Allocatelliglobosispora scoriae gen. nov., sp. nov., isolated from volcanic ash.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Lee DW, Lee SD

A novel actinomycete, designated strain Sco-B14T, was isolated from volcanic ash which was collected near Darangshi Oreum (a parasitic volcano) in Jeju, Republic of Korea. The organism formed well-developed, branched substrate mycelia, on which short chains of non-motile spores arranged singly or in cluster. Aerial mycelium was not produced. Globose bodies were observed. The reverse colour of colonies was light brown to brown. Diffusible pigments were produced on ISP medium 3 and oatmeal-nitrate agar. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain Sco-B14T formed a lineage within the family Micromonosporaceae and distinct from all of the established genera. The 16S rRNA gene sequence similarity values of strain Sco-B14T to related genera of the family were with Catellatospora (95.0-95.7% sequence similarity), Hamadaea tsunoensis (94.8%), Longispora albida (94.7%) and Catelliglobosispora koreensis (94.1%). 3-OH-DAP was the diagnostic diamino acid in the cell-wall peptidoglycan. Whole-cell sugars were glucose, rhamnose, ribose, xylose, arabinose, galactose and mannose. The polar lipids include diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol. The menaquinone profiles contained MK-10(H4) (49%), MK-9(H4) (24%), MK-10(H6) (18%) and MK-9(H6) (9%). The predominant fatty acids were i-C15:0 and C17:0. The DNA G+C content was 70.1 mol%. The combination of chemotaxonomic and phylogenetic data clearly separated the isolate from the type strains of all of the genera in the family Micromonosporaceae. On the basis of phylogenetic and chemotaxonomic data presented in this paper, strain Sco-B14T (= KCTC 19661T = DSM 45362T) is considered to represent a novel species of a new genus in the family Micromonosporaceae, for which the name Allocatelliglobosispora scoriae gen. nov., sp. nov. is proposed.

PMID: 20207801 [PubMed - as supplied by publisher]

Proposal of Novosphingobium soli sp. nov., isolated from soil.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Kämpfer P, Young CC, Busse HJ, Lin SY, Rekha PD, Arun AB, Chen WM, Shen FT, Wu YH

A yellow pigmented, Gram-negative, rod-shaped, non-spore-forming bacterium (strain CC-TPE-1T), was isolated from oil-contaminated soil near the oil refinery located in Kaohsiung County, Taiwan. The 16S rRNA gene sequence analysis of strain CC-TPE-1T showed highest sequence similarity to Novosphingobium naphthalenivorans DSM 18518T (98.1%), Novosphingobium panipatense SM16T (97.9%), and Novosphingobium mathurense SM117T (97.6%) and lower (< 97%) sequence similarity to all other Novosphingobium species. DNA-DNA hybridizations of strain CC-TPE-1T and N. naphthalenivorans DSM 18518T, N. panipatense SM16T and N. mathurense SM117T showed low similarity values of 30% (reciprocal: 35%), 29.1% (reciprocal 30.6%), and 35% (reciprocal 23.6%), respectively. The major respiratory quinone was ubiquinone Q-10, the pre-dominant fatty acid C18:1 omega7c (49.9%), and three 2-hydroxy fatty acids, C14:0 2-OH (8.2%), C15:0 2-OH (2.45%), and C16:0 2-OH (1.05%) was detected. Polar lipids consisted mainly of phospatidylethanolamine, phosphatidylglycerol, phosphatidylcholine, phosphatidyldimethylethanolamine, two sphingoglycolipids, phosphatidylmonomethylethanolamine and several unidentified lipids and also a yellow pigment was detected. The polyamine pattern contained the single major compound spermidine. Characterization by 16S rRNA gene sequence, physiological parameters, pigment analysis, polyamine, ubiquinone, polar lipid, and fatty acid composition revealed that strain CC-TPE-1T represents a new species of the genus Novosphingobium. For this reason we propose the Novosphingobium soli sp. nov. with the type strain CC-TPE-1T (= DSM 22821T = CCM 7706T).

PMID: 20207802 [PubMed - as supplied by publisher]

Jeotgalicoccus coquinae sp. nov. and Jeotgalicoccus aerolatus sp. nov. isolated from poultry houses.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Martin E, Klug K, Frischmann A, Busse HJ, Kämpfer P, Jäckel U

Two Gram-positive, non-motile, non-spore-forming, cocci (strains MK-7T and MPA-33(T)) were isolated from poultry houses. Strain MK-7(T) was isolated from coquina, a food supplement for female ducks used in a duck fattening farm, on marine broth agar. Strain MPA-33(T) was isolated from the air of a turkey house on TSA medium after filter sampling. On the basis the 16S rRNA gene sequence similarity studies, both strains were shown to belong to the genus Jeotgalicoccus, MK-7(T) is most closely related to Jeotgalicoccus psychrophilus (99.3 %) and MPA-33(T) is most closely related to Jeotgalicoccus halotolerans (98.8 %). The quinone system of MK-7(T) was composed of equal amounts of menaquinone MK-7 and MK-6 and that of MPA-33(T) contained MK-7 (76 %) and MK-6 (24 %). The polar lipid profile of strain MK-7(T) consisted of the major compounds diphosphatidylglycerol and phosphatidylglycerol and seven unidentified lipids present in minor to moderate amounts. In strains MPA-33(T) diphosphatidylglycerol was the single predominant lipid whereas phosphatidylglycerol was detected in moderate amounts. In addition, one unidentified phospholipid and four unidentified lipids were detected. The fatty acid profiles comprising iso 15:0 and anteiso 15:0 as major fatty acids supported the affiliation of strain to the genus Jeotgalicoccus. The results of physiological and biochemical tests as well as DNA-DNA hybridizations allowed a clear phenotypic differentiation of strains MK-7(T) and MPA-33(T) from the most closely related species. Strains MK-7(T) and MPA-33(T) represent new species, for which the names Jeotgalicoccus coquinae sp. nov. and Jeotgalicoccus aerolatus sp nov., respectively are proposed, with the type strain MK-7(T) (= DSM 22419(T) = CCM 7682(T)) and MPA-33(T) (= DSM 22420(T) = CCM 7679(T)).

PMID: 20207804 [PubMed - as supplied by publisher]

Burkholderia oxyphila sp. nov., isolated from acidic forest soil that catabolizes (+)-catechin and its putative aromatic derivatives.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Otsuka Y, Muramatsu Y, Nakagawa Y, Matsuda M, Nakamura M, Murata H

The bacterial strain OX-01(T), isolated from acidic soil as an agent that catabolizes (+)-catechin into taxifolin, was taxonomically investigated. The strain OX-01(T) is a Gram-negative, aerobic, non-sporulating, non-motile and rod-shaped bacterium. Phylogenetic position based on the sequence of the 16S rRNA gene assigns this strain as a member of the genus Burkholderia, the position closest to, but clearly distinct from, B. sacchari. The strain OX-01(T) does not have any nif genes required for N(2)-fixation in the genome, a feature that is reminiscent of the luck of nifH in B. sacchari but is distinct from N(2)-fixing features in many other phylogenetically related taxa, such as B. ferrariae, B. heleia, B. mimosarum, B. nodosa, B. silvatlantica, B. tropica and B. unamae. It has the following chemotaxonomic characteristics. The major ubiquinone is Q-8, the DNA G+C content is 64 mol%, and the major fatty acids are C(16:0), C(17:0) cyclo, and C(18:0)omega7c. It also has a unique profile in utilizing carbohydrates among species of Burkholderia. This strain cannot assimilate many pentoses, hexoses and oligosaccharides, whereas it can catabolize (+)-catechin and its putative aromatic derivatives, such as 4-hydroxy-3-methoxycinnamic acid, protocatechuic acid, p-hydroxy benzoic acid, trans-p-coumaric acid and vanillic acid. On the basis of morphological, physiological and chemotaxonomic characteristics, together with DNA-DNA reasssociation values and 16S rRNA gene sequence comparison data, we propose to establish a new species Burkholderia oxyphila sp. nov. (type strain OX-01(T) = NBRC 105797 = DSM 22550) to accommodate this accession.

PMID: 20207808 [PubMed - as supplied by publisher]

Comamonas zonglianii sp. nov., isolated from phenol-contaminated soil.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Yu XY, Li YF, Zheng JW, Li Y, Li L, He J, Li SP

A bacterial strain, designated BF-3T, isolated from phenol-contaminated soil, was investigated by polyphasic taxonomic approach. The cells were short rod, Gram-negative, non-sporulating and non-motile. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain BF-3T formed a monophyletic branch at the periphery of the evolutionary radiation occupied by the genus Comamonas; it showed highest sequence similarities to Comamonas aquatica LMG 2370T (96.8 %), Comamonas nitrativorans DSM 13191T (96.4 %), Comamonas odontotermitis LMG 23579T (96.4 %), Comamonas kerstersii LMG 3475T (96.3 %), Comamonas koreensis KCTC 12005T (96.1 %) and Comamonas terrigena LMG 1253T (96.0 %). The major cellular fatty acid were 16:0, 18:1/18:1omega7c, 17:0 cyclo and summed feature 3 (16:1omega7c and/or 15:0 iso 2-OH). Based on the phylogenetic analysis, DNA-DNA hybridization, whole-cell fatty acid composition as well as biochemical characteristics, strain BF-3T was clearly distinguished from all recognized Comamonas species and should be classified as a novel species of the genus Comamonas, for which the name Comamonas zonglianii sp. nov. is proposed. The type strain is BF-3T (=CCTCC AB 209170T =DSM 22523T).

PMID: 20207803 [PubMed - as supplied by publisher]

Terrabacter carboxydivorans sp. nov., a carbon monoxide oxidizing actinomycete.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Kim SM, Park SW, Park ST, Kim YM

A bacterial strain, PY2(T), capable of oxidizing carbon monoxide, was isolated from a soil sample collected from a roadside in Yonsei University, Seoul, Korea. On the basis of 16S rRNA gene sequence analysis, strain PY2(T) was shown to belong to the genus Terrabacter and was related most closely to the type strain of Terrabacter lapilli (99.1% similarity). Strain PY2(T) was characterized chemotaxonomically as having iso-C(15:0) as the predominant fatty acid, MK-8(H(4)) as major menaquinone, LL-diaminopimelic acid in the cell wall, a polar lipid profile including diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, phosphatidylinositol polymannoside, unknown amino-containing lipids, and unknown amino-containing phosphoglycolipids and a DNA G+C content of 75.6 mol%. DNA-DNA relatedness between strain PY2(T) and the type strains of T. lapilli, Terrabacter tumescens, Terrabacter terrae, and Terrabacter aerolatus were 20.0%, 22.9%, 35.9%, and 64.5%, respectively. Based on the combination of the phylogenetic analysis, fatty acid profiles, chemotaxonomic data, and DNA-DNA hybridization experiments, it is proposed that strain PY2(T) (=KCCM 42922(T)=JCM 16259(T)) be classified as the type strain of a novel species, Terrabacter carboxydivorans sp. nov.

PMID: 20207805 [PubMed - as supplied by publisher]

Aeromonas rivuli sp. nov. isolated from the upstream region of a karst water rivulet in Germany.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Figueras MJ, Alperi A, Beaz-Hidalgo R, Stackebrandt E, Brambilla E, Monera A, Martínez-Murcia AJ

Two freshwater isolates (WB4.1-19(T) and WB4.4-101), sharing 99.9% 16S rRNA gene sequence similarity among each other, were highly related to members of Aeromonas sobria (99.7% similarity; 6 bp differences). A phylogenetic tree derived from the Multi-Locus-Phylogenetic-Analysis (MLPA) of concatenated sequences of 5 housekeeping genes (gyrB, rpoD, recA, dnaJ and gyrA; 3684 bp) clustered both strains as an independent phylogenetic line next to members of the species A. molluscorum and A. bivalvium. The DNA-DNA reassociation values obtained for these two isolates was 89.3%, and between strain WB4.1-19(T) and the type strains of the other species tested <70%. The phenotypic characterization differentiated these two strains from all other Aeromonas type strains. These data indicated that both strains belong to a novel Aeromonas species, for which the name Aeromonas rivuli sp. nov. is proposed, with the type strain WB4.1-19(T) (=CECT 7518(T)=DSM 22539(T)).

PMID: 20207806 [PubMed - as supplied by publisher]

Candida andamanensis sp. nov., Candida laemsonensis sp. nov., and Candida ranongensis sp. nov., three anamorphic yeast species isolated from estuarine waters in a mangrove forest in Ranong Province, Thailand.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Am-In S, Limtong S, Yongmanitchai W, Jindamorakot S

Five strains (RV5, RV140, R31, RS17 and RS28) of three novel anamorphic ascomycetous yeast species were isolated by membrane filtration from estuarine waters collected from a mangrove forest in Laem Son National Park, Ranong Province, Thailand in difference period. On the basis of morphological, biochemical, physiological and chemotaxonomic characteristics, the sequence analysis of the D1/D2 domain of the large subunit rRNA gene and the internal transcribed spacer region, and the phylogenetic analysis, the three strains were found to represent two novel Candida species. Two strains (RV5 and RV140) represented a single novel species, for which the name Candida laemsonensis sp. nov. is proposed. The type strain is RV5(T) (BCC 35154(T) = NBRC 105873(T) = CBS 11418(T)). Strain R31 was assigned as one novel species which was named as Candida andamanensis sp. nov. The type strain is R31(T) (BCC 25965(T) = NBRC 103862(T) = CBS 10859(T)). On the basis of morphological, biochemical, physiological and chemotaxonomic characteristics, the sequence analysis of the D1/D2 domain of the large subunit rRNA gene, and the phylogenetic analysis, the two strains (RS17 and RS28) represented another single species of Candida, for which the name Candida ranongensis sp. nov. is proposed. The type strain is RS28(T) (BCC 25964(T) = NBRC 103861(T) = CBS 10861(T)).

PMID: 20207807 [PubMed - as supplied by publisher]

Haloarcula salaria sp. nov. and Haloarcula tradensis sp. nov. from salt in Thai fish sauce.

Int J Syst Evol Microbiol. 2010 Mar 5;

Authors: Namwong S, Tanasupawat S, Kudo T, Itoh T

Two lipid-hydrolytic, red-pigmented, strictly aerobic, rod-shaped and extremely halophilic archaea, designated HST01-2RT and HST03T, were isolated from salt in fish sauce fermentation, Thailand. They grew optimally at 37 degrees C, pH 7.0, and in the presence of 20-25%, w/v NaCl. The DNA G+C contents of the isolates were 61.6-62.2 mol%. Phylogenetic analysis based on the comparison of 16S rRNA gene sequences revealed that strains HST01-2RT and HST03T were closely consorted with Haloarcula amylolyticus JCM 13557T, Haloarcula hispanica JCM 8911T and Haloarcula argentinensis JCM 9737T (97.5-99.5% similarities), and the chemotaxonomic attributes of these strains corresponded with those of the genus Haloarcula i.e., MK-8 as a major menaquinone component, and C20C20 and C20C25 derivatives of phosphatidylglycerol, phosphatidylglycerol methylphosphate and a triglycosyl diether as major polar lipids. Nevertheless, several phenotypic features, and low DNA-DNA relatedness between the two strains and related Haloarcula species (9.3-15.2 %) warrant that the respective strains discriminated from each other and the recognized Haloarcula species. Therefore, strains HST01-2RT and HST03T should be classified in two novel species of the genus Haloarcula, for which the name Haloarcula salarius nov. sp. and Haloarcula tradensis nov. sp., respectively, are proposed. The type strains are HST01-2RT (=BCC 40029T =JCM 15759T =PCU 313T) and HST03T (=BCC 40030T=JCM 15760T=PCU 314T).

PMID: 20207809 [PubMed - as supplied by publisher]

Pedobacter xinjiangensis sp. nov., from desert, Xinjiang.

J Microbiol Biotechnol. 2010 Feb;20(2):397-402

Authors: Tang Y, Wang Y, Ji S, Zhang K, Dai J, Zhang L, Peng F, Fang C

A Gram-negative, rod-shaped, gliding, aerobic bacterium, designated 12157T, was isolated from the desert of Xinjiang, China and subjected to a polyphasic taxonomic study. The strain 12157T grew optimally at pH 7.0 and 30 degrees . MK-7 was the predominant respiratory menaquinone. The DNA G+C content was 42.0 mol%. Phylogenetic analysis based on the 16S rRNA gene sequences showed that the isolate was mostly related to the members of the genus Pedobacter, with similarities ranging from 90.0 % to 93.7 %. Phylogenetic evidence and the results of phenotypic, genotypic and chemotaxonomic analysis support the establishment of a novel species, Pedobacter xinjiangensis sp. nov., with strain 12157T (=CCTCC AB 208092T=NRRL B-51338 T) as the type strain.

PMID: 20208447 [PubMed - as supplied by publisher]

Cohnella damensis sp. nov., a motile xylanolytic bacteria isolated from a low altitude area in Tibet.

J Microbiol Biotechnol. 2010 Feb;20(2):410-414

Authors: Luo X, Wang Z, Dai J, Zhang L, Fang C

A bacterial strain, 13-25T with xylanolytic activity isolated from a single present soil sample, was characterized with respect to its phenetic and phylogenetic characteristics. The cells of the isolate are gram staining variable rods. The predominant fatty acids are anteiso-C15 : 0, iso-C15 : 0 and iso-C16 : 0, the major respiratory quinone is menaquinone (MK-7), with a polar lipid profile with unknown aminophospholipids. The G+C content is 54.3 mol%. The 16S rRNA gene sequence analysis indicates that this organism belongs to the genus Cohnella, with Cohnella panacarvi as the closest phylogenetic neighbor. Low levels of 16S rRNA gene sequence similarity (<97.0%) with respect to other taxa with published names and the identification of distinctive phenetic features in the isolate indicate that the strain 13-25T represents a novel species of the genus Cohnella, for which the name Cohnella damensis sp. nov. is proposed. The type strain is 13-25T (=CCTCC AB 208103T =KCTC 13422T).

PMID: 20208449 [PubMed - as supplied by publisher]