Bacillus gottheilii sp. nov., isolated from a pharmaceutical manufacturing site

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 867-872 ◽  
Author(s):  
Herbert Seiler ◽  
Mareike Wenning ◽  
Verena Schmidt ◽  
Siegfried Scherer
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Cellular Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Acid Type

A novel Gram-staining-positive, rod-shaped, motile, strictly aerobic, endospore-forming bacterium, designated WCC 4585T, was isolated from a pharmaceutical production line. The organism grew optimally at 30 °C, at pH 8 and in the presence of 0.5 % (w/v) NaCl. Oval endospores were formed subterminally and terminally in swollen sporangia. The cell-wall diamino acid was meso-diaminopimelic acid (type A1γ) and the genomic DNA G+C content was 38.7 mol%. The major menaquinone was MK-7. The cellular fatty acid profile contained major amounts of iso-C15 : 0, anteiso-C15 : 0 and anteiso-C17 : 0, and the cellular phospholipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and aminophospholipid. The isolate was most closely related to Bacillus oceanisediminis H2T, Bacillus infantis SMC 4352-1T, Bacillus firmus NCIMB 9366T, Bacillus circulans ATCC 4513T and Bacillus horneckiae DSM 23495T with which it shared less than 98.0 % 16S rRNA gene sequence similarity. DNA–DNA relatedness values between strain WCC 4585T and five type strains of related species were ≤27 % and sequence similarity values based on groEL sequences were ≤88.7 %. On the basis of the characteristics presented, strain WCC 4585T is proposed to represent a novel species, Bacillus gottheilii sp. nov. The type strain is WCC 4585T( = DSM 23668T = CCUG 59876T = LMG 25856T).

Flavobacterium dankookense sp. nov., isolated from a freshwater reservoir, and emended descriptions of Flavobacterium cheonanense , F. chungnamense , F. koreense and F. aquatile

2012 ◽  
Vol 62 (Pt_10) ◽  
pp. 2378-2382 ◽  
Author(s):  
Siwon Lee ◽  
Hang-Yeon Weon ◽  
Kyudong Han ◽  
Tae-Young Ahn
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Freshwater Reservoir ◽  
Genotypic Characteristics

A novel yellow-pigmented bacterial strain, designated ARSA-19T, was isolated from a freshwater reservoir in Cheonan, Korea. Cells were Gram-staining-negative, rod-shaped, strictly aerobic and positive for catalase and oxidase. The phylogenetic tree based on 16S rRNA gene sequences showed that strain ARSA-19T belonged to the genus Flavobacterium and was related to Flavobacterium macrobrachii an-8T (96.5 % sequence similarity), F. koreense KACC 14969T (96.2 %), F. chungnamense KACC 14971T (96.1 %), F. cheonanense KACC 14972T (96.4 %) and F. aquatile ATCC 11947T (95.6 %). The isolate contained MK-6 as the predominant menaquinone and iso-C15 : 0 (21.8 %), iso-C16 : 0 3-OH (10.4 %), iso-C15 : 1 G (9.3 %), summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1ω7c; 8.2 %), iso-C15 : 0 3-OH (7.7 %) and iso-C16 : 0 (7.3 %) as the major fatty acids. The polar lipids of strain ARSA-19T were phosphatidylethanolamine, four unknown aminolipids and two unidentified polar lipids. The DNA G+C content of strain ARSA-19T was 33.3 mol%. Based on its phenotypic and genotypic characteristics and on the phylogenetic evidence presented, strain ARSA-19T is considered to represent a novel species in the genus Flavobacterium , for which the name Flavobacterium dankookense sp. nov. is proposed. The type strain is ARSA-19T ( = KCTC 23179T  = JCM 17065T  = KACC 14968T). Emended descriptions of Flavobacterium cheonanense , Flavobacterium chungnamense , Flavobacterium koreense and Flavobacterium aquatile are also proposed.

Sphingobacterium hotanense sp. nov., isolated from soil of a Populus euphratica forest, and emended descriptions of Sphingobacterium daejeonense and Sphingobacterium shayense

2013 ◽  
Vol 63 (Pt_3) ◽  
pp. 815-820 ◽  
Author(s):  
Ting Xiao ◽  
Xiang He ◽  
Gang Cheng ◽  
Haiju Kuang ◽  
Xiangru Ma ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Populus Euphratica ◽  
Rrna Gene ◽  
Major Polar Lipid ◽  
Strictly Aerobic ◽  
Phenotypic Data ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A novel Gram-staining-negative bacterial strain, designated XH4T, was isolated from soil of a Populus euphratica forest in the Hotan River valley, Xinjiang Uyghur autonomous region, PR China. The cells were strictly aerobic, non-motile, short rods. The isolate grew optimally at 37 °C and at pH 7.0–8.0. Based on 16S rRNA gene sequence analysis, strain XH4T belonged to the genus Sphingobacterium and was closely related to Sphingobacterium mizutaii ATCC 33299T (96.1 % sequence similarity). The DNA G+C content was 41.2 mol%. The major polar lipid of strain XH4T was phosphatidylethanolamine, and several unidentified polar lipids were also present. Strain XH4T showed the typical chemotaxonomic features of the genus Sphingobacterium , with the presence of ceramide phosphorylethanolamine 2 (CerPE-2) as the major ceramide. The major cellular fatty acids of strain XH4T were iso-C15 : 0 (34.0 %), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c; 20.7 %) and iso-C17 : 0 3-OH (14.7 %). The predominant isoprenoid quinone was MK-7. On the basis of phenotypic data and phylogenetic inference, strain XH4T represents a novel species of the genus Sphingobacterium , for which the name Sphingobacterium hotanense sp. nov. is proposed. The type strain is XH4T ( = NRRL B-59204T  = CCTCC AB 209007T). Emended descriptions of Sphingobacterium daejeonense and Sphingobacterium shayense are also given.

Virgibacillus halotolerans sp. nov., isolated from a dairy product

2013 ◽  
Vol 63 (Pt_9) ◽  
pp. 3358-3363 ◽  
Author(s):  
Herbert Seiler ◽  
Mareike Wenning
Keyword(s):  
Sequence Similarity ◽  
Dairy Product ◽  
Cellular Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Diamino Acid ◽  
Cellular Fatty Acid Profile

A Gram-stain-positive, strictly aerobic, rod-shaped and weakly motile bacterium, designated WS 4627T, was isolated from a dairy product sample collected in southern Germany. Spherical to slightly ellipsoidal endospores were formed centrally or subterminally in sometimes slightly swollen sporangia. The isolate was able to grow at 8–35 °C, at pH 6.5–8.5 and with 0.5–16.5 % (w/v) NaCl. The diamino acid of the cell wall was meso-diaminopimelic acid (peptidoglycan type A1γ) and the genomic DNA G+C content was 39.1 mol%. The major menaquinone was MK-7, the cellular fatty acid profile contained major amounts of anteiso-C15 : 0 and anteiso-C17 : 0 and the major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. Strain WS 4627T was most closely related to ‘ Virgibacillus natachei’ FarD (96.5 % 16S rRNA gene sequence similarity) and ‘ Virgibacillus zhanjiangensis’ JSM 079157 (96.0 %). Based on the data presented, strain WS 4627T represents a novel species of the genus Virgibacillus , for which the name Virgibacillus halotolerans sp. nov. is proposed. The type strain is WS 4627T ( = DSM 25060T = LMG 26644T).

Mucilaginibacter herbaticus sp. nov., isolated from the rhizosphere of the medicinal plant Angelica sinensis

2013 ◽  
Vol 63 (Pt_8) ◽  
pp. 2787-2793 ◽  
Author(s):  
Hae-Ran Lee ◽  
Song-Ih Han ◽  
Ki-Hyeong Rhee ◽  
Kyung-Sook Whang
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Angelica Sinensis ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Separate Species ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
The Status

A strictly aerobic, Gram-staining-negative, non-motile and rod-shaped bacterial strain, DR-9T, was isolated from rhizosphere soil of the medicinal herb Angelica sinensis. Strain DR-9T grew at 20–40 °C, at pH 4.0–9.0 and in the presence of 0–1 % (w/v) NaCl. The major fatty acids were iso-C15 : 0 and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c and/or iso-C15 : 0 2-OH), MK-7 was the major isoprenoid quinone, and phosphatidylethanolamine and an unidentified aminophospholipid were the major polar lipids. A phylogenetic tree based on 16S rRNA gene sequences showed that strain DR-9T formed a lineage within the genus Mucilaginibacter and was closely related to Mucilaginibacter polysacchareus DRP28T (96.1 % sequence similarity), Mucilaginibacter myungsuensis HMD1056T (95.9 % sequence similarity), Mucilaginibacter ximonensis XM-003T (95.8 %) and Mucilaginibacter boryungensis BDR-9T (95.1 %). The status of strain DR-9T as a representative of a separate species was confirmed by DNA hybridization, with 38.6, 36.3 and 29.9 % DNA–DNA relatedness with M. polysacchareus DRP28T, M. ximonensis XM-003T and M. boryungensis BDR-9T, respectively. The genomic DNA G+C content of strain DR-9T was 49.8 %. These data suggest that strain DR-9T should be considered as a representative of a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter herbaticus sp. nov. is proposed. The type strain is DR-9T ( = KACC 16469T = NBRC 108839T).

scholarly journals Nocardioides daecheongensis sp. nov., isolated from soil

2014 ◽  
Vol 64 (Pt_12) ◽  
pp. 4109-4114 ◽  
Author(s):  
Jun-Muk Lim ◽  
Soo-Jin Kim ◽  
Moriyuki Hamada ◽  
Jae-Hyung Ahn ◽  
Hang-Yeon Weon ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
Gram Staining ◽  
Gene Sequence Analysis ◽  
Type Strains

Strain KIS2-16T was isolated from a soil sample collected from Daecheong Island of Incheon region, South Korea. KIS2-16T was Gram-staining-positive, aerobic, non-spore-forming, non-motile, catalase-positive, oxidase-negative and mesophilic. On the basis of 16S rRNA gene sequence analysis, strain KIS2-16T represented a member of the genus Nocardioides , being most closely related to the type strains of species of the genus Nocardioides , Nocardioides maradonensis RP-B30T (97.8 % sequence similarity) and Nocardioides ultimimeridianus RP-B26T (97.0 %). The fatty acid profile of KIS2-16T was dominated by C18 : 1ω9c, C17 : 1ω8c, C16 : 0, C18 : 0 10-methyl (TBSA), C16 : 0 2-OH and C17 : 0 2-OH. The major isoprenoid quinone was MK-8(H4), and the major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylinositol. The peptidoglycan structure was A3γ-type with ll-diaminopimelic acid. The genomic DNA G+C content of KIS2-16T was 64.9 mol%. Strain KIS2-16T showed DNA–DNA hybridization values of less than 70 % with the closely related species of the genus Nocardioides . Based on phenotypic, genotypic and phylogenetic data, the isolate represents a novel species of the genus Nocardioides , for which the name Nocardioides daecheongensis sp. nov. (type strain KIS2-16T = DSM 27136T = KACC 17297T = NBRC 109597T) is proposed.

Deinococcus humi sp. nov., isolated from soil

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2844-2850 ◽  
Author(s):  
Sathiyaraj Srinivasan ◽  
Jae-Jin Lee ◽  
Sangyong Lim ◽  
Minho Joe ◽  
Myung Kyum Kim
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Dna Relatedness ◽  
Link Type ◽  
Gram Staining

A Gram-staining-positive, strictly aerobic, spherical, non-motile, red-pigmented bacterium, designated strain MK03T, was isolated from a soil sample collected in South Korea. The taxonomic position of the novel strain was investigated using a polyphasic approach. In phylogenetic analyses based on 16S rRNA gene sequences, strain MK03T was placed in a clade formed by members of the genus Deinococcus in the family Deinococcaceae and appeared to be most closely related to Deinococcus aerolatus 5516T-9T (97.4 % sequence similarity), Deinococcus marmoris AA-63T (97.2 %), Deinococcus radiopugnans ATCC 19172T (97.2 %) and Deinococcus saxicola AA-1444T (96.9 %). The genomic DNA G+C content of the novel strain was 64.5 mol%. The chemotaxonomic characteristics of strain MK03T were typical of members of the genus Deinococcus : MK-8 was identified as the predominant respiratory quinine, the major fatty acids were C16 : 1ω7c, C15 : 1ω6c, C16 : 0 and C15 : 0, ornithine was found to be the diamino acid in the cell-wall peptidoglycan and the novel strain showed resistance to gamma radiation, with a D10 value (i.e. the dose required to reduce the bacterial population by 10-fold) in excess of 9 kGy. In hybridization experiments, only low DNA–DNA relatedness values (11.6–34.5 %) were recorded between the novel strain and its closest relatives in the genus Deinococcus . Based on the phylogenetic, chemotaxonomic, phenotypic and DNA–DNA relatedness data, strain MK03T represents a novel species of the genus Deinococcus , for which the name Deinococcus humi sp. nov. is proposed. The type strain is MK03T ( = KCTC 13619T  = JCM 17915T).

Erythrobacter jejuensis sp. nov., isolated from seawater

2013 ◽  
Vol 63 (Pt_4) ◽  
pp. 1421-1426 ◽  
Author(s):  
Byoung-Jun Yoon ◽  
Dong-Heon Lee ◽  
Duck-Chul Oh
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Gram Staining

A Gram-staining-negative, yellow-pigmented, non-motile, strictly aerobic, rod-shaped bacterium, designated strain CNU001T, was isolated from seawater collected on the coast of Jeju Island, South Korea, and subjected to a polyphasic taxonomic study. The temperature, pH and NaCl ranges for growth were 10–30 °C, pH 6.0–10.0 and 2.0–5.0 %, respectively. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain CNU001T belonged to the genus Erythrobacter in the family Erythrobacteraceae , with Erythrobacter longus DSM 6997T (96.6 % sequence similarity), Erythrobacter gaetbuli SW-161T (96.3 %), Erythrobacter vulgaris 022 2-10T (96.2 %), Erythrobacter nanhaisediminis T30T (96.1 %) and other members of the genus Erythrobacter (<96.0 %) identified as the novel strain’s closest relatives. The major cellular fatty acids were C18 : 1ω7c and C17 : 1ω6c. The polar lipids were found to be diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylcholine, phosphatidylglycerol, one sphingoglycolipid, one unidentified aminolipid and six other unidentified lipids. The major respiratory quinone was ubiquinone-10 (UQ-10) and the genomic DNA G+C content of the novel strain was 58.9 mol%. On the basis of phenotypic, phylogenetic and genotypic data, strain CNU001T represents a novel species within the genus Erythrobacter , for which the name Erythrobacter jejuensis sp. nov. is proposed. The type strain is CNU001T ( = KCTC 23090T  = JCM 16677T).

scholarly journals Gordonia caeni sp. nov., isolated from sludge of a sewage disposal plant

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2703-2709 ◽  
Author(s):  
Sathiyaraj Srinivasan ◽  
Giho Park ◽  
Hyejin Yang ◽  
Supyong Hwang ◽  
Yoonjung Bae ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Sewage Disposal ◽  
Content Type ◽  
Link Type

A Gram-stain-positive, strictly aerobic, short-rod-shaped, non-motile strain (designated MJ32T) was isolated from a sludge sample of the Daejeon sewage disposal plant in South Korea. A polyphasic approach was applied to study the taxonomic position of strain MJ32T. Strain MJ32T showed highest 16S rRNA gene sequence similarity to Gordonia hirsuta DSM 44140T (98.1 %) and Gordonia hydrophobica DSM 44015T (97.0 %); levels of sequence similarity to the type strains of other recognized Gordonia species were less than 97.0 %. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain MJ32T belonged to the clade formed by members of the genus Gordonia in the family Gordoniaceae . The G+C content of the genomic DNA of strain MJ32T was 69.2 mol%. Chemotaxonomically, strain MJ32T showed features typical of the genus Gordonia . The predominant respiratory quinone was MK-9(H2), the mycolic acids present had C56–C60 carbon atoms, and the major fatty acids were C16 : 0 (34.6 %), tuberculostearic acid (21.8 %), C16 : 1ω7c (19.5 %) and C18 : 1ω9c (12.7 %). The peptidoglycan type was based on meso-2,6-diaminopimelic acid as the diagnostic diamino acid with glycolated sugars. On the basis of phylogenetic inference, fatty acid profile and other phenotypic properties, strain MJ32T is considered to represent a novel species of the genus Gordonia , for which the name Gordonia caeni sp. nov. is proposed. The type strain is MJ32T ( = KCTC 19771T = JCM 16923T).

scholarly journals Paenibacillus paridis sp. nov., an endophytic bacterial species isolated from the root of Paris polyphylla Smith var. yunnanensis

2020 ◽  
Vol 70 (3) ◽  
pp. 1940-1946 ◽  
Author(s):  
Min Wang ◽  
Xing-Wang Jiang ◽  
Shu-Kun Tang ◽  
Xiao-Yang Zhi ◽  
Ling-Ling Yang
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Bacterial Species ◽  
Cellular Fatty Acid ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Paris Polyphylla

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).

Domibacillus robiginosus gen. nov., sp. nov., isolated from a pharmaceutical clean room

2013 ◽  
Vol 63 (Pt_6) ◽  
pp. 2054-2061 ◽  
Author(s):  
Herbert Seiler ◽  
Mareike Wenning ◽  
Siegfried Scherer
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Clean Room ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
Morphological Differences

A novel red-pigmented bacterial strain, designated WS 4628T, was isolated from a pharmaceutical clean room of a vaccine-producing company and was investigated in a taxonomic study using a polyphasic approach. The strain was Gram-stain-positive, strictly aerobic, motile, catalase-positive and produced spherical to slightly ellipsoidal endospores in rods. The genomic DNA G+C content was 44.1 mol%. The major fatty acids were anteiso-C15 : 0, iso-C15 : 0 and anteiso-C17 : 0 and the predominant quinone was MK-6. The polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, an unidentified phosphoglycolipid and an unidentified phospholipid. meso-diaminopimelic acid (type A1γ) was present in the cell-wall peptidoglycan and the major whole-cell sugars were glucose and ribose. The closest phylogenetic neighbours were identified as Bacillus badius ATCC 14574T (95.8 % 16S rRNA gene sequence similarity), Bacillus indicus Sd/3T (94.8 %), Jeotgalibacillus alimentarius YKJ-13T (94.8 %) and Bacillus cibi JG-30T (94.8 %). Phylogenetic, physiological, biochemical and morphological differences between strain WS 4628T and its closest relatives in the families Bacillaceae and Planococcaceae suggest that this strain represents a novel species in a new genus in the family Bacillaceae for which the name Domibacillus robiginosus gen. nov., sp. nov. is proposed; the type strain of the type species is WS 4628T ( = DSM 25058T = LMG 26645T).

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