquinone, anteiso-C15 : 0 as a major fatty acid (44.8 %) and the presence of PAEN513F and PAEN862F signature sequences suggest that it is affiliated to the genus Paenibacillus. The G+C content of the genomic DNA was 53.9 mol%. On the basis of its phenotypic characteristics and phylogenetic distinctiveness, strain Gsoil 1411T is suggested to represent a novel species within the genus Paenibacillus, for which the name Paenibacillus panacisoli sp. nov. is proposed. The type strain is Gsoil 1411T (=KCTC 13020T=LMG 23405T).

Barrientosiimonas humi gen. nov., sp. nov., an actinobacterium of the family Dermacoccaceae

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 241-248 ◽  
Author(s):  
Learn-Han Lee ◽  
Yoke-Kqueen Cheah ◽  
Shiran Mohd Sidik ◽  
Qing-Yi Xie ◽  
Yi-Li Tang ◽  
...  
Keyword(s):  
Cell Wall ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Taxonomic Status ◽  
Rrna Gene ◽  
Cell Wall Polysaccharide ◽  
Content Type ◽  
Link Type ◽  
The Family

Three novel actinobacteria, strains 39T, 40 and 41, were isolated from soil collected from Barrientos Island in the Antarctic. The taxonomic status of these strains was determined using a polyphasic approach. Comparison of 16S rRNA gene sequences revealed that strain 39T represented a novel lineage within the family Dermacoccaceae and was most closely related to members of the genera Demetria (96.9 % 16S rRNA gene sequence similarity), Branchiibius (95.7 %), Dermacoccus (94.4–95.3 %), Calidifontibacter (94.6 %), Luteipulveratus (94.3 %), Yimella (94.2 %) and Kytococcus (93.1 %). Cells were irregular cocci and short rods. The peptidoglycan type was A4α with an l-Lys–l-Ser–d-Asp interpeptide bridge. The cell-wall sugars were galactose and glucose. The major menaquinone was MK-8(H4). The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphoglycolipid, two glycolipids and one unknown phospholipid. The acyl type of the cell-wall polysaccharide was N-acetyl. The major cellular fatty acids were anteiso-C17 : 0 (41.97 %), anteiso-C17 : 1ω9c (32.16 %) and iso-C16 : 0 (7.68 %). The DNA G+C content of strain 39T was 68.4 mol%. On the basis of phylogenetic and phenotypic differences from other genera of the family Dermacoccaceae , a novel genus and species, Barrientosiimonas humi gen. nov., sp. nov., is proposed; the type strain of the type species is 39T ( = CGMCC 4.6864T  = DSM 24617T).

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