- Volume 67, Issue 11, 2017
Volume 67, Issue 11, 2017
- New taxa
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- Firmicutes and Related Organisms
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Psychrobacillus lasiicapitis sp. nov., isolated from the head of an ant (Lasius fuliginosus)
A novel Gram-stain-positive, motile, endospore-forming, rod-shaped bacterium, designated strain NEAU-3TGS17T, was isolated from the head of an ant (Lasius fuliginosus). The isolate grew at 0–35 °C (optimum 28–30 °C), at pH 6.0–11.0 (optimum pH 7.0–8.0) and with 0–6 % (w/v) NaCl (optimum 0 %). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain NEAU-3TGS17T belonged to the genus Psychrobacillus . Sequence similarities between strain NEAU-3TGS17T and members of the genus Psychrobacillus with validly published names ( Psychrobacillus psychrotolerans DSM 11706T, Psychrobacillus insolitus DSM 5T, Psychrobacillus psychrodurans DSM 11713T and Psychrobacillus soli NBRC 110600T) were 98.4–99.1 %. DNA–DNA relatedness values between strain NEAU-3TGS17T and its closest relatives were below 70 %. The major cellular fatty acids (>5 %) were iso-C14 : 0, anteiso-C15 : 0, C16 : 0 and iso-C15 : 0. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylglycerol. The cell-wall peptidoglycan type was A4β with ornithine as the diamino acid and the predominant menaquinones were MK-8 and some MK-7. The DNA G+C content was 35.8 mol%. On the basis of phenotypic data and phylogenetic inference, strain NEAU-3TGS17T was classified as representing a novel species in the genus Psychrobacillus , for which the name Psychrobacillus lasiicapitis sp. nov. is proposed. The type strain is NEAU-3TGS17T (=DSM 100484T=CGMCC 1.15308T).
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Rejection of reclassification of Lactobacillus kimchii and Lactobacillus bobalius as later subjective synonyms of Lactobacillus paralimentarius using comparative genomics
More LessLactobacillus bobalius , Lactobacillus kimchii and Lactobacillus paralimentarius belong to the genus Lactobacillus and show close phylogenetic relationships. In a previous study, L. bobalius and L. kimchii were proposed to be reclassified as later heterotypic synonyms of L. paralimentarius using high 16S rRNA gene sequence similarities (≥99.5 %) and DNA–DNA hybridization values (≥82 %). We determined high quality whole genome assemblies of the type strains of L. bobalius and L. kimchii , which were then compared with that of L. paralimentarius . Average nucleotide identity values among three genomes ranged from 91.4 to 92.3 % which are clearly below 95~96 %, the generally recognized cutoff value for bacterial species boundaries. On the basis of comparative genomic evidence, L. bobalius , L. kimchii , and L. paralimentarius should stand as separate species in the genus Lactobacillus . We therefore suggest rejecting the previous proposal to combine these three species into a single species.
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Salirhabdus salicampi sp. nov., a halotolerant bacterium isolated from a saltern
More LessA Gram-stain-positive, halotolerant bacterium, designated strain BH128T, was isolated from soil of a saltern located at Bigeum Island in south-west Korea. Cells were aerobic, motile, spore-forming rods and grew at 15–53 °C (optimum, 35 °C), at pH 5.5–9.0 (optimum, pH 7.0) and at salinities of 0–16 % (w/v) NaCl (optimum, 8 % NaCl). The predominant isoprenoid quinone was menaquinone-7 (MK-7), and the cell-wall peptidoglycan type was A1γ, with meso-diaminopimelic acid as the diagnostic diamino acid. The major fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 0 and anteiso-C17 : 0. The polar lipid pattern consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and four unknown phospholipids. The DNA G+C content was 36.5 mol%. Phylogenetic analyses based on 16S rRNA gene sequences indicated that strain BH128T belonged to the genus Salirhabdus and showed highest similarity to Salirhabdus euzebyi CVS-14T (95.8 %). On the basis of the phylogenetic, phenotypic and chemotaxonomic analyses in this study, strain BH128T is considered to represent a novel species of the genus Salirhabdus , for which the name Salirhabdus salicampi sp. nov. is proposed. The type strain is BH128T (=KACC 18690T=NBRC 111874T).
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Rhabdanaerobium thermarum gen. nov., sp. nov., a novel anaerobic bacterium isolated from a hot spring
A novel Gram-stain-positive, obligately anaerobic and thermophilic bacterium, strain SYSU GA15001T, was isolated from a sample collected from a hot spring located in Tengchong, China. Phylogenetic analysis based on the 16S rRNA gene sequence indicated that strain SYSU GA15001T belonged to the family Eubacteriaceae , and was closely related to ‘ Irregularibacter muris ’ 2PG-426-CC4.2T (93.6 % similarity), Garciella nitratireducens DSM 15102T (93.2 %) and Alkalibacter saccharofermentans Z-78920T (89.7 %). Cells were rods and motile by means of a subpolar flagellum. Spores were formed in old cultures. Optimum growth was observed at 45 °C, at pH 7 and in the presence of 1.5 % (w/v) NaCl. The strain utilized d-arabinose, dulcitol, d-galactose, glucose, lactose, maltose, d-mannose, raffinose, l-rhamnose, d-sorbitol, xylitol, l-alanine, l-arginine, glycine, l-isoleucine, l-leucine, dl-methionine, NH4Cl, l-proline and l-threonine as sole carbon/nitrogen sources. Additionally, complex substrates including beef extract, peptone, starch and yeast extract can also be used as sole energy sources. The major fatty acid methyl esters were C14 : 0, anteiso-C15 : 0 and C18 : 0. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol, an unidentified polar lipid, three unidentified phospholipids and an unidentified glycolipid. The DNA G+C content was determined to be 35.6 mol%. Strain SYSU GA15001T was physiologically and phylogenetically distinguishable from its closely related genera, and merits assignment as representing the type species of a new genus Rhabdanaerobium, with the name Rhabdanaerobium thermarum gen. nov., sp. nov. The type strain of the type species is SYSU GA15001T (=CGMCC 1.5219T=KCTC 15623T).
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Caecibacterium sporoformans gen. nov., sp. nov., an anaerobic, butyrate-producing, spore-forming bacterium isolated from chicken caecum
Strains of a Gram-stain-negative, rod-shaped and immotile bacterium were isolated from broiler chicken caecal content. The isolates required strict anaerobic conditions for growth, formed spores, were catalase-positive and oxidase-negative. They produced butyrate as the major metabolic end product in reinforced clostridial medium broth. The genomic DNA G+C content of the isolated strains was 32.5–34.6 mol%. The major cellular fatty acids were C16 : 0 FAME, C14 : 0 FAME, C19 : 0CYC 9,10DMA and C16 : 0DMA. The fatty acid composition of the cell wall showed no similarity to any strain in the midi database. 16S rRNA gene sequence analysis showed that the nearest phylogenetic neighbours were Anaerostipes hadrus and Clostridium populeti (92 % sequence similarity) within Clostridium cluster XIVa of the phylum Firmicutes . Therefore, a novel genus is proposed, with the name Caecibacterium sporoformans gen. nov., sp. nov. The type strain of Caecibacterium sporoformans is LMG 27730T=DSM 26959T.
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Bacillus ciccensis sp. nov., isolated from maize (Zea mays L.) seeds
Two Gram-stain-positive bacterial strains, designated as 5L6T and 6L6, isolated from seeds of hybrid maize (Zea mays L., Jingke 968) were investigated using a polyphasic taxonomic approach. The cells were aerobic, motile, endospore-forming and rod-shaped. Phylogenetic analysis based on 16S rRNA gene sequences showed that the isolates were recognized as a species of the genus Bacillus , to which the five closest neighbours are Bacillus solani FJAT-18043T (99.8 % similarity), Bacillus horneckiae DSM 23495T (97.7 %), Bacillus eiseniae A1-2T (97.4 %), Bacillus kochii WCC 4582T (97.1 %) and Bacillus purgationiresistens DS22T (97.0 %). The DNA G+C content of strain 5L6T was 37.4 mol%. Its polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. The predominant respiratory quinone was MK-7 and the major fatty acids were iso-C15 : 0, anteiso-C15 : 0, iso-C16 : 0, iso-C14 : 0, anteiso-C17 : 0 and C16 : 1 ω7c alcohol. The cell-wall peptidoglycan contained ornithine, serine, aspartic acid, glutamic acid and alanine while diaminopimelic acid could not be detected. Strains 5L6T and 6L6 were clearly distinguished from the type strains of related validly named species using phylogenetic analysis, DNA–DNA hybridization, fatty acid analysis, peptidoglycan analysis and comparison of a range of physiological and biochemical characteristics. The genotypic and phenotypic data show that strains 5L6T and 6L6 represent a novel species of the genus Bacillus, for which the name Bacillus ciccensis sp. nov. is proposed. The type strain is 5L6T (=KCTC 33663T=CICC 23855T=DSM 104513T).
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Paenibacillus albidus sp. nov., isolated from grassland soil
More LessA novel bacterial strain, designed Q4-3T, was isolated from a soil sample obtained from Qilian grassland, Qinghai, China. Phylogenetic, phenotypic, chemotaxonomic and molecular analyses were performed on the new isolate. Cells were Gram-stain-positive, facultatively anaerobic, spore-forming, motile rods with peritrichous flagella. Phylogenetic analysis based on 16S rRNA gene sequences placed strain Q4-3T in the genus Paenibacillus, and its closest relatives were Paenibacillus odorifer JCM 21743T, Paenibacillus typhae DSM 25190T, Paenibacillus borealis DSM 13188T and Paenibacillus etheri DSM 29760T with 16S rRNA gene sequence similarities of 98.12, 97.89, 97.63 and 97.6 %, respectively. The isolate grew at 4-37 °C (optimum 28-30 °C), at pH 6.0-10.0 (optimum pH 7.5) and with 0-3 %(w/v) NaCl (optimum 1 %). The DNA of strain Q4-3T was determined to be 48.6 mol%. The predominant menaquinone was MK-7 and the diamino acid in the cell-wall peptidoglycan was found to be meso-diaminopimelic acid. Anteiso-C15 : 0 (55.5 %), iso-C16 : 0 (14.5 %) and C16 : 0 (13.3 %) were the major fatty acids. The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, three unidentified aminophospholipids and one unidentified lipid. Based on these results, strain Q4-3T is considered to represent a novel of the genus Paenibacillus, for which the name Paenibacillus albidus nov. is proposed. The type strain is Q4-3T (=CGMCC 1.16134T=KCTC 33911T).
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Anoxynatronum buryatiense sp. nov., an anaerobic alkaliphilic bacterium from a low mineralization soda lake in Buryatia, Russia
An anaerobic alkaliphilic, proteolytic bacterium, strain Su22T, was isolated from the bottom sediment of the alkaline low mineralization lake Sulphatnoe (Selenginsky district, Buryatia, Russia). A comparative analysis of the 16S rRNA gene sequence revealed that this bacterium was closely related to Anoxynatronum sibiricum Z-7981T with a similarity of 98.1 %. Strain Su22T differed from A. sibiricum Z-7981T in its inability to use carbohydrates, peptone and amino acids as carbon sources. Strain Su22T grew over a temperature range of 20–40 °C with an optimum at 30 °C and within the pH range 7.4–11.0 with an optimum at pH 9.6. Sodium cations stimulated the growth of the strain considerably with an optimal concentration at 0.76–1.09 M. The whole-cell fatty acid profile included C16 : 1ω7c, C16 : 0 and C16 : 0 ALDE. The G+C content was 46.1 mol%. Based on the DNA–DNA hybridization level (53.2 %) and phenotypical differences between strains Su22T and Z-7981T, the new isolate is thus considered to represent a novel species, for which the name Anoxynatronum buryatiense sp. nov. is proposed. The type strain is Su22Т (=VKM B-2510T=CECT 8731T).
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Cohnella algarum sp. nov., isolated from a freshwater green alga Paulinella chromatophora
Yunho Lee and Che Ok JeonA Gram-stain-positive, facultatively aerobic and endospore-forming bacterium, designated strain Pch-40T, was isolated from a freshwater green alga, Paulinella chromatophora. Cells were motile rods with a monotrichous polar flagellum showing catalase- and oxidase-positive reactions. Strain Pch-40T grew at 20–50 °C (optimum, 37–40 °C), at pH 5.0–11.0 (optimum, pH 7.0) and in the presence of 0–4.0 % (w/v) NaCl (optimum, 0 %). Menaquinone-7 was detected as the sole isoprenoid quinone. The genomic DNA G+C content of strain Pch-40T was 55.6 mol%. The major cellular fatty acids of strain Pch-40T were C16 : 0, iso-C16 : 0, anteiso-C15 : 0 and anteiso-C17 : 0. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain Pch-40T clearly belonged to the genus Cohnella of the family Paenibacillaceae . Strain Pch-40T was most closely related to Cohnella rhizosphaerae CSE-5610T with a 96.1 % 16S rRNA gene sequence similarity. The phenotypic and chemotaxonomic features and the phylogenetic inference clearly suggested that strain Pch-40T represents a novel species of the genus Cohnella , for which the name Cohnella algarum sp. nov. is proposed. The type strain is strain Pch-40T (=KACC 19279T=JCM 32033T).
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Aeribacillus composti sp. nov., a thermophilic bacillus isolated from olive mill pomace compost
A Gram-stain-positive, aerobic, endospore-forming, thermophilic bacterium, strain N.8T, was isolated from the curing step of an olive mill pomace compost sample, collected at the Composting Experimental Centre (CESCO, Salerno, Italy). Strain N.8T, based on 16S rRNA gene sequence similarities, was most closely related to Aeribacillus pallidus strain H12T (=DSM 3670T) (99.8 % similarity value) with a 25 % DNA–DNA relatedness value. Cells were rod-shaped, non-motile and grew optimally at 60 °C and pH 9.0, forming cream colonies. Strain N.8 was able to grow on medium containing up to 9.0 % (w/v) NaCl with an optimum at 6.0 % (w/v) NaCl. The cellular membrane contained MK-7, and C16 : 0 (48.4 %), iso-C17 : 0 (19.4 %) and anteiso-C17 : 0 (14.6 %) were the major cellular fatty acids. The DNA G+C content was 40.5 mol%. Based on phenotypic characteristics, 16S rRNA gene sequences, DNA–DNA hybridization values and chemotaxonomic characteristics, strain N.8T represents a novel species of the genus Aeribacillus , for which the name Aeribacillus composti sp. nov. is proposed. The type strain is N.8T (=KCTC 33824T=JCM 31580T).
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- Other Bacteria
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Deinococcus taklimakanensis sp. nov., isolated from desert soil
A gamma- and UV radiation-tolerant, Gram-negative, short-rod-shaped bacterial strain, designated X-121T, was isolated from soil samples collected from the Taklimakan desert in Xinjiang, China. Strain X-121T showed the highest 16S rRNA gene sequence similarity with Deinococcus depolymerans TDMA-24T (94.7 %). Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain X-121T is a member of a novel species belonging to the clade formed by members of the genus Deinococcus in the family Deinococcaceae . The DNA G+C content of strain X-121T was 63.6 mol%. The chemotaxonomic charateristics of strain X-121T were typical of members of the genus Deinococcus , with MK-8 being the predominant respiratory quinone, summed feature 3 (16 : 1ω7c,16 : 1ω6c), 16 : 0 and 17 : 1ω8c as major cellular fatty acid, several unidentified phosphoglycolipids and glycolipids as the dominant polar lipids, galactose as the predominant cell-wall sugar and the presence of peptidoglycan with l-ornithine. Strain X-121T is therefore identified as representing a novel species, for which the name Deinococcus taklimakanensis sp. nov. is proposed, with the type strain X-121T(=CCTCC AB 207228T=KCTC 33842T).
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Aridibacter nitratireducens sp. nov., a member of the family Blastocatellaceae, class Blastocatellia, isolated from an African soil
Members of the class Blastocatellia are frequently found in soils with a neutral and (slightly) basic pH where they constitute an important fraction of the microbial community. A novel representative of the class Blastocatellia was isolated from a Ghanaian soil and was characterized in detail. Cells of strain A24_SHP_−5_238T were non-motile rods that divided by binary fission and formed orange to salmon-coloured colonies on agar plates. Strain A24_SHP_−5_238T tolerated pH values of pH 6.0–9.0 (best growth at pH 7.0–8.5) and temperature values of 8–45 °C (best growth at 33–40 °C). It grew chemo-organoheterotrophically on several sugars, a few amino acids, organic acids and different complex protein substrates. In addition, strain A24_SHP_−5_238T was able to use nitrate as an alternative electron acceptor in the absence of oxygen. Major fatty acids of A24_SHP_−5_238T were iso-C15 : 0, summed feature 1 (C13 : 0 3-OH/iso-C15 : 1 H), summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), anteiso-C17 : 0 and anteiso-C15 : 0. The major quinone was MK-8, and the DNA G+C content was 53.5 mol%. The closest described phylogenetic relatives were Aridibacter famidurans A22_HD_4HT and Aridibacter kavangonensis Ac_23_E3T with a 16S rRNA gene sequence identity of 97.6 and 97.2 %, respectively. The DNA–DNA hybridization values (<28.5 %) confirmed that A24_SHP_−5_238T represents a novel species within the genus Aridibacter . Based on its morphological, physiological and molecular characteristics, we propose the novel species Aridibacter nitratireducens sp. nov. (type strain A24_SHP_−5_238T = DSM 102177T = CECT 9235T).
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- Proteobacteria
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Halomonas aestuarii sp. nov., a moderately halophilic bacterium isolated from a tidal flat
Strain Hb3T was isolated from a tidal flat in Jeollabuk-do Gunsan, Republic of Korea. Cells were Gram-stain-negative, oxidase- and catalase-positive, rod-shaped and motile. The strain grew optimally at 25–35 °C, at pH 6.0–6.5 and with 3.0–10.0 % (w/v) NaCl. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain Hb3T belonged to the genus Halomonas . Strain Hb3T was related most closely to Halomonas ventosae Al12T (98.6 % 16S rRNA gene sequence similarity), Halomonas denitrificans M29T (98.6 %) and Halomonas saccharevitans AJ275T (98.4 %). Moreover, multilocus sequence analysis using the gyrB, rpoD and secA genes supported the phylogenetic position of strain Hb3T. The genomic G+C content of strain Hb3T was 67.9 mol%. DNA–DNA hybridization values for strain Hb3T versus H. ventosae Al12T, H. denitrificans M29T and H. saccharevitans AJ275T were 38.0, 54.5 and 47.4 %, respectively. The major quinone was ubiquinone Q-9 and the major fatty acids were C18 : 1ω7c, summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c), C16 : 0 and C19 : 0 cyclo ω8c. Diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, amino lipid, six unidentified phospholipids and an unidentified lipid comprised the polar lipid profile. On the basis of the data presented in this report, strain Hb3T represents a novel species of the genus Halomonas . The name Halomonas aestuarii sp. nov. is proposed for this novel species. The type strain is Hb3T (=KCTC 52253T=JCM 31415T).
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Neisseria dumasiana sp. nov. from human sputum and a dog’s mouth
Three independent isolates of Gram-reaction-negative cocci collected from two New York State patients and a dog’s mouth in California were subjected to a polyphasic analysis. The 16S rRNA gene sequence similarity among these isolates is 99.66 to 99.86 %. The closest species with a validly published name is Neisseria zoodegmatis (98.7 % 16S rRNA gene sequence similarity) with six additional species of the genus Neisseria with greater than 97 % similarity. Average nucleotide identity (ANI) and genome-to-genome distance calculator (GGDC 2.0) analysis on whole genome sequence data support the three novel isolates as being from a single species that is distinct from all other closely related species of the genus Neisseria . Phylogenetic analysis of 16S rRNA gene sequences and ribosomal multilocus sequence typing (rMLST) indicate the novel species belongs in the genus Neisseria . This assignment is further supported by the predominant cellular fatty acids composition of C16 : 0, summed feature 3 (C16 : 1ω7c/C15 : 0iso 2-OH), and C18 : 1ω7c, and phenotypic characters. The name Neisseria dumasiana sp. nov. is proposed, and the type strain is 93087T (=DSM 104677T=LMG 30012 T).
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Izhakiella australiensis sp. nov. isolated from an Australian desert soil
More LessA Gram-stain-negative, rod-shaped, non-motile bacterium, designated D4N98T, was isolated from a desert soil near Glendambo, Australia. The taxonomic position of strain D4N98T was investigated using a polyphasic approach. Strain D4N98T shared 97 % 16S rRNA gene sequence similarity with the only reference strain of the genus Izhakiella ( Izhakiella capsodis N6PO6T), and less than 96 % similarity with other species of genera in the family Enterobacteriaceae with validly published names. Phylogenetic analysis, based on 16S rRNA, rpoB, atpD, gyrB genes and a concatenated sequence comprising 37 single copy marker genes, as well as chemotaxonomic data (major polar lipids: phosphatidyl ethanolamine, phosphatidylglycerol, diphosphatidylglycerol, a neutral lipid, and a glycolipid. Major fatty acids (>10 %): C16 : 0, C17 : 0 cyclo, summed feature 2 (C14 : 0 3-OH and/or iso-C16 : 1 I), summed feature 3 (C16 : 1ω7c and/or C16 : 1ω6c), summed feature 8 (C18 : 1ω7c and/or C18 : 1ω6c) support the affiliation of this strain to the genus Izhakiella . The results of in silico DNA–DNA hybridisation plus physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain D4N98T from the other species of the genus Izhakiella with validly published names. Therefore, strain D4N98T represents a novel species, for which the name Izhakiella australiensis sp. nov. is proposed. The type strain is D4N98T (LMG 30066T=DSM 105030T).
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Chitinimonas lacunae sp. nov., isolated from artificial pond in Korea
More LessA gram-negative, rod shaped bacterium designated as strain H2T was isolated from an artificial pond in Korea. The strain H2T was able to grow aerobically and anaerobically with optimal growth occurring at 30 °C and pH 7.0 under aerobic conditions. Phylogenetic analysis based on 16S rRNA gene sequences showed that the strain H2T belonged to the genus Chitinimonas of the family Burkholderiaceae . Phylogenetic similarity calculated from 16S rRNA gene sequences of strain H2T and valid species belongs to the genus Chitinimonas ranged from 93.2 % (for Chitinimonas taiwanensis cfT) to 94.4 % (for Chitinimonas prasina LY03T), and strain H2T formed a tight monophyletic group with them. Predominant fatty acids were C16 : 0 and summed feature 3, which consisted of C16 : 1 ω6c and/or C16 : 1 ω7c. The major respiratory quinone of the strain H2T was ubiquinone-8, and DNA G+C content was 60.2 %. The polar lipids consisted of phosphatidylethanolamine, phosphatidylglycerol, unidentified aminolipid, and unidentified phospholipid. The biochemical characteristics that distinguished strain H2T from other Chitinimonas species included positive cystine arylamidase activity and lacked α-chymotrypsin and β-glucosidase (aesculin hydrolysis) activity. In addition, reciprocal DNA–DNA relatedness between H2T and three Chitinimonas strains ranged from 32.0 to 43.7 %. On the basis of its phylogenetic, chemotaxonomic, and genotypic characteristics, strain H2T represents a novel species of the genus Chitinimonas. Chitinimonas lacunae sp. nov. is proposed with the type strain H2T (=KCTC 52574T=LMG 29894T).
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Reclassification of Sphingopyxis contaminans as Sphingorhabdus contaminans comb. nov. and emended description of the genus Sphingorhabdus
More LessWith the description of the genus Sphingorhabdus , the taxonomic position of Sphingopyxis contaminans was re-evaluated based on analyses of 16S rRNA gene sequences and phenotypic and chemotaxonomic characteristics. The results revealed that Sphingopyxis contaminans is clearly a member of the genus Sphingorhabdus and we proposed that Sphingopyxis contaminans (Subhash Y, Sasikala C, Ramana CV. Int J Syst Evol Microbiol 2014;64:2238–2243) should be reclassified as Sphingorhabdus contaminans comb. nov. An emended description of the genus Sphingorhabdus is also provided.
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Ponticoccus marisrubri sp. nov., a moderately halophilic marine bacterium of the family Rhodobacteraceae
Strain SJ5A-1T, a Gram-stain-negative, coccus-shaped, non-motile, aerobic bacterium, was isolated from the brine–seawater interface of the Erba Deep in the Red Sea, Saudi Arabia. The colonies of strain SJ5A-1T have a beige to pale-brown pigmentation, are approximately 0.5–0.7 µm in diameter, and are catalase and oxidase positive. Growth occurred optimally at 30–33 °C, pH 7.0–7.5, and in the presence of 9.0–12.0 % NaCl (w/v). Phylogenetic analysis of the 16S rRNA gene indicates that strain SJ5A-1T is a member of the genus Ponticoccus within the family Rhodobacteraceae . Ponticoccus litoralis DSM 18986T is the most closely related described species based on 16S rRNA gene sequence identity (96.7 %). The DNA–DNA hybridization value between strain SJ5A-1T and P. litoralis DSM 18986T was 36.7 %. The major respiratory quinone of strain SJ5A-1T is Q-10; it predominantly uses the fatty acids C18 : 1 (54.2 %), C18 : 0 (11.2 %), C16 : 0 (8.6 %), 11-methyl C18 : 1 ω7c (7.7 %), C19 : 0cyclo ω8c (3.3 %), and C12 : 1 3-OH (3.5 %), and its major polar lipids are phosphatidylethanolamine, phosphatidylglycerol, phosphocholine, an unknown aminolipid, an unknown phospholipid and two unknown lipids. The genome draft of strain SJ5A-1T as presented here is 4 562 830 bp in size and the DNA G+C content is 68.0 mol%. Based on phenotypic, phylogenetic and genotypic data, strain SJ5A-1T represents a novel species in the genus Ponticoccus , for which we propose the name Ponticoccus marisrubri sp. nov. The type strain of P. marisrubri is SJ5A-1T (=JCM 19520T=ACCC19863T).
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Paracoccus sordidisoli sp. nov., isolated from an agricultural field contaminated with hexachlorocyclohexane isomers
More LessA novel bacterial strain, designated LP91T, was isolated from an agricultural field contaminated with hexachlorocyclohexane (HCH) isomers at Ummari Village, Lucknow, Uttar Pradesh, India. Cells of the strain were aerobic, short rod or coccoid, Gram-stain-negative and non-motile. Colonies of the strain were initially transparent but with time changed to a creamy white colour. Phylogenetic analysis based on the 16S rRNA marker gene showed that it was closely associated with Paracoccus aestuariivivens GHD-30T (99.1 %) and Paracoccus limosus NB88T (98.0 %), followed by Paracoccus laeviglucosivorans 43PT (97.9 %) and Paracoccus marinus KKL-A5T (97.0 %). The DNA–DNA hybridization values of strain LP91T with the closely related type strains mentioned above were below 51.2±0.64 %, confirming it as a distinct species from other known species of the genus Paracoccus . The major cellular fatty acids of strain LP91T were C18 : 0 ω7c/C18 : 0 ω6c and C16 : 0. The major polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine and aminophospholipid, along with other lipids including glycolipids, aminolipids and other unknown phosphoglycolipids. Spermine was the major polyamine, along with putrescine in a minor amount. Ubiquinone (Q-10) was the sole isoprenoid quinone. Based on the results of phylogenetic, phenotypic and chemotaxonomic analysis, it is proposed that the isolate represents a new species of the genus Paracoccus , for which the name Paracoccus sordidisoli sp. nov. is proposed. The type strain is LP91T (=KCTC 42938T=CCM 8696T=MCC 3128T).
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Massilia buxea sp. nov., isolated from a rock surface
More LessA Gram-stain-negative, rod-shaped and motile bacterial strain, designated A9T, was isolated from the surface of rock collected from the shore of Nvshan lake in Mingguang, Anhui province, China. Phylogenetic analysis based on 16S rDNA sequence data showed that strain A9T was affiliated with the genus Massilia and showed the highest sequence similarities to Massilia plicata KCTC 12344T (98.8 %) and Massilia lurida CGMCC 1.10822T (97.9 %). The major fatty acids (>5 %) were summed feature 3 (C16 : 1ω7c and/or C15 : 0 iso 2-OH), C16 : 0 and C18 : 1ω7c. Strain A9T contained Q-8 as the predominant ubiquinone and diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and an unidentified aminophospholipid as the predominant polar lipids. The DNA G+C content was 69.9 mol%. Mean DNA–DNA relatedness values between strain A9T and its closest phylogenetic relatives, M. plicata KCTC 12344T and M. lurida CGMCC 1.10822T, were 38.8 % and 23.23 %, respectively. On the basis of the results obtained in this study, strain A9T is considered to represent a novel species of the genus Massilia , for which the name Massilia buxea sp. nov. is proposed. The type strain is A9T (=DSM 103547T=CGMCC 1.15931T=KCTC 52429T).
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