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Abstract
A Gram-stain-positive, facultative anaerobic, motile and rod-shaped bacterial strain, DG-18T, was isolated from desert soil sampled at the Kubuqi Desert in Inner Mongolia, China. Strain DG-18T grew at 4–40 °C (optimum, 25–30 °C), at pH 8.0–10.0 (optimum, pH 9.0) and with 0–8.0 % (w/v) NaCl (optimum 2.0%). 16S rRNA gene sequence analysis placed strain DG-18T within the genus
Sutcliffiella
of the family
Bacillaceae
with
Sutcliffiella halmapala
DSM 8723T (98.2%),
Sutcliffiella zhanjiangensis
JSM 099021T (97.6%),
Sutcliffiella horikoshii
DSM 8719T (97.4%),
Sutcliffiella catenulata
18CT (96.6 %) and
Sutcliffiella cohnii
NBRC 15565T (96.5%) as its closest relatives. The major respiratory quinone of strain DG-18T was MK-7 and the major polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. Its major fatty acids were iso-C15 : 0 and iso-C17 : 1
ω10c. The genomic DNA G+C content of strain DG-18T was 38.7 mol% based on total genome calculations. The average nucleotide identity score between the genomic sequence of strain DG-18T and that of
S. halmapala
DSM 8723T was 76.7 %. The Genome-to-Genome Distance Calculator showed that the DNA–DNA hybridization value for strain DG-18T and
S. halmapala
DSM 8723T was 21.8%. Based on the polyphasic taxonomic data, strain DG-18T represents a novel species of the genus
Sutcliffiella
, for which the name Sutcliffiella deserti sp. nov. is proposed. The type strain is DG-18T (=GDMCC 1.17773T=KCTC 43170T).
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Description and genome analysis of Microvirga antarctica sp. nov., a novel pink-pigmented psychrotolerant bacterium isolated from Antarctic soil. Antonie van Leeuwenhoek 2021; 114:2219-2228. [PMID: 34697697 DOI: 10.1007/s10482-021-01674-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Accepted: 10/11/2021] [Indexed: 10/20/2022]
Abstract
A novel pink-pigmented bacterium, designated strain 3D7T, was isolated during an investigation of potential psychrotolerant species from Antarctic soil. Cells of the isolate were observed to be rod-shaped (0.7-0.9 × 1.0-2.2 µm), Gram-stain negative and non-motile. It was able to grow at 4-32 °C, pH 7.0-10.0 and in the presence of 0-3% (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain 3D7T belongs to the genus Microvirga and was most closely related to 'Microvirga brassicacearum' CDVBN77T (98.3%), Microvirga subterranea DSM 14364 T (96.8%), Microvirga guangxiensis 25BT (96.5%) and Microvirga aerophila DSM 21344 T (96.5%). The predominant quinone was ubiquinone 10 (Q-10), and the major fatty acids were summed feature 8 (C18:1ω7c and/or C18:1ω6c) and C19:0 cyclo ω8c. The predominant polar lipids were phosphatidylcholine and phosphatidylethanolamine. The genomic DNA G + C content of strain 3D7T was 63.5 mol%. Its genome sequence showed genes encoding phosphatases and lipases. Genetic machinery related to carbohydrate-active enzymes and secondary metabolites were also observed. The average nucleotide identity and digital DNA-DNA hybridization values based on whole genome sequences of strain 3D7T and its closely related species were below the threshold range for species determination. Phenotypic, chemotaxonomic, phylogenetic and genomic analyses suggested that strain 3D7T represents a novel species of the genus Microvirga, for which the name Microvirga antarctica sp. nov. is proposed. The type strain is 3D7T (= CGMCC 1.13821T = KCTC 72465T).
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Zhang S, Ping W, Xin Y, Xin D, Zhang J. Planococcus soli sp. nov., isolated from antarctic soil. Antonie van Leeuwenhoek 2021; 114:1107-1115. [PMID: 33973094 DOI: 10.1007/s10482-021-01581-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2020] [Accepted: 04/15/2021] [Indexed: 10/21/2022]
Abstract
A novel bacterial strain, designated C23T, was isolated from a soil sample obtained from King George Island, Antarctica. Phenotypic, phylogenetic, chemotaxonomic and molecular analyses were performed on the new isolate. Strain C23T formed orange colonies on agar plates and was Gram-stain-positive. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain C23T was a member of the genus Planococcus and was closely related to Planococcus salinarum DSM 23802T (98.5% sequence similarity), Planococcus halotolerans SCU63T (98.3%), Planomicrobium okeanokoites IFO 12526T (98.3%), Planococcus donghaensis DSM 22276T (98.3%) and Planococcus maitriensisi S1T (98.2%). This organism grew at 2-38 °C (optimum, 25-30 °C), pH 6.0-12.0 (optimum, pH 7.5) and 0-14% (w/v) NaCl (optimum, 2%). The predominant menaquinone was MK-8. The major cellular fatty acids were anteiso-C15:0, iso-C14:0 and C16:1 ω7c alcohol. The whole genome DNA of C23T was deposited in the GenBank database under accession number WXYN00000000. According to the whole genome, the DNA G + C content of strain C23T was determined to be 46.8 mol%; the average nucleotide identity (ANI) of strain C23T and P. salinarum DSM 23802T, P. halotolerans SCU63T, P. okeanokoites IFO 12526T, P. donghaensis DSM 22276T and P. maitriensis S1T were 74.1%, 74.3%, 74.1%, 78.8 and 73.6%; the digital DNA-DNA hybridization (dDDH) values between strain C23T and the five closely related species were 19.7%, 19.6%, 19.5%, 22.4 and 18.6%; the average amino acid identity (AAI) values between strain C23T and the five closely related species were 73.9%, 74.5%, 74.4%, 84.6 and 74.5%. All data were below the threshold range for species determination. Based on the polyphasic taxonomic study, we considered that strain C23T represented a novel species of the genus Planococcus for which the name Planococcus soli sp. nov. is proposed. The type strain is C23T (= KCTC 33644T = CGMCC 1.15115T).
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Affiliation(s)
- Siyue Zhang
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, 100081, Beijing, People's Republic of China
| | - Weiwei Ping
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, 100081, Beijing, People's Republic of China
| | - Yuhua Xin
- China General Microbiological Culture Collection Center, Institute of Microbiology, Chinese Academy of Sciences, 100101, Beijing, People's Republic of China
| | - Di Xin
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, 100081, Beijing, People's Republic of China
| | - Jianli Zhang
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, 100081, Beijing, People's Republic of China.
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Ping W, Zhang Y, Pang H, Zhang J, Li D, Li Y, Zhang J. Chitinophaga solisilvae sp. nov., isolated from forest soil. Int J Syst Evol Microbiol 2020; 70:4808-4815. [DOI: 10.1099/ijsem.0.004350] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-stain-negative, strictly aerobic, non-motile and rod-shaped bacterial strain, O9T, was isolated from a forest soil sample collected at Dai, Xishuangbanna, Yunnan Province, PR China. Strain O9T grew optimally at pH 7.0, at 28‒30 °C and in the absence of NaCl. 16S rRNA gene sequence analysis placed strain O9T within the genus
Chitinophaga
of the family Chitinophagaceae, with
Chitinophaga terrae
KP01T (97.8 %),
Chitinophaga jiangningensis
JN53T (97.7 %),
Chitinophaga niastensis
JS16-4T (97.4 %),
Chitinophaga qingshengii
JN246T (97.3 %) and
Chitinophaga dinghuensis
DHOC24T (97.3 %) as its closest relatives. Strain O9T hydrolysed casein, gelatin and Tween 80. It could not assimilate l-arabinose, l-rhamnose, sucrose, melibiose, gentiobiose or d-fructose as a carbon source. It was negative for esterase lipase (C8) and β-glucosidase. Phosphatidylethanolamine was the predominant polar lipid. The major respiratory quinone of strain O9T was MK-7. Its major fatty acids were iso-C15:0 (34.2 %), C16:1
ω5c (20.9 %) and iso-C17:0 3-OH (12.6 %). The genomic DNA G+C content of strain O9T was 49.0 mol% based on total genome calculations. The average nucleotide identity score between the genomic sequence of strain O9T and that of
Chitinophaga terrae
KP01T was 72.9%. The Genome-to-Genome Distance Calculator showed that DNA‒DNA hybridization values for strain O9T and
Chitinophaga terrae
KP01T were 13.6, 21.1 and 14.4%, respectively. Based on the polyphasic taxonomic data, strain O9T represents a novel species of the genus
Chitinophaga
, for which the name Chitinophaga solisilvae sp. nov. is proposed. The type strain is O9T (=CGMCC 1.12462T=KCTC 32404T).
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Affiliation(s)
- Weiwei Ping
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Ying Zhang
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Huancheng Pang
- Institute of Agri-resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Jun Zhang
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Dai Li
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
| | - Yuyi Li
- Institute of Agri-resources and Regional Planning, CAAS, Beijing 100081, PR China
| | - Jianli Zhang
- Key Laboratory of Molecular Medicine and Biotherapy, School of Life Science, Beijing Institute of Technology, Beijing 100081, PR China
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Wang M, Jiang XW, Tang SK, Zhi XY, Yang LL. Paenibacillus paridis sp. nov., an endophytic bacterial species isolated from the root of Paris polyphylla Smith var. yunnanensis. Int J Syst Evol Microbiol 2020; 70:1940-1946. [DOI: 10.1099/ijsem.0.003997] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-positive, endospore-forming and rod-shaped bacterial strain, designated py1325T, was isolated from the root of Paris polyphylla Smith var. yunnanensis collected from Yunnan Province, PR China, and subjected to a polyphasic taxonomic characterization. It grew optimally with 0–1 % NaCl (w/v), at pH 7 and at 30 °C. The major respiratory quinone was MK-7 and the diagnostic diamino acid in the cell-wall peptidoglycan was meso-diaminopimelic acid. The major cellular fatty acid was anteiso-C15 : 0. The polar lipids consisted of phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, two unidentified aminophospholipids, two unidentified phospholipids and two unidentified lipids. The results of 16S rRNA gene sequence analysis revealed the highest levels of sequence similarity with respect to
Paenibacillus luteus
R-3T (99.0 %),
Paenibacillus sinopodophylli
CCTCC AB 2016047T (97.9 %),
Paenibacillus castaneae
DSM 19417T (97.5 %) and
Paenibacillus endophyticus
LMG 27297T (97.2 %). The digital DNA–DNA hybridization and average
nucleotide identity values between py1325T and these species ranged 20.6–53.3 % and 79.9–93.6 %. The G+C content of the genomic DNA was 47.7 mol%. According to the phylogenetic, phenotypic and chemotaxonomic evidence, strain py1325T clearly represents a novel species of the genus
Paenibacillus
, for which the name Paenibacillus paridis sp. nov. is proposed. The type strain is py1325T (=CCTCC AB 2015220T=LMG 29068T).
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Affiliation(s)
- Min Wang
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming 650091, PR China
| | - Xing-Wang Jiang
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming 650091, PR China
| | - Shu-Kun Tang
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming 650091, PR China
| | - Xiao-Yang Zhi
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming 650091, PR China
| | - Ling-Ling Yang
- Yunnan Institute of Microbiology, School of Life Sciences, Yunnan University, Kunming 650091, PR China
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