scholarly journals Halomonas jincaotanensis sp. nov., a 1-naphthylamine degrading bacterium isolated from Pamir Plateau

2021 ◽  
Author(s):  
Xuying Bu ◽  
Zhanfneg Xia ◽  
Zhanwen Liu ◽  
Min Ren ◽  
Chuanxing Wan ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
High Sequence Similarity ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Degrading Bacterium ◽  
Optimum Ph ◽  
Unknown Structure ◽  
Pr China

Abstract A Gram-staining-negative, aerobic, rod-shaped bacterium, designated strain TRM 85114 T , was isolated from Jincaotan wetland in Pamir Plateau, PR China. According to the study, we found it have an ability to degrade 1-naphthylamine. Strain TRM 85114 T grow at 4-35 ℃ (optimum, 30 ℃), pH of 6.0-9.0 (optimum, pH 6.0) and can tolerate 1%-10% (w/v) NaCl (optimum, 3%). Phylogenetic analysis of 16S rRNA gene sequences revealed that strain TRM 85114 T was affiliated of the genus Halomonas , sharing high sequence similarity (97.3%) with the type strain of Halomonas korlensis XK1 T . The primary cellular fatty acids of strain TRM 85114 T were C 16:0 and C 19:0 cyclo ω 8 c . The predominate respiratory quinone was Q-9. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, lyso-phospatidylglycerol, phospholipids of unknown structure containing glucosarmine, and five unidentified lipids. The genomic DNA G+C content of strain TRM 85114 T was 61.6 mol%. Calculated the average nucleotide identities and the digital DNA-DNA hybridization values between strain TRM 85114 T and the related type Halomonas strains further revealed that TRM 85114 T represented a novel species of the genus Halomonas , for which the name Halomonas jincaotanensis sp. nov. is proposed. The type strain is TRM 85114 T (CCTCC AB 2021006 T =LMG 32311 T ).

Halomonas Jincaotanensis Sp. Nov., a 1-naphthylamine Degrading Bacterium Isolated From Pamir

2021 ◽  
Author(s):  
Xuying Bu ◽  
Zhanfeng Xia ◽  
Zhanwen Liu ◽  
Min Ren ◽  
Chuanxing Wan ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
High Sequence Similarity ◽  
Respiratory Quinone ◽  
Degrading Bacterium ◽  
Optimum Ph ◽  
Pr China

Abstract A Gram-stain-negative, aerobic, rod-shaped bacterium, designated strain TRM85114T, was isolated from Jincaotan in Pamir, PR China. We found it has the ability to degrading 1-naphthylamine. Strain TRM85114T grows at 4-40 °C (optimum, 30 °C), at pH 6.0-9.0 (optimum, pH 6.0-7.0) and with 3%-15% (w/v) NaCl (optimum, 3%-6%). Phylogenetic analysis of 16S rRNA gene sequences revealed that strain TRM85114T is affiliated with the genus Halomonas, sharing high sequence similarity (97.3%) with the type strain of Halomonas korlensis CGMCC 1.6981T. The major fatty acids of strain TRM85114T are C12:0 3-OH, C16:0, C17:0 cyclo, C19:0 cyclo ω8c, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c) and summed feature 8 (C18:1 ω6c and/or C18:1 ω7c). The predominant respiratory quinone is Q-7. The genomic DNA G + C content of strain TRM85114T was determined to be 61.6 mol%. Calculating the average nucleotide identities and the digital DNA-DNA hybridization values between strain TRM85114T and the related type Halomonas strains further revealed that TRM85114T represented a novel species of the genus Halomonas. The name Halomonas jincaotanensis sp. nov. is proposed. The type strain is TRM85114T (CCTCC AB 2021006T =LMG 32311T).

scholarly journals Paenibacillus ripae sp. nov., isolated from bank side soil

2015 ◽  
Vol 65 (Pt_12) ◽  
pp. 4757-4762 ◽  
Author(s):  
Ying Sun ◽  
Zhaohui Guo ◽  
Qi Zhao ◽  
Qiyu Gao ◽  
QinJian Xie ◽  
...  
Keyword(s):  
Gene Sequence ◽  
Novel Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Gene Sequence Analysis ◽  
Optimum Ph ◽  
Pr China ◽  
Diamino Acid

A Gram-stain-variable, rod-shaped, non-motile and endospore-forming bacterium, designated strain HZ1T, was isolated from a sample of bank side soil from Hangzhou city, Zhejiang province, PR China. On the basis of 16S rRNA gene sequence analysis, strain HZ1T was closely related to members of the genus Paenibacillus, sharing the highest levels of sequence similarity with Paenibacillus agarexedens DSM 1327T (94.4 %), Paenibacillus sputi KIT00200-70066-1T (94.4 %). Growth occurred at 15–42 °C (optimum 30–37 °C), pH 5.0–9.5 (optimum pH 7.0–8.0) and NaCl concentrations of up to 6.0 % (w/v) were tolerated (optimum 0.5 %). The dominant respiratory quinone was MK-7 and the DNA G+C content was 40.1 mol%. The major fatty acids were anteiso-C15 : 0 and iso-C16 : 0. The major polar lipids of strain HZ1T were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and several unknown lipids. The diagnostic diamino acid found in the cell-wall peptidoglycan was meso-diaminopimelic acid. Based on its phenotypic and chemotaxonomic characteristics and phylogenetic data, strain HZ1T represents a novel species of the genus Paenibacillus, for which the name Paenibacillus ripae sp. nov. (type strain HZ1T = CCTCC AB 2014276T = LMG 28639T) is proposed.

scholarly journals Polaribacter atrinae sp. nov., isolated from the intestine of a comb pen shell, Atrina pectinata

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1654-1661 ◽  
Author(s):  
Dong-Wook Hyun ◽  
Na-Ri Shin ◽  
Min-Soo Kim ◽  
Pil Soo Kim ◽  
Mi-Ja Jung ◽  
...  
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Pen Shell ◽  
Atrina Pectinata

A novel Gram-staining-negative, aerobic, non-motile, yellow-to-orange carotenoid-type-pigmented and rod-shaped bacterium, designated strain WP25T, was isolated from the intestine of a comb pen shell, Atrina pectinata, which was collected from the South Sea near Yeosu in Korea. The isolate grew optimally at 20 °C, at pH 7 and with 2 % (w/v) NaCl. 16S rRNA gene sequence analysis showed that strain WP25T belonged to the genus Polaribacter in the family Flavobacteriaceae and the highest sequence similarity was shared with the type strain of Polaribacter sejongensis (98.5 %). The major cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, C15 : 1ω6c and iso-C15 : 0 3-OH. The main respiratory quinone was menaquinone MK-6. The polar lipids of strain WP25T were phosphatidylethanolamine, two unidentified aminolipids, an unidentified phospholipid and four unidentified lipids. The genomic DNA G+C content was 31.2 mol%. DNA–DNA hybridization experiments indicated <12.6 % genomic relatedness with closely related strains. Based on phylogenetic, phenotypic and genotypic analyses, strain WP25T represents a novel species in the genus Polaribacter , for which the name Polaribacter atrinae sp. nov. is proposed, with the type strain WP25T ( = KACC 17473T = JCM 19202T).

scholarly journals Niastella populi sp. nov., isolated from soil of Euphrates poplar (Populus euphratica) forest, and emended description of the genus Niastella

2010 ◽  
Vol 60 (3) ◽  
pp. 542-545 ◽  
Author(s):  
Kundi Zhang ◽  
Yang Wang ◽  
Yali Tang ◽  
Jun Dai ◽  
Lei Zhang ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Populus Euphratica ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Optimum Ph ◽  
Emended Description ◽  
Euphrates Poplar ◽  
Major Respiratory Quinone

A novel bacterial strain, designated THYL-44T, was isolated from the soil of a Euphrates poplar (Populus euphratica) forest in Xinjiang, China. The cells were strictly aerobic, Gram-staining-negative, non-flagellated, non-motile and filamentous. Growth occurred at 17–37 °C (optimum 30 °C), at pH 5.0–8.0 (optimum pH 7.0) and with 0–1 % NaCl (w/v; optimum 0 %). Flexirubin pigments were not produced. A phylogenetic analysis based on 16S rRNA gene sequences revealed that strain THYL-44T was closely related to Niastella koreensis KACC 11465T (95.5 % sequence similarity). The major respiratory quinone was MK-7 and the predominant cellular fatty acids were iso-C15 : 0 (28.6 %), iso-C17 : 0 3-OH (23.9 %) and iso-C15 : 1 G (17.4 %). The DNA G+C content was 45.2 mol%. Therefore, the phylogenetic, physiological and chemotaxonomic data demonstrated that strain THYL-44T represents a novel species of the genus Niastella, for which the name Niastella populi sp. nov. is proposed. The type strain is THYL-44T (=CCTCC AB 208238T=KCTC 22560T). On the basis of new data, an emended description of the genus Niastella is also proposed.

Rhodocytophaga aerolata gen. nov., sp. nov., a new member of the family Cytophagaceae isolated from air

2010 ◽  
Vol 60 (7) ◽  
pp. 1554-1558 ◽  
Author(s):  
Rangasamy Anandham ◽  
Hang-Yeon Weon ◽  
Soo-Jin Kim ◽  
Yi-Seul Kim ◽  
Soon-Wo Kwon
Keyword(s):  
Type Strain ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
The Family ◽  
Major Respiratory Quinone

A strictly aerobic, Gram-staining-negative, oxidase- and catalase-positive, non-motile, rod-shaped bacterium, designated strain 5416T-29T, was isolated from air and was characterized by using a polyphasic approach. Colonies were reddish pink and circular with entire margins. Flexirubin-type pigments were absent. The strain formed a distinct phylogenetic lineage within the family Cytophagaceae of the phylum Bacteroidetes. Strain 5416T-29T did not show more than 88 % 16S rRNA gene sequence similarity to the type strain of any recognized species. The major cellular fatty acids were C16 : 1 ω5c, iso-C17 : 0 3-OH and iso-C15 : 0. The polar lipids were phosphatidylethanolamine, one unknown amino lipid and several unknown polar lipids. Menaquinone-7 (MK-7) was the major respiratory quinone. The G+C content of the DNA of strain 5416T-29T was 45.5 mol%. Results of phenotypic and phylogenetic analyses clearly indicate that strain 5416T-29T represents a novel species of a new genus in the family Cytophagaceae, for which the name Rhodocytophaga aerolata gen. nov., sp. nov. is proposed. The type strain of Rhodocytophaga aerolata is 5416T-29T (=KACC 12507T =DSM 22190T).

scholarly journals Oceanisphaera psychrotolerans sp. nov., isolated from coastal sediment samples

2015 ◽  
Vol 65 (Pt_9) ◽  
pp. 2797-2802 ◽  
Author(s):  
Shan Zhou ◽  
Huimin Wang ◽  
Yanwei Wang ◽  
Kedong Ma ◽  
Mingxiong He ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Coastal Sediment ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Sediment Samples ◽  
Gram Staining ◽  
Optimum Ph ◽  
Method Analysis ◽  
Reference Strains ◽  
The 16S Rrna Gene

A novel aerobic, Gram-staining-negative bacterium, designated strain LAM-WHM-ZCT, was isolated from coastal sediment samples from the Bohai Sea, near Yantai, China. Cells of LAM-WHM-ZCT were non-motile, short-rod- or coccoid-shaped. The temperature and pH ranges for growth were 4–40  °C (optimum: 20–33  °C) and pH 5–9 (optimum: pH 7.5). The strain did not require NaCl for growth but tolerated up to 10 % NaCl (w/v). The major fatty acids of strain LAM-WHM-ZCT were summed feature 3, C12 : 0, C16 : 0, summed feature 2 and summed feature 8. The predominant respiratory quinone was ubiquinone Q-8. The main polar lipids were diphosphatidyglycerol, phosphatigylethanolamine, phosphatidyglycerol, one phospholipid and four unidentified glycolipids. The DNA G+C content was 59.3 mol% as determined by the melting temperature (T m) method. Analysis of the 16S rRNA gene sequence indicated that the isolate represented a member of the genus Oceanisphaera and was closely related to Oceanisphaera arctica KCTC 23013T, Oceanisphaera litoralis DSM 15406T, Oceanisphaera sediminis KACC 15117T and Oceanisphaera donghaensis KCTC 12522T with 97.7 %, 97.1 %, 96.6 % and 96.6 % sequence similarity, respectively. The DNA–DNA hybridization values between strain LAM-WHM-ZCT and the four reference strains were 47.4 ± 2.8 %, 33.5 ± 2.2 %, 28.4 ± 1.8 % and 13.7 ± 0.8 %, respectively. Based on its phenotypic and genotypic properties, strain LAM-WHM-ZCT is suggested to represent a novel species of the genus Oceanisphaera, for which the name Oceanisphaera psychrotolerans sp. nov. is proposed. The type strain is LAM-WHM-ZCT ( = ACCC 06516T = JCM 30466T).

Photobacterium aquae sp. nov., isolated from a recirculating mariculture system

2014 ◽  
Vol 64 (Pt_2) ◽  
pp. 475-480 ◽  
Author(s):  
Ying Liu ◽  
Liang-Zi Liu ◽  
Lei Song ◽  
Yu-Guang Zhou ◽  
Fang-Jun Qi ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Optimum Ph ◽  
Distinct Phylogenetic Lineage

A Gram-staining-negative, heterotrophic, facultatively anaerobic bacterium, designated AE6T, was isolated from a grouper (Epinephelus malabaricas) culture tank in a recirculating mariculture system located in Tianjin, China. Strain AE6T was able to grow at 15–40 °C (optimum, 30–35 °C), at pH 5.5–10.0 (optimum, pH 7.0–7.5) and in the presence of 0.5–7 % (w/v) NaCl (optimum, 2–3 %). It contained Q-8 as the predominant respiratory quinone, phosphatidylethanolamine (PE) and phosphatidylglycerol (PG) as the major polar lipids and C16 : 1ω7c/C16 : 1ω6c (40.4 %), C18 : 1ω7c (15.5 %) and C16 : 0 (13.5 %) as the predominant cellular fatty acids. The genomic DNA G+C content was 47.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain AE6T belonged to the genus Photobacterium (94.2–96.8 % of 16S rRNA gene sequence similarity) and formed a distinct phylogenetic lineage within the genus and exhibited the highest sequence similarity to Photobacterium aphoticum CECT 7614T (96.8 %). Multilocus sequence analysis (MLSA) using four loci (gyrB, rpoA, pyrH and recA) also revealed that strain AE6T was phylogenetically related to the genus Photobacterium . Based on the phylogenetic, chemotaxonomic and phenotypic evidence, strain AE6T is considered to represent a novel species of the genus Photobacterium , for which the name Photobacterium aquae sp. nov. is proposed. The type strain is AE6T ( = CGMCC 1.12159T = JCM 18480T).

scholarly journals Mangrovibacter yixingensis sp. nov., isolated from farmland soil

2015 ◽  
Vol 65 (Pt_8) ◽  
pp. 2447-2452 ◽  
Author(s):  
Hao Zhang ◽  
Su-hui Guo ◽  
Bin Sun ◽  
Jing Zhang ◽  
Ming-gen Cheng ◽  
...  
Keyword(s):  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Optimal Conditions ◽  
16S Rrna Gene Sequences ◽  
High Sequence Similarity ◽  
Phenotypic Data ◽  
Respiratory Quinone ◽  
Gram Staining ◽  
Farmland Soil

A Gram-staining-negative, facultatively anaerobic, rod-shaped, nitrogen-fixing bacterial strain, designated TULL-AT, was isolated from a farmland soil sample in Yixing, China. The optimal conditions for growth were 30 °C, pH 7.0–8.0 and 0 % (w/v) NaCl. Q8 was the dominant respiratory quinone and the major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and aminophospholipid. Phylogenetic analysis of 16S rRNA gene sequences showed that strain TULL-AT was most closely related to Mangrovibacter plantisponsor MSSRF40T (99.6 %), followed by Salmonella enterica subsp. diarizonae DSM 14847T (96.8 %) and Cronobacter condimenti 1330T (96.8 %). Sequence analysis of the genes rpoB, gyrB and hsp60 revealed that those of strain TULL-AT also exhibit high sequence similarity with those of the species M. plantisponsor MSSRF40T (95.5, 94.1 and 93.4 %). The genomic DNA G+C content was 52 mol%. The major fatty acids of strain TULL-AT were C16 : 0, C16 : 1ω7c and/or C16 : 1ω6c, C18 : 1ω7c /C18 : 1ω6c, C14 : 0, C14 : 0 3-OH/iso-C16 : 1 I and iso-C17 : 1 I and/or anteiso-C17 : 1 B. Strain TULL-AT showed low DNA–DNA relatedness with M. plantisponsor MSSRF40T (35.10 ± 1.41 %). Based on the multiple genotypic and phenotypic data, strain TULL-AT is considered to represent a novel species of the genus Mangrovibacter, for which the name Mangrovibacter yixingensis sp. nov. is proposed. The type strain is TULL-AT ( = ACCC 19709T = KCTC 42181T).

Marixanthomonas spongiae sp. nov., isolated from marine sponge

2021 ◽  
Vol 71 (8) ◽  
Author(s):  
Lingping Zhuang ◽  
Haiyue Pang ◽  
Li Xu ◽  
Dan Chen
Keyword(s):  
Marine Sponge ◽  
Type Strain ◽  
Type Species ◽  
Sequence Similarity ◽  
Amino Acid Identity ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Pr China

A novel bacterial strain, designated as HN-E44T, was isolated from marine sponge collected from Yangpu Bay, Hainan, PR China. Strain HN-E44T was Gram-stain-negative, non-motile, catalase-positive, oxidase-negative, rod-shaped and yellow-pigmented. Growth occurred at 4–37 °C (optimum, 28 °C), at pH 6–8 (pH 7) and in 0.5–14 % (w/v) NaCl (3–5 %). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain HN-E44T formed an independent cluster with Marixanthomonas ophiurae JCM 14121T within the family Flavobacteriaceae and had the highest sequence similarity of 93.6 % to the closest type strain M. ophiurae JCM 14121T. The major fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 0 3-OH, summed feature 3 (C16 : 1  ω7c and/or C16 : 1  ω6c) and iso-C15 : 1 G. The polar lipids comprised phosphatidylethanolamine, sphingolipid, four unidentified phospholipids, an unidentified aminophospholipid and an unidentified lipid. The respiratory quinone was identified as MK-6. The genomic DNA G+C content was determined to be 40.6 mol%. The average nucleotide identity (ANI) and average amino acid identity (AAI) values between strain HN-E44T and closest type strain M. ophiurae JCM 14121T were, respectively, 79.6 and 85.2 %, both of which were below thresholds for species delineation (95–96 % ANI and 95–96 % AAI), but were over thresholds for genus delineation (73.98 % ANI and 70–76 % AAI). The combined genotypic and phenotypic distinctiveness demonstrated that strain HN-E44T could be differentiated from closely related genera. Therefore, it is proposed that strain HN-E44T represents a novel species of the genus Marixanthomonas , for which the name Marixanthomonas spongiae sp. nov. is proposed, with the type strain HN-E44T (=MCCC 1K03332T=LMG 30459T).

scholarly journals Flavobacterium dongtanense sp. nov., isolated from the rhizosphere of a wetland reed

2011 ◽  
Vol 61 (2) ◽  
pp. 343-346 ◽  
Author(s):  
Yi-Ping Xiao ◽  
Wei Hui ◽  
Jung-Sook Lee ◽  
Keun Chul Lee ◽  
Zhe-Xue Quan
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Distinct Group ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Phenotypic Characteristics ◽  
High Sequence Similarity ◽  
Respiratory Quinone ◽  
Optimum Ph ◽  
Major Respiratory Quinone

Two strains of Gram-reaction-negative, rod-shaped, non-spore-forming, non-motile, aerobic bacteria, designated LW30T and LW29, were isolated from the rhizosphere of a wetland reed in Dongtan, Chongming Island, China. The strains formed pale-yellow colonies on R2A plates. Growth occurred at 4–37 °C (optimum 30 °C), at pH 6–9 (optimum pH 7–8) and in the presence of 0–3 % (w/v) NaCl (optimum 0–1 %). Oxidase and catalase activities and flexirubin-type pigments were absent. MK-6 was the major respiratory quinone. The major fatty acids were iso-C15 : 0, C15 : 0, iso-C15 : 1 G and iso-C17 : 1 ω9c. Strains LW30T and LW29 could be differentiated from related species by several phenotypic characteristics. Phylogenetic analyses based on 16S rRNA gene sequences placed strains LW30T and LW29 in the genus Flavobacterium with high sequence similarity to Flavobacterium cheniae NJ-26T (94.0 %) and Flavobacterium indicium GPTSA 100-9T (93.9 %). Together with F. indicium GPTSA 100-9T, strains LW30T and LW29 formed a distinct group in the phylogenetic tree. The DNA G+C content was 30 mol%. On the basis of the phylogenetic and phenotypic evidence, strains LW30T and LW29 represent a novel species of the genus Flavobacterium, for which the name Flavobacterium dongtanense sp. nov. is proposed. The type strain is LW30T (=KCTC 22671T =CCTCC AB 209201T).

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