scholarly journals Inhella fonticola sp. nov., isolated from spring water, and emended description of the genus Inhella

2012 ◽  
Vol 62 (Pt_5) ◽  
pp. 1048-1055 ◽  
Author(s):  
Wen-Ming Chen ◽  
Fu-Sian Sheu ◽  
Chiu-Chung Young ◽  
Shih-Yi Sheu

A yellow-pigmented bacterial strain designated TNR-25T was isolated from spring water in Taiwan and was characterized using a polyphasic taxonomic approach. Strain TNR-25T was Gram-negative, obligately aerobic, rod-shaped, non-motile and non-spore-forming. Growth occurred at 15–40 °C (optimum, 25 °C), at pH 6.0–10.0 (optimum, pH 7.0) and with 0–0.5 % NaCl (optimum, 0 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain TNR-25T belonged to the genus Inhella and its closest neighbour was Inhella inkyongensis IMCC1713T with 98.1 % sequence similarity. The major fatty acids (>10 %) of strain TNR-25T were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c) and C16 : 0. The major cellular hydroxy fatty acids were C10 : 0 3-OH and C12 : 0 3-OH. The isoprenoid quinone was Q-8 and the DNA G+C content was 69.6 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, phosphatidylserine, diphosphatidylglycerol and several uncharacterized phospholipids. The DNA–DNA relatedness between strain TNR-25T and I. inkyongensis IMCC1713T was about 30.6–35.5 %. On the basis of the genotypic and phenotypic data, strain TNR-25T represents a novel species in the genus Inhella , for which the name Inhella fonticola sp. nov. is proposed; the type strain is TNR-25T ( = BCRC 80211T = LMG 25721T).

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 934-938 ◽  
Author(s):  
Wen-Ming Chen ◽  
Rey-Chang Chang ◽  
Chih-Yu Cheng ◽  
Yu-Wen Shiau ◽  
Shih-Yi Sheu

A novel bacterium, designated strain JchiT, was isolated from soil in Taiwan and characterized using a polyphasic approach. Cells of strain JchiT were aerobic, Gram-stain-negative, motile and rod-shaped. They contained poly-β-hydroxybutyrate granules and formed dark-yellow colonies. Growth occurred at 20–37 °C (optimum between 25 and 30 °C), at pH 6.0–8.0 (optimum between pH 7.0 and pH 8.0) and with 0–2 % NaCl (optimum between 0 and 1 %). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain JchiT belonged to the genus Jeongeupia and that its closest neighbour was Jeongeupia naejangsanensis BIO-TAS4-2T (98.0 % sequence similarity). The major fatty acids (>10 %) of strain JchiT were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 1ω7c. The major cellular hydroxy fatty acid was C12 : 0 3-OH. The isoprenoid quinone was Q-8 and the genomic DNA G+C content was 66.1 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylserine and two unidentified phospholipids. The DNA–DNA relatedness value between strain JchiT and J. naejangsanensis BIO-TAS4-2T was about 41.0 %. On the basis of the genotypic and phenotypic data, strain JchiT represents a novel species in the genus Jeongeupia , for which the name Jeongeupia chitinilytica sp. nov. is proposed. The type strain is JchiT ( = BCRC 80367T  = KCTC 23701T).


2013 ◽  
Vol 63 (Pt_5) ◽  
pp. 1810-1816 ◽  
Author(s):  
Wen-Ming Chen ◽  
Hsing-Wei Huang ◽  
Jo-Shu Chang ◽  
Yin-Lung Han ◽  
Tai-Rong Guo ◽  
...  

A slightly thermophilic bacterial strain, designated AT-A2T, was isolated from a hot spring water sample taken from the Antun hot spring in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain AT-A2T were aerobic, Gram-negative, motile by a single polar flagellum and formed non-pigmented colonies. Growth occurred at 35–60 °C (optimum, 55 °C), with 0–1.0 % NaCl (optimum, 0.2 %) and at pH 7.0–9.0 (optimum, pH 7.0). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain AT-A2T belonged to the genus Tepidimonas and its closest neighbour was Tepidimonas thermarum AA-1T with a sequence similarity of 97.5 %. The predominant cellular fatty acids were C16 : 0 (40.2 %), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 20.1 %) and C17 : 0 cyclo (11.5 %). The major respiratory quinone was Q-8. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, an uncharacterized aminolipid and several uncharacterized phospholipids. The DNA G+C content of strain AT-A2T was 70.1 mol%. The mean level of DNA–DNA relatedness between strain AT-A2T and Tepidimonas thermarum AA-1T was 23.9 %. On the basis of the phylogenetic and phenotypic data, strain AT-A2T should be classified as representing a novel species, for which the name Tepidimonas fonticaldi sp. nov. is proposed. The type strain is AT-A2T ( = LMG 26746T = KCTC 23862T = BCRC 80391T).


2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 3043-3049 ◽  
Author(s):  
Shih-Yi Sheu ◽  
Jhen-Ci Chen ◽  
Chiu-Chung Young ◽  
Wen-Ming Chen

A bacterial strain designated Npb-07T was isolated from a freshwater river in Taiwan and characterized using a polyphasic taxonomic approach. Strain Npb-07T was Gram-negative, aerobic, rod-shaped and motile by means of a single polar flagellum. Growth occurred at 10–37 °C (optimum, 20–30 °C), at pH 6.0–9.0 (optimum, pH 6.0–7.0) and with 0–1 % NaCl (optimum, 0.5 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain Npb-07T belonged to the genus Vogesella and its most closely related neighbour was Vogesella indigofera ATCC 19706T with sequence similarity of 98.4 %. The major fatty acids were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c, 44.4 %) and C16 : 0 (31.9 %). The major respiratory quinone was Q-8. The DNA G+C content of the genomic DNA was 65.3 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, two uncharacterized aminophospholipids and an uncharacterized phospholipid. The DNA–DNA relatedness of strain Npb-07T with respect to V. indigofera ATCC 19706T was less than 70 %. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain Npb-07T represents a novel species in the genus Vogesella , for which the name Vogesella fluminis sp. nov. is proposed. The type strain is Npb-07T ( = LMG 26669T = BCRC 80377T = KCTC 23713T).


2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 169-174 ◽  
Author(s):  
Wen-Ming Chen ◽  
Yang-Shun Lin ◽  
Chiu-Chung Young ◽  
Shih-Yi Sheu

A Gram-negative, rod-shaped, motile, non-spore-forming and poly-β-hydroxybutyrate-containing bacterial strain, designated NAFc-7T, was isolated from groundwater in Taiwan and was characterized using a polyphasic taxonomic approach. Growth occurred at 15–40 °C (optimum, 30 °C), at pH 6.0–9.0 (optimum, pH 6.0–7.0) and with 0–3 % NaCl (optimum, 0–1 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain NAFc-7T, together with Pseudorhodoferax soli TBEA3T (98.2 % sequence similarity) and Pseudorhodoferax caeni SB1T (98.0 %), formed a deep line within the family Comamonadaceae . Strain NAFc-7T contained summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C17 : 0 cyclo as the predominant fatty acids. The major 3-hydroxy fatty acid was C10 : 0 3-OH. The major isoprenoid quinone was Q-8 and the DNA G+C content was 67.6 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylserine and an uncharacterized phospholipid. The DNA–DNA relatedness of strain NAFc-7T with respect to recognized species of the genus Pseudorhodoferax was less than 70 %. On the basis of the genotypic, chemotaxonomic and phenotypic data, strain NAFc-7T represents a novel member of the genus Pseudorhodoferax , for which the name Pseudorhodoferax aquiterrae sp. nov. is proposed. The type strain is NAFc-7T ( = BCRC 80210T = LMG 26333T = KCTC 23314T).


2020 ◽  
Vol 70 (3) ◽  
pp. 2132-2136 ◽  
Author(s):  
Hyo-Jin Lee ◽  
Kyung-Sook Whang

A Gram-stain-negative bacterium, designated strain PF-30T, was isolated from floodwater of a paddy field in South Korea. Strain PF-30T was found to be a strictly aerobic, motile and pink-pigmented rods which can grow at 25–40 °C (optimum, 28 °C), at pH 5.0–9.0 (optimum pH 7.0) and at salinities of 0.5–3.0 % NaCl (optimum 0.5 % NaCl). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain PF-30T belongs to the genus Elioraea , showing highest sequence similarity to Elioraea tepidiphila TU-7T (97.1%) and less than 91.3 % similarity with other members of the family Acetobacteraceae . The average nucleotide identity (ANI) and DNA–DNA relatedness between the strain PF-30T and E. tepidiphila TU-7T yielded an ANI value of 75.1 % and DNA–DNA relatedness of 11.7±0.7 %, respectively. The major fatty acids were identified as C18 : 0 and C18 : 1 ω7c. The predominant respiratory quinone was identified as Q-10. The DNA G+C content was determined to be 69.9 mol%. The strain PF-30T was observed to produce plant-growth-promoting materials such as indole-3-acetic acid (IAA), siderophore and phytase. On the basis of the results from phylogenetic, chemotaxonomic and phenotypic data, we concluded that strain PF-30T represents a novel species of the genus Elioraea , for which the name Elioraea rosea sp. nov. is proposed. The type strain is PF-30T (=KACC 19985T=NBRC 113984T).


Author(s):  
Renju Liu ◽  
Qiliang Lai ◽  
Li Gu ◽  
Peisheng Yan ◽  
Zongze Shao

A novel Gram-stain-negative, aerobic, gliding, rod-shaped and carotenoid-pigmented bacterium, designated A20-9T, was isolated from a microbial consortium of polyethylene terephthalate enriched from a deep-sea sediment sample from the Western Pacific. Growth was observed at salinities of 1–8 %, at pH 6.5–8 and at temperatures of 10–40 °C. The results of phylogenetic analyses based on the genome indicated that A20-9T formed a monophyletic branch affiliated to the family Schleiferiaceae , and the 16S rRNA gene sequences exhibited the maximum sequence similarity of 93.8 % with Owenweeksia hongkongensis DSM 17368T, followed by similarities of 90.4, 90.1 and 88.8 % with Phaeocystidibacter luteus MCCC 1F01079T, Vicingus serpentipes DSM 103558T and Salibacter halophilus MCCC 1K02288T, respectively. Its complete genome size was 4 035 598 bp, the genomic DNA G+C content was 43.2 mol%. Whole genome comparisons indicated that A20-9T and O. hongkongensis DSM 17368T shared 67.8 % average nucleotide identity, 62.7 % average amino acid identity value, 46.6% of conserved proteins and 17.8 % digital DNA–DNA hybridization identity. A20-9T contained MK-7 as the major respiratory quinone. Its major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and phospatidylcholine; and the major fatty acids were iso-C15 : 0 (37.5 %), iso-C16 : 0 3-OH (12.4 %), and summed feature 3 (C16 : 1ω7c /C16 : 1ω6c, 11.6 %). Combining the genotypic and phenotypic data, A20-9T could be distinguished from the members of other genera within the family Schleiferiaceae and represents a novel genus, for which the name Croceimicrobium hydrocarbonivorans gen. nov., sp. nov. is proposed. The type strain is A20-9T (=MCCC 1A17358T =KCTC 72878T).


2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 134-140 ◽  
Author(s):  
Wen-Ming Chen ◽  
Shwu-Harn Yang ◽  
Chiu-Chung Young ◽  
Shih-Yi Sheu

A bacterial strain, designated NSW-5T, was isolated from a water sample taken from Niao-Song Wetland Park in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain NSW-5T were strictly aerobic, Gram-stain-negative, non-motile and polymorphic, being straight, vibrioid, curved and spiral-shaped rods surrounded by a thick capsule and forming light pink-coloured colonies. Some rings consisting of several cells were present. Growth occurred at 10–40 °C (optimum, 25 °C), with 0–3.0 % NaCl (optimum, 0 %) and at pH 6.0–8.0 (optimum, pH 7.0). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain NSW-5T belonged to the genus Arcicella with sequence similarities of 98.6, 98.0 and 97.3 % with Arcicella aquatica NO-502T, Arcicella rosea TW5T and Arcicella aurantiaca TNR-18T, respectively. The predominant cellular fatty acids were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 20.8 %), C16 : 0 (14.6 %), iso-C15 : 0 (13.8 %), C16 : 1ω5c (12.5 %) and C18 : 0 (11.4 %), and the only respiratory quinone was MK-7. The polar lipid profile consisted of phosphatidylethanolamine and several uncharacterized glycolipids, aminolipids, phospholipids and aminophospholipids. The DNA G+C content of strain NSW-5T was 44.1 mol%. The DNA–DNA relatedness of strain NSW-5T with respect to recognized species of the genus Arcicella was less than 70 %. On the basis of phylogenetic inference and phenotypic data, strain NSW-5T should be classified as a representative of a novel species, for which the name Arcicella rigui sp. nov. is proposed. The type strain is NSW-5T ( = KCTC 23307T = BCRC 80260T). Emended descriptions of the genus Arcicella and of Arcicella aquatica , Arcicella rosea and Arcicella aurantiaca are also proposed.


2013 ◽  
Vol 63 (Pt_10) ◽  
pp. 3755-3761 ◽  
Author(s):  
Ming-Hui Chen ◽  
Shih-Yi Sheu ◽  
Euan K. James ◽  
Chiu-Chung Young ◽  
Wen-Ming Chen

A novel nitrogen-fixing strain, designated DQS-4T, was isolated from oil-contaminated soil in Taiwan and was characterized using a polyphasic taxonomic approach. Cells of strain DQS-4T stained Gram-negative, contained poly-β-hydroxybutyrate granules and were motile rods, surrounded by a thin capsule. Cells displayed a strictly aerobic type of metabolism and fixed nitrogen microaerobically. Growth occurred at 10–45 °C (optimum, 35–40 °C), at pH 7.0–8.0 (optimum, pH 7.0) and with 0–2 % NaCl (optimum, 0.5–1 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain DQS-4T belonged to the genus Azoarcus , and its closest neighbours were Azoarcus indigens VB32T and Azoarcus communis SWub3T, with sequence similarities of 97.4 and 96.4 %, respectively. The major cellular fatty acids of strain DQS-4T were summed feature 3 (comprising C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 1ω7c. The major cellular hydroxy fatty acid was C10 : 0 3-OH. The DNA G+C content was 64.5 mol%. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and several uncharacterized aminophospholipids and phospholipids. The mean level of DNA–DNA relatedness between strain DQS-4T and A. indigens LMG 9092T was 27.4 %. On the basis of the genotypic and phenotypic data, strain DQS-4T represents a novel species in the genus Azoarcus , for which the name Azoarcus olearius sp. nov. is proposed. The type strain is DQS-4T ( = BCRC 80407T = KCTC 23918T = LMG 26893T).


2020 ◽  
Vol 70 (11) ◽  
pp. 5627-5633 ◽  
Author(s):  
Yong Li ◽  
Shengkun Wang ◽  
Ju-pu Chang ◽  
Dan-ran Bian ◽  
Li-min Guo ◽  
...  

Two Gram-stain-negative, aerobic, non-motile bacterial strains, 36D10-4-7T and 30C10-4-7T, were isolated from bark canker tissue of Populus × euramericana, respectively. 16S rRNA gene sequence analysis revealed that strain 36D10-4-7T shows 98.0 % sequence similarity to Sphingomonas adhaesiva DSM 7418T, and strain 30C10-4-7T shows highest sequence similarity to Sphingobacterium arenae H-12T (95.6 %). Average nucleotide identity analysis indicates that strain 36D10-4-7T is a novel member different from recognized species in the genus Sphingomonas . The main fatty acids and respiratory quinone detected in strain 36D10-4-7T are C18 : 1  ω7c and/or C18 : 1  ω6c and Q-10, respectively. The polar lipids are diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, aminolipid, phosphatidylethanolamine, sphingoglycolipid, two uncharacterized phospholipids and two uncharacterized lipids. For strain 30C10-4-7T, the major fatty acids and menaquinone are iso-C15 : 0, C16 : 1  ω7c and/or C16 : 1  ω6c and iso-C17 : 0 3-OH and MK-7, respectively. The polar lipid profile includes phosphatidylethanolamine, phospholipids, two aminophospholipids and six unidentified lipids. Based on phenotypic and genotypic characteristics, these two strains represent two novel species within the genera Sphingomonas and Sphingobacterium . The name Sphingomonas corticis sp. nov. (type strain 36D10-4-7T=CFCC 13112T=KCTC 52799T) and Sphingobacterium corticibacterium sp. nov. (type strain 30C10-4-7T=CFCC 13069T=KCTC 52797T) are proposed.


2014 ◽  
Vol 64 (Pt_10) ◽  
pp. 3459-3466 ◽  
Author(s):  
Shih-Yi Sheu ◽  
Yang-Shun Lin ◽  
Jhen-Ci Chen ◽  
Soon-Wo Kwon ◽  
Wen-Ming Chen

A bacterial strain designated CMJ-15T was isolated from a freshwater shrimp culture pond in Taiwan and characterized using a polyphasic taxonomic approach. Cells of strain CMJ-15T were facultatively anaerobic, Gram-stain-negative and motile by a single polar flagellum and formed light-yellow colonies. Growth occurred at 20–40 °C (optimum, 25–30 °C), with 0–0.7 % NaCl (optimum, 0–0.2 %) and at pH 5.0–9.0 (optimum, pH 6.0–7.0). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain CMJ-15T belonged to the genus Undibacterium and its closest neighbour was Undibacterium oligocarboniphilum EM 1T, with sequence similarity of 96.3 %. The predominant cellular fatty acids were summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), C16 : 0 and C18 : 1ω7c. The major cellular hydroxy fatty acid was C10 : 0 3-OH. The polar lipid profile consisted of phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The polyamine profile was composed of the major compound putrescine and moderate amounts of 2-hydroxyputrescine. The major respiratory quinone was Q-8 and the DNA G+C content was 52.2 mol%. On the basis of these phylogenetic and phenotypic data, strain CMJ-15T should be classified as representing a novel species, for which the name Undibacterium squillarum sp. nov. is proposed. The type strain is CMJ-15T ( = BCRC 80404T = LMG 26892T = KCTC 23917T).


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