scholarly journals Bacillus salinus sp. nov., isolated from commercial solar salt

2020 ◽  
Vol 70 (4) ◽  
pp. 2696-2702 ◽  
Author(s):  
Heeyoung Kang ◽  
Jinkyeong Kang ◽  
Inseong Cha ◽  
Haneul Kim ◽  
Yochan Joung ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Polar Lipids ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type

Two strains of Gram-stain-positive, strictly aerobic, motile, spore-forming, rod-shaped, moderately halotolerant bacteria, designated as HMF5848T and HME7618, were isolated from salt/brine and subjected to a polyphasic taxonomic investigation. Growth of both yellow-coloured strains occurred in the presence of 1–9 % NaCl (w/v; optimum, 2–3 %), at 15–45 °C (optimum, 37 °C) and pH 6–9 (optimum, pH 7). The major fatty acids were iso-C15 : 0, iso-C16 : 0 and anteiso-C15 : 0. The cell-wall peptidoglycan was meso-diaminopimelic acid. The only respiratory quinone was menaquinone-7. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, four unidentified glycolipids, three unidentified phospholipids and two unidentified polar lipids. DNA G+C content was 37.4 mol%. Phylogenetic trees based on 16S rRNA gene sequences showed that strains HMF5848T and HME7618 clustered with Bacillus luteolus YIM 93174T. Strains HMF5848T showed the highest 16S rRNA gene sequence similarities to Bacillus humi LMG 22167T (96.1 %), Bacillus isabeliae CVS-8T (96.0 %) and Bacillus luteolus YIM 93174T (96.0 %). The values of in silico DNA–DNA hybridization and average nucleotide identity between strains HMF5848T and B. humi DSM 16318T were 25.8 and 69.7 %, respectively. On the basis of phylogenetic, physiological and chemotaxonomic properties, strain HMF5848T represents a novel species, Bacillus salinus sp. nov. The type strain is HMF5848T (=KCTC 43010T=CECT 9695T).

Nocardioides stalactiti sp. nov., isolated from a cave stalactite surface

2021 ◽  
Author(s):  
Xing-Kui Zhou ◽  
Ying Huang ◽  
Ti- Kun Zhang ◽  
Jian- Jin Liu ◽  
Zi- Yi Liu ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Diaminopimelic Acid ◽  
Guizhou Province ◽  
Rrna Gene ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type

An aerobic, rod-shaped, Gram-stain-positive, actinobacterial strain, designated 1.0914T, was isolated from a stalactite sample collected from a cave located in Guizhou Province, southwest PR China. Based on 16S rRNA gene sequence analysis, strain 1.0914T shared highest similarities values with Nocardioides pelophilus CGMCC 4.7388T (97.7 %), Nocardioides immobilis CCTCC AB 2017083T (97.5 %) and Nocardioides silvaticus CCTCC AB 2018079T (97.3 %) and values lower than 97.0 % to other members of the genus Nocardioides . Phylogenetic trees based on 16S rRNA gene sequences indicated that strain 1.0914T formed an isolated branch with N. pelophilus CGMCC 4.7388T, N. immobilis CCTCC AB 2017083T and N. silvaticus CCTCC AB 2018079T. The polar lipids contained phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol and one unidentified phospholipid in the cellular membrane. The major fatty acids were identified as iso-C16 : 0, C18 : 1 ω9c, C17 : 1 ω8c and C16 : 0. The predominant respiratory quinone was MK-8(H4) and ll-diaminopimelic acid was the diagnostic diamino acid in the cell-wall peptidoglycan. The genomic DNA G+C content was 71.1 mol%. The orthologous average nucleotide identiy values between N. pelophilus CGMCC 4.7388T, N. immobilis CCTCC AB 2017083T, N. silvaticus CCTCC 2018079T and strain 1.0914T were 82.3, 81.7 and 81.9 % respectively. DNA–DNA hybridization values between N. pelophilus CGMCC 4.7388T, N. immobilis CCTCC AB 2017083T, N. silvaticus CCTCC 2018079T and strain 1.0914T were 25.2, 24.6 and 24.5 % respectively. The phylogenetic, phenotypic and chemotaxonomic data supported the classification of strain 1.0914T as representing a new species of Nocardioides , for which the name Nocardioides stalactiti sp. nov. is proposed. The type strain is 1.0914T (=CCTCC AB 2018266T=KCTC 49243T).

Aliidiomarina indica sp. nov., isolated from deep seawater

2021 ◽  
Vol 71 (12) ◽  
Author(s):  
Lei Song ◽  
Hongcan Liu ◽  
Ying Huang ◽  
Xin Dai ◽  
Yuguang Zhou
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Sea Water ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type

A Gram-stain-negative, rod-shaped bacterial strain, designated SW123T, was isolated from a deep-sea water sample collected from the Indian Ocean. Strain SW123T was strictly aerobic, catalase- and oxidase-positive. The predominant cellular fatty acids were iso-C15 : 0, iso-C17 : 0 and summed feature 9 (comprising C16 : 0-methyl or iso-C17 : 1 ω9c). Ubiquinone-8 was the sole respiratory quinone. The major polar lipids consisted of diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. The genomic DNA G+C content was 49.4 mol%. 16S rRNA gene sequence analysis showed that strain SW123T was closely related to Aliidiomarina shirensis AIST (96.7 % sequence similarity), Aliidiomarina iranensis GBPy7T (96.3%), Aliidiomarina haloalkalitolerans AK5T (96.0%) and Aliidiomarina celeris F3105T (95.9%). Phylogenetic trees based on 16S rRNA gene sequences showed that strain SW123T represented a novel member of the genus Aliidiomarina , forming a distinct cluster with A. celeris F3105T. On the basis of phylogenetic inference and phenotypic characteristics, we propose that strain SW123T represents a novel species of the genus Aliidiomarina , with the name Aliidiomarina indica sp. nov. The type strain is SW123T (=CGMCC1.16169T=KCTC 82234T).

Psychroflexus halocasei sp. nov., isolated from a microbial consortium on a cheese

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1850-1856 ◽  
Author(s):  
Herbert Seiler ◽  
Anne Bleicher ◽  
Hans-Jürgen Busse ◽  
Josef Hüfner ◽  
Siegfried Scherer
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Optimal Growth ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type

A novel halophilic, Gram-reaction-negative, strictly aerobic, non-motile, rod-shaped and oxidase- and catalase-positive bacterial strain, designated WCC 4520T, was isolated from a semi-hard, Raclette-type cheese. The colonies were yellow–orange; flexirubin-type pigments were not found. The strain hydrolysed gelatin, hippurate, tyrosine and Tweens 20 and 80. Optimal growth was observed with 6–8 % (w/v) NaCl, at pH 7–8 and at 27–30 °C. The genomic DNA G+C content was 33.6 mol%. In phylogenetic analysis based on 16S rRNA gene sequences, strain WCC 4520T appeared to be a member of the family Flavobacteriaceae and the closest phylogenetic neighbours were identified as Psychroflexus gondwanensis DSM 5423T (94.0 % 16S rRNA gene sequence similarity) and Psychroflexus salinarum CCUG 56752T (94.0 %). The predominant cellular fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1 G and iso-C17 : 0 3-OH. The only detected quinone was MK-6 and the major polar lipids were phosphatidylethanolamine, an unidentified aminolipid and an unidentified polar lipid. Minor polar lipids and traces of polyamines were also detected. On the basis of the data presented, strain WCC 4520T represents a novel species of the genus Psychroflexus , for which the name Psychroflexus halocasei sp. nov. is proposed. The type strain is WCC 4520T ( = LMG 25857T = CCUG 59705T).

scholarly journals Sphingorhabdus arenilitoris sp. nov., isolated from a coastal sand, and reclassification of Sphingopyxis rigui as Sphingorhabdus rigui comb. nov. and Sphingopyxis wooponensis as Sphingorhabdus wooponensis comb. nov.

2014 ◽  
Vol 64 (Pt_8) ◽  
pp. 2551-2557 ◽  
Author(s):  
Ja-Min Park ◽  
Sooyeon Park ◽  
Yong-Taek Jung ◽  
Hyangmi Kim ◽  
Jung-Sook Lee ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Coastal Sand ◽  
Type Strains

A Gram-stain-negative, strictly aerobic, non-flagellated and rod-shaped bacterial strain, designated GJR-7T, was isolated from coastal sand of the South Sea of South Korea. Strain GJR-7T grew optimally at 30 °C, at pH 7.0–7.5 and without NaCl. Phylogenetic trees based on 16S rRNA gene sequences revealed that strain GJR-7T clustered with the type strains of Sphingopyxis wooponensis , Sphingopyxis rigui and Sphingorhabdus planktonica , with which it exhibited 16S rRNA gene sequence similarity values of 96.0–96.3 %. Sequence similarities to the type strains of other recognized species were less than 95.5 %. Strain GJR-7T contained Q-10 as the predominant ubiquinone and C18 : 1ω7c, 11-methyl C18 : 1ω7c and summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c) or C14 : 0 2-OH. The major polar lipids were sphingoglycolipid, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and one unidentified glycolipid. The DNA G+C content of strain GJR-7T was 55.5 mol%. Differential phenotypic properties, together with phylogenetic distinctiveness, revealed that strain GJR-7T is separated from the type strains of Sphingopyxis wooponensis , Sphingopyxis rigui and Sphingorhabdus planktonica . On the basis of the data presented, strain GJR-7T is considered to represent a novel species of the genus Sphingorhabdus , for which the name Sphingorhabdus arenilitoris sp. nov. is proposed. The type strain is GJR-7T ( = KCTC 42051T = CECT 8531T). It is also proposed that Sphingopyxis wooponensis and Sphingopyxis rigui should be reclassified as members of the genus Sphingorhabdus .

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 Bacillus pasinlerensis sp. nov., a thermophilic bacterium isolated from a hot spring in Turkey

2020 ◽  
Vol 70 (6) ◽  
pp. 3865-3871 ◽  
Author(s):  
Mustafa Ozkan Baltaci ◽  
Hilal Ay ◽  
Sumeyya Akbulut ◽  
Gulsah Adiguzel ◽  
Seyda Albayrak ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Hot Spring ◽  
Morphological Characteristics ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type

A Gram-reaction-positive, endospore-forming bacterium, designated strain P1T, was isolated from water samples collected from Pasinler Hot Spring and characterized using a polyphasic approach to clarify its taxonomic position. Strain P1T was found to have chemotaxonomic and morphological characteristics consistent with its classification in the genus Bacillus . The strain shared the highest 16S rRNA gene sequence identity values with Bacillus thermolactis R-6488T (97.6 %) and Bacillus kokeshiiformis MO-04T (97.2 %) and formed a distinct clade with both type strains in the phylogenetic trees based on 16S rRNA gene sequences. Strain P1T could grow optimally at 55 °C and in the presence of 2 % NaCl. The organism was found to contain meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. The major polar lipids were diphosphatidylglycerol and phosphatidylglycerol. The predominant menaquinone was determined to be MK-7. The major cellular fatty acids were identified as iso-C15 : 0, iso-C17 : 0 and anteiso-C17 : 0. Based upon the consensus of phenotypic and phylogenetic analyses, strain P1T represents a novel species of the genus Bacillus , for which the name Bacillus pasinlerensis sp. nov. is proposed. The type strain is P1T (=DSM 107529T=CECT 9885T=NCCB 100674T).

scholarly journals Rhodococcus cavernicola sp. nov., isolated from a cave, and Rhodococcus degradans is a later heterosynonym of Rhodococcus qingshengii

2020 ◽  
Vol 70 (7) ◽  
pp. 4409-4415 ◽  
Author(s):  
Soon Dong Lee ◽  
In Seop Kim ◽  
Young-Ju Kim ◽  
Yochan Joung
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Diaminopimelic Acid ◽  
Developmental Cycle ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The Novel ◽  
Content Type ◽  
Link Type

A Gram-reaction-positive, strictly aerobic, catalase-positive, oxidase-negative, non-motile actinobacterium, designated C1-24T, was isolated from a soil sample collected inside a natural cave. The organism exhibited a rod–coccus developmental cycle during its growth phase. Results of 16S rRNA gene-based phylogenetic analysis showed that the novel strain belonged to the genus Rhodococcus and formed a distinct sublineage at the base of the radiation including a Rhodococcus enclensis–Rhodococcus kroppenstedtii–Rhodococcus corynebacterioides–Rhodococcus trifoli cluster. In the results of phylogenomic analysis, the novel strain was loosely associated to Rhodococcus corynebacterioides . The closest relatives were Rhodococcus qingshengii (98.01 % 16S rRNA gene sequence similarity) and Rhodococcus degradans (98.01 %). The genome size was 5.66 Mbp and the DNA G+C content was 64.30 mol%. Whole-cell hydrolysates contained meso-diaminopimelic acid, arabinose and galactose as the diagnostic diamino acid and sugars. MK-8(H2) was the predominant menaquinone. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, an unidentified glycolipid and three unidentified phospholipids. Mycolic acids were present. The major fatty acids were C16 : 0, C18 : 1  ω9c, C16 : 1  ω7c and/or C16 : 1  ω6c and 10-methyl C18 : 0. Digital DNA–DNA hybridization and average nucleotide identity values revealed that the novel strain should be assigned to a different species. Based on the combined data obtained here, strain C1-24T (=KACC 19964T=DSM 109484T) represents a new species of the genus Rhodococcus , for which Rhodococcus cavernicola sp. nov. is proposed. Also, it is proposed that R. degradans is a later heterosynonym of R. qingshengii based on analyses of 16S rRNA gene and whole-genome sequences.

scholarly journals Nocardioides pacificus sp. nov., isolated from deep sub-seafloor sediment

2014 ◽  
Vol 64 (Pt_7) ◽  
pp. 2217-2222 ◽  
Author(s):  
Xiaoyang Fan ◽  
Yanlu Qiao ◽  
Xin Gao ◽  
Xiao-Hua Zhang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Sequence Similarity ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type ◽  
Seafloor Sediment

A Gram-stain-positive, strictly aerobic, rod-shaped, non-motile bacterium, designated strain XH274T, was isolated from a deep sub-seafloor sediment sample collected from the South Pacific Gyre (41° 58′ S 163° 11′ W) during the Integrated Ocean Drilling Program (IODP) Expedition 329. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain XH274T belonged to the genus Nocardioides and shared the highest 16S rRNA gene sequence similarity with Nocardioides kribbensis KSL-2T (96.81 %), Nocardioides daedukensis MDN22T (96.74 %) and Nocardioides psychrotolerans RHLT2-1T (96.61 %). The DNA G+C content of strain XH274T was 74.6 mol%. The cell wall of strain XH274T contained ll-2,6-diaminopimelic acid as the diagnostic diamino acid, and ribose, glucose, galactose and mannose as the major whole-cell sugars. The major fatty acids were iso-C16 : 0, C18 : 1ω9c and C17 : 1ω8c. The major respiratory quinone was menaquinone-8(H4). The major polar lipids were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and two unknown phospholipids. On the basis of data from the polyphasic analysis, strain XH274T is considered to represent a novel species in the genus Nocardioides , for which the name Nocardioides pacificus sp. nov. is proposed. The type strain is XH274T ( = DSM 27278T = JCM 19260T).

scholarly journals Bacillus kochii sp. nov., isolated from foods and a pharmaceuticals manufacturing site

2012 ◽  
Vol 62 (Pt_5) ◽  
pp. 1092-1097 ◽  
Author(s):  
Herbert Seiler ◽  
Verena Schmidt ◽  
Mareike Wenning ◽  
Siegfried Scherer
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Strain ◽  
Type Species ◽  
Diaminopimelic Acid ◽  
Food Sources ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Content Type ◽  
Link Type

Three Gram-staining-positive, strictly aerobic, motile, catalase-positive, endospore-forming rods, designated WCC 4582T, WCC 4581 and WCC 4583, were isolated from two different food sources and a pharmaceuticals production site. The three isolates were highly similar in their 16S rRNA gene sequences (100 % similarity) and groEL sequences (99.2–100 % similarity), Fourier-transform infrared spectroscopic fingerprints and other features tested. The isolates were most closely related to Bacillus horneckiae ; the isolates and the type strain of B. horneckiae shared 97.6 % and 89.6 % 16S rRNA gene and groEL sequence similarities, respectively. The organisms grew optimally at 30 °C, at pH 7 and in the presence of 0.5 % (w/v) NaCl. The cell-wall peptidoglycan of WCC 4582T contained meso-diaminopimelic acid (A1γ) and the genomic DNA G+C content was 36.4 mol%. DNA–DNA relatedness between strain WCC 4582T and B. horneckiae NRRL B-59162T was 17 %. The three isolates are considered to represent a novel species of the genus Bacillus , for which the name Bacillus kochii sp. nov. is proposed. The type strain is WCC 4582T ( = DSM 23667T = CCUG 59877T = LMG 25855T).

scholarly journals Serinicoccus hydrothermalis sp. nov., isolated from shallow-sea hydrothermal systems off Kueishantao Island

2020 ◽  
Vol 70 (5) ◽  
pp. 3139-3144 ◽  
Author(s):  
Qingfeng Zhang ◽  
Jianing Ye ◽  
Limei Yu ◽  
Dan Lin ◽  
Kai Tang
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Type Species ◽  
Phylogenetic Trees ◽  
Hydrothermal Systems ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Shallow Sea ◽  
Content Type ◽  
Link Type

A Gram-stain-positive, non-flagellated, non-gliding, coccoid bacterial strain, designated JLT9T, was isolated from the shallow-sea hydrothermal system off Kueishantao Island, Taiwan, ROC. Strain JLT9T was aerobic, chemoheterotrophic and grew optimally at 35 °C, at pH 6.0 and in the presence of 2.5 % (w/v) NaCl. Strain JLT9T exhibited highest 16S rRNA gene sequence similarity to Serinicoccus marinus DSM 15273T (98.83 %). Phylogenetic trees based on 16S rRNA gene sequences revealed that strain JLT9T belonged to the genus Serinicoccus , clustering with Serinicoccus marinus JC1078T, Serinicoccus profundi MCCC 1A05965T, Serinicoccus sediminis GP-T3-3T and Serinicoccus chungangensis CAU9536T. The digital DNA–DNA genome hybridization values between strain JLT9T and the closest related strain S. marinus DSM 15273T was 34.30 %. The DNA G+C content was 72.43 mol%. The dominant fatty acids were identified as iso-C15 : 0 (41.4 %) and iso-C16 : 0 (24.7 %). The polar lipids of strain JLT9T comprised diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol, three unidentified glycolipid and an unidentified phospholipid. The predominant isoprenoid quinone was MK-8 (H4). The cell wall contained ornithine and serine, and no diaminopimelic acid. On the basis of phylogenetic data and several distinct phenotypic characteristics, strain JLT9T represents a novel species of the genus Serinicoccus , for which the name Serinicoccus hydrothermalis sp. nov. is proposed. The type strain is JLT9T (=CGMCC 1.15779T=JCM 31502T).

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