scholarly journals Mangrovibacterium lignilyticum sp. nov., a facultatively anaerobic lignin-degrading bacterium isolated from mangrove sediment

2020 ◽  
Vol 70 (8) ◽  
pp. 4502-4507 ◽  
Author(s):  
Chao Sun ◽  
Xiang Zeng ◽  
Qiliang Lai ◽  
Zhaoshou Wang ◽  
Zongze Shao

An alkali lignin-degrading, Gram-stain-negative, rod-shaped, non-motile and facultatively anaerobic bacterium, designated BM_7T, was isolated from mangrove sediment of the supralittoral zone in the Jiulong river estuary, PR China. The cells of strain BM_7T were 0.4–0.6 µm wide and 1.0–8.5 µm long. Oxidase and catalase activities were positive. Strain BM_7T could grow at 10–37 °C (optimum, 25–28 °C), at pH 6.0–8.0 (optimum, pH 7.0) and in the presence of 0.5–6 % (w/v) NaCl (optimum, 2%). Phylogenetic analysis of 16S rRNA gene sequences indicated that strain BM_7T belonged to the genus Mangrovibacterium of the family Prolixibacteraceae . It showed the highest similarity to Mangrovibacterium diazotrophicum JCM 19152T (96.8 %), followed by Mangrovibacterium marinum KCTC 42253T (96.1%). The values of average nucleotide identity and DNA–DNA hybridization were calculated as 76.9, 24.3 and 76.1, 17.4 % between strain BM_7T with M. diazotrophicum JCM 19152T and M. marinum KCTC 42253T, respectively. The major respiratory quinone of strain BM_7T was MK-7. The polar lipids were detected as phosphatidylethanolamine, three unidentified phospholipids and four unidentified aminolipids. The dominant fatty acids consisted of iso-C15 : 0, anteiso-C15 : 0, C15 : 1  ω6c, iso-C17 : 0 3-OH, C17 : 1  ω6c, C17 : 0 3-OH and C17 : 0. The genome size of strain BM_7T is 5.6 Mb, with G+C content of 43.4 mol%. Based on the phylogenetic and phenotypic characteristics, strain BM_7T was considered to represent a novel species of the genus Mangrovibacterium , and the name Mangrovibacterium lignilyticum sp. nov. is proposed. The type strain is BM_7T (=MCCC 1A15882T=KCTC 72696T).

Author(s):  
Jiangwei Li ◽  
Anyi Hu ◽  
Min Lv ◽  
Chang-Ping Yu

A bisphenol A-degrading bacterium, designated as strain H4T, was isolated from surface seawater, which was sampled from the Jiulong River estuary in southeast PR China. Strain H4T is Gram-stain-negative, aerobic, short rod-shaped, lacking bacteriochlorophyll a, motile with multifibrillar stalklike fascicle structures and capable of degrading bisphenol A. Growth of strain H4T was observed at 24–45 °C (optimum, 32 °C), at pH 5.5–9 (optimum, pH 7.0) and in 0–7 % NaCl (optimum, 2 %; w/v) . The 16S rRNA gene sequence of strain H4T showed highest similarity to Croceicoccus pelagius Ery9T (98.7 %), Croceicoccus sediminis (98.3 %), Croceicoccus naphthovorans PQ-2T (98.1 %) and Croceicoccus ponticola GM-16T (97.6 %), followed by Croceicoccus marinus E4A9T (96.7 %) and Croceicoccus mobilis Ery22T (96.0 %). Phylogenetic analysis revealed that strain H4T fell within a clade comprising the type strains of Croceicoccus species and formed a phyletic line with them that was distinct from other members of the family Erythrobacteraceae . The sole respiratory quinone was quinone 10 (Q-10). The predominant fatty acids (>5 % of the total fatty acids) of strain H4T were summed feature 8 (C18 : 1  ω6c and/or C18 : 1  ω7c), summed feature 3 (C16 : 1  ω6c and/or C16 : 1  ω7c), C17 : 1  ω6c and C14 : 02-OH. The genomic DNA G+C content was 62.8 mol%. In the polar lipid profile, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, two unidentified phospholipids, two sphingoglycolipids and three unknown lipids were the major compounds. Based on the genotypic and phenotypic data, strain H4T represents a novel species of the genus Croceicoccus , for which the name Croceicoccus bisphenolivorans sp. nov. is proposed. The type strain is H4T (=DSM 102182T=MCCC1 K02301T).


2020 ◽  
Vol 70 (8) ◽  
pp. 4816-4821 ◽  
Author(s):  
Yuzhong Hu ◽  
Yu Guo ◽  
Qiliang Lai ◽  
Le Dong ◽  
Zhaobin Huang

A marine bacterial strain, designated GM2-18T, was isolated from mangrove sediment sampled at Luoyang River estuary, Quanzhou, PR China. Cells were Gram-stain-negative, slightly curved long rod-shaped and facultatively anaerobic with no flagellum. Catalase activity was found to be weak-positive and oxidase-positive. It had no ability to degrade or hydrolyse substrates including skimmed milk, cellulose, starch and Tweens (40, 60 and 80). The 16S rRNA gene sequence of strain GM2-18T had maximum similarity values to ‘ Draconibacterium filum ’ F2T, Draconibacterium sediminis JN14CK-3T and Draconibacterium orientale FH5T of 98.0, 97.8 and 97.4 %, respectively. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain GM2-18T was affiliated to the genus Draconibacterium and formed a clade with an uncultured bacterium clone identified from mangrove environment. Average nucleotide identity values and DNA–DNA hybridization estimates of strain GM2-18T compared to its Draconibacterium relatives strongly supported that it belonged to a new species. The respiratory quinone was menaquinone MK-7. The major fatty acids (>10 %) consisted of iso-C15 : 0, anteiso-C15 : 0 and C17 : 1  ω6c. The polar lipids were phosphatidylethanolamine, a phospholipid and several unidentified lipids. The genomic size of strain GM2-18T was 5.9 Mb and the G+C content was 40.8 mol%. Gene prediction and annotation of strain GM2-18T indicated that there was a nitrogen-fixing gene cluster encoding nitrogenase molybdenum-iron protein and related proteins responsible for nitrogen fixation. Based on the above characteristics, strain GM2-18T represents a novel species within the genus Draconibacterium . Thus, Draconibacterium mangrovi sp. nov. is proposed with type strain GM2-18T (=MCCC 1K04382T=KCTC 72879T), isolated from mangrove sediment.


Author(s):  
En Yi ◽  
Zongze Shao ◽  
Guizhen Li ◽  
Xiaobo Liang ◽  
Meixian Zhou

A novel marine bacterium, designated strain CHFG3-1-5T, was isolated from mangrove sediment sampled at Jiulong River estuary, Fujian, PR China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain CHFG3-1-5T belonged to the genus Marinobacter , with the highest sequence similarity to Marinobacter segnicrescens SS011B1-4T (97.6%), followed by Marinobacter nanhaiticus D15-8WT (97.5%), Marinobacter bohaiensis T17T (97.1%) and Marinobacter hydrocarbonoclasticus SP.17T (90.6%). The bacterium was Gram-stain-negative, facultative anaerobic, oxidase- and catalase-positive, rod-shaped and motile with a polar flagellum. Strain CHFG3-1-5T grew optimally at 32–37 °C, pH 6.0–8.0 and in the presence of 2.0–3.0% (w/v) NaCl. The G+C content of the chromosomal DNA was 61.1 mol%. The major respiratory quinone was determined to be Q-9. The principal fatty acids were C16 : 0, summed feature 3 (C16 : 1 ω7c/ω6c), C12 : 0, summed feature 9 (C17 : 1 iso ω9c and/or C16 : 0 10-methyl), C12 : 0 3-OH and summed feature 8 (C18 : 1 ω7c and/or C18 : 1 ω6c). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, three phospholipids, one glycolipid and two aminolipids. The average nucleotide identity and digital DNA–DNA hybridization values among the genomes of strain CHFG3-1-5T and the reference strains were 73.4–79.4 and 19.6–22.4%, respectively. Like many other species reported in the genus Marinobacter , strain CHFG3-1-5T was able to oxidise iron. The combined genotypic and phenotypic data showed that strain CHFG3-1-5T represents a novel species within the genus Marinobacter , for which the name Marinobacter mangrovi sp. nov. is proposed, with the type strain CHFG3-1-5T (=MCCC 1A18306T=KCTC 82398T).


Author(s):  
Donghua Qiu ◽  
Xiang Zeng ◽  
Lingyu Zeng ◽  
Guangyu Li ◽  
Zongze Shao

An anaerobic, alkaliphilic, halotolerant, Gram-stain-positive and rod-shaped bacterium, designated Q10-2T, was isolated from mangrove sediment sampled at the Jiulong river estuary, PR China. The cells of strain Q10-2T were motile and 0.5×2–4 µm in size. Strain Q10-2T grew at 8–45 °C (optimum, 32 °C), at pH 7.0–10.5 (optimum, pH 8.5) and in the presence of 0–6 % (w/v) NaCl (optimum, 3 %). It could use complex organic compounds and carbohydrates including d-fructose, d-galactose, d-glucose, d-mannitol, d-xylose, trehalose, lactose, maltose, sucrose and starch as carbon sources and electron donors. It could reduce sulphate, thiosulphate and elemental sulphur to sulphide, but not sulphite. Fe (Ⅲ) citrate, ferrihydrite, haematite and goethite in the presence of glucose as the electron donor were also reduced. Acetate, butyrate, ethanol, CO2 and H2 were end products of glucose fermentation. The predominant cellular fatty acids were composed of C14 : 0, C16 : 0 and summed features containing C16 : 1 ω7c and/or iso-C15 : 0 2-OH and iso-C17 : 1 and/or anteiso-C17 : 1 B. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the novel strain was most closely related to Fusibacter paucivorans DSM 12116T (95.5 % sequence similarity). The genome size of strain Q10-2T was 5.0 Mb, with a G+C content of 37.4 mol%. The average nucleotide identity and digital DNA–DNA hybridization values between strain Q10-2T and F. paucivorans DSM 12116T were 69.1 and 21.8 %, respectively. The combined genotypic and phenotypic data showed that strain Q10-2T represents a novel species of the genus Fusibacter , for which the name Fusibacter ferrireducens sp. nov. is proposed. The type strain is Q10-2T (=MCCC 1A16257T=KCTC 15906T).


2020 ◽  
Vol 70 (12) ◽  
pp. 6220-6225 ◽  
Author(s):  
Yanyan Li ◽  
Yu Wang ◽  
Yina Wang ◽  
Fang Lin ◽  
Hongmei Zhu ◽  
...  

A novel Gram-stain-negative, rod-shaped, aerobic, oxidase-positive and catalase-positive bacterium of the genus Pseudooceanicola , designated strain E2-1T, was isolated from surface water of Jiulong River Estuary, PR China. Cells of strain E2-1T grew in medium containing 0.5–12 % NaCl (w/v; optimum, 2–4 %), at 15–45 °C (optimum, 28–33 °C) and at pH 7.0–9.0 (optimum, pH 7.0–8.0). Comparative analyses of the 16S rRNA gene sequence revealed that strain E2-1T had the highest similarity to Pseudooceanicola nitratireducens JLT1210T (97.3 %) and Pseudooceanicola batsensis HTCC2597T (97.1 %), and had less than 97.0 % 16S rRNA gene sequence similarity to other type strains within the genus Pseudooceanicola . The DNA G+C content of strain E2-1T was 65.7 mol%. The average nucleotide identity and digital DNA–DNA hybridization relatedness values between E2-1T and related type strains were 75.0 and 20.1 % with P. nitratireducens JLT1210T and 75.6 and 20.4 % with P. batsensis HTCC2597T, respectively. The sole isoprenoid quinone was Q-10; the predominant polar lipids were diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, three unidentified phospholipids and six unidentified lipids; the major cellular fatty acids were C16 : 0 (17.5 %), C19 : 0 cyclo ω8c (22.7 %) and summed feature 8 (C18 : 1  ω7c/C18 : 1  ω6c; 10.1 %). According to the phylogenetic and genotypic results, strain E2-1T represents a novel species in the genus Pseudooceanicola , for which the name Pseudooceanicola aestuarii sp. nov. is proposed. The type strain is E2-1T (=MCCC 1K03742T=KCTC 72107T).


2020 ◽  
Vol 70 (7) ◽  
pp. 4245-4249 ◽  
Author(s):  
kun-lian Mo ◽  
Ling Wang ◽  
Qing-juan Wu ◽  
Lin Ye ◽  
Xing-di Liu ◽  
...  

A Gram-stain-negative, short-rod-shaped and pink-pigmented bacterial strain (HB172049T) was isolated from mangrove sediment. Cells grew at 10–45 °C (optimum, 30 °C), pH 6.0–9.0 (optimum, pH 7.0) and with 0.5–9.0 % (w/v) NaCl (optimum, 2–5 %). Analysis of the 16S rRNA gene sequence revealed that the isolate had highest sequence similarities to Pontibacter mucosus DSM 100162T (96.5 %) and Pontibacter korlensis X14-1T (96.5 %). The values of average nucleotide identity, average amino acid identity and digital DNA–DNA hybridization between the isolate and its close neighbours were, respectively, less than 80.1, 81.7 and 23.2 %. Chemotaxonomic analysis indicated that the sole respiratory quinone was MK-7 and the predominant cellular fatty acids were summed feature 4 and iso-C15 : 0 (42.2 and 24.6 %, respectively). The major polar lipids consisted of phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylglycerol, one unidentified glycolipid, one unidentified phospholipid, one unidentified aminophospholipid and two unidentified polar lipids. The genomic DNA G+C content was 52.6 mol%. Based on polyphasic taxonomic characterization, it is proposed that strain HB172049T belongs to the genus Pontibacter and represents a novel species, for which the name Pontibacter mangrovi sp. nov. is proposed. The type strain is HB172049T (=CGMCC 1.16729T=JCM 33333T).


2020 ◽  
Vol 70 (3) ◽  
pp. 1503-1507 ◽  
Author(s):  
Kunlian Mo ◽  
Huiqin Huang ◽  
Shixiang Bao ◽  
Yonghua Hu

A Gram-variable, aerobic, motile and irregular rod-shaped bacterium, designated HB172195T, was isolated from a mangrove sediment sample collected from Bamen Bay mangrove forest, China. Cells of the strain were oxidase-negative but positive for catalase and nitrate reduction. Strain HB172195T was found to grow at 15–50 °C (optimum, 25–40 °C), pH 5.0–9.0 (optimum, pH 7.0) and in 1.0–11.0 % (w/v) NaCl (optimum, 3–6 %). Chemotaxonomic analysis indicated that the sole respiratory quinone was MK-7 and the cell-wall peptidoglycan was meso-diaminopimelic acid. The predominant cellular fatty acids were anteiso-C15 : 0, anteiso-C17 : 0 and C16 : 1ω7c alcohol. The major polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol and an unidentified phospholipid. The genomic DNA G+C content was 40.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain was closely related to Bacillus hwajinpoensis SW-72T (96.3%), Bacillus algicola KMM 3737T (96.2 %) and Bacillus haemicentroti JSM 076093T (95.5 %). Based on polyphasic taxonomic characterization, strain HB172195T is considered to represent a novel species, for which the name Bacillus caeni sp. nov. is proposed. The type strain is HB172195T (=CGMCC 1.16730T=JCM 33411T).


2020 ◽  
Vol 70 (12) ◽  
pp. 6188-6194
Author(s):  
Weiyan Zhang ◽  
Suting Zhu ◽  
Yuping Cheng ◽  
Lijian Ding ◽  
Shengying Li ◽  
...  

A Gram-stain-negative, rod-shaped, motile and strictly aerobic bacterium, designated LHK132T, was isolated from a mangrove sediment sample collected in Haikou, Hainan Province, PR China. Strain LHK132T was able to grow at temperatures of 10–45 °C, at salinities of 0–7.0 % (w/v) and at pH 6.0–9.0. Catalase and oxidase activities, H2S production, urease and methyl red reaction were positive. Indole, nitrate reduction, hydrolysis of gelatin, starch, casein and Tweens 20, 40, 60 and 80 were negative. The major cellular fatty acids were C16 : 0 and summed feature 3 (C16 : 1  ω7c and/or C16 : 1  ω6c). The only respiratory quinone was ubiquinone-8. The major polar lipids were phosphatidylethanolamine and phosphatidylglycerol. According to 16S rRNA gene sequence analysis, strain LHK132T had 98.3, 97.5, 97.4, 97.2 and 97.1% similarities to Rheinheimera soli BD-d46T, Rheinheimera sediminis YQF-1T, Rheinheimera tangshanensis JA3-B52T, Rheinheimera mesophila IITR-13T and Rheinheimera arenilitoris J-MS1T, respectively. Phylogenetic analyses indicated that strain LHK132T formed a distinct lineage with R. soli BD-d46T within the genus Rheinheimera . The average nucleotide identity and digital DNA–DNA hybridization values between strain LHK132T and related species of the genus Rheinheimera were well below the thresholds for species delineation. The DNA G+C content was 46.7 mol%. On the basis of its phenotypic, chemotaxonomic and genotypic data, strain LHK132T is considered a representative of a novel species in the genus Rheinheimera , for which the name Rheinheimera mangrovi sp. nov. is proposed. The type strain is LHK132T (=KCTC 62580T=MCCC 1K03529T).


2020 ◽  
Vol 70 (4) ◽  
pp. 2896-2900 ◽  
Author(s):  
Li Duan ◽  
Jia-ling Li ◽  
Xin Li ◽  
Lei Dong ◽  
Bao-Zhu Fang ◽  
...  

A novel bacterium, designated strain SYSU M00256-3T, was isolated from a water sample collected from Pearl River Estuary at Guangzhou, PR China. Its taxonomic position was determined by using a polyphasic approach. Cells of the strain were Gram-staining-negative, motile, aerobic and rod-shaped with peritrichous flagella. It could grow at 15–45 °C, pH 4.0–10.0 and in the presence of 0–7.5 % (w/v) NaCl. The chemotaxonomic features of strain SYSU M00256-3T included ubiquinone-10 (Q-10) as the sole respiratory quinone; phosphatidylcholine, phosphatidylmethylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid as major polar lipids; summed feature 8 (C18 : 1  ω7c and C18 : 1  ω6c) as the predominant fatty acids (>70 %). On the basis of 16S rRNA gene sequence analysis, strain SYSU M00256-3T was most closely related to the type strains of Roseibium hamelinense CGMCC 1.12584T (97.7 %) and R. aquae CGMCC 1.12426T (97.2 %), R. sediminis KCTC 52373T (96.7 %), R. denhamense CGMCC 1.12583T (96.4 %). The average nucleotide identity (ANI) values between R. aestuarii SYSU M00256-3T and R. hamelinense CGMCC 1.12584T, R. aquae CGMCC 1.12426T, R. denhamense CGMCC 1.12583T and R. sediminis KCTC 52373T were 78.0, 78.2, 77.7 and 78.8, and the dDDH value is 20.0, 20.8, 20.1 and 20.6 correspondingly. Based on the analyses of the phenotypic, genotypic and phylogenetic characteristics, strain SYSU M00256-3T is characterized to represent a novel species of the genus Roseibium , for which the name Roseibium aestuarii sp. nov. is proposed. The type strain is SYSU M00256-3T (=NBRC 112946T=CGMCC 1.16156T).


Author(s):  
Miaomiao Li ◽  
Qingyun Ma ◽  
Delong Kong ◽  
Xiaoyan Han ◽  
Juan Che ◽  
...  

A Gram-stain-negative, aerobic, motile, short-rod-shaped bacterium with nicosulfuron-degrading ability, designated strain LAM1902T, was isolated from a microbial consortium enriched with nicosulfuron as a sole nitrogen and energy source. The optimal temperature and pH for growth of strain LAM1902T were 30 °C and pH 6.0, respectively. Strain LAM1902T could grow in the presence of NaCl with concentration up to 4.0 % (w/v). Comparative analysis of 16S rRNA gene sequences revealed that LAM1902T was closely related to the members of the family Pseudomonadaceae to the genus Pseudomonas , with the highest similarity to Pseudomonas nitroreducens DSM 14399T (99.6 %), Pseudomonas nitritireducens WZBFD3-5A2T (99.3 %) and Pseudomonas panipatensis Esp-1T (98.8 %). Multi-locus sequence analysis based on both concatenated sequences of the 16S rRNA gene and three housekeeping genes (gyrB, rpoB and rpoD) further confirmed the intrageneric phylogenetic position of strain LAM1902T. The genomic DNA G+C content of LAM1902T was 64.8 mol%. The low values of in silico DNA–DNA hybridization (less than 43.7 %) and average nucleotide identity (less than 90.9 %) also showed that the strain was distinctly different from known species of the genus Pseudomonas . The major fatty acids were C16 : 0, C17 : 0 cyclo and anteiso C15 : 0. Ubiquinone Q-9 was detected as the predorminant respiratory quinone. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and aminophospholipid. Based on phylogenetic, phenotypic and chemotaxonomic analyses and genome comparisons, we conclude that strain LAM1902T represents a novel species, for which the name Pseudomonas nicosulfuronedens sp. nov. is proposed. The type strain is LAM1902T (=JCM 33860T=KCTC 72830T).


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