scholarly journals Zhouia amylolytica gen. nov., sp. nov., a novel member of the family Flavobacteriaceae isolated from sediment of the South China Sea

2006 ◽  
Vol 56 (12) ◽  
pp. 2825-2829 ◽  
Author(s):  
Zhi-Pei Liu ◽  
Bao-Jun Wang ◽  
Xin Dai ◽  
Xing-Yu Liu ◽  
Shuang-Jiang Liu
Keyword(s):  
South China Sea ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
South China ◽  
The South China Sea ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
China Sea ◽  
The Family

Three Gram-negative, non-spore-forming strains were isolated from sediment from the South China Sea, China, and their taxonomic positions were investigated using a polyphasic approach. Strains HN-171T, HN-172 and HN-181 grew optimally at 30 °C, in the presence of 4.5–5.0 NaCl % (w/v) and at pH 7.2–7.4. They contained MK-6 as the predominant respiratory quinone and contained iso-C15 : 1 G, iso-C15 : 0, summed feature 4 (iso-C15 : 0 2-OH and/or C16 : 1 ω7c/t) and C15 : 0 as the major fatty acids. The DNA G+C content of strain HN-171T was 34.5 mol%. Phylogenetic analyses based on 16S rRNA gene sequences demonstrated that strain HN-171T, together with strains HN-172 and HN-181, formed a distinct evolutionary lineage within the family Flavobacteriaceae. The 16S rRNA gene sequences of strains HN-171T, HN-172 and HN-181 shared 99.8–100 % similarity with each other, and the sequence of strain HN-171T exhibited similarity values below 90.2 % with those of other members of the family Flavobacteriaceae. The closest relative of HN-171T was Coenonia anatina LMG 14382T (90.2 %). On the basis of their phenotypic and phylogenetic properties, the three isolates represent a novel genus and a novel species, for which the name Zhouia amylolytica gen. nov., sp. nov. is proposed. The type strain is HN-171T (=CGMCC 1.6114T=JCM 14016T).

scholarly journals Salegentibacter catena sp. nov., isolated from sediment of the South China Sea, and emended description of the genus Salegentibacter

2007 ◽  
Vol 57 (2) ◽  
pp. 219-222 ◽  
Author(s):  
Jiao-Yan Ying ◽  
Zhi-Pei Liu ◽  
Bao-Jun Wang ◽  
Xin Dai ◽  
Su-Sheng Yang ◽  
...  
Keyword(s):  
Fatty Acids ◽  
South China Sea ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
South China ◽  
The South China Sea ◽  
Rrna Gene ◽  
The South ◽  
China Sea ◽  
Emended Description

A novel marine bacterial strain, HY1T, was isolated from sediment of the South China Sea. The strain was aerobic and heterotrophic and formed saffron yellow-pigmented colonies on marine agar 2216. Cells were non-motile, Gram-negative rods, frequently occurring in chains. blastn searches revealed that the 16S rRNA gene sequence of strain HY1T showed high similarity with those of members of the genera Gillisia (91.7–93.8 %) and Salegentibacter (92.6–93.5 %). Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain clustered with members of both Salegentibacter and Gillisia and phylogenetic trees constructed using three different methods (neighbour-joining, maximum-parsimony and minimum-evolution) indicated that strain HY1T clustered more frequently with members of the genus Salegentibacter. The DNA G+C content of strain HY1T was 44.4 mol% and its major cellular fatty acids (⩾5 % of the total fatty acids) were iso-15 : 1 (5.0 %), iso-15 : 0 (6.8 %), anteiso-15 : 0 (6.4 %), 15 : 0 (10.4 %), iso-16 : 0 (13.5 %), summed feature 3 (comprising iso-15 : 0 2-OH and/or 16 : 1ω7c; 6.3 %), iso-17 : 0 3-OH (5.2 %) and 17 : 0 2-OH (5.0 %). Cells contained menaquinone 6. Based on the phylogenetic and phenotypic analyses, strain HY1T should be classified as representing a novel species within the genus Salegentibacter, for which the name Salegentibacter catena sp. nov. is proposed. The type strain is HY1T (=CGMCC 1.6101T=JCM 14015T). Based on this study and on previously described Salegentibacter species, an emended description of the genus Salegentibacter is given.

scholarly journals Marivirga lumbricoides sp. nov., a marine bacterium isolated from the South China Sea

2015 ◽  
Vol 65 (Pt_2) ◽  
pp. 452-456 ◽  
Author(s):  
Yongle Xu ◽  
Rui Zhang ◽  
Qipei Li ◽  
Keshao Liu ◽  
Nianzhi Jiao
Keyword(s):  
South China Sea ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
South China ◽  
Type Species ◽  
The South China Sea ◽  
Rrna Gene ◽  
Content Type ◽  
China Sea ◽  
Link Type

A novel, aerobic, heterotrophic, orange-pigmented, Gram-staining-negative, rod-shaped, gliding bacterial strain, designated JLT2000T, was isolated from surface water of the South China Sea. The strain was oxidase- and catalase-positive. The major cellular fatty acids of strain JLT2000 T were C12 : 0, iso-C15 : 1 G, iso-C15 : 0, iso-C17 : 0 3-OH, summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 0. MK-7 was the major respiratory quinone and the major polar lipids were phosphatidylcholine and phosphatidylethanolamine. The genomic DNA G+C content of strain JLT2000T was 37.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain JLT2000T formed a branch within the genus Marivirga , but was clearly separated from the two established species of this genus, Marivirga tractuosa and Marivirga sericea . The 16S rRNA gene sequence similarity of strain JLT2000T with the type strains of these two species was 95.8 % and 96.1 %, respectively. Strain JLT2000T had a shorter cell length and wider growth range in different temperatures and salinities than those of Marivirga tractuosa NBRC 15989T and Marivirga sericea NBRC 15983T. In addition, strain JLT2000T could utilize more carbon sources and hydrolyse more polymers than Marivirga tractuosa NBRC 15989T and Marivirga sericea NBRC 15983T. Based on this polyphasic analysis, strain JLT2000T represents a novel species of the genus Marivirga , for which the name Marivirga lumbricoides sp. nov. is proposed. The type strain is JLT2000T ( = JCM 18012T = CGMCC 1.10832T).

scholarly journals Prauserella marina sp. nov., isolated from ocean sediment of the South China Sea

2010 ◽  
Vol 60 (4) ◽  
pp. 985-989 ◽  
Author(s):  
Jian Wang ◽  
Yan Li ◽  
Jiang Bian ◽  
Shu-Kun Tang ◽  
Biao Ren ◽  
...  
Keyword(s):  
South China Sea ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
South China ◽  
The South China Sea ◽  
Rrna Gene ◽  
The South ◽  
China Sea ◽  
Ocean Sediment ◽  
Actinomycete Strain

A novel actinomycete strain, designated MS498T, was isolated from an ocean sediment sample collected from the South China Sea. It was subjected to a polyphasic analysis to determine its taxonomic position. The phylogenetic tree based on 16S rRNA gene sequences showed that strain MS498T had the highest similarity (96.5 %) with members of the genus Prauserella and was loosely associated with Prauserella rugosa DSM 43194T and Saccharomonospora halophila DSM 44411T. Based on 16S rRNA gene sequence analysis, phenotypic characteristics and chemotaxonomic data, the new isolate is proposed to represent a novel species of the genus Prauserella, named Prauserella marina sp. nov. (type strain MS498T=CCTCC AA 208056T =DSM 45268T).

Monoglobus pectinilyticus gen. nov., sp. nov., a pectinolytic bacterium isolated from human faeces.

2020 ◽  
Author(s):  
CC Kim ◽  
WJ Kelly ◽  
ML Patchett ◽  
GW Tannock ◽  
Z Jordens ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Middle Lamella ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Citrus Peel ◽  
Human Faeces ◽  
The Family

© 2017 IUMS. A novel anaerobic pectinolytic bacterium (strain 14T) was isolated from human faeces. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain 14T belonged to the family Ruminococcaceae, but was located separately from known clostridial clusters within the taxon. The closest cultured relative of strain 14T was Acetivibrio cellulolyticus (89.7% sequence similarity). Strain 14T shared ~99% sequence similarity with cloned 16S rRNA gene sequences from uncultured bacteria derived from the human gut. Cells were Gram-stain-positive, non-motile cocci approximately 0.6μm in diameter. Strain 14T fermented pectins from citrus peel, apple, and kiwifruit as well as carbohydrates that are constituents of pectins and hemicellulose, such as galacturonic acid, xylose, and arabinose. TEM images of strain 14T, cultured in association with plant tissues, suggested extracellular fibrolytic activity associated with the bacterial cells, forming zones of degradation in the pectin-rich regions of middle lamella. Phylogenetic and phenotypic analysis supported the differentiation of strain 14T as a novel genus in the family Ruminococcaceae. The name Monoglobus pectinilyticus gen. nov., sp. nov. is proposed; the type strain is 14T (JCM 31914T=DSM 104782T).

scholarly journals Phylogenetic relationships within the family Halobacteriaceae inferred from rpoB′ gene and protein sequences

2007 ◽  
Vol 57 (10) ◽  
pp. 2289-2295 ◽  
Author(s):  
Madalin Enache ◽  
Takashi Itoh ◽  
Tadamasa Fukushima ◽  
Ron Usami ◽  
Lucia Dumitru ◽  
...  
Keyword(s):  
16S Rrna ◽  
Molecular Marker ◽  
16S Rrna Gene ◽  
Phylogenetic Trees ◽  
Protein Sequences ◽  
Rpob Gene ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
The Family

In order to clarify the current phylogeny of the haloarchaea, particularly the closely related genera that have been difficult to sort out using 16S rRNA gene sequences, the DNA-dependent RNA polymerase subunit B′ gene (rpoB′) was used as a complementary molecular marker. Partial sequences of the gene were determined from 16 strains of the family Halobacteriaceae. Comparisons of phylogenetic trees inferred from the gene and protein sequences as well as from corresponding 16S rRNA gene sequences suggested that species of the genera Natrialba, Natronococcus, Halobiforma, Natronobacterium, Natronorubrum, Natrinema/Haloterrigena and Natronolimnobius formed a monophyletic group in all trees. In the RpoB′ protein tree, the alkaliphilic species Natrialba chahannaoensis, Natrialba hulunbeirensis and Natrialba magadii formed a tight group, while the neutrophilic species Natrialba asiatica formed a separate group with species of the genera Natronorubrum and Natronolimnobius. Species of the genus Natronorubrum were split into two groups in both the rpoB′ gene and protein trees. The most important advantage of the use of the rpoB′ gene over the 16S rRNA gene is that sequences of the former are highly conserved amongst species of the family Halobacteriaceae. All sequences determined so far can be aligned unambiguously without any gaps. On the other hand, gaps are necessary at 49 positions in the inner part of the alignment of 16S rRNA gene sequences. The rpoB′ gene and protein sequences can be used as an excellent alternative molecular marker in phylogenetic analysis of the Halobacteriaceae.

scholarly journals Wenxinia marina gen. nov., sp. nov., a novel member of the Roseobacter clade isolated from oilfield sediments of the South China Sea

2007 ◽  
Vol 57 (8) ◽  
pp. 1711-1716 ◽  
Author(s):  
Jiao-Yan Ying ◽  
Bao-Jun Wang ◽  
Xin Dai ◽  
Su-Sheng Yang ◽  
Shuang-Jiang Liu ◽  
...  
Keyword(s):  
South China Sea ◽  
South China ◽  
The South China Sea ◽  
Rrna Gene ◽  
The South ◽  
China Sea ◽  
The Family ◽  
Dinoroseobacter Shibae ◽  
Novel Genus And Species ◽  
Sequence Similarities

An aerobic and heterotrophic, Gram-negative bacterial isolate, strain HY34T, was isolated from sediment of an oilfield in the South China Sea, China. The taxonomy of strain HY34T was studied by phenotypic and phylogenetic methods. Strain HY34T formed faint-pink colonies on marine agar 2216. Cells of strain HY34T were non-motile, ovoid or short rods. Strain HY34T was positive for catalase and oxidase, and nitrate was reduced to nitrite. The nearly complete 16S rRNA gene sequence of strain HY34T was obtained and sequence analysis showed that it, together with the genus Rubellimicrobium, formed a distinct clade close to some members of the Roseobacter clade in the family Rhodobacteraceae, and it showed highest sequence similarities to Oceanicola granulosus HTCC2516T (93.8 %), Silicibacter lacuscaerulensis ITI-1157T (93.3 %), Dinoroseobacter shibae DFL 12T (93.3 %) and Rubellimicrobium thermophilum C-lvk-R2A-2T (92.2 %). Bacteriochlorophyll a was not detected. The ubiquinone system was Q-10. The major polar lipids were phosphatidylglycerol, phosphatidylcholine and an unidentified glycolipid. The major fatty acids (>10 %) were C18 : 1 ω7c and C16 : 0. The DNA G+C content of this strain was 69.4 mol%. A polyphasic analysis supported the conclusion that this strain represents a novel genus and species, which we designated Wenxinia marina gen. nov., sp. nov. The type strain of Wenxinia marina is HY34T (=CGMCC 1.6105T =JCM 14017T).

scholarly journals Poritiphilus flavus gen. nov., sp. nov., a member of the family Flavobacteriaceae isolated from coral Porites lutea

2020 ◽  
Vol 70 (11) ◽  
pp. 5620-5626 ◽  
Author(s):  
Guanghua Wang ◽  
Shuailiang Xu ◽  
Ge Dang ◽  
Jianfeng Liu ◽  
Hongfei Su ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Porites Lutea ◽  
Content Type ◽  
Link Type ◽  
The Family

A novel Gram-stain-negative, non-endospore-forming, non-motile, aerobic bacterium (strain R33T) was isolated from coral Porites lutea and subjected to a polyphasic taxonomic study. The G+C content was 44.5 mol%. The only detected respiratory quinone was menaquinone 6 (MK-6). The major cellular fatty acids were iso-C15 : 0 and iso-C15 : 1 ω6c. The major polar lipids were phosphatidylethanolamine and two unidentified lipids. Global alignment based on 16S rRNA gene sequences indicated that strain R33T shares the highest sequence identity of 93.2 % with Muriicola marianensis A6B8T in the family Flavobacteriaceae . Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain R33T forms a distinct branch in a stable clade comprising strain R33T and members of the genera Muriicola , Robiginitalea , Eudoraea and Zeaxanthinibacter . The phylogenomic analysis also supported this 16S rRNA gene-based phylogenetic result. Comparative genomic analysis indicated that strain R33T is rich in AraC-type DNA-binding domain-containing protein-coding genes, which means the regulation of carbon utilization is very complex. Low 16S rRNA gene identity, different polar lipids and/or cellular fatty acid profiles could readily distinguish strain R33T from any validly published type strains. Therefore, strain R33T is suggested to represent a new species in a new genus, for which the name Poritiphilus flavus gen. nov., sp. nov. is proposed. The type strain is R33T (=MCCC 1K03853T=KCTC 72443T).

Description of a novel coccoid cyanobacterial genus and species Sinocapsa zengkensis gen. nov. sp. nov. (Sinocapsaceae, incertae sedis), with taxonomic notes on genera in Chroococcidiopsidales

Phytotaxa ◽  
2019 ◽  
Vol 409 (3) ◽  
pp. 146-160 ◽  
Author(s):  
YILANG WANG ◽  
FANGFANG CAI ◽  
NANNAN JIA ◽  
RENHUI LI
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Concrete Surface ◽  
Sensu Stricto ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Incertae Sedis ◽  
Molecular Features ◽  
The Family

A new terrestrial coccoid cyanobacterial strain was isolated in depression of a rough concrete surface in village Zengkeng, Fujian Province, China. This strain, named CHAB 6571, was characterized by a polyphasic approach. The strain exhibited morphological similarity to the Aliterlella species but differed in its larger cell sizes and irregular arranged thylakoids. 16S rRNA gene sequences of the strain had the maximum homology as 94.13 % to the genus Aliterella. The phylogeny based on 16S rRNA gene sequences revealed that there were four separated coccoid cyanobacterial clusters formed in the position representing Chroococcidiopsidales, at the vicinity of Nostocales and away from other coccoid cyanobacterial orders such as Chroococcales, Pleurocapsales and Synechococcales. These four main clusters as the CHAB 6571 in cluster A, genus Aliterella of the family Aliterellaceae in cluster B, Chroococcidiopsis sensu stricto of Chroococcidiopsidaceae in cluster C, and genera Chroogloeocystis and Gloeocapsopsis in cluster D, were likely to represent four different families with their 16S rRNA gene sequences similarities as 90–94%. However, the 16S rRNA phylogenetic results also revealed that the Chroococcidiopsidales were not monophyletic since the organisms belonging to Oscillatoriales such as Cephalothrix, Aerosakkonema and Microseira were phylogenetically mixed into the Chroococcidiopsidales. Combining the morphological, ecological and molecular features, CHAB 6571 as a new genus and species, as well as a novel family were therefore established, named Sinocapsa zengkensis (Sinocapsaceae, incertae sedis).

Monoglobus pectinilyticus gen. nov., sp. nov., a pectinolytic bacterium isolated from human faeces.

2020 ◽  
Author(s):  
CC Kim ◽  
WJ Kelly ◽  
ML Patchett ◽  
GW Tannock ◽  
Z Jordens ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Sequence Similarity ◽  
Middle Lamella ◽  
Rrna Gene ◽  
Gene Sequences ◽  
16S Rrna Gene Sequences ◽  
Citrus Peel ◽  
Human Faeces ◽  
The Family

© 2017 IUMS. A novel anaerobic pectinolytic bacterium (strain 14T) was isolated from human faeces. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain 14T belonged to the family Ruminococcaceae, but was located separately from known clostridial clusters within the taxon. The closest cultured relative of strain 14T was Acetivibrio cellulolyticus (89.7% sequence similarity). Strain 14T shared ~99% sequence similarity with cloned 16S rRNA gene sequences from uncultured bacteria derived from the human gut. Cells were Gram-stain-positive, non-motile cocci approximately 0.6μm in diameter. Strain 14T fermented pectins from citrus peel, apple, and kiwifruit as well as carbohydrates that are constituents of pectins and hemicellulose, such as galacturonic acid, xylose, and arabinose. TEM images of strain 14T, cultured in association with plant tissues, suggested extracellular fibrolytic activity associated with the bacterial cells, forming zones of degradation in the pectin-rich regions of middle lamella. Phylogenetic and phenotypic analysis supported the differentiation of strain 14T as a novel genus in the family Ruminococcaceae. The name Monoglobus pectinilyticus gen. nov., sp. nov. is proposed; the type strain is 14T (JCM 31914T=DSM 104782T).

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