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Volume 64,
Issue Pt_11,
2014
Volume 64, Issue Pt_11, 2014
- Validation List
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List of new names and new combinations previously effectively, but not validly, published
More LessThe purpose of this announcement is to effect the valid publication of the following effectively published new names and new combinations under the procedure described in the Bacteriological Code (1990 Revision). Authors and other individuals wishing to have new names and/or combinations included in future lists should send three copies of the pertinent reprint or photocopies thereof, or an electronic copy of the published paper to the IJSEM Editorial Office for confirmation that all of the other requirements for valid publication have been met. It is also a requirement of IJSEM and the ICSP that authors of new species, new subspecies and new combinations provide evidence that types are deposited in two recognized culture collections in two different countries. It should be noted that the date of valid publication of these new names and combinations is the date of publication of this list, not the date of the original publication of the names and combinations. The authors of the new names and combinations are as given below. Inclusion of a name on these lists validates the publication of the name and thereby makes it available in the nomenclature of prokaryotes. The inclusion of a name on this list is not to be construed as taxonomic acceptance of the taxon to which the name is applied. Indeed, some of these names may, in time, be shown to be synonyms, or the organisms may be transferred to another genus, thus necessitating the creation of a new combination.
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- Notification List
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Notification that new names of prokaryotes, new combinations and new taxonomic opinions have appeared in volume 64, part 8, of the IJSEM
More LessThis listing of names of prokaryotes published in a previous issue of the IJSEM is provided as a service to bacteriology to assist in the recognition of new names and new combinations. This procedure was proposed by the Judicial Commission [Minute 11(ii), Int J Syst Bacteriol 41 (1991), p. 185]. The names given herein are listed according to the Rules of priority (i.e. page number and order of valid publication of names in the original articles).
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- New Taxa
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- Archaea
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Thermococcus paralvinellae sp. nov. and Thermococcus cleftensis sp. nov. of hyperthermophilic heterotrophs from deep-sea hydrothermal vents
More LessTwo heterotrophic hyperthermophilic strains, ES1T and CL1T, were isolated from Paralvinella sp. polychaete worms collected from active hydrothermal vent chimneys in the north-eastern Pacific Ocean. Both were obligately anaerobic and produced H2S in the presence of elemental sulfur and H2. Complete genome sequences are available for both strains. Phylogenetic analyses based on 16S rRNA gene sequences showed that the strains are more than 97 % similar to most other species of the genus Thermococcus . Therefore, overall genome relatedness index analyses were performed to establish that these strains are novel species. For each analysis, strain ES1T was determined to be most similar to Thermococcus barophilus MPT, while strain CL1T was determined to be most similar to Thermococcus sp. 4557. The average nucleotide identity scores for these strains were 84 % for strain ES1T and 81 % for strain CL1T, genome-to-genome direct comparison scores were 23 % for strain ES1T and 47 % for strain CL1T, and the species identification scores were 89 % for strain ES1T and 88 % for strain CL1T. For each analysis, strains ES1T and CL1T were below the species delineation cut-off. Therefore, based on their whole genome sequences, strains ES1T and CL1T are suggested to represent novel species of the genus Thermococcus for which the names Thermococcus paralvinellae sp. nov. and Thermococcus cleftensis sp. nov. are proposed, respectively. The type strains are ES1T ( = DSM 27261T = KACC 17923T) and CL1T ( = DSM 27260T = KACC 17922T).
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- Actinobacteria
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Streptomyces panaciradicis sp. nov., a β-glucosidase-producing bacterium isolated from ginseng rhizoplane
More LessA Gram-staining-positive actinobacterium, designated strain 1MR-8T, was isolated from the rhizoplane of ginseng and its taxonomic status was determined using a polyphasic approach. The isolate formed long chains of spores that were straight, cylindrical and smooth-surfaced. Strain 1MR-8T grew at 10–37 °C (optimum 28 °C), whilst no growth was observed at 45 °C. The pH range for growth was 4.0–11.0 (optimum pH 6.0–8.0) and the NaCl range for growth was 0–7 % (w/v) with optimum growth at 1 % (w/v). Strain 1MR-8T had cell-wall peptidoglycans based on ll-diaminopimelic acid. Glucose, mannose and ribose were the whole-cell sugars. The predominant isoprenoid quinones were MK-9 (H4), MK-9 (H6) and MK-9 (H8) and the major fatty acids were anteiso-C15 : 0, iso-C15 : 0, anteiso-C17 : 0 and iso-C16 : 0. 16S rRNA gene sequencing studies showed that the novel strain was closely related to the type strains of Streptomyces caeruleatus GIMN4T, Streptomyces curacoi NRRL B-2901T, Streptomyces capoamus JCM 4734T and Streptomyces coeruleorubidus NBRC 12761T with similarities of 98.8 %. However, DNA–DNA relatedness, as well as physiological and biochemical analyses, showed that strain 1MR-8T could be differentiated from its closest phylogenetic relatives. It is proposed that this strain should be classified as a representative of a novel species of the genus Streptomyces , with the suggested name Streptomyces panaciradicis sp. nov. The type strain is 1MR-8T ( = KACC 17632T = NBRC 109811T).
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Phylogeny of the class Actinobacteria revisited in the light of complete genomes. The orders ‘Frankiales’ and Micrococcales should be split into coherent entities: proposal of Frankiales ord. nov., Geodermatophilales ord. nov., Acidothermales ord. nov. and Nakamurellales ord. nov.
More LessThe phylogeny of the class Actinobacteria remains controversial, essentially because it is very sensitive to the choice of dataset and phylogenetic methods. We used a test proposed recently, based on complete genome data, which chooses among candidate species phylogenies based on the number of lateral gene transfers (LGT) needed to explain the diversity of histories among gene trees for a set of genomes. We used 100 completely sequenced genomes representing 35 families and 17 orders of the class Actinobacteria and evaluated eight different hypotheses for their phylogeny, including one based on a concatenate of 54 conserved proteins present in single copy in all these genomes, trees based on 16S and 23S rRNA gene sequences or their concatenation, and a tree based on the concatenation of MLSA genes (encoding AtpI, GyrA, FtsZ, SecA and DnaK). We used Prunier to infer the number of LGT in 579 proteins (different from those used to build the concatenated tree) present in at least 70 species, using the different hypothetical species trees as references. The best tree, with the lowest number of lateral transfers, was the one based on the concatenation of 54 proteins. In that tree, the orders Bifidobacteriales , Coriobacteriales , ‘Coryneb acteriales’, ‘Micromonosporales’, ‘Propionibacteriales’, ‘Pseudonocardiales’, Streptomycetales and ‘Streptosporangiales’ were recovered while the orders ‘Frankiales’ and Micrococcales were not. It is thus proposed that the order ‘Frankiales’, which has an effectively but not validly published name, be split into Frankiales ord. nov. (type family Frankiaceae ), Geodermatophilales ord. nov. ( Geodermatophilaceae ), Acidothermales ord. nov. ( Acidothermaceae ) and Nakamurellales ord. nov. ( Nakamurellaceae ). The order Micrococcales should also be split into Micrococcales (genera Kocuria , Rothia , Micrococcus , Arthrobacter , Tropheryma , Microbacterium , Leifsonia and Clavibacter ), Cellulomonales ( Beutenbergia , Cellulomonas , Xylanimonas , Jonesia and Sanguibacter ) and Brachybacteriales ( Brachybacterium ) but the formal proposal for this will have to wait until more genomes become available for a significant proportion of strains in this order.
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Prauserella shujinwangii sp. nov., from a desert environment
A Gram-positive, spore-forming, rod-shaped actinomycete, designated XJ46T, was isolated from Xinjiang Uyghur Autonomous Region, China and subjected to a polyphasic taxonomic analysis. Morphological and chemotaxonomic characteristics of XJ46T were identified as being similar to those of members of the genus Prauserella . The phylogenetic tree based on 16S rRNA gene sequences showed that XJ46T shared the highest similarity (95.9 %) with Prauserella marina MS498T. Based on its phenotypic characteristics, chemotaxonomic analysis and 16S rRNA gene sequence analysis, strain XJ46T is proposed to represent a novel species of the genus Prauserella , named Prauserella shujinwangii sp. nov. The type strain is XJ46T ( = CGMCC 4.7125T = JCM 19736T).
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- Firmicutes and Related Organisms
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Aquibacillus halophilus gen. nov., sp. nov., a moderately halophilic bacterium from a hypersaline lake, and reclassification of Virgibacillus koreensis as Aquibacillus koreensis comb. nov. and Virgibacillus albus as Aquibacillus albus comb. nov.
A novel Gram-stain-positive, moderately halophilic bacterium, designated strain B6BT, was isolated from the water of an Iranian hypersaline lake, Aran-Bidgol, and characterized taxonomically using a polyphasic approach. Cells of strain B6BT were rod-shaped, motile and produced ellipsoidal endospores in terminal positions in non-swollen sporangia. Strain B6BT was a strictly aerobic bacterium and catalase- and oxidase-positive. The strain was able to grow at NaCl concentrations of 0.5–20.0 % (w/v), with optimum growth occurring at 10.0 % (w/v) NaCl. The optimum temperature and pH for growth were 35 °C and pH 7.0. On the basis of 16S rRNA gene sequence analysis, strain B6BT was shown to belong to the phylum Firmicutes and its closest phylogenetic similarities were with the species Virgibacillus koreensis BH30097T (97.5 %), Virgibacillus albus YIM 93624T (97.4 %), Sediminibacillus halophilus EN8dT (96.8 %), Sediminibacillus albus NHBX5T (96.6 %), Virgibacillus carmonensis LMG 20964T (96.3 %) and Paraliobacillus quinghaiensis YIM-C158T (96.0 %), respectively. Phylogenetic analysis revealed that strain B6BT, along with V. koreensis BH30097T and V. albus YIM 93624T, clustered in a separate clade in the family Bacillaceae . The DNA G+C content of the novel isolate was 35.8 mol%. DNA–DNA hybridization experiments revealed low levels of relatedness between strain B6BTand V. koreensis BH30097T (13 %) and V. albus YIM 93624T (33 %). The major cellular fatty acid of strain B6BT was anteiso-C15 : 0 (75.1 %) and its polar lipid pattern consisted of phosphatidylglycerol, diphosphatidylglycerol, an unknown phospholipid and an unknown glycolipid. The isoprenoid quinones were MK-7 (90 %) and MK-6 (3 %). The peptidoglycan contained meso-diaminopimelic acid as the diagnostic diamino acid. All of these features support the placement of isolate B6BT within the phylum Firmicutes . It is closely related to V. koreensis and V. albus , but with features that clearly distinguish it from species of the genus Virgibacillus or of other related genera. On the basis of the polyphasic evidence derived in this study, we propose that strain B6BT be placed within a new genus, as Aquibacillus halophilus gen. nov., sp. nov., with B6BT as the type strain ( = IBRC-M 10775T = KCTC 13828T). We also propose that V. koreensis and V. albus should be transferred to this new genus and be named Aquibacillus koreensis comb. nov. and Aquibacillus albus comb. nov., respectively. The type strain of Aquibacillus koreensis comb. nov. is BH30097T ( = KCTC 3823T = IBRC-M 10657T = JCM 12387T) and the type strain of Aquibacillus albus comb. nov. is YIM 93624T ( = DSM 23711T = IBRC-M 10798T = JCM 17364T).
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Salimicrobium jeotgali sp. nov., isolated from salted, fermented seafood
More LessA Gram-staining-positive, aerobic, motile bacterium, designated strain MJ3T, was isolated from myeolchi-jeot (anchovy jeotgal), a traditional fermented seafood in South Korea. Cells were non-endospore-forming cocci showing catalase- and oxidase-positive reactions. Growth of strain MJ3T was observed at 15–45 °C (optimum, 30 °C), at pH 6.0–9.0 (optimum, pH 7.0–8.0) and in the presence of 1–24 % (w/v) NaCl (optimum, 10 % NaCl). Phylogenetic inference based on 16S rRNA gene sequences showed that strain MJ3T formed a tight phyletic lineage with members of the genus Salimicrobium . Strain MJ3T was related most closely to Salimicrobium salexigens 29CMIT, Salimicrobium album DSM 20748T, Salimicrobium flavidum ISL-25T, Salimicrobium luteum BY-5T and Salimicrobium halophilum DSM 4771T, with similarities of 98.8 %, 98.7 %, 98.6 %, 98.4 % and 98.3 %, respectively. However, the DNA–DNA relatedness values between strain MJ3T (KF732837) and S. salexigens DSM 22782T, S. album DSM 20748T, S. flavidum DSM 23127T, S. luteum KCTC 3989T and S. halophilum JCM 12305T were 60±5.4 %, 58.5±6.5 %, 43.6±5.5 %, 37.2±5.8 % and 16.7±0.2 %, respectively. Chemotaxonomic data (sole isoprenoid quinone, MK-7; major cell-wall type, meso-diaminopimelic acid; major cellular fatty acids, anteiso-C15 : 0, anteiso-C17 : 0 and iso-C15 : 0; major polar lipids, phosphatidylglycerol and diphosphatidylglycerol; DNA G+C content, 46.3 mol%) also supported the affiliation of strain MJ3T with the genus Salimicrobium . Therefore, strain MJ3T represents a novel species of the genus Salimicrobium , for which the name Salimicrobium jeotgali sp. nov. is proposed. The type strain is MJ3T ( = KACC 16972T = JCM 19758T).
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Lysinibacillus varians sp. nov., an endospore-forming bacterium with a filament-to-rod cell cycle
More LessSix Gram-stain-positive, motile, filamentous and/or rod-shaped, spherical spore-forming bacteria (strains GY32T, L31, F01, F03, F06 and F07) showing polybrominated diphenyl ether transformation were investigated to determine their taxonomic status. After spore germination, these organisms could grow more than one hundred microns long as intact single cells and then divide into rod cells and form endospores in 33 h. The cell-wall peptidoglycan of these strains was type A4α, the predominant menaquinone was MK-7 and the major fatty acids were iso-C16 : 0, iso-C15 : 0 and C16 : 1ω7C. Diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine were detected in the polar lipid profile. Analysis of the 16S rRNA gene sequences indicated that these strains should be placed in the genus Lysinibacillus and they were most closely related to Lysinibacillus sphaericus DSM 28T (99 % 16S rRNA gene sequence similarity). The gyrB sequence similarity and DNA–DNA relatedness between strain GY32T and L. sphaericus JCM 2502T were 81 % and 52 %, respectively. The G+C content of the genomic DNA of strain GY32T was 43.2 mol%. In addition, strain GY32T showed differences in nitrate reduction, starch and gelatin hydrolysis, carbon resource utilization and cell morphology. The phylogenetic distance from its closest relative measured by DNA–DNA relatedness and DNA G+C content, and its phenotypic properties demonstrated that strain GY32T represents a novel species of the genus Lysinibacillus , for which the name Lysinibacillus varians sp. nov. is proposed. The type strain is GY32T ( = NBRC 109424T = CGMCC 1.12212T = CCTCC M 2011307T).
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Aneurinibacillus soli sp. nov., isolated from mountain soil
A novel bacterial strain designated CB4T was isolated from soil from the Hallasan, Jeju, Korea. Strain CB4T was found to be strictly aerobic, Gram-stain-positive, rod-shaped, motile and formed creamy greyish colonies on nutrient agar. The major fatty acids were identified as iso-C15 : 0 and iso-C16 : 0, and the predominant isoprenoid quinone as MK-7. The cell-wall peptidoglycan contained glycine and alanine as the diagnostic amino acids and phosphatidyl-N-methylethanolamine, phosphatidylethanolamine, diphosphatidylglycerol and an unidentified aminophospholipid as the polar lipids. The genomic DNA G+C content of strain CB4T was 46.5 mol%. Phylogenetic analysis, based on 16S rRNA gene sequence similarities, showed that strain CB4T forms a deep branch within the genus Aneurinibacillus , sharing the highest level of sequence homology with Aneurinibacillus aneurinilyticus DSM 5562T (96.5 %). On the basis of the phenotypic, chemotaxonomic and phylogenetic characteristics, strain CB4T is considered to represent a novel species within the genus Aneurinibacillus , for which the name Aneurinibacillus soli sp. nov. is proposed. The type strain is CB4T ( = KCTC 33505T = CECT 8566T). An emended description of the genus Aneurinibacillus is also proposed.
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Genome-based reclassification of Bacillus cibi as a later heterotypic synonym of Bacillus indicus and emended description of Bacillus indicus
More LessWhile characterizing a related strain, it was noted that there was little difference between the 16S rRNA gene sequences of Bacillus indicus LMG 22858T and Bacillus cibi DSM 16189T. Phenotypic characterization revealed differences only in the utilization of mannose and galactose and slight variation in pigmentation. Whole genome shotgun sequencing and comparative genomics were used to calculate established phylogenomic metrics and explain phenotypic differences. The full, genome-derived 16S rRNA gene sequences were 99.74 % similar. The average nucleotide identity (ANI) of the two strains was 98.0 %, the average amino acid identity (AAI) was 98.3 %, and the estimated DNA–DNA hybridization determined by the genome–genome distance calculator was 80.3 %. These values are higher than the species thresholds for these metrics, which are 95 %, 95 % and 70 %, respectively, suggesting that these two strains should be classified as members of the same species. We propose reclassification of Bacillus cibi as a later heterotypic synonym of Bacillus indicus and an emended description of Bacillus indicus .
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Clostridium algifaecis sp. nov., an anaerobic bacterial species from decomposing algal scum
More LessTwo anaerobic bacterial strains, MB9-7T and MB9-9, were isolated from decomposing algal scum and were characterized using a polyphasic approach. Phylogenetic analysis of 16S rRNA gene sequences showed that strains MB9-7T and MB9-9 are closely related to each other (99.7 % similarity) and they are also closely related to Clostridium tyrobutyricum (96.5 %). The two strains were Gram-stain positive and rod-shaped. Growth occurred at 20–45 °C, at pH 4.0–8.0 and at NaCl concentrations of up to 2 % (w/v). Acid was produced from glucose, xylose and mannose. Products of fermentation in PYG medium were mainly butyrate, acetate, carbon dioxide and hydrogen. The predominant cellular fatty acids were C14 : 0 and C16 : 0. The cellular polar lipids comprised phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, two glycolipids, one phospholipid, one aminophospholipid and two aminolipids. The DNA G+C contents of strain MB9-7T and MB9-9 were 27.9 and 28.7 mol%, respectively. These results support the assignment of the new isolates to the genus Clostridium and also distinguish them from other species of the genus Clostridium . Hence, it is proposed that strains MB9-7T and MB9-9 represent a novel species of the genus Clostridium , with the suggested name Clostridium algifaecis sp. nov. The type strain is MB9-7T ( = CGMCC 1.5188T = DSM 28783T).
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Bacillus invictae sp. nov., isolated from a health product
A Gram-positive, rod-shaped, endospore-forming Bacillus isolate, Bi.FFUP1 T, recovered in Portugal from a health product was subjected to a polyphasic study and compared with the type strains of Bacillus pumilus , Bacillus safensis , Bacillus altitudinis and Bacillus xiamenensis , the phenotypically and genotypically most closely related species. Acid production from cellobiose, d-glucose and d-mannose and absence of acid production from d-arabinose, erythritol, inositol, maltose, mannitol, raffinose, rhamnose, sorbitol, starch and l-tryptophan discriminated this new isolate from the type strains of the most closely related species. Additionally, a significant different protein and carbohydrate signature was evidenced by spectroscopic techniques, matrix-assisted laser desorption/ionization time-of-flight mass spectrometry and Fourier transform IR spectroscopy with attenuated total reflectance. Using a chemometric approach, the score plot generated by principal component analysis clearly delineated the isolate as a separate cluster. The quinone system for strain Bi.FFUP1 T comprised predominantly menaquinone MK-7 and major polar lipids were diphosphatidylglycerol, an unidentified phospholipid and an unidentified glycolipid. Strain Bi.FFUP1 T showed ≥99 % 16S rRNA gene sequence similarity to B. safensis FO-036bT, B. pumilus (7061T and SAFR-032), B. altitudinis 41KF2bT and B. xiamenensis HYC-10T. Differences in strain Bi.FFUP1 T gyrB and rpoB sequences in comparison with the most closely related species and DNA–DNA hybridization experiments with Bi.FFUP1 T and B. pumilus ATCC 7061T, B. safensis FO-036bT, B. altitudinis 41KF2bT and B. xiamenensis HYC-10T gave relatedness values of 39.6 % (reciprocal 38.0 %), 49.9 % (reciprocal 42.9 %), 61.9 % (reciprocal 52.2 %) and 61.7 % (reciprocal 49.2 %), respectively, supported the delineation of strain Bi.FFUP1 T as a representative of a novel species of the genus Bacillus , for which the name Bacillus invictae sp. nov. is proposed, with strain Bi.FFUP1 T ( = DSM 26896T = CCUG 64113T) as the type strain.
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Faecalicoccus acidiformans gen. nov., sp. nov., isolated from the chicken caecum, and reclassification of Streptococcus pleomorphus (Barnes et al. 1977), Eubacterium biforme (Eggerth 1935) and Eubacterium cylindroides (Cato et al. 1974) as Faecalicoccus pleomorphus comb. nov., Holdemanella biformis gen. nov., comb. nov. and Faecalitalea cylindroides gen. nov., comb. nov., respectively, within the family Erysipelotrichaceae
Strains LMG 27428T and LMG 27427 were isolated from the caecal content of a chicken and produced butyric, lactic and formic acids as major metabolic end products. The genomic DNA G+C contents of strains LMG 27428T and LMG 27427 were 40.4 and 38.8 mol%. On the basis of 16S rRNA gene sequence similarity, both strains were most closely related to the generically misclassified Streptococcus pleomorphus ATCC 29734T. Strain LMG 27428T could be distinguished from S. pleomorphus ATCC 29734T based on production of more lactic acid and less formic acid in M2GSC medium, a higher DNA G+C content and the absence of activities of acid phosphatase and leucine, arginine, leucyl glycine, pyroglutamic acid, glycine and histidine arylamidases, while strain LMG 27428 was biochemically indistinguishable from S. pleomorphus ATCC 29734T. The novel genus Faecalicoccus gen. nov. within the family Erysipelotrichaceae is proposed to accommodate strains LMG 27428T and LMG 27427. Strain LMG 27428T ( = DSM 26963T) is the type strain of Faecalicoccus acidiformans sp. nov., and strain LMG 27427 ( = DSM 26962) is a strain of Faecalicoccus pleomorphus comb. nov. (type strain LMG 17756T = ATCC 29734T = DSM 20574T). Furthermore, the nearest phylogenetic neighbours of the genus Faecalicoccus are the generically misclassified Eubacterium cylindroides DSM 3983T (94.4 % 16S rRNA gene sequence similarity to strain LMG 27428T) and Eubacterium biforme DSM 3989T (92.7 % 16S rRNA gene sequence similarity to strain LMG 27428T). We present genotypic and phenotypic data that allow the differentiation of each of these taxa and propose to reclassify these generically misnamed species of the genus Eubacterium formally as Faecalitalea cylindroides gen. nov., comb. nov. and Holdemanella biformis gen. nov., comb. nov., respectively. The type strain of Faecalitalea cylindroides is DSM 3983T = ATCC 27803T = JCM 10261T and that of Holdemanella biformis is DSM 3989T = ATCC 27806T = CCUG 28091T.
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Weissella uvarum sp. nov., isolated from wine grapes
More LessTwo bacterial strains (B18BM42T and B18NM6) were recovered during a study of bacterial diversity on wine grapes (Vitis vinifera L.) from the Nemea region in Greece. Phylogenetic analysis based on 16S rRNA gene sequences placed the two strains within the genus Weissella , and found them to be most closely related to Weissella minor NRIC 1625T followed by Weissella viridescens NRIC 1536T (99.1 and 98.9 % sequence similarity, respectively). The level of DNA–DNA relatedness between strains B18NM42T and W. minor NRIC 1625T or W. viridescens NRIC 1536T was 31.9 and 35.0 %, respectively. The two novel strains could be genetically differentiated from their closest relatives by REA-PFGE (restriction enzyme analysis-pulse field gel electrophoresis), RAPD (randomly amplified polymorphic DNA) and rep-PC R analyses (repetitive sequence-based PCR). Physiological examination showed that the novel strains can be distinguished from phylogenetically related species by their ability to grow at 42 °C and by certain carbohydrate fermentations. Based on the evidence above, the affiliation of the two strains to a novel species with the proposed name Weissella uvarum sp. nov. is suggested. The type strain is B18NM42T ( = DSM 28060T = NCCB 100484T).
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Paenibacillus guangzhouensis sp. nov., an Fe(III)- and humus-reducing bacterium from a forest soil
More LessA Gram-reaction-variable, rod-shaped, motile, facultatively aerobic and endospore-forming bacterium, designated strain GSS02T, was isolated from a forest soil. Strain GSS02T was capable of reducing humic substances and Fe(III) oxides. Strain GSS02T grew optimally at 35 °C, at pH 78 and in the presence of 1 % NaCl. The predominant menaquinone was MK-7. The major cellular fatty acids were anteiso-C15 : 0 and iso-C16 : 0 and the polar lipid profile contained mainly phosphatidylethanolamine, diphosphatidylglycerol and phosphatidylglycerol, with moderate amounts of two unknown aminophospholipids and a minor amount of one unknown lipid. The DNA G+C content was 53.4 mol%. Comparative 16S rRNA gene sequence analysis showed that strain GSS02T was related most closely to Paenibacillus terrigena JCM 21741T (98.1 % similarity). Mean DNA–DNA relatedness between strain GSS02T and P. terrigena JCM 21741T was 58.8±0.5 %. The phylogenetic, chemotaxonomic and phenotypic results clearly demonstrated that strain GSS02T belongs to the genus Paenibacillus and represents a novel species, for which the name Paenibacillus guangzhouensis sp. nov. is proposed. The type strain is GSS02T ( = KCTC 33171T = CCTCC AB 2013236T).
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- Proteobacteria
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Salinispirillum marinum gen. nov., sp. nov., a haloalkaliphilic bacterium in the family ‘Saccharospirillaceae’
A novel Gram-staining-negative, motile, non-pigmented, facultatively anaerobic, spirillum-shaped, halophilic and alkaliphilic bacterium, designated strain GCWy1T, was isolated from water of the coastal–marine wetland Gomishan in Iran. The strain was able to grow at NaCl concentrations of 1–10 % (w/v) and optimal growth was achieved at 3 % (w/v). The optimum pH and temperature for growth were pH 8.5 and 30 °C, while the strain was able to grow at pH 7.5–10 and 4–40 °C. Phylogenetic analysis based on the comparison of the 16S rRNA gene sequence placed the isolate within the class Gammaproteobacteria as a separate deep branch, with 92.1 % or lower sequence similarity to representatives of the genera Saccharospirillum and Reinekea and less than 91.0 % sequence similarity with other remotely related genera. The major cellular fatty acids of the isolate were C18 : 1ω7c, C16 : 0 and C17 : 0, and the major components of its polar lipid profile were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The cells of strain GCWy1T contained the isoprenoid quinones Q-9 and Q-8 (81 % and 2 %, respectively). The G+C content of the genomic DNA of this strain was 52.3 mol%. On the basis of 16S rRNA gene sequence analysis in combination with chemotaxonomic and phenotypic data, strain GCWy1T represents a novel species in a new genus in the family ‘ Saccharospirillaceae ’, order Oceanospirillales , for which the name Salinispirillum marinum gen. nov., sp. nov. is proposed. The type strain of the type species is GCWy1T ( = IBRC-M 10765T = CECT 8342T).
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Thermomonas carbonis sp. nov., isolated from the soil of a coal mine
More LessStrain GZ436T was Gram-stain-negative, aerobic, non-motile, rod-shaped and isolated from the soil of a coal mine. 16S rRNA gene phylogenetic analysis showed that this strain clustered with Thermomonas brevis LMG 21746T (97.5 %), Thermomonas haemolytica A50-7-3T (96.3 %), Thermomonas koreensis KCTC 12540T (96.4 %), Thermomonas hydrothermalis SGM-6T (95.5 %) and Thermomonas fusca LMG 21737T (95.1 %). The major isoprenoid quinone was Q-8. The DNA G+C content was 67 mol%. Strain GZ436T contained phosphatidylglycerol, diphosphatidylglycerol, phosphatidylethanolamine, an unknown aminophospholipid, an unknown phospholipid and an unknown lipid as the major polar lipids. The predominant cellular fatty acids (>5 %) were iso-C15 : 0, iso-C11 : 0, iso-C11 : 0 3-OH, iso-C17 : 1ω9c, C16 : 0 and summed feature 3. The DNA–DNA relatedness value between strain GZ436T and T. brevis LMG 21746T was 54±0.4 %. According to phenotypic and phylogenetic characteristics, strain GZ436T represents a novel species of the genus Thermomonas , for which the name Thermomonas carbonis sp. nov. is proposed. The type strain is GZ436T ( = CCTCC AB 2013364T = KCTC 42013T).
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Investigation of taxa of the family Pasteurellaceae isolated from Syrian and European hamsters and proposal of Mesocricetibacter intestinalis gen. nov., sp. nov. and Cricetibacter osteomyelitidis gen. nov., sp. nov.
More LessEleven strains from hamster of Bisgaard taxa 23 and 24, also referred to as Krause’s groups 2 and 1, respectively, were investigated by a polyphasic approach including data published previously. Strains showed small, regular and circular colonies with smooth and shiny appearance, typical of members of the family Pasteurellaceae . The strains formed two monophyletic groups based on 16S rRNA gene sequence comparison to other members of the family Pasteurellaceae . Partial rpoB sequencing as well as published data on DNA–DNA hybridization showed high genotypic relationships within both groups. Menaquinone 7 (MK7) was found in strains of both groups as well as an unknown ubiquinone with shorter chain length than previously reported for any other member of the family Pasteurellaceae . A new genus with one species, Mesocricetibacter intestinalis gen. nov., sp. nov., is proposed to accommodate members of taxon 24 of Bisgaard whereas members of taxon 23 of Bisgaard are proposed to represent Cricetibacter osteomyelitidis gen. nov., sp. nov. Major fatty acids of type strains of type species of both genera are C14 : 0, C14 : 0 3-OH/iso-C16 : 1 I, C16 : 1ω7c and C16 : 0. The two genera are clearly separated by phenotype from each other and from existing genera of the family Pasteurellaceae . The type strain of Mesocricetibacter intestinalis is HIM 933/7T ( = Kunstyr 246/85T = CCUG 28030T = DSM 28403T) while the type strain of Cricetibacter osteomyelitidis is HIM943/7T ( = Kunstyr 507/85T = CCUG 36451T = DSM 28404T).
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Neptunomonas acidivorans sp. nov., isolated from sediment, and emended description of the genus Neptunomonas
More LessA Gram-reaction-negative, aerobic, rod-shaped (1.2–1.6 µm×0.6–0.8 µm), flagellated and motile marine bacterium, designated MEBiC06243T, was isolated from a sediment collected at Daebu Island in the Yellow Sea (37° 20′ N 126° 41′ E), Korea. The 16S rRNA gene sequence analysis revealed that strain MEBiC06243T showed high similarity with Neptunomonas naphthovorans NAG-2N-126T (96.3 %). Growth was observed at 10–39 °C (optimum 29 °C), at pH 6.0–9.0 (optimum pH 7) and with 0–7 % (optimum 2.5 %) NaCl. The predominant cellular fatty acids were C10 : 0 3-OH (6.1 %), C12 : 0 (5.8 %), C16 : 0 (30.5 %), C18 : 1ω7c (21.6 %) and summed feature 3 (comprising C15 : 0 2-OH and/or C16 : 1ω7c; 30.7 %). The DNA G+C content was 41.4 mol%. The major respiratory quinone was Q-8. Phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, two unidentified lipids, one unidentified aminophospholipid and three unidentified aminolipids were detected as major polar lipids. On the basis of this polyphasic taxonomic data, strain MEBiC06243T should be classified as a novel species of the genus Neptunomonas proposed as Neptunomonas acidivorans sp. nov. The type strain is MEBiC06243T ( = KCCM 42975T = JCM 18291T). An emended description of the genus Neptunomonas is also given.
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