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1.
Curr Microbiol ; 80(1): 21, 2022 Dec 02.
Artigo em Inglês | MEDLINE | ID: mdl-36460940

RESUMO

A Gram-negative coccobacillus, YIM 103518T, isolated from wild elephant feces in Xishuangbanna, Yunnan Province, West China, was characterized and identified using a polyphasic taxonomic approach. The strain was strictly aerobic, non-motile, catalase-positive and oxidase-negative, colonies were round, convex, smooth, and pale yellow. The strain growth at 4-40 ℃ (optimum, 28 ℃), pH 6.0-10.0 (optimum, pH 7.0) and 0-4% NaCl (optimum, 0%) in culture medium YIM 38. The major fatty acids of strain YIM 103518T were summed feature 3 (C16:1 ω6c/C16:1 ω7c), C16:0, and C18:1 ω9c. The predominant ubiquinone was Q-9. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylcholine and phospholipids. The 16S rRNA gene sequence showed moderate level of similarity with Acinetobacter portensis AC 877T (98.7%), Acinetobacter sichuanensis CCTCC AB 2018118T (97.1%), and Acinetobacter cumulans CCTCC AB 2018119T (97.1%). The G+C content of the genomic DNA was 36.5 mol%. Strain YIM 103518T showed an average nucleotide identity value of 86.6%, 77.3% and 78.5%, a digital DNA-DNA hybridizations value of 31.2%, 21.9% and 23.0% with the type strain of A. portensis, A. sichuanensis and A. cumulans based on draft genome sequences, respectively. The results of the phenotypic, chemotaxonomic and phylogenetic analyses, showed that strain YIM 103518T represents a novel species of the genus Acinetobacter, for which the name Acinetobacter faecalis sp. nov. is proposed. The type strain is YIM 103518T (=CCTCC AB 2019201T = NBRC 114057T).


Assuntos
Acinetobacter , Elefantes , Animais , RNA Ribossômico 16S/genética , Filogenia , China , Acinetobacter/genética , Fezes
2.
Arch Microbiol ; 203(5): 2439-2444, 2021 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-33666687

RESUMO

A novel Actinobacterium strain YIM 131861 T, was isolated from lichen collected from the South Bank Forest of the Baltic Sea, Germany. It was Gram-stain-positive, strictly aerobic, catalase positive and oxidase negative, yellow pigmented. Cells were motile with a polar flagellum, irregular rod shaped and did not display spore formation. The strain grew at 15 - 30 °C (optimum 25 °C), at pH 6.0 - 10.0 (optimum pH 7.0) and in the presence of 0 - 1.5% (w/v) NaCl (optimum 1%). Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain YIM 131861 T belonged to the genus Glaciibacter, and exhibited a high sequence similarity (96.4%) with Glaciibacter superstes NBRC 104264 T. The genomic DNA G + C content of strain YIM 131861 T was 68.2 mol%. The average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) values between strain YIM 131861 T and Glaciibacter superstes NBRC 104264 T were 73.2 and 19.9% based on the draft genome sequence. The cell-wall peptidoglycan type was B2γ and contained the 2, 4-diaminobutyric acid as the diagnostic amino acid. Whole cell sugars were galactose, rhamnose, ribose and glucose. It contained MK-12 and MK-13 as the predominant menaquinones. The major cellular fatty acids (> 10%) were identified as anteiso-C15:0, iso-C16:0 and anteiso-C17:0. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol and two unknown glycolipids. Based on the results of phenotypic, chemotaxonomic and phylogenetic analyses, strain YIM 131861 T should belong to the genus Glaciibacter and represents a novel species of the genus Glaciibacter, for which the name Glaciibacter flavus sp. nov. is proposed. The type strain is YIM 131861 T (= CGMCC 1.16588 T = NBRC 113572 T).


Assuntos
Actinomycetales/classificação , Líquens/microbiologia , Actinomycetales/química , Actinomycetales/citologia , Actinomycetales/fisiologia , DNA Bacteriano/genética , Ácidos Graxos/química , Genoma Bacteriano/genética , Peptidoglicano/química , Fosfolipídeos/química , Filogenia , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/química
3.
Arch Microbiol ; 204(1): 19, 2021 Dec 15.
Artigo em Inglês | MEDLINE | ID: mdl-34910249

RESUMO

A novel actinobacterium, YIM 132084T, was isolated from Lepraria sp. lichen collected from Yunnan province, south-west PR China and identified by a polyphasic taxonomic approach. The strain was Gram-stain-positive, aerobic, catalase-positive, oxidase-negative, non-motile and coccus-shaped. Colonies were round, convex, smooth and light orange yellow in color. It grew at 10-40 °C (optimum 28 °C), at pH 6.0-11.0 (optimum pH 7.0) and in the presence of 0-4% NaCl (optimum 0%). Strain YIM 132084T comprised diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol as the major polar lipids, MK-8(H4) as the predominant menaquinone, and anteiso-C15:0, anteiso-C17:0, iso-C15:0 and iso-C16:0 as major fatty acids. Strain YIM 132084T had meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan, and mannose, ribose, glucose and rhamnose as whole-cell sugars. The 16S rRNA gene sequence showed high level of similarity with Nakamurella flavida KCTC 19127T (97.7%) and Nakamurella flava CGMCC 4.7524T (97.7%). The G + C content of the genomic DNA was 72.4 mol%. Based on draft genome sequences, strain YIM 132084T showed an average nucleotide identity value of 76.1% and 74.9%, a digital DNA-DNA hybridization value of 20.9% and 20.6% with the reference strains Nakamurella flavida and Nakamurella flava, respectively. The results of the phenotypic, chemotaxonomic and phylogenetic analyses showed that strain YIM 132084T represents a novel species of the genus Nakamurella, for which the name Nakamurella leprariae sp. nov. is proposed. The type strain is YIM 132084T (= CGMCC 4.7667T = NBRC 114280T = KCTC 49367T).


Assuntos
Líquens , Técnicas de Tipagem Bacteriana , China , DNA Bacteriano/genética , Ácidos Graxos , Fosfolipídeos , Filogenia , RNA Ribossômico 16S/genética , Análise de Sequência de DNA
4.
Curr Microbiol ; 78(2): 816-821, 2021 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-33388938

RESUMO

Strain YIM 132242T, isolated from lichen collected from Pu'er, Yunnan Province, China, was short-rod-shaped, Gram-reaction-negative, aerobic, catalase- and oxidase-positive. Growth of the strain was occurred at 10-39 °C (optimum, 28-35 °C), at pH 4.0-10.0 (optimum, pH 7.0-8.0) and at salinities of 0-8% (w/v) NaCl (optimum, 0-2%). Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain YIM 132242T belonged to the genus Paracoccus and had the highest levels of sequence similarity to Paracoccus aerius KCTC 42845T (97.0% similarity), Paracoccus sediminis CMB17T (96.8% similarity), and Paracoccus fontiphilus MVW-1T (96.4% similarity). The major fatty acid was identified as C18:1 ω7c (77.6%). The predominant respiratory quinone was ubiquinone-10 (Q-10). Polar lipid analysis indicated the presence of phosphatidylglycerol (PG), phosphatidylethanolamine (PE), phosphatidylcholine (PC), diphosphatidylglycerol (DPG), an unidentified lipid (L), and three unidentified phospholipids (PL1-PL3). Based on the draft genome sequence, the DNA G + C content of the strain was 67.1 mol%, and the values of average nucleotide identity (ANI) and digital DNA-DNA hybridization (dDDH) of strain YIM 132242T with Paracoccus aerius KCTC 42845T were 85.4% and 29.1%, respectively. On the basis of the data from this polyphasic characterization, strain YIM 132242T represents a novel species of the genus Paracoccus, for which the name Paracoccus lichenicola sp. nov. is proposed. The type strain is YIM 132242T (= KCTC 72463T = CGMCC1.17191T).


Assuntos
Líquens , Paracoccus , Técnicas de Tipagem Bacteriana , China , DNA Bacteriano/genética , Ácidos Graxos , Paracoccus/genética , Fosfolipídeos , Filogenia , RNA Ribossômico 16S/genética , Análise de Sequência de DNA
5.
Int J Syst Evol Microbiol ; 70(2): 751-758, 2020 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-31674895

RESUMO

Huge numbers of bacteria reside in the digestive tract of most animals. During an investigation into the bacterial diversity of primates, strain YIM 102668T was isolated. When neighbour-joining phylogenetic analysis based on 16S rRNA gene sequences was conducted, strain YIM 102668T formed a cluster within the family Flavobacteriaceae and in a lineage not associated with any known group of previously proposed genera. Closely related genera were Algoriella (94.8 %), Chishuiella (94.8 %), Empedobacter (highest 94.6 %), Moheibacter (90.9 %) and Weeksella (90.6 %). In addition, strain YIM 102668T contained MK-6 as the predominant respiratory quinone and iso-C15 : 0 as the major fatty acid. The major polar lipid was phosphatidylethanolamine and the genomic DNA G+C content was 30.6 mol%. These chemotaxonomic characterizations confirmed that strain YIM 102668T belonged to the family Flavobacteriaceae. Supported by the results of phylogenetic, phenotypic and chemotaxonomic analyses, we propose that strain YIM 102668T represents a novel genus, for which the name Faecalibacter macacae gen. nov., sp. nov. is proposed. The type strain is YIM 102668T (=KCTC 52109T=CCTCC AB 2016016T).


Assuntos
Flavobacteriaceae/classificação , Macaca/microbiologia , Filogenia , Animais , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Fezes/microbiologia , Flavobacteriaceae/isolamento & purificação , Fosfatidiletanolaminas/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
6.
Int J Syst Evol Microbiol ; 70(1): 51-57, 2020 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-31584868

RESUMO

A yellow, Gram-stain-negative, aerobic, non-gliding, non-spore-forming, rod-shaped strain, designated YIM 102600T, was isolated from the faeces of Macaca mulatta dwelling in the Yunnan Wild Animal Park, Yunnan Province, South-West PR China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM 102600T was a member of the genus Flavobacterium, and closely related to Flavobacterium qiangtangense F3T (96.9 % similarity) and Flavobacterium noncentrifugens R-HLS-17T (96.0 % similarity). Phylogenetic trees showed that strain YIM 102600T formed a clade with F. qiangtangense F3T and F. noncentrifugens R-HLS-17T. Growth occurred at 4-30 °C (optimum, 28 °C), pH 7.0-8.0 (pH 7.5) and NaCl concentration 0-2 % (w/v; 0-1 %, w/v). The major fatty acids were iso-C15:0 and summed feature 3 (comprising C16:1 ω7c and/or C16:1 ω6c). The predominant polar lipid was phosphatidylethanolamine and the sole respiratory quinone was menaquinone-6. The DNA G+C content was 36.4 mol%. The calculated digital DNA-DNA hybridization values between strain YIM 102600T and other species of Flavobacterium ranged from 70.0 to 75.0 % and average nucleotide identity values were in a range between 13.7 to 23.5 %. Based above the consensus of phenotypic and phylogenetic analyses as well as whole genome comparisons, strain YIM 102600T (=KCTC 52099T=CCTCC AB 201632T) is proposed to represent type strain of a novel species, Flavobacterium macacae sp. nov.


Assuntos
Flavobacterium/classificação , Macaca mulatta/microbiologia , Filogenia , Animais , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Fezes/microbiologia , Flavobacterium/isolamento & purificação , Hibridização de Ácido Nucleico , Fosfatidiletanolaminas/química , Pigmentação , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
7.
Int J Syst Evol Microbiol ; 70(11): 5740-5746, 2020 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-32945761

RESUMO

A Gram-stain-positive, non-motile, aerobic, rod-shaped, golden yellow-pigmented actinobacterium, designated strain YIM 123512T, was isolated from soil sampled at Gaoligong Mountain, Yunnan Province, PR China. The strain grew at 10-40 °C (optimum, 28 °C), with 0-3.0 % (w/v) NaCl (optimum, 0-1.0 %) and at pH 5.0-11.0 (optimum, pH 7.0). The major menaquinone was MK-8(H4) and the major cellular fatty acids (>10 %) were identified as iso-C16 : 0 and C17 : 1 ω8c. Strain YIM 123512T had ll-2, 6-diaminopimelic acid as the diagnostic cell-wall diamino acid. The major polar lipids were found to be diphosphatidylglycerol, phosphatidylglycerol, two unknown phospholipids and one unknown lipid. The genomic DNA G+C content of strain YIM 123512T was 72.7 mol% based on its draft genome sequence. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain YIM 123512T appeared to be most closely related to Nocardioides halotolerans KCTC 19274T (97.7 % sequence similarity) and to belong to the genus Nocardioides. The sequence similarity values of strain YIM 123512T to other currently described type strains of the genus Nocardioides were less than 97.0 %. Based on the draft genome sequence, the novel strain showed an average nucleotide identity value of 80.2 % and a digital DNA-DNA hybridization value of 23.1 % with the reference strain N. halotolerans KCTC 19274T. The results of the polyphasic taxonomic study including phenotypic, chemotaxonomic and phylogenetic analyses show that strain YIM 123512T represents a novel species of the genus Nocardioides, for which the name Nocardioides flavescens sp. nov. is proposed. The type strain is YIM 123512T (=KCTC 49303T=CGMCC 4.7628T).


Assuntos
Nocardioides/classificação , Filogenia , Microbiologia do Solo , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácido Diaminopimélico/química , Ácidos Graxos/química , Nocardioides/isolamento & purificação , Fosfolipídeos/química , Pigmentação , RNA Ribossômico 16S/genética , Análise de Sequência de DNA
8.
Int J Syst Evol Microbiol ; 70(2): 1026-1030, 2020 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-31738159

RESUMO

A Gram-stain-positive, yellow-pigmented, catalase-positive and oxidase-negative, strictly aerobic actinobacterium, designated strain YIM 131853T, was isolated from lichen collected from the South Bank of the Baltic Sea. The novel strain was non-spore-forming, short rod-shaped and motile with a single polar flagellum. The strain could grow at 4-37 °C (optimum, 28 °C), at pH 4.0-12.0 (pH 6.0) and at 0-3 % (w/v) NaCl (1 %). The DNA G+C content of strain YIM 131853T based on the draft genome sequence was 68.3 mol%. Predominant cellular fatty acids (>10 %) were identified as anteiso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. The polar lipid profile included diphosphatidylglycerol, dimannosyldiacylglycerol, three unknown glycolipids, two unknown phospholipids and one unknown lipid. Strain YIM 131853T had 2,4-diaminobutyric acid as the diagnostic cell-wall diamino acid, galactose and glucose as whole-cell sugars, and MK-10, MK-14, MK-13 and MK-12 as the major menaquinones. Although strain YIM 131853T exhibited a highest 16S rRNA gene sequence similarity (96.6 %) to Amnibacterium kyonggiense NBRC 109360T, phylogenetic analysis based on 16S rRNA gene sequences indicated that the strain formed a tight lineage with Naasia aerilata NBRC 108725T (96.5 % 16S rRNA gene sequence similarity), which was the only species of genus Naasia. Based on the results of phenotypic, chemotaxonomic and phylogenetic analyses, strain YIM 131853T should belong to the genus Naasia and represents a novel species of the genus Naasia, for which the name Naasia lichenicola sp. nov. is proposed. The type strain is YIM 131853T (=CGMCC 4.7565T=NBRC 113605T).


Assuntos
Actinobacteria/classificação , Líquens/microbiologia , Filogenia , Actinobacteria/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , Parede Celular/química , DNA Bacteriano/genética , Ácidos Graxos/química , Alemanha , Fosfolipídeos/química , Pigmentação , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/química
9.
Curr Microbiol ; 77(8): 1896-1901, 2020 Aug.
Artigo em Inglês | MEDLINE | ID: mdl-32161989

RESUMO

A novel actinobacterium, YIM 132087T, isolated from Lepraria sp. lichen collected from Yunnan province, south-west PR China. Cells are Gram-stain-positive, catalase-positive and oxidase-negative, aerobic, non-motile and short rod-shaped. Colonies are asporogenous, circular and white brown in colour. Optimal growth occured at 15-35 °C (optimum 28 °C), at pH 5.0-9.0 (optimum pH 6.0), and in the presence of 3% NaCl (w/v). The DNA G+C content of strain YIM 132087T based on the draft genome sequence was 71.3 mol%. Phylogenetic analysis based on 16S rRNA gene sequences suggested that strain YIM 132087T belonged to the genus Nakamurella and exhibited high levels of 16S rRNA gene sequence similarity with Nakamurella endophytica CGMCC 4.7038T (97.9%) and Nakamurella intestinalis NBRC 111844T (97.2%). The DNA-DNA hybridization values between strain YIM 132087T and its closest relatives are lower than 26%. Strain YIM 132087T had meso-diaminopimelic acid as the diagnostic cell-wall diamino acid, and MK-8(H4) as the predominant menaquinone. Predominant cellular fatty acids (> 10%) were iso-C16:0, iso-C15:0, C16:0 and anteiso-C15:0. The polar lipid profile were found to be diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylinositol, three unknown phospholipids, one unknown aminophospholipid and one unknown lipid. Based on phenotypic, phylogenetic and chemotaxonomic analysis, strain YIM 132087T belongs to the genus Nakamurella and represents a novel species of the genus Nakamurella, for which the name Nakamurella albus sp. nov., with type strain YIM 132087T (=CGMCC 4.7629T =NBRC 114017T), is proposed.


Assuntos
Actinobacteria/classificação , Líquens/microbiologia , Filogenia , Actinobacteria/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Genoma Bacteriano , Hibridização de Ácido Nucleico , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Vitamina K 2/análogos & derivados , Vitamina K 2/química
10.
Curr Microbiol ; 77(2): 313-319, 2020 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-31802200

RESUMO

A Gram-negative, motile, aerobic and coccoid rod-shaped bacterium, designated strain YIM132180T, was isolated from a Lepraria sp. lichen collected from Pu'er, Yunnan Province, China. The strain grew at 15-35 °C (optimum, 25-28 °C), at 0-2% (w/v) NaCl (optimum, 0-1%) and at pH 6.0-9.0 (optimum, pH 7.0). The 16S rRNA gene sequence showed that strain YIM132180T had highest similarity (96.4%) with Aureimonas endophytica 2T4P-2-4T, followed by Aureimonas ureilytica NBRC 106430T (95.7%) and Aureimonas rubiginis CC-CFT034T (95.6%). Phylogenetic analysis showed that the strain grouped with species of the genus Aureimonas. The genomic sequence was 4,779,519 bp and contained 4584 coding sequences (CDSs), 54 RNA genes, 3 complete rRNA genes and 47 tRNA genes. The major fatty acids (>10%) of strain YIM132180T were C18:1ω7c, C-16:0 and C19:0 cyclo ω8c. The predominant menaquinone was ubiquinone 10 (Q-10). The polar lipid profile comprised diphosphatidylglycerol, phosphatidylcholine, phosphatidylmethylethanolamine, phosphatidylethanolamine, phosphatidylglycerol, unidentified phospholipid, amino lipid, lipid and most importantly sulfoquinovosyldiacylglycerol (SQDG). Based on the draft genome sequence, the G +C content of strain YIM132180T was 68.4 mol%. The results of the polyphasic taxonomic study, including phenotypic, chemotaxonomic, and phylogenetic analyses, showed that strain YIM132180T represents a novel species of the genus Aureimonas, for which the name Aureimonas leprariae sp. nov. is proposed. The type strain is YIM 132180T (=KCTC 72462T = CGMCC 1.17389T).


Assuntos
Alphaproteobacteria/classificação , DNA Bacteriano/genética , Líquens/microbiologia , Filogenia , Alphaproteobacteria/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , China , Ácidos Graxos/química , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Ubiquinona/análogos & derivados , Ubiquinona/química
11.
Int J Syst Evol Microbiol ; 69(5): 1411-1416, 2019 May.
Artigo em Inglês | MEDLINE | ID: mdl-30839250

RESUMO

A novel Gram-stain-positive, catalase- and oxidase-positive, endospore-forming bacterium, designated GY 10110T, was isolated from mangrove soil collected from Qinzhou, Guangxi province, China. Cells were aerobic, motile with peritrichous flagella and rod-shaped. The strain grew at 15-37 °C (optimum, 28 °C), at 0-3 %(w/v) NaCl (1 %) and at pH 6.0-9.0 (pH 7.0). The major fatty acids of strain GY 10110T were anteiso-C15 : 0, iso-C15 : 0 and iso-C16 : 0. The predominant menaquinone was MK-7. The cell-wall peptidoglycan contained meso-diaminopimelic acid. The polar lipid profile comprised diphosphatidylglycerol, phosphatidylethanolamine, phosphoglycolipid, glycolipid, two unidentified aminophospholipids and three unidentified phospholipids. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain GY 10110T was closely related to Falsibacillus pallidus CCTCC AB 207188T (98.0 % sequence similarity) and Bacillus oceanisediminis CGMCC 1.10115T (96.9 %), respectively. The G+C content of strain GY 10110T based on the whole genome sequence was 42.3 mol%. The novel strain showed an average nucleotide identity (ANI) value of 77.8 % and a digital DNA-DNA hybridization (dDDH) value of 15.6 % with Falsibacillus pallidus CCTCC AB 207188T based on draft genome sequences, followed by Bacillus oceanisediminis CGMCC 1.10115T with ANI and dDDH values of 75.2 and 12.8 %, respectively. The results of the polyphasic taxonomic study, including phenotypic, chemotaxonomic and phylogenetic analysis, showed that strain GY 10110T represents a novel species of the genus Falsibacillus, for which the name Falsibacillus albus sp. nov. is proposed. The type strain is GY 10110T (=CGMCC 1.13648T=NBRC 113502T).


Assuntos
Bacillaceae/classificação , Filogenia , Rhizophoraceae/microbiologia , Microbiologia do Solo , Bacillaceae/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , Parede Celular/química , China , DNA Bacteriano/genética , Ácido Diaminopimélico/química , Ácidos Graxos/química , Glicolipídeos/química , Hibridização de Ácido Nucleico , Peptidoglicano/química , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
12.
Antonie Van Leeuwenhoek ; 112(12): 1739-1745, 2019 Dec.
Artigo em Inglês | MEDLINE | ID: mdl-31346832

RESUMO

A novel strain, YIM 131921T, was isolated from a Physcia sp. lichen collected from the South Bank Forest of the Baltic Sea. The strain is Gram-negative, catalase positive and oxidase negative, strictly aerobic, asporogenous, non-motile and reddish brown in colour. The temperature and pH for growth were found to be 20-30 °C (optimum 28 °C) and pH 6.5-12.0 (optimum pH 7.0 ± 0.5). No growth was observed in the presence of NaCl. Based on 16S rRNA gene sequence similarity, strain YIM 131921T shares high similarities with Rubellimicrobium roseum YIM 48858T (98.3%), followed by Rubellimicrobium mesophilum MSL-20T (96.8%), Rubellimicrobium aerolatum 5715S-9T (96.1%) and Rubellimicrobium thermophilum DSM 16684T (96.0%). Phylogenetic trees showed YIM 131921T forms a cluster with type strains of the genus Rubellimicrobium. The predominant cellular fatty acids (> 20%) were identified as summed feature 8 (C18:1ω7c) and C16:0. Q-10 was found to be the predominant respiratory ubiquinone. The polar lipids were identified as diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, glycolipid, phospholipids and an unidentified aminolipid. The DNA G + C content of the draft genome sequence is 66.6 mol%. Strain YIM 131921T showed an average nucleotide identity value of 80.3% and a digital DNA-DNA hybridizations value of 26.1% with the reference strain R. roseum YIM 48858T based on draft genome sequences. Based on comparative analyses of phenotypic, molecular, chemotaxonomic data and genomic comparisons, strain YIM 131921T is concluded to represent a novel species of the genus Rubellimicrobium, for which the name Rubellimicrobium rubrum sp. nov. is proposed. The type strain is YIM 131921T (= CGMCC 1.13958T = NBRC 114054T = KCTC 72461T).


Assuntos
Técnicas de Tipagem Bacteriana , Líquens/microbiologia , Filogenia , Rhodobacteraceae/classificação , Rhodobacteraceae/isolamento & purificação , Aerobiose , Composição de Bases , Análise por Conglomerados , Citosol/química , DNA Bacteriano/química , DNA Bacteriano/genética , DNA Ribossômico/química , DNA Ribossômico/genética , Ácidos Graxos/análise , Glicolipídeos/análise , Concentração de Íons de Hidrogênio , Locomoção , Fosfolipídeos/análise , Quinonas/análise , RNA Ribossômico 16S/genética , Rhodobacteraceae/genética , Rhodobacteraceae/fisiologia , Análise de Sequência de DNA , Cloreto de Sódio/metabolismo , Temperatura
13.
Antonie Van Leeuwenhoek ; 112(10): 1567-1575, 2019 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-31147966

RESUMO

A novel Gram-negative bacterium, non-motile and short rod-shaped, designated strain GY511T, was isolated from the intestines of fish collected from Maowei Sea, China. Growth occurred at pH 6.0-9.0 (optimum 7.0), 4-37 °C (optimum 28 °C) and at 0-2.5% (w/v) NaCl (optimum 1.0%). The result of 16S rRNA gene sequence analysis showed that strain GY511T is closely related to O. oryzae NBRC 113109T (97.6%), O. konkukae DSM 105395T (97.4%), Ottowia beijingensis CGMCC 1.12324T (95.9%), Ottowia pentelensis DSM 21699T (95.2%) and Ottowia thiooxydans DSM 14619T (95.0%). The DNA-DNA hybridization values of strain GY511T with O. oryzae NBRC 113109T and O. konkukae DSM 105395T were 35.4 ± 3.1% and 26.3 ± 1.8%, respectively. The major fatty acids (> 10%) were identified as summed feature 3 (C16:1ω7c and/or C16:1ω6c), C16:0 and summed feature 8 (C18:1ω7c and/or C18:1ω6c) and the major respiratory quinone was ubiquinone-8 (Q-8). The polar lipids comprised diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmethylethanolamine, two unidentified aminolipids and an unidentified phospholipid. The G+C content of the genomic DNA was 62.9 mol%. Thiosulfate could be utilized as co-substrate for aerobic growth and was oxidised to sulfate. On the basis of phenotypic, chemotaxonomic and molecular data, strain GY511T is considered to represent a novel species of the genus Ottowia, for which the name Ottowia flava sp. nov. is proposed. The type strain is GY511T (= NBRC 113500T = DSM 107425T = CGMCC 1.13650T).


Assuntos
Comamonadaceae/classificação , Comamonadaceae/isolamento & purificação , Peixes/microbiologia , Intestinos/microbiologia , Aerobiose , Animais , Organismos Aquáticos/microbiologia , Técnicas de Tipagem Bacteriana , Composição de Bases , China , Análise por Conglomerados , Comamonadaceae/genética , Comamonadaceae/fisiologia , Citosol/química , DNA Bacteriano/química , DNA Bacteriano/genética , DNA Ribossômico/química , DNA Ribossômico/genética , Ácidos Graxos/análise , Concentração de Íons de Hidrogênio , Hibridização de Ácido Nucleico , Fosfolipídeos/análise , Filogenia , Quinonas/análise , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Cloreto de Sódio/metabolismo , Temperatura
14.
Curr Microbiol ; 75(2): 213-222, 2018 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-29127454

RESUMO

Huge numbers of bacteria reside in the digestive tract of host and these microorganisms play a vital role in the host health, especially in the digestion of food and the development of immune system. Host phylogeny and diet, especially long-term diet, both have great influence on the gut bacterial community. Other aspects of host, such as gender, age, and the geography and weather they lived, are also correlated to their gut bacterial community. Feces are usually used for gut bacteria study and fecal bacteria can represent the distal gut bacteria. In order to determine the influence of the host phylogeny and diet on the composition of distal gut bacterial community and to interpret bacterial population and diversity in the intestinal of animals, the distal gut bacterial community of four kinds of primates and five kinds of carnivora (including herbivorous, omnivorous, and carnivorous) were investigated using high-throughput sequencing and the isolation of the Actinobacteria from fresh feces of several primates was processed. The results showed the host phylogeny had a greater influence on the distal gut bacterial community of the primates and carnivora than the host diet. A total of 44 bacteria phyla and two archaea phyla were detected, which indicated that the distal gut bacteria of these animals were abundant. The distal gut bacteria were relatively stable and wildly shared in primates and carnivora. The difference in distal gut bacteria of the two animal orders is mainly determined by relative abundance of most distal gut bacteria rather than by the taxa of these bacteria.


Assuntos
Archaea/classificação , Bactérias/classificação , Carnívoros , Microbioma Gastrointestinal , Trato Gastrointestinal/microbiologia , Primatas , Actinobacteria , Animais , Archaea/genética , Bactérias/genética , Fezes/microbiologia , Sequenciamento de Nucleotídeos em Larga Escala
15.
Int J Syst Evol Microbiol ; 67(11): 4801-4807, 2017 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-28984560

RESUMO

Two novel actinobacteria, designated YIM 121936T and YIM 121940T, were isolated from alkaline sediment in Yuanjiang, China. The cells of the novel strains were Gram-stain-positive, aerobic, motile, non-spore-forming and coccus-shaped. The two strains both contained meso-diaminopimelic acid as the diagnostic diamino acid. The whole-cell sugars were arabinose, galactose, glucose, mannose and ribose. The predominant menaquinone was MK-9(H2). The polar lipid profile of both strains comprised diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside, one unknown phosphoglycolipid and five unknown phospholipids. The predominant fatty acids of both strains were anteiso-C15 : 0. The genomic DNA G+C contents of strains YIM 121936T and YIM 121940T were 74.7 and 75.2 %, respectively. Strain YIM 121936T was closely related to Kineococcus aurantiacus IFO 15268T (97.19 %), Kineococcus gypseus YIM 121300T (97.00 %) and Kineococcus mangrovi NBRC 110933T (97.00 %). Strain YIM 121940T was closely related to K. aurantiacus IFO 15268T (97.41 %), Kineococcus endophytica KLBMP 1274T (97.18 %), Kineococcus rhizosphaerae RP-B16T (97.09 %), Kineococcus radiotolerans SRS 30216T (97.09 %), K. gypseus YIM 121300T (97.00 %) and K. mangrovi NBRC 110933T (97.00 %). Strain YIM 121936T shared high 16S rRNA gene sequence similarity (99 %) with YIM 121940T. Similarities of two strains with other species of the genus Kineococcus were <97 %. The DNA-DNA hybridization values were below 70 % among all the strains studied. YIM 121936T and YIM 121940T are representatives of two new species in the genus Kineococcus, for which names Kineococcus terreus sp. nov. (type strain YIM 121936T=KCTC 39738T=DSM 102155T) and Kineococcus aureolus sp. nov. (type strain YIM 121940T=KCTC 39739T=DSM 102158T) are proposed, respectively.


Assuntos
Actinomycetales/classificação , Sedimentos Geológicos/microbiologia , Filogenia , Actinomycetales/genética , Actinomycetales/isolamento & purificação , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácido Diaminopimélico/química , Ácidos Graxos/química , Concentração de Íons de Hidrogênio , Hibridização de Ácido Nucleico , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Salinidade , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
16.
Int J Syst Evol Microbiol ; 67(7): 2253-2257, 2017 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-28671530

RESUMO

A novel actinobacterium, designated YIM 101593T, was isolated from the faeces of a primate (Rhinopithecus roxellanae) living in Yunnan Wild Animal Park in Yunnan province, south-west China. The isolate was Gram-stain-positive, facultatively anaerobic, coccus-shaped, oxidase-negative and motile. The cell wall contained meso-diaminopimelic acid as its diagnostic diamino acid, and mannose, ribose, glucose, galactose and arabinose were detected as the main whole-cell sugars. The predominant menaquinone was MK-8(H2). The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, two glycolipids, three unidentified phospholipids and two unidentified lipids. The major fatty acids were C17 : 1ω8c, C15 : 0 and summed feature 4 (anteiso-C17 : 1 B and/or iso-C17 : 1 I). The DNA G+C content was 69.8 mol%. The 16S rRNA gene sequence similarity between strain YIM 101593T and Mobilicoccus pelagius was 97.9 %, and the two strains formed a distinct lineage stably on the basis of phylogenetic analysis. In addition, DNA-DNA relatedness between the two strains was 49.0±5.1 %. On the basis of chemotaxonomical and physiological characteristics and the phylogenetic analysis, strain YIM 101593T should be considered to represent a novel species of the genus Mobilicoccus, for which we propose the name Mobilicoccus caccae sp. nov., with the type strain YIM 101593T (=DSM 27611T=CCTCC AB 2013229T).


Assuntos
Actinomycetales/classificação , Fezes/microbiologia , Filogenia , Primatas/microbiologia , Actinomycetales/genética , Actinomycetales/isolamento & purificação , Animais , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , DNA Ribossômico/genética , Ácido Diaminopimélico/química , Ácidos Graxos/química , Hibridização de Ácido Nucleico , Fosfolipídeos/química , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/análogos & derivados , Vitamina K 2/química
17.
Antonie Van Leeuwenhoek ; 110(4): 553-562, 2017 Apr.
Artigo em Inglês | MEDLINE | ID: mdl-28032205

RESUMO

A novel strain, YIM 100770T, was isolated from Rhinoceros unicornis faeces collected from Yunnan Wild Animal Park, China. The taxonomic status was determined based on the physiological, biochemical and phylogenetic characteristics. Strain YIM 100770T was observed to be rod-shaped, non-motile, Gram-stain negative and aerobic. The G+C content of the genomic DNA was determined to be 68.5 mol%. The cells of strain YIM 100770T contain ubiquinone Q-10 as the respiratory quinone. The major fatty acids (>1%) were identified as Summed feature 8 (C18:1 ω7c and/or C18:1 ω6c; 78.1%), Summed feature 4 (iso-C17:1-I and/or anteiso-C17:1-B; 12.9%), C19:0 cyclo ω8c (2.8%), C16:0 (2.2%) and C18:0 (2.2%). Comparison of 16S rRNA gene sequences revealed the strain show high similarities with the members of the genera Psychroglaciecola (94.5%), Methylobacterium (90.5-94.1%) and Microvirga (92.0-93.3%) in the family Methylobacteriaceae. In addition, the strain also showed high similarities with the members of the genera Chelatococcus (93.7-94.0%) and Pseudochelatococcus (93.1-93.7%) in the family Beijerinckiacea, and the genus Bosea (93.1-93.8%) in the family Bradyrhizobiaceae. The phylogenetic analysis, combined with the chemical characteristics, suggest that the strain represents a novel genus in the order Rhizobiales of the class Alphaproteobacteria, for which the name Enterovirga rhinocerotis gen. nov., sp. nov. is proposed. The type strain of E. rhinocerotis is YIM 100770T (=DSM 25903T = CCTCC AB 2012048T).


Assuntos
Alphaproteobacteria/classificação , Alphaproteobacteria/isolamento & purificação , Técnicas de Tipagem Bacteriana , Perissodáctilos/microbiologia , Alphaproteobacteria/genética , Animais , Composição de Bases , DNA Bacteriano/genética , Ácidos Graxos/análise , Fezes/microbiologia , RNA Ribossômico 16S/genética
18.
Int J Syst Evol Microbiol ; 66(7): 2478-2483, 2016 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-27073837

RESUMO

A Gram-stain-positive, facultatively anaerobic, short rod-shaped, oxidase-negative and non-motile novel strain, designated YIM 101505T, was isolated from the faeces of a primate, Assamese macaque, and was studied to determine its taxonomic position. The cell wall contained meso-diaminopimelic acid and short-chain mycolic acids. Whole cell sugars were mannose, galactose and arabinose as major components. The major fatty acids (>10 %) were C18 : 1ω9c, C16 : 0 and C17 : 1ω8c and the major menaquinone was MK-9(H2). The polar lipids included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol mannoside, glycolipid and six unidentified lipids. The new isolate shared most of the typical chemotaxonomic characteristics of members of the genus Corynebacterium. The closest related species was Corynebacterium efficiens based on 16S rRNA gene (98.1 % similarity) and partial rpoB gene (91.4 % similarity) sequences. Similarities with other species of this genus were below 97 % based on the 16S rRNA gene. The DNA-DNA hybridization value between YIM 101505T and C. efficiens DSM 44549T was 47.7±3.6 %. Moreover, the physiological and biochemical characteristics of YIM 101505T and C. efficiens DSM 44549T were different. Thus, strain YIM 101505T is considered to represent a novel member of the genus Corynebacterium, for which the name Corynebacterium faecale sp. nov. is proposed. The type strain is YIM 101505T (=DSM 45971T=CCTCC AB 2013226T).


Assuntos
Corynebacterium/classificação , Corynebacterium/isolamento & purificação , Fezes/microbiologia , Macaca/microbiologia , Animais , Técnicas de Tipagem Bacteriana , China , Corynebacterium/química , Corynebacterium/citologia , DNA Bacteriano/genética , Fosfolipídeos/análise , Filogenia , Análise de Sequência de DNA
19.
Int J Syst Evol Microbiol ; 66(2): 922-927, 2016 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-26621119

RESUMO

A novel Gram-stain-positive, non-spore-forming, irregular rod-shaped, non-motile and facultatively anaerobic actinobacterium, designated strain YIM 101269T, was isolated from the faeces of Rhinoceros unicornis living in Yunnan Wild Animal Park, Yunnan province, south-west China. The isolate grew at 10-35 °C, at pH 6-12 and with 0-9 % (w/v) NaCl. The cell-wall peptidoglycan of the organism contained ll-diaminopimelic acid as the diagnostic diamino acid. The polar lipids detected were diphosphatidylglycerol, phosphatidylglycerol, three unidentified polar lipids, one unidentified aminophospholipid and three unknown glycolipids. The major cellar fatty acid was anteiso-C15 : 0.MK-10(H4) was the predominant menaquinone. The DNA G+C content was 69.5 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain YIM 101269T belonged to the genus Tessaracoccus, closely related to Tessaracoccus flavescens DSM 18582T (97.4 % similarity). Based on the evidence from the present study, strain YIM 101269T is considered to represent a novel species of the genus Tessaracoccus, for which the name Tessaracoccus rhinocerotis sp. nov. is proposed. The type strain is YIM 101269T ( = DSM 27579T = CCTCC AB 2013217T).

20.
Int J Syst Evol Microbiol ; 66(11): 4445-4450, 2016 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-27498962

RESUMO

A novel, yellow, aerobic strain, YIM 101168T, isolated from the faeces of a dove (Columba livia), was studied to determine its taxonomic position. Cells were Gram-stain-positive, short rod-shaped, oxidase-negative, catalase-positive and non-motile. The strain could grow at 7-37 °C, at pH 6-10 and in the presence of 0-13 % (w/v) NaCl. The strain had a 16S rRNA gene sequence similarity and DNA-DNA hybridization relatedness value with Microbacteriumgubbeenense NCIMB 30129T of 97.8 % and 41.5±8.7 %, respectively. Ornithine was detected as the diagnostic amino acid in the hydrolysate of the cell wall. Whole-cell sugars were found to be galactose, glucose, rhamnose, mannose and ribose. Major fatty acids (>10 %) were iso-C16 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. Major menaquinones were identified as MK-10, MK-11 and MK-12. The polar lipids included diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, glycolipids and four unidentified lipids. The phylogenetic analyses as well as the chemotaxonomic and phenotypic characteristics indicate that strain YIM 101168T represents a novel species of the genus Microbacterium; the name Microbacterium faecale sp. nov. is proposed for the novel species and the type strain is YIM 101168T (=DSM 27232T=KCTC 39554T=CGMCC 1.15152T).


Assuntos
Actinomycetales/classificação , Columbidae/microbiologia , Filogenia , Actinomycetales/genética , Actinomycetales/isolamento & purificação , Aminoácidos/química , Animais , Técnicas de Tipagem Bacteriana , Composição de Bases , China , DNA Bacteriano/genética , Ácidos Graxos/química , Fezes/microbiologia , Glicolipídeos/química , Hibridização de Ácido Nucleico , RNA Ribossômico 16S/genética , Análise de Sequência de DNA , Vitamina K 2/química
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