Fengqin Sun

Third Institute of Oceanography China, Amoy, Fujian, China

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Publications (36)90.45 Total impact

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    ABSTRACT: A taxonomic study was carried out on strain 22II1-22F33T, which was isolated from the deep sea water of the Atlantic Ocean. The bacterium was gram-negative, oxidase positive and catalase weakly positive, oval in shape without flagellum. Growth was observed at salinities of 0-12% and at temperatures of 4-41°C. The isolate was capable of hydrolyzing aesculin and Tween 80 and reduction of nitrate to nitrite, but unable to hydrolyze gelatine. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II1-22F33T belonged to the family Rhodobacteraceae, with highest sequence similarity to Pseudooceanicola marinus AZO-CT (96.5%). The principal fatty acids (>5%) were Summed Feature 8 (C18:1ω7c/ω6c) (73.8%), C16:0 2OH (5.6%) and C18:1ω7c11-methyl (5.5%). The G+C content of the chromosomal DNA was 66.2 mol%. The respiratory quinone was determined to be Q-10 (100%). Phosphatidylethanolamine (PE), phosphatidylglycerol (PG), phosphatidylcholine (PC), two unidentified aminolipid (ALs), six unidentified phospholipid (PLs), and one unidentified lipid (L) were present. The combined genotypic and phenotypic data show that strain 22II1-22F33T represents a novel species within a novel genus, for which the name Marinibacterium profundimaris gen. nov. sp. nov. is proposed, with the type strain 22II1-22F33T (= LMG 27151T = MCCC 1A09326T).
    International Journal of Systematic and Evolutionary Microbiology 08/2015; DOI:10.1099/ijsem.0.000557 · 2.80 Impact Factor
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    ABSTRACT: A novel strain 22II-S11-z3T was isolated from the deep sea sediment of the Atlantic Ocean. The bacterium was aerobic, Gram-negative, oxidase positive and catalase negative, oval- to rod-shaped, and non-motile. Growth was observed at salinities of 1-9% and at temperatures of 10-45°C. The isolate was capable of aesculin hydrolysis and Tween 20, 40 and 80 degradation, but unable to reduce nitrate to nitrite or hydrolyze gelatin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S11-z3T belonged to the genus Aestuariivita, with highest sequence similarity to Aestuariivita boseongensis BS-B2T (97.47%). The ANI value and digital DNA-DNA hybridization estimate values between strain 22II-S11-z3T and A. boseongensis BS-B2T are 71.49-71.50% and 20.00±2.31%,respectively. The G+C content of the chromosomal DNA was 65.5 mol%. The principal fatty acids were Sum In Feature 8 (C18:1ω7c/ω6c) (35.24%), C19:0 cycloω8c (20.85%), C16:0 (11.76%), C18:1ω7c 11-methyl (11.42%), C12:1 3OH (9.44%) and C18:0 (3.50%). The respiratory quinone was determined to be Q-10. Diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, nine unidentified phospholipids, one unidentified aminolipid and two unidentified lipids were present. The combined genotypic and phenotypic data show that strain 22II-S11-z3T represents a novel species of the genus Aestuariivita, for which the name Aestuariivita atlantica sp. nov. is proposed, with the type strain 22II-S11-z3T (= KCTC 42276T = MCCC 1A09432T).
    International Journal of Systematic and Evolutionary Microbiology 06/2015; DOI:10.1099/ijsem.0.000406 · 2.80 Impact Factor
  • Fengqin Sun · Yaping Du · Xiupian Liu · Qiliang Lai · Zongze Shao
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    ABSTRACT: A bacterial strain, YYQ-30T, isolated from a water and sediment mixed sample collected from the Crescent Moon Spring was characterized with respect to its morphology, physiology and taxonomy. The bacterium was found to be Gram stain-negative, aerobic,non-flagellated, oval to rod-shaped . Growth was observed at 0-10.0% (w/v) NaCl. The pH and temperature ranges for growth are pH 6.0-9.0 and 10-45°C.Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain YYQ-30T belongs to the family Rhodobacteraceae and forms a distinct lineage with the type strain of Albimonas donghaensis branched from the cluster constituted by the type strains of the genera Albimonas, Rhodovulum, Albidovulum, Haematobacter, Tropicimonas; levels of 16S rRNA gene sequence similarity between strain YYQ-30T and the members of related genera ranged from 94.1% to 89.7%. Strain YYQ-30T contains Q-10 as the predominant ubiquinone and summed feature 8 (C18:1ω7c/ω6c (70.0%), C18:0 (9.5%), summed feature 2 (C14:0 3OH/C16:1 iso I and C12:0 aldehyde (6.9%), and C18:1ω7c 11-methyl (6.0%) as the principal fatty acids. The polar lipids comprise diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, three unidentified phospholipids,two unidentifided aminolipids, and five unknown lipids. The pufLM gene was detected. The G+C content of the genomic DNA was determined to be 71.7 mol%. Based on the phylogenetic, chemotaxonomic and phenotypic data, strain YYQ-30T is considered to represent a novel species in a new genus within the family Rhodobacteraceae, for which the name Halovulum dunhuangense gen. nov. sp. nov. is proposed. The type strain of Halovulum dunhuangense is YYQ-30T (= LMG 27418T = MCCC 1A06483T).
    International Journal of Systematic and Evolutionary Microbiology 05/2015; DOI:10.1099/ijs.0.000332 · 2.80 Impact Factor
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    ABSTRACT: A polyphasic taxonomic study was performed on a strain, designated FHC16T, which was isolated from surface seawater collected from the South China Sea. Cells of strain FHC16T are Gram stain-negative, oxidase- and catalase-positive and non-motile rods. Growth was observed at 15–37 °C (optimum, 25–30 °C), at pH 6.0–9.0 (optimum, pH 7.0) and in the presence of 0–5 % (w/v) NaCl (optimum, 3 %). 16S rRNA gene sequence analysis showed that strain FHC16T is most closely related to Tamlana sedimentorum JCM 19808T (98.2 % sequence similarity). The ANI value between strain FHC16T and T. sedimentorum JCM 19808T was found to be 81.82–81.81 %. The DNA–DNA hybridization estimated value between strain FHC16T and T. sedimentorum JCM 19808T was determined to be 25.8 ± 2.41 %. The principal fatty acids (>5 % of the total) were found to be iso-C15:0, iso G-C15:1, iso-C17:0 3-OH, iso-C15:0 3-OH and summed feature 3 (comprising C16:1 ω7c/C16:1 ω6c). The strain was found to have MK-6 as the major respiratory menaquinone, which is consistent with the other three recognized Tamlana species, T. sedimentorum, Tamlana crocina and Tamlana agarivorans. The polar lipids were found to comprise phosphatidylethanolamine, one unidentified aminophospholipid, two unidentified aminolipids and seven unidentified lipids. The G+C content of the chromosomal DNA was determined to be 34.2 mol%. On the basis of phenotypic, chemotaxonomic and molecular data, strain FHC16T is considered to represent a novel species of the genus Tamlana, for which the name Tamlana nanhaiensis sp. nov. is proposed. The type strain is FHC16T (\( = \)LMG 27420T = CGMCC 1.12469T = MCCC 1A06648T).
    Antonie van Leeuwenhoek 03/2015; 107(5). DOI:10.1007/s10482-015-0410-x · 2.14 Impact Factor
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    ABSTRACT: A new aerobic, Gram stain-negative, oxidase- and catalase- positive, ovoid or rod-shaped bacterial strain, designated HTCJW17T, was isolated from a sediment collected from the South China Sea and subjected to a polyphasic taxonomic characterization. The isolate forms small, creamy-white, opaque and circular colonies on agar plates. Growth occurs between 15 and 45 °C, 1–7 % (w/v) NaCl and pH 6–9. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain HTCJW17T belongs to the family Kordiimonadaceae of the order Kordiimonadales, with highest sequence similarity to Kordiimonas gwangyangensis GW14-5T (91.1 %). The major fatty acids were identified to be summed feature 8 (C18:1 ω7c/ω6c; 56.6 %), C14:0 (8.5 %), C14:0 2-OH (8.4 %), summed feature 3 (C16:1 ω7c/C16:1 ω6c; 6.2 %), and C16:0 (5.2 %). The polar lipids were determined to be phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, six unidentified glycolipids and two unidentified phospholipids. The respiratory quinone was identified as ubiquinone Q-10. The genomic DNA G+C content was determined to be 56.3 mol%. On the basis of genotypic, chemotaxonomic and phenotypic distinctness, we propose a novel genus, Emcibacter gen. nov., with Emcibacter nanhaiensis sp. nov. as the type species. The type strain is HTCJW17T (=CGMCC 1.12471T = LMG 27419T = MCCC 1A06723T).
    Antonie van Leeuwenhoek 01/2015; 107(4). DOI:10.1007/s10482-015-0381-y · 2.14 Impact Factor
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    ABSTRACT: An aerobic Gram-negative, slightly curved rod-shaped and non-motile bacterium, designated G5_TVMV8_7T, was isolated from the deep sea sediment sample of the North Atlantic Ocean. Strain G5_TVMV8_7T displayed growth at 4–45 °C (optimum, 25–35 °C), at pH 6.0–11.0 (optimum, 7.0–8.0) and in 1.0–15.0 % (w/v) NaCl (optimum, 3.0–5.0 %). Phylogenetic analysis based on the 16S rRNA gene sequences indicated that strain G5_TVMV8_7T belongs to the genus Idiomarina, sharing the highest similarity with Idiomarina salinarum ISL-52T (97.4 %) and I. homiensis PO-M2T (97.1 %) followed by other validly described species of the genus Idiomarina (96.9–93.5 %). The G + C content of the genomic DNA was found to be 50.2 mol %. The digital DNA–DNA hybridization value between strain G5_TVMV8_7T and I. salinarum ISL-52T was 17.70 ± 2.24 %. The average nucleotide identity values between strain G5_TVMV8_7T and I. salinarum ISL-52T was found to be 70.03 %. The major fatty acids were C16:0 (12.7 %), iso-C15:0 (11.5 %) and Sum In Feature 8 (C18:1 ω7c/ω6c) (13.5 %). The predominant respiratory quinone was identified as Q-8, and the polar lipids as diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol including several unidentified polar lipids. Based on the genotypic and phenotypic results, a new species Idiomarina atlantica is proposed. The type strain is G5_TVMV8_7T (= MCCC 1A10513T = KCTC 42141T).
    Antonie van Leeuwenhoek 11/2014; 107(2). DOI:10.1007/s10482-014-0337-7 · 2.14 Impact Factor
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    ABSTRACT: Thalassospira bacteria are widespread and have been isolated from various marine environments. Less is known about their genetic diversity and biogeography, as well as their role in marine environments, many of them cannot be discriminated merely using the 16S rRNA gene. To address these issues, in this report, the phylogenetic analysis of 58 strains from seawater and deep sea sediments were carried out using the multilocus sequence analysis (MLSA) based on acsA, aroE, gyrB, mutL, rpoD and trpB genes, and the DNA-DNA hybridization (DDH) and average nucleotide identity (ANI) based on genome sequences. The MLSA analysis demonstrated that the 58 strains were clearly separated into 15 lineages, corresponding to seven validly described species and eight potential novel species. The DDH and ANI values further confirmed the validity of the MLSA analysis and eight potential novel species. The MLSA interspecies gap of the genus Thalassospira was determined to be 96.16–97.12% sequence identity on the basis of the combined analyses of the DDH and MLSA, while the ANIm interspecies gap was 95.76–97.20% based on the in silico DDH analysis. Meanwhile, phylogenetic analyses showed that the Thalassospira bacteria exhibited distribution pattern to a certain degree according to geographic regions. Moreover, they clustered together according to the habitats depth. For short, the phylogenetic analyses and biogeography of the Thalassospira bacteria were systematically investigated for the first time. These results will be helpful to explore further their ecological role and adaptive evolution in marine environments.
    PLoS ONE 09/2014; 9(9):e106353. DOI:10.1371/journal.pone.0106353 · 3.23 Impact Factor
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    ABSTRACT: Hyphomonas, a genus of budding, prosthecate bacteria, are primarily found in the marine environment. Seven type strains, and 35 strains from our collections of Hyphomonas, isolated from the Pacific Ocean, Atlantic Ocean, Arctic Ocean, South China Sea and the Baltic Sea, were investigated in this study using multilocus sequence analysis (MLSA). The phylogenetic structure of these bacteria was evaluated using the 16S rRNA gene, and five housekeeping genes (leuA, clpA, pyrH, gatA and rpoD) as well as their concatenated sequences. Our results showed that each housekeeping gene and the concatenated gene sequence all yield a higher taxonomic resolution than the 16S rRNA gene. The 42 strains assorted into 12 groups. Each group represents an independent species, which was confirmed by virtual DNA-DNA hybridization (DDH) estimated from draft genome sequences. Hyphomonas MLSA interspecies and intraspecies boundaries ranged from 93.3% to 96.3%, similarity calculated using a combined DDH and MLSA approach. Furthermore, six novel species (groups I, II, III, IV, V and XII) of the genus Hyphomonas exist, based on sequence similarities of the MLSA and DDH values. Additionally, we propose that the leuA gene (93.0% sequence similarity across our dataset) alone could be used as a fast and practical means for identifying species within Hyphomonas. Finally, Hyphomonas' geographic distribution shows that strains from the same area tend to cluster together as discrete species. This study provides a framework for the discrimination and phylogenetic analysis of the genus Hyphomonas for the first time, and will contribute to a more thorough understanding of the biological and ecological roles of this genus.
    PLoS ONE 09/2014; 9(7):e101394. DOI:10.1371/journal.pone.0101394 · 3.23 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on strains 22II1-22F38T and 22II-S13e, which were isolated from sea water and sediment from the Atlantic Ocean, respectively. The two strains were Gram-negative, oxidase and catalase positive, oval to pear shaped, and motile by a single polar flagellum. Phylogenetic analysis based on 16S rRNA gene sequences indicated that both strains belonged to the genus Hyphomonas, with highest sequence similarity (98.2%) to the type strains H. jannaschiana DSM 5153T and H. johnsonii ATCC 43964T. The genomic ANIm values and DNA-DNA hybridization estimate values between strain 22II1-22F38T and seven type strains ranged from 82.84% to 84.10% and from 18.0% to 19.1%, respectively. Isolate 22II1-22F38T had a G + C content of 58.3% and used Q-11 as the predominant respiratory quinone. The combined phenotypic and genotypic data showed that both strains represented a novel species of the genus Hyphomonas, for which the name Hyphomonas atlanticus sp. nov. is proposed, with the type strain being 22II1-22F38T (=LMG 27916T = MCCC 1A09418T). In addition, we conclude that Hyphomonas hirschiana is a later synonym of Hyphomonas neptunium.
    Systematic and Applied Microbiology 09/2014; 37(6). DOI:10.1016/j.syapm.2014.05.013 · 3.31 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on strain 22II-S11-z10(T), which was isolated from the surface seawater of the Atlantic Ocean. The bacterium was found to be Gram-stain negative, oxidase and catalase positive, oval- to rod-shaped and non-motile. Growth was observed at salinities of 0.5-9 % and at temperatures of 10-41 °C. The isolate can reduce nitrate to nitrite, degrade gelatin and aesculin, but can not degrade Tween 80. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S11-z10(T) belongs to the genus Actibacterium, with the highest sequence similarity to the type strain Actibacterium mucosum CECT 7668(T) (97.3 %). The DNA-DNA hybridization estimate value between strain 22II-S11-z10(T) and A. mucosum CECT 7668(T) was 19.30 ± 2.29 %. The principal fatty acids were identified as Summed Feature 8 (C18:1 ω7c/ω6c as defined by the MIDI system, 75.2 %) and Summed Feature 3 (C16:1 ω7c/ω6c, 6.9 %). The G+C content of the chromosomal DNA was determined to be 59.0 mol%. The respiratory quinone was determined to be Q-10 (100 %). Phosphatidylglycerol, phosphatidylcholine, two phospholipids, two aminolipids and two lipids were identified in the polar lipids. The combined genotypic and phenotypic data show that strain 22II-S11-z10(T) represents a novel species within the genus Actibacterium, for which the name Actibacterium atlanticum sp. nov. is proposed, with the type strain 22II-S11-z10(T) (=MCCC 1A09298(T) = LMG 27158(T)).
    Antonie van Leeuwenhoek 06/2014; 106(2). DOI:10.1007/s10482-014-0203-7 · 2.14 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on strain 22II-S11-z7(T), which was isolated from the surface seawater of the Atlantic Ocean. The bacterium was found to be Gram-negative, oxidase negative and catalase positive, long-rod shaped, and gliding. Growth was observed at salinities of 1-5 % and at temperatures of 10-41 °C. The isolate was capable of hydrolysing gelatin and Tween 80 and able to reduce nitrate to nitrite, but unable to degrade aesculin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S11-z7(T) belongs to the genus Aquimarina, with highest sequence similarity to Aquimarina megaterium XH134(T) (98.31 %), followed by Aquimarina macrocephali JAMB N27(T) (96.59 %); other species of the genus Aquimarina shared 93.63-96.08 % sequence similarity. The ANI value between strain 22II-S11-z7(T) and A. megaterium XH134(T) was found to be 91.86-91.81 %. The DNA-DNA hybridization estimated value between strain 22II-S11-z7(T) and A. megaterium XH134(T) was 47.7 ± 2.6 %. The principal fatty acids were identified as Summed Feature 3 (C16:1 ω7c/ω6c, as defined by the MIDI system; 8.1 %), SummedFeature 9 (iso-C17:1 ω7c/C16:110-methyl; 6.8 %), iso-C15:0 G (11.3 %), iso-C15:0 (24.9 %), iso-C16:0 (5.7 %), C16:0 (5.2 %), iso-C15:0 3OH (6.4 %) and iso-C17:0 3OH (21.5 %). The G+C content of the chromosomal DNA was determined to be 32.99 mol %. The respiratory quinone was determined to be MK-6 (100 %). Phosphatidylethanolamine, two unidentified aminolipids, five unidentified phospholipids and two unidentified lipids were found to be present. The combined genotypic and phenotypic data show that strain 22II-S11-z7(T) represents a novel species within the genus Aquimarina, for which the name Aquimarina atlantica sp. nov. is proposed, with the type strain 22II-S11-z7(T) (=MCCC 1A09239(T) = KCTC 42003(T)).
    Antonie van Leeuwenhoek 06/2014; 106(2). DOI:10.1007/s10482-014-0196-2 · 2.14 Impact Factor
  • Guizhen Li · Qiliang Lai · Xiupian Liu · Fengqin Sun · Zongze Shao
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    ABSTRACT: A taxonomic study was carried out on strain 22II-S10s(T), which was isolated from the surface seawater of the Atlantic Ocean. The bacterium was found to be Gram-negative, oxidase and catalase positive, rod shaped and motile by subpolar flagella. The isolate was capable of gelatine hydrolysis but unable to reduce nitrate to nitrite or degrade Tween 80 or aesculin. Growth was observed at salinities of 0.5-18 % (optimum, 2-12 %), at pH of 3-10 (optimum, 7) and at temperatures of 10-41 °C (optimum 28 °C). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S10s(T) belongs to the genus Roseivivax, with highest sequence similarity to Roseivivax halodurans JCM 10272(T) (97.2 %), followed by Roseivivax isoporae LMG 25204(T) (97.0 %); other species of genus Roseivivax shared 95.2-96.7 % sequence similarity. The DNA-DNA hybridization estimate values between strain 22II-S10s(T) and the two type strains (R. halodurans JCM 10272(T) and R. isoporae LMG 25204(T)) were 22.00 and 21.40 %. The principal fatty acids were identified as Summed Feature 8 (C18:1 ω7c/ω6c) (67.4 %), C18:0 (7.2 %), C19:0 cyclo ω8c (7.1 %), C18:1 ω7c 11-methyl (6.8 %) and C16:0 (5.9 %). The respiratory quinone was determined to be Q-10 (100 %). Phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, an aminolipid, a glycolipid and three phospholipids were present. The G+C content of the chromosomal DNA was determined to be 67.5 mol%. The combined genotypic and phenotypic data show that strain 22II-S10s(T) represents a novel species within the genus Roseivivax, for which the name Roseivivax atlanticus sp. nov. is proposed, with the type strain 22II-S10s(T) (= MCCC 1A09150(T) = LMG 27156(T)).
    Antonie van Leeuwenhoek 02/2014; DOI:10.1007/s10482-014-0140-5 · 2.14 Impact Factor
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    ABSTRACT: Bacteria closely related to Bacillus pumilus cannot be distinguished from such other species as B. safensis, B. stratosphericus, B. altitudinis and B. aerophilus simply by 16S rRNA gene sequence. In this report, 76 marine strains were subjected to phylogenetic analysis based on 7 housekeeping genes to understand the phylogeny and biogeography in comparison with other origins. A phylogenetic tree based on the 7 housekeeping genes concatenated in the order of gyrB-rpoB-pycA-pyrE-mutL-aroE-trpB was constructed and compared with trees based on the single genes. All these trees exhibited a similar topology structure with small variations. Our 79 strains were divided into 6 groups from A to F; Group A was the largest and contained 49 strains close to B. altitudinis. Additional two large groups were presented by B. safensis and B. pumilus respectively. Among the housekeeping genes, gyrB and pyrE showed comparatively better resolution power and may serve as molecular markers to distinguish these closely related strains. Furthermore, a recombinant phylogenetic tree based on the gyrB gene and containing 73 terrestrial and our isolates was constructed to detect the relationship between marine and other sources. The tree clearly showed that the bacteria of marine origin were clustered together in all the large groups. In contrast, the cluster belonging to B. safensis was mainly composed of bacteria of terrestrial origin. Interestingly, nearly all the marine isolates were at the top of the tree, indicating the possibility of the recent divergence of this bacterial group in marine environments. We conclude that B. altitudinis bacteria are the most widely spread of the B. pumilus group in marine environments. In summary, this report provides the first evidence regarding the systematic evolution of this bacterial group, and knowledge of their phylogenetic diversity will help in the understanding of their ecological role and distribution in marine environments.
    PLoS ONE 11/2013; 8(11):e80097. DOI:10.1371/journal.pone.0080097 · 3.23 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on strain 22II-S10r2(T), which was isolated from the deep sea sediment of the Atlantic Ocean using oil-degrading enrichment. The bacterium was Gram-negative, oxidase positive and catalase negative, spherical in shape, and motile by polar flagella. Growth was observed at salinities of 0.5-7 % and at temperatures of 10-41 °C. The isolate was capable of aesculin hydrolysis, but unable to reduce nitrate to nitrite or degrade Tween 80 or gelatine. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II-S10r2(T) belonged to the family Ectothiorhodospiraceae, with highest sequence similarity to Thioalkalivibrio sulfidiphilus HL-EbGR7(T) (90.9 % similarity). The principal fatty acids were Sum In Feature 8 (C18:1 ω7c/ω6c (29.9 %), C18:1 ω9c (13.5 %), C16:1 ω5c (12.3 %), C12:03OH (6.8 %), C18:1 ω5c (5.7 %) and C16:0 (5.3 %). The G+C content of the chromosomal DNA was 60.7 mol%. The respiratory quinone was determined to be Q-7 (25 %) and Q-8 (75 %). Phosphatidylethanolamine, phosphatidylglycerol, aminophospholipid, glycolipid, three phospholipids and lipid were present. The strain was aerobic, non-phototrophic and non-chemolithoautotrophic. The combined genotypic and phenotypic data show that strain 22II-S10r2(T) represents a novel species within a novel genus, for which the name Maricoccus atlantica gen. nov. sp. nov. is proposed, with the type strain 22II-S10r2(T) (=CGMCC NO.1.12317(T) = LMG 27155(T) = MCCC 1A09384(T)).
    Antonie van Leeuwenhoek 09/2013; 105(2). DOI:10.1007/s10482-013-0029-8 · 2.14 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on strain 22II14-10F7T, which was isolated from the deep sea water of the Atlantic Ocean with oil-degrading enrichment. The bacterium was Gram-negative, oxidase- and catalase-positive, rod-shape. Growth was observed at salinities from 0.5 to 15 % and at temperatures from 4 to 37 °C, it was unable to hydrolyze Tween 40, 80 or gelatin. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain 22II14-10F7T belonged to the genus Zunongwangia, with highest sequence similarity of 97.3 % to Zunongwangia profunda SM-A87T, while the others were all below 94.0 %. The DDH estimate value between strain 22II14-10F7T and Z. profunda SM-A87T was 27.20 ±2.43% according to their genome sequences. The principal fatty acids were iso-C15:0 (22.42 %), C15:0 anteiso (8.90 %), iso-C15:1G (8.50 %), iso-C17:0 3OH (12.78 %), Sum In Feature 3 (C16:1ω7c /ω6c) (8.09 %) and Sum In Feature 9 (iso-C17:1ω9c or C16:0 10-methyl) (13.54 %). The G+C content of the chromosomal DNA was 35.5 mol%. The major respiratory quinone was determined to be MK-6. Phosphatidylethanolamine (PE), two aminolipids (AL1 and AL2) and five unknown lipids (L1-L5) were present. The combined genotypic and phenotypic data show that strain 22II14-10F7T represents a novel species of the genus Zunongwangia, for which the name Zunongwangia atlantica sp. nov. is proposed, with the type strain 22II14-10F7T (=CGMCC1.12470T =LMG 27421T=MCCC 1A06481T).
    International Journal of Systematic and Evolutionary Microbiology 09/2013; 64(Pt 1). DOI:10.1099/ijs.0.054007-0 · 2.80 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on a novel bacterial strain, designated B108(T), which was isolated from a polycyclic aromatic hydrocarbon (PAH)-degrading consortium, enriched from deep-sea water of the Indian Ocean. The isolate was Gram-reaction-negative, rod-shaped and non-motile. Growth of strain B108(T) was observed in 1-15 % (w/v) NaCl and at 10-39 °C and it was unable to degrade Tween 80 or gelatin. 16S rRNA gene sequence comparisons showed that strain B108(T) was most closely related to Roseovarius halotolerans HJ50(T) (97.1 % sequence similarity), followed by Roseovarius pacificus 81-2(T) (96.6 %) and Roseovarius aestuarii SMK-122(T) (95.2 %); other species shared <95.0 % sequence similarity. DNA-DNA hybridization tests showed that strain B108(T) had a low DNA-DNA relatedness to R. halotolerans HJ50(T) and R. pacificus 81-2(T) (48±4 % and 44±5 %, respectively). The predominant fatty acids were C₁₆:₀, C₁₆:₀ 2-OH, summed feature 8 (C₁₈:₁ω7c/ω6c) and C₁₉:₀ω8c cyclo, which accounted for 84.2 % of the total cellular fatty acids. The G+C content of the chromosomal DNA was 63.6 mol%. The major respiratory quinone was ubiquinone 10 (Q10). Phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine and some unidentified compounds were detected. These characteristics were in good agreement with those of members of the genus Roseovarius. The pufLM gene was also detected. According to its morphology, physiology, fatty acid composition and phylogenetic position based on 16S rRNA sequence data, the novel strain most appropriately belongs to the genus Roseovarius but can be readily distinguished from known species of this genus. Therefore, strain B108(T) represents a novel species, of the genus Roseovarius, for which the name Roseovarius indicus sp. nov. is proposed. The type strain is B108(T) ( = 2PR52-14(T)  = CCTCC AB 208233(T)  = LMG 24622(T)  = MCCC 1A01227(T)).
    International Journal of Systematic and Evolutionary Microbiology 09/2011; 61(Pt 9):2040-4. DOI:10.1099/ijs.0.023168-0 · 2.80 Impact Factor
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    ABSTRACT: Strain pht-3B(T) was isolated from a pyrene-degrading consortium of an enriched sediment from the Pacific Ocean, collected during the screening of polycyclic aromatic hydrocarbon-degrading bacteria. Cells were Gram-negative, short rods that were motile by means of flagella. Growth was observed at 0-7 % NaCl and 10-41 °C. The isolate was able to reduce nitrate to nitrite, but not to nitrogen. 16S rRNA gene sequence comparisons showed that strain pht-3B(T) was most closely related to Nitratireductor aquibiodomus NL21(T) (97.3 % 16S rRNA gene sequence similarity), N. indicus C115(T) (97.1 %), N. basaltis J3(T) (96.8 %) and N. kimnyeongensis KY 101(T) (96.7 %). DNA-DNA hybridization between strain pht-3B(T) and these reference strains revealed 55, 54, 28 and 42 % DNA-DNA relatedness, respectively. The dominant fatty acids were C(19 : 0)ω8c cyclo (22.6 %) and summed feature 8 (consisting of C(18 : 1)ω7c and/or C(18 : 1)ω6c; 60.4 %). The G+C content of the chromosomal DNA was 63 mol%. These characteristics were in good agreement with those of members of the genus Nitratireductor. According to cell morphology, physiology, fatty acid composition, 16S rRNA gene sequence analysis and DNA-DNA relatedness, the isolate belonged to the genus Nitratireductor but could be readily distinguished from recognized species of the genus. Therefore a novel species is proposed to accommodate strain pht-3B(T), for which the name Nitratireductor pacificus sp. nov. is proposed. The type strain is pht-3B(T) ( = CCTCC AB 209302(T) = LMG 25541(T) = MCCC 1A01024(T)).
    International Journal of Systematic and Evolutionary Microbiology 06/2011; 61(Pt 6):1386-91. DOI:10.1099/ijs.0.024356-0 · 2.80 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on a novel bacterial strain, designated W11-5(T), which was isolated from a pyrene-degrading consortium enriched from deep-sea sediment of the Pacific Ocean. The isolate was Gram-reaction-negative and oxidase- and catalase-positive. Growth was observed in 0.5-12 % (w/v) NaCl and at 10-42 °C. On the basis of 16S rRNA gene sequence analysis, strain W11-5(T) was shown to belong to the genus Alcanivorax with a close relation to A. dieselolei B-5(T) (93.9 % 16S rRNA sequence similarity), A. balearicus MACL04(T) (93.1 %), A. hongdengensis A-11-3(T) (93.1 %), A. borkumensis SK2(T) (93.0 %), A. venustensis ISO4(T) (93.0 %) and A. jadensis T9(T) (92.9 %). Similarities between the gyrB gene sequences of W11-5(T) and other species of the genus Alcanivorax were between 76.8 and 80.8 %. The principal fatty acids were C(12 : 0) 3-OH (8.0 %), C(16 : 0) (29.1 %) and C(18 : 1)ω7c (27.4 %). The G+C content of the chromosomal DNA was 60.8 mol%. Based on its morphology, physiology and fatty acid composition as well as the results of 16S rRNA and gyrB gene sequence analyses, strain W11-5(T) ( = MCCC 1A00474(T)  = CCTCC AB 208236(T)  = LMG 25514(T)) represents a novel species of the genus Alcanivorax, for which the name Alcanivorax pacificus sp. nov. is proposed.
    International Journal of Systematic and Evolutionary Microbiology 06/2011; 61(Pt 6):1370-4. DOI:10.1099/ijs.0.022368-0 · 2.80 Impact Factor
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    ABSTRACT: A taxonomic study was carried out on strain 10-D-4(T), which was isolated from a crude oil-degrading consortium enriched from surface seawater collected around Xiamen Island, PR China. Strain 10-D-4(T) grew optimally at pH 7.0-8.0 and at 25 °C. The 16S rRNA gene sequence of strain 10-D-4(T) showed the highest similarity to those of Idiomarina salinarum ISL-52(T) (94.6 %), Idiomarina tainanensis PIN1(T) (94.2 %) and Idiomarina seosinensis CL-SP19(T) (94.1 %), and showed lower similarity (92.3-94.0 %) to other members of the genus Idiomarina. The major isoprenoid quinone was ubiquinone 8 (Q-8). The major fatty acids were iso-C(13 : 0) (5.2 %), iso-C(15 : 0) (15.3 %), C(16 : 0) (14.3 %), summed feature 3 (C(16 : 1)ω6c and/or C(16 : 1)ω7c) (6.6 %), iso-C(17 : 0) (15.4 %) and C(18 : 1)ω7c (13.5 %). The G+C content of the chromosomal DNA was 50.4 mol%. Phylogenetic analysis based on 16S rRNA gene sequences, together with data from phenotypic and chemotaxonomic characterization, revealed that strain 10-D-4(T) represents a novel species of the genus Idiomarina, for which the name Idiomarina xiamenensis sp. nov. is proposed. The type strain is 10-D-4(T) ( = CCTCC AB 209061(T)  = LMG 25227(T)  = MCCC 1A01370(T)). We also propose the transfer of Pseudidiomarina aestuarii, described recently, to the genus Idiomarina as Idiomarina aestuarii comb. nov. (type strain KYW314(T)  = KCTC 22740(T)  = JCM 16344(T)).
    International Journal of Systematic and Evolutionary Microbiology 04/2011; 61(Pt 4):969-73. DOI:10.1099/ijs.0.022970-0 · 2.80 Impact Factor

Publication Stats

233 Citations
90.45 Total Impact Points

Institutions

  • 2007–2015
    • Third Institute of Oceanography China
      Amoy, Fujian, China
  • 2014
    • MiQro Innovation Collaborative Centre
      ZBM, Quebec, Canada
  • 2013–2014
    • State Oceanic Administration
      Tsingtao, Shandong Sheng, China
  • 2009–2011
    • Xiamen University
      • School of Life Sciences
      Xiamen, Fujian, China
    • Huazhong Agricultural University
      • College of Life Science and Technology
      Wu-han-shih, Hubei, China