Leptospira broomii sp. nov., isolated from humans with leptospirosis

Isolates of Leptospira from two human cases of leptospirosis in Denmark and France were studied using DNA–DNA relatedness, G+C content, 16S rRNA gene sequence data and pulsed-field gel electrophoresis. These isolates differed from previously described species of Leptospira and are defined as Leptospira broomii sp. nov. The type strain is 5399T (=ATCC BAA-1107T=KIT 5399T).

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Methylophilus flavus sp. nov. and Methylophilus luteus sp. nov., aerobic, methylotrophic bacteria associated with plants

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.019455-0 ◽

2010 ◽

Vol 60 (11) ◽

pp. 2623-2628 ◽

Cited By ~ 35

Author(s):

Anna A. Gogleva ◽

Elena N. Kaparullina ◽

Nina V. Doronina ◽

Yuri A. Trotsenko

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Type Strain ◽

Gene Sequence ◽

16S Rrna Gene Sequence ◽

Rrna Gene ◽

Methylotrophic Bacteria ◽

Strictly Aerobic ◽

Rrna Gene Sequence ◽

Dna Relatedness

Novel yellow, obligately methylotrophic and restricted facultatively methylotrophic bacteria, respectively designated strains ShipT and MimT, with the ribulose monophosphate pathway of C1 assimilation are described. Cells were strictly aerobic, Gram-negative, asporogenous, non-motile rods that multiply by binary fission, were mesophilic and neutrophilic and synthesized indole-3-acetic acid and exopolysaccharide. The predominant cellular fatty acids were C16 : 0 and C16 : 1. The major ubiquinone was Q-8. The predominant phospholipids were phosphatidylethanolamine and phosphatidylglycerol; diphosphatidylglycerol was absent. The two strains lacked α-ketoglutarate dehydrogenase and glutamate dehydrogenase. They assimilated ammonium via the glutamate cycle enzymes glutamine synthetase and glutamate synthase. The DNA G+C contents of strains ShipT and MimT were 50.7 and 54.5 mol% (T m), respectively. The level of 16S rRNA gene sequence similarity between these strains was very high (99.8 %) but they shared a low level of DNA–DNA relatedness (44 %). Based on 16S rRNA gene sequence analysis and low levels of DNA–DNA relatedness with the type strains of recognized species of the genus Methylophilus (31–36 %), strains ShipT and MimT are considered to represent novel species of the genus Methylophilus, for which the names Methylophilus flavus sp. nov. (type strain ShipT =DSM 23073T =VKM B-2547T =CCUG 58411T) and Methylophilus luteus sp. nov. (type strain MimT =DSM 22949T =VKM B-2548T =CCUG 58412T) are proposed.

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Oceanobacillus oncorhynchi subsp. incaldanensis subsp. nov., an alkalitolerant halophile isolated from an algal mat collected from a sulfurous spring in Campania (Italy), and emended description of Oceanobacillus oncorhynchi

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.63575-0 ◽

2006 ◽

Vol 56 (4) ◽

pp. 805-810 ◽

Cited By ~ 39

Author(s):

Ida Romano ◽

Licia Lama ◽

Barbara Nicolaus ◽

Annarita Poli ◽

Agata Gambacorta ◽

...

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Type Strain ◽

Gene Sequence ◽

Sequence Similarity ◽

16S Rrna Gene Sequence ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Dna Relatedness ◽

Algal Mat

A halophilic, alkalitolerant bacterium, strain 20AGT, was isolated from an algal mat collected from a sulfurous spring located in Santa Maria Incaldana (Mondragone, Campania Region, southern Italy). The isolate is Gram-positive, ferments several carbohydrates and has motile, rod-shaped cells that do not sporulate. The isolate grows at pH 6·5–9·5 and in 5–20 % NaCl. On the basis of 16S rRNA gene sequence similarity, the strain was shown to belong to the genus Oceanobacillus; strain 20AGT showed 96·6 % 16S rRNA gene sequence similarity to the type strain of Oceanobacillus iheyensis, DSM 14371T, and 99·5 % similarity to Oceanobacillus oncorhynchi NCIMB 14022T. Levels of DNA–DNA relatedness between strain 20AGT and O. iheyensis DSM 14371T and O. oncorhynchi NCIMB 14022T were respectively 29·4 and 59·0 %. The G+C content of the DNA of strain 20AGT was 40·1 mol%. The predominant respiratory quinone was MK-7, phosphatidylglycerol and phosphatidylcholine were the predominant polar lipids and minor phospholipids were also detected. ai-C14 : 0, ai-C15 : 0 and i-C15 : 0 were the major fatty acids. Strain 20AGT accumulated osmolytes and produced exopolysaccharide. On the basis of phenotypic characteristics, phylogenetic data and DNA–DNA relatedness data, isolate 20AGT should be designated as the type strain of a subspecies of Oceanobacillus oncorhynchi, for which the name Oceanobacillus oncorhynchi subsp incaldanensis subsp. nov. is proposed. The type strain is 20AGT (=DSM 16557T=ATCC BAA-954T).

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Shewanella marisflavi sp. nov. and Shewanella aquimarina sp. nov., slightly halophilic organisms isolated from sea water of the Yellow Sea in Korea

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.63198-0 ◽

2004 ◽

Vol 54 (6) ◽

pp. 2347-2352 ◽

Cited By ~ 40

Author(s):

Jung-Hoon Yoon ◽

Soo-Hwan Yeo ◽

In-Gi Kim ◽

Tae-Kwang Oh

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Type Strain ◽

Gene Sequence ◽

Sea Water ◽

Sequence Similarity ◽

The Yellow Sea ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Dna Relatedness

Two Gram-negative, motile, non-spore-forming, rod-shaped organisms, strains SW-117T and SW-120T, were isolated from sea water of the Yellow Sea in Korea and subjected to a polyphasic taxonomic study. Strains SW-117T and SW-120T simultaneously contained both menaquinones (MK) and ubiquinones (Q) as isoprenoid quinones; the predominant menaquinone was MK-7 and the predominant ubiquinones were Q-7 and Q-8. The major fatty acid detected in the two strains was iso-C15 : 0. The DNA G+C content of strains SW-117T and SW-120T was 51 and 54 mol%, respectively. Phylogenetic analyses based on 16S rRNA gene sequences showed that strains SW-117T and SW-120T fall within the radiation of the cluster comprising Shewanella species. Strains SW-117T and SW-120T showed a 16S rRNA gene sequence similarity of 97·4 % and a DNA–DNA relatedness level of 10·1 %. Strains SW-117T and SW-120T exhibited 16S rRNA gene sequence similarity levels of 93·8–98·5 % and 92·4–97·0 %, respectively, to Shewanella species. Strain SW-117T exhibited DNA–DNA relatedness levels of 8·3–20·3 % to the type strains of six phylogenetically related Shewanella species. On the basis of phenotypic, phylogenetic and genetic data, strains SW-117T and SW-120T were classified in the genus Shewanella as two distinct novel species, for which the names Shewanella marisflavi sp. nov. (type strain, SW-117T=KCCM 41822T=JCM 12192T) and Shewanella aquimarina sp. nov. (type strain, SW-120T=KCCM 41821T=JCM 12193T) are proposed, respectively.

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Bacteroides barnesiae sp. nov., Bacteroides salanitronis sp. nov. and Bacteroides gallinarum sp. nov., isolated from chicken caecum

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.64517-0 ◽

2006 ◽

Vol 56 (12) ◽

pp. 2853-2859 ◽

Cited By ~ 49

Author(s):

Pham Thi Ngoc Lan ◽

Mitsuo Sakamoto ◽

Shinji Sakata ◽

Yoshimi Benno

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Type Strain ◽

Gene Sequence ◽

Sequence Similarity ◽

16S Rrna Gene Sequence ◽

Composition Analysis ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Dna Relatedness

Eight bacterial strains isolated from the caecum of chicken, BL2T, BL66, EG3, EG6, M27, BL78T, C35T and C43, were characterized by determining their phenotypic characteristics, cellular fatty acid profiles, menaquinone profiles and phylogenetic positions based on 16S rRNA gene sequence analysis. 16S rRNA gene sequence analysis showed that these isolates belonged to the genus Bacteroides. One group of five strains (BL2T, BL66, EG3, EG6 and M27) was related most closely to Bacteroides coprocola JCM 12979T, with approximately 93 % 16S rRNA gene sequence similarity, and to Bacteroides plebeius JCM 12973T, with about 92 % similarity, and shared ⩾99.6 % similarity with each other. Strain BL78T exhibited 90.5 % similarity to B. plebeius JCM 12973T and 89.8 % similarity to B. coprocola JCM 12979T and differed from the above group of five strains at ⩾10 % sequence divergence. Strains C35T and C43 were related most closely to Bacteroides eggerthii JCM 12986T, with 95.1 % sequence similarity, to Bacteroides stercoris JCM 9496T, with 94.6 % similarity, and to Bacteroides uniformis JCM 5828T, with 94.4 % similarity, and shared 100 % similarity with each other. From results of phenotypic examination, cellular fatty acid composition analysis, menaquinone composition analysis and DNA G+C contents, the group of five strains as well as strain BL78T were shown to differ from the type strains of B. coprocola and B. plebeius. Strain BL78T differed from the others based on its menaquinone composition, which included MK-11 and MK-12. Strains C35T and C43 could also be differentiated from the type strains of B. eggerthii, B. stercoris and B. uniformis. The group of five strains, strain BL78T, B. coprocola JCM 12979T and B. plebeius JCM 12973T showed low levels of DNA–DNA relatedness (<35 %) with each other. High levels of DNA–DNA relatedness were obtained within the group of five strains (>75 %). Strains C35T and C43 exhibited a high level of DNA–DNA relatedness (>88 %) with each other, but low levels with B. eggerthii JCM 12986T (<40 %), B. stercoris JCM 9496T (<37 %) and B. uniformis JCM 5828T (<16 %). On the basis of these data, three novel Bacteroides species are proposed: Bacteroides barnesiae sp. nov. (type strain BL2T=JCM 13652T=DSM 18169T), Bacteroides salanitronis sp. nov. (type strain BL78T=JCM 13657T=DSM 18170T) and Bacteroides gallinarum sp. nov. (type strain C35T=JCM 13658T=DSM 18171T).

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Reclassification of Leptospira parva Hovind-Hougen et al. 1982 as Turneriella parva gen. nov., comb. nov.

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.63088-0 ◽

2005 ◽

Vol 55 (4) ◽

pp. 1497-1499 ◽

Cited By ~ 36

Author(s):

P. N. Levett ◽

R. E. Morey ◽

R. Galloway ◽

A. G. Steigerwalt ◽

W. A. Ellis

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Type Strain ◽

Gene Sequence ◽

16S Rrna Gene Sequence ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Dna Relatedness

Analysis of the G+C content, DNA–DNA relatedness to other leptospires and 16S rRNA gene sequence of Leptospira parva showed that this species was not related to other Leptospira species. On the basis of these data, it is proposed that Leptospira parva should be transferred to the genus Turneriella as Turneriella parva gen. nov., comb. nov., with strain HT (=NCTC 11395T=ATCC BAA-1111T) as the type strain.

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Phylogeny of Twenty Thermus Isolates Constructed from 16S rRNA Gene Sequence Data

International Journal of Systematic Bacteriology ◽

10.1099/00207713-43-4-754 ◽

1993 ◽

Vol 43 (4) ◽

pp. 754-760 ◽

Cited By ~ 48

Author(s):

D. J. SAUL ◽

A. G. RODRIGO ◽

R. A. REEVES ◽

L. C. WILLIAMS ◽

K. M. BORGES ◽

...

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Gene Sequence ◽

Sequence Data ◽

16S Rrna Gene Sequence ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Gene Sequence Data

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Metagenomic, metatranscriptomics and 16S rRNA gene sequence data from diel sampling at Groves Creek Marsh, Skidaway Island, GA during July 2014

Biological and Chemical Oceanography Data Management Office ◽

10.1575/1912/bco-dmo.762443.1 ◽

2019 ◽

Author(s):

Alison Buchan

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Gene Sequence ◽

Sequence Data ◽

16S Rrna Gene Sequence ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Gene Sequence Data

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Range extension of Ichthyophis multicolor Wilkinson et al., 2014 to India and first molecular identification of Ichthyophis moustakius Kamei et al., 2009

Check List ◽

10.15560/17.4.1021 ◽

2021 ◽

Vol 17 (4) ◽

pp. 1021-1029

Author(s):

Hmar Tlawmte Lalremsanga ◽

Jayaditya Purkayastha ◽

Mathipi Vabeiryureilai ◽

Lal Muansanga ◽

Ht Decemson ◽

...

Keyword(s):

16S Rrna ◽

Gene Sequence ◽

Sequence Data ◽

Northeast India ◽

Range Extension ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Body Width ◽

New Material ◽

Gene Sequence Data

We report a substantial range extension of Ichthyophis multicolor Wilkinson, Presswell, Sherratt, Papadopoulou & Gower, 2014, with new material from Mizoram State, Northeast India. The species was previously known only from its type locality more than 800 km away in Ayeyarwady Region, Myanmar. The species was identified by both its morphology and 16s rRNA gene sequence data. One of the studied individuals represents the largest known specimen for the species (total length = 501 mm; mid-body width = 18.8 mm). Brief comparisons of I. multicolor with the sympatric as well as parapatric congeners in the region, and first barcode data for I. moustakius Kamei, Wilkinson, Gower & Biju, 2009 are also presented.

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Nocardioides ultimimeridianus sp. nov. and Nocardioides maradonensis sp. nov., isolated from rhizosphere soil

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY ◽

10.1099/ijs.0.022715-0 ◽

2011 ◽

Vol 61 (8) ◽

pp. 1933-1937 ◽

Cited By ~ 21

Author(s):

Dong Wan Lee ◽

Soo-Young Lee ◽

Jung-Hoon Yoon ◽

Soon Dong Lee

Keyword(s):

16S Rrna ◽

16S Rrna Gene ◽

Type Strain ◽

Gene Sequence ◽

Rhizosphere Soil ◽

Sequence Similarity ◽

16S Rrna Gene Sequence ◽

Rrna Gene ◽

Rrna Gene Sequence ◽

Dna Relatedness

Two novel Gram-reaction-positive, rod-shaped actinobacterial strains, designated RP-B26T and RP-B30T, were isolated from rhizosphere soil of a cliff-associated plant (Peucedanum japonicum Thunb.) which was collected from Mara Island, Republic of Korea. The colonies of the isolates were circular, smooth, convex and moderately yellow–light-yellow in colour. 16S rRNA gene sequence analysis revealed that the isolates belonged to the family Nocardioidaceae and formed two distinct sublineages within the radiation of the genus Nocardioides. 16S rRNA gene sequence similarity between the isolates was 98.2 %. The closest phylogenetic neighbours of strain RP-B26T were Nocardioides humi DCY24T and Nocardioides kongjuensis A2-4T with 97.4 and 97.0 % 16S rRNA gene sequence similarity, respectively, whereas 16S rRNA gene sequence similarities between strain RP-B30T and N. humi DCY24T and N. kongjuensis A2-4T were 96.5 and 96.0 %, respectively. Both of the isolates contained ll-diaminopimelic acid as the diagnostic diamino acid in the cell walls. The predominant menaquinone was MK-8(H4). The polar lipids were phosphatidylinositol and phosphatidylglycerol. The fatty acid profiles of the isolates were characterized by the presence of saturated, unsaturated, 10-methyl and hydroxyl fatty acids, with small amounts of branched fatty acids. The DNA G+C contents of strains RP-B26T and RP-B30T were 73.0 and 71.7 mol%, respectively. Levels of DNA–DNA relatedness between the isolates were 44.9±1.5 % (thermal renaturation method) and 43.2 % (photobiotin-labelled method); the isolates showed low DNA–DNA relatedness values (<11 %) to the most closely related strain, N. humi KCTC 19265T. On the basis of the phenotypic, genotypic and DNA–DNA hybridization data presented here, the isolates are considered to represent two novel species of the genus Nocardioides, for which the names Nocardioides ultimimeridianus sp. nov. (type strain RP-B26T = KCTC 19368T = DSM 19768T) and Nocardioides maradonensis sp. nov. (type strain RP-B30T = KCTC 19384T = DSM 19769T) are proposed.

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