INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY (Int J Syst Evol Microbiol)

Publications in this journal

• Article: Two novel ascomycetous yeast species, Wickerhamomyces scolytoplatypi sp. nov. and Cyberlindnera xylebori sp. nov., isolated from ambrosia beetles galleries in Japan.

  Shinya Ninomiya, Kozaburo Mikata, Hisashi Kajimura, Hiroko Kawasaki
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  ABSTRACT: Thirteen strains of yeasts were isolated from ambrosia beetle galleries at several sites in Japan. Based on the morphological, biochemical characteristics, and phylogenetic analysis of the D1/D2 domain of the large subunit (LSU) rRNA gene of the yeasts, 10 strains were shown to represent a novel species of the genus Wickerhamomyces, described as Wickerhamomyces scolytoplatypi sp. nov. (type strain NBRC 11029T = CBS 12186T), and were closely related to Wickerhamomyces hampshirensis; further, 3 strains represented a novel species of the genus Cyberlindnera, described as Cyberlindnera xylebori sp. nov. (type strain NBRC 11048T = CBS 12187T), and were closely related to Cyberlindnera euphorbiiphila. It suggested that these species are associated with ambrosia beetle, we considered ambrosia beetle galleries as good sources of novel yeasts.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Hyphomicrobium nitrativorans sp. nov., isolated from the biofilm of a methanol-fed denitrification system treating seawater at the Montreal Biodome (Canada).

  Christine Martineau, Céline Villeneuve, Florian Mauffrey, Richard Villemur
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  ABSTRACT: A budding prosthecate bacterial strain, designated NL23(T), was isolated from a methanol-fed denitrification system treating seawater at the Montreal Biodome, Canada. Phylogenetic analysis based on 16S ribosomal RNA (rRNA) gene sequences showed that the strain was affiliated with the Hyphomicrobium genus of the Alphaproteobacteria and was most closely related to Hyphomicrobium zavarzinii with 99.4% sequence identity. Despite this high level of 16S rRNA gene sequence identity, DNA-DNA hybridization assays showed that strain NL23(T) is only distantly related to H. zavarzinii (12%). Strain NL23(T) grew aerobically, but also had the capacity to grow under denitrifying conditions in presence of nitrate without nitrite accumulation. Growth occurred at pH 7-9.5, 0-1% NaCl and temperatures 15-35°C. Major fatty acids were C18:1ω7c or ω6c (84.6%) and C18:0 (8.5%), and major quinones were Q8 (5%) and Q9 (95%). The complete genome of the strain was sequenced and showed a G+C content of 63.8 mol%. Genome analysis predicted open reading frames (ORF) encoding the key enzymes of the serine pathway as well as enzymes involved in methylotrophy. Also, ORFs encoding a periplasmic nitrate reductase (Nap), a nitrite reductase (Nir), a nitric oxide reductase (Nor) and a nitrous oxide reductase (Nos) were identified. Our results support that strain NL23(T) should be considered as a new species within the Hyphomicrobium genus. The name Hyphomicrobium nitrativorans with type strain NL23(T) (=ATCC BAA-2476 =LMG 27277) is proposed.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Heliimonas saccharivorans gen. nov., sp. nov., a member of the family Chitinophagaceae isolated from a mineral water aquifer and emended description of Filimonas lacunae.

  Tânia Leandro, Luís França, M Fernanda Nobre, Fred A Rainey, Milton S da Costa
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  ABSTRACT: Two isolates, with an optimum temperature of about 30 °C and an optimum pH for growth of 6.0-7.0, were recovered from a borehole head of a mineral water aquifer in Portugal. The closest relatives based on 16S rRNA gene sequence analysis were species of genera of the family Chitinophagaceae. Strains L2-4T and L2-109 formed translucent colonies and non-motile pleomorphic cells. Strains were strictly aerobic, oxidase- and catalase-positive. The major fatty acids of strains L2-4T and L2-109 were 17:0 iso 3-OH, 15:0 iso and 15:1 iso G. The major polar lipids were phosphatidylethanolamine, one unidentified phospholipid, four unidentified aminophospholipids, four unidentified aminolipids and three unidentified polar lipids. Menaquinone 7 was the only respiratory quinone. The G+C content of the DNA of strains L2-4T and L2-109 was 42.0 and 41.4 mol%, respectively. Based on 16S rRNA gene sequence analysis, physiological and biochemical characteristics we described a new species of a novel genus represented by strains L2-4T (=CECT 8122T= LMG 26919T) and L2-109 (=CECT 8121= LMG 26920) for which we propose the name Heliimonas saccharivorans gen. nov., sp. nov. Due to additional results obtained in this study we emend the description of the species Filimonas lacunae YT21T.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Micromonospora schwarzwaldensis sp. nov., a producer of telomycin, isolated from soil in the Black Forest.

  Maria Soledad Vela Gurovic, Sebastian Müller, Nicole Domin, Ivana Seccareccia, Sandor Nietzsche, Karin Martin, Markus Nett
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  ABSTRACT: A Gram-positive, spore-forming actinomycete strain (HKI0641(T)) was isolated from a soil sample collected in the Black Forest, Germany. During a screening for antimicrobial natural products this bacterium was identified as a producer of the antibiotic telomycin. Morphological characteristics and chemotaxonomic data suggested that the strain belongs to the genus Micromonospora. The peptidoglycan contains meso-diaminopimelic acid, and the fatty acid profile consists predominantly of anteiso-C15:0, iso-C15:0, iso-C16:0 and C16:0. MK-10(H4), MK-10(H2) and MK-10 were identified as the major menaquinones. To determine the taxonomic positioning of strain HKI0641(T), we computed a binary tanglegram of two rooted phylogenetic trees that were based upon 16S rRNA and gyrB gene sequences, respectively. The comparative analysis of the two common classification methods strongly supported the phylogenetic affiliation with the genus Micromonospora, but it also revealed discrepancies in the assignment at the level of the genomic species. 16S rRNA gene sequence analysis identified M. coxensis DSM 45161T (99.1%) and M. marina DSM 45555T (99.0%) as the nearest taxonomic neighbours, whereas the gyrB sequence of strain HKI0641T indicated a closer relationship to M. aurantiaca DSM 43813T (95.1%). By means of DNA-DNA hybridization experiments, it was possible to resolve this issue and to clearly differentiate strain HKI0641(T) from other Micromonospora species. The type strains of the aforementioned Micromonospora species could be further distinguished from strain HKI0641T by several phenotypic properties, such as colony colour, NaCl tolerance and the utilization of carbon sources. The isolate was therefore assigned to a new species, for which the name Micromonospora schwarzwaldensis sp. nov. is proposed. The type strain is HKI0641(T) (= DSM 45708(T) = CIP 110415(T)).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Proposal of Motilibacteraceae fam. nov., with the description of Motilibacter rhizosphaerae sp. nov.

  Soon Dong Lee
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  ABSTRACT: A rod-shaped actinobacterium, designated strain RS-16T, was isolated from a rhizosphere soil and its taxonomic position was determined by a polyphasic taxonomic approach. Comparative 16S rRNA gene sequence analysis indicated that strain RS-16T was most closely related to the type strain of Motilibacter peucedani (98.3% sequence similarity). The cell-wall peptidoglycan contained LL-diaminopimelic acid as the diagnostic diamino acid and N-glycolylated murein. The major whole-cell sugars were glucose, galactose and mannose. The predominant menaquinone was MK-9(H4). The major fatty acids were C18:1ω9c and C16:0. The DNA G+C content was 73.1 mol%. The phenotypic and DNA-DNA hybridization data showed that strain RS-16T (= KACC 16209T = DSM 45622T) represents a new species of the genus Motilibacter, for which Motilibacter rhizosphaerae sp. nov. is proposed. Based on the phylogenetic position determined by 16S rRNA gene analysis and the signature nucleotide set of the 16S rRNA gene sequence, the genus Motilibacter represents a novel family of the suborder Frankineae, for which the name Motilibacteraceae fam. nov. is proposed.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Saccharomonospora amisosensis sp. nov., isolated from Black Sea deep sediment.

  Aysel Veyisoglu, Anil Sazak, Demet Cetin, Kiymet Guven, Nevzat Sahin
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  ABSTRACT: A novel actinomycete, strain DS3030T, was isolated from a deep sediment sample, collected from southern Black Sea coast, Turkey, and examined using a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain DS3030T was shown to belong to the genus Saccharomonospora and to be most closely related to Saccharomonospora marina XMU15T (99.6 %). Sequence similarities with other strains of the genus Saccharomonospora were lower than 97.0 %. The organism had chemical and morphological features typical of the genus Saccharomonospora. The cell wall of novel strain contained meso-diaminopimelic acid, arabinose and galactose as the diagnostic sugars. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and phosphatidylinositolmannoside. The predominant menaquinone was MK-9(H4). Major fatty acids were iso-C16:0, iso-C16:02OH and C16:1cis 9. Phenotypic data clearly distinguished the isolate from its closest relative, Saccharomonospora marina XMU15T. These combined genotypic and phenotypic data and low DNA-DNA relatedness with the most related strain reveal that strain DS3030T represents a novel species of the genus, for which the name Saccharomonospora amisosensis sp. nov. (type strain DS3030T=KCTC 29069T=DSM 45685T=NRRL-B 24885T), is proposed.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Code of Conduct on Biosecurity for Biological Resource Centres (BRCs) - Procedural implementation.

  Christine Rohde, David Smith, Dunja Martin, Dagmar Fritze, Joost Stalpers
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  ABSTRACT: Scientists researching and exchanging microorganisms have a responsibility to prevent misuse of the inherently dangerous ones. They need to be aware of the existing regulations and potential malicious use due to characters like pathogenicity or toxin production. Institutions working with biological resources, particularly culture collections and Biological Resource Centres (BRCs) need good practices. For this purpose the European Consortium of Microbial Resources Centres (EMbaRC) and Global Biological Resource Centre Network (GBRCN) Demonstration projects have defined the Code of Conduct on Biosecurity for BRCs. BRC refers to the modern day culture collection that adds value to its holdings and implements common best practice but best practices are equally applicable to microbiology laboratories holding, using and sharing microbial resources. Therefore the term "BRC" may be replaced in this context by "institutions working with biological resources" as it is the responsibility of all microbiologists to follow such a code to prevent dual use organisms and information getting into the wrong hands. This paper considers the regulatory and working environment for microbiology and in particular for public service culture collections, it defines the responsibilities and provides practical advice in the implementation of best practice. The responsibility does not stop with the organism itself but includes associated data and technical know-how. The Code of Conduct on Biosecurity for BRCs addresses the key aspects of work of BRCs, describes the issues that are of importance and the controls or practices that should be in place.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Nocardioides salsibiostraticola sp. nov., a new member of the genus Nocardioides isolated from biofilm formed in coastal seawater of the Norwegian Sea.

  Yirang Cho, Gwang Il Jang, Chung Yeon Hwang, Eun-Hye Kim, Byung Cheol Cho
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  ABSTRACT: A Gram-staining-positive, non-motile, aerobic, non-spore-forming and short rod-shaped bacterial strain, PAMC 26527(T), was isolated from biofilm formed in coastal seawater of the Norwegian Sea. Analysis of the 16S rRNA gene sequence of strain PAMC 26527(T) revealed a clear affiliation with the genus Nocardioides. Based on phylogenetic analysis, strain PAMC 26527(T) showed the closest phylogenetic relationship with the species Nocardioides caricicola YC6903(T) with a 16S rRNA gene sequence similarity level of 96.3%. Strain PAMC 26527(T) grew in 0 to 5.0% sea salts. The optimum temperature and pH for growth were 20 °C and pH 7.5, respectively. The major cellular fatty acids (>10.0%) of strain PAMC 26527(T) were iso-C16:0 (44.5%), C17:1ω8c (20.0%) and C18:1ω9c (10.4%) and the major isoprenoid quinone was MK-8(H4). The cell-wall analysis showed that strain PAMC 26527(T) contained LL-diaminopimelic acid. The genomic DNA G+C content was 69.3 mol%. The combined phenotypic, chemotaxonomic and phylogenetic data showed that strain PAMC 26527(T) could be clearly distinguished from members of the genus Nocardioides with validly published names. Thus, strain PAMC 26527(T) should be classified as representing a novel species in the genus Nocardioides, for which the name Nocardioides salsibiostraticola sp. nov. is proposed. The type strain is PAMC 26527(T) (=KCTC 29158(T)=JCM 18743(T)).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Dyella kyungheensis sp. nov., isolated from the soil of a cornus fruit field.

  Heung-Min Son, Jung-Eun Yang, Eun-Ji Yi, Yongjin Park, Kyung-Hwa Won, Ju-Han Kim, Chang-Kyun Han, Moochang Kook, Tae-Hoo Yi
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  ABSTRACT: A Gram-staining-negative, aerobic, motile with one polar flagellum, yellow-pigmented, rod-shaped bacterium, designated strain THG-B117T, was isolated from soil of a cornus fruit field of Hoengseong province in South Korea and its taxonomic position was investigated by a polyphasic study. Strain THG-B117T grew well at 25-30 °C and pH 6.0-8.0 in the absence of NaCl on nutrient agar. On the basis of 16S rRNA gene sequence similarity, strain THG-B117T was shown to belong to the family Xanthomonadaceae and be related to Dyella japonica XD53T (98.7 %), Dyella terrae JS14-6T (98.0 %), Dyella koreensis BB4T (96.9 %), Dyella soli JS12-10T (96.9 %) and Dyella thiooxydans ATSB10T (96.7 %). DNA-DNA hybridization experiments showed that DNA relatedness between strain THG B117T and its closest phylogenetically neighbours were below 45.1 %. The G+C content of the genomic DNA was 64.8 mol%. The major polar lipids were phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, phosphatidyldimethylethanolamine, unidentified aminolipids, unidentified aminophospholipids and unidentified phospholipids. Phenotypic and chemotaxonomic data (major ubiquinone was Q-8, and major fatty acids were iso-C15:0, iso-C16:0, iso-C17:0 and iso-C17:1ω9c) supported the affiliation of strain THG-B117T with the genus Dyella. The results of physiological and biochemical tests suggested that strain THG-B117T was different genotypically and phenotypically from the recognized species of the genus Dyella. The name Dyella kyungheensis sp. nov. is proposed, with the type strain THG-B117T (= KACC 16981T =JCM 18747T).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Streptomyces kebangsaanensis sp. nov. an endophytic actinomycete isolated from a Malaysian ethnomedicinal plant, that produces phenazine-1-carboxylic acid.

  Nurul 'izzah Mohd Sarmin, Geok Yuan Annie Tan, Christopher M M Franco, Ruangelie Edrada-Ebel, Jalifah Latip, Noraziah Mohamad Zin
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  ABSTRACT: A spore-forming streptomycete designated strain SUK12T was isolated from a Malaysian ethnomedicinal plant. Its taxonomic position, established using a polyphasic approach, indicates that it is a new species of the genus Streptomyces. Morphological and chemical characteristics of the strain were consistent with members of the genus Streptomyces. Analysis of the almost complete 16S rRNA gene sequence placed strain SUK12T in the genus Streptomyces where it formed a distinct phyletic line with recognized species of this genus. The strain exhibited highest sequence similarity to Streptomyces corchorusii DSM 40340T (98.2%) followed by Streptomyces chrestomyceticus NRRL B-3310T (98.1%). The G+C content of the genomic DNA was 74%. Chemotaxonomic data [MK-9(H8) as the major menaquinone; LL-DAP as a component of cell wall peptidoglycan; C12:0, C14:0, C15:0 and C17:1 as the major fatty acids; phospholipid type II] supported the affiliation of strain SUK12T to the genus Sreptomyces. The results of the phylogenetic analysis and phenotypic data derived from this and previous studies, allowed the genotypic and phenotypic differentiation of strain SUK12T from the related Streptomyces species. The DNA-DNA relatedness value between strain SUK12T and S. corchorusii DSM 40340T is 18.85±4.55%. Strain SUK12T produces phenazine-1-carboxylic acid known as tubermycin B, an antibacterial agent. It is proposed, therefore, that strain SUK12T (=DSM 42048T =NRRL B-24860T) be classified in the genus Streptomyces as Streptomyces kebangsaanensis sp. nov.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Azoarcus olearius sp. nov., a nitrogen-fixing bacterium isolated from oil-contaminated soil.

  Ming-Hui Chen, Shih-Yi Sheu, Euan K James, Chiu-Chung Young, Wen-Ming Chen
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  ABSTRACT: A novel nitrogen-fixing strain, designated DQS-4T was isolated from oil-contaminated soil in Taiwan and was characterized using a polyphasic taxonomy approach. Cells of strain DQS-4T stained Gram-negative, contained poly-β-hydroxybutyrate granules, and were motile rods surrounded by a thin capsule. Cells have a strictly aerobic type of metabolism and fix nitrogen microaerobically. Growth occurred at 10-45 °C (optimum, 35-40 °C), at pH 7.0-8.0 (optimum, pH 7.0) and with 0-2 % NaCl (optimum, 0.5-1 %). Phylogenetic analyses based on 16S rRNA gene sequences showed that strain DQS-4T belonged to the genus Azoarcus, and its closest neighbours were Azoarcus indigens LMG 9092T and Azoarcus communis DSM 12120T, with sequence similarities of 97.4 and 96.4 %, respectively. The major cellular fatty acids of strain DQS-4T were summed feature 3 (comprising C16:1ω7c and/or C16:1ω6c), C16:0 and C18:1ω7c. The major cellular hydroxy fatty acid was C10:0 3-OH. The DNA G+C content was 64.5 mol%. The polar lipid profile consisted of a mixture of phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol and several uncharacterized aminophospholipids and phospholipids. The mean level of DNA-DNA relatedness between strain DQS-4T and Azoarcus indigens LMG 9092T was 27.4 %. On the basis of the genotypic and phenotypic data, strain DQS-4T represents a new species in the genus Azoarcus, for which the name Azoarcus olearius sp. nov. is proposed. The type strain is DQS-4T (=BCRC 80407T =KCTC 23918T =LMG 26893T).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Amycolatopsis cihanbeyliensis sp. nov., a halotolerant actinomycete isolated from Lake Salt in Turkey.

  Demet Tatar, Anil Sazak, Kiymet Guven, Demet Cetin, Nevzat Sahin
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  ABSTRACT: A novel halotolerant actinomycete, designated strain BNT52T, was isolated from soil collected from Cihanbeyli Salt Mine in the central Anatolia region, in Turkey, and its taxonomic position was established using a polyphasic approach. The isolate was found to have chemical and morphological properties typical of the genus Amycolatopsis and formed a distinct phyletic line in the 16S rRNA gene tree. Strain BNT52T was most closely related to Amycolatopsis nigrescens CSC17-Ta-90T (96.7 %), Amycolatopsis magusensis KT2025T (96.6 %), Amycolatopsis sulpurea DSM 46092T (96.6 %), Amycolatopsis dongchuanensis YIM 75904T (96.5 %), Amycolatopsis ultiminotia RP-AC36T (96.4 %) and Amycolatopsis sacchari DSM 44468T (96.4 %). Sequence similarities with other strains of the genus Amycolatopsis were lower than 96.2 %. The isolate grew at 20-37°C, pH 6-12 and in the presence of 0-10 % (w/v) NaCl. The cell wall of the novel strain contained meso-diaminopimelic acid, and arabinose and galactose as the diagnostic sugars. Major fatty acids were iso-C16:0 2-OH and iso-C16:0. The predominant menaquinone was MK-9(H4). The polar lipids detected were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylmethylethanolamine. The genomic DNA G+C content was 68.8 mol%. On the basis of the data from this polyphasic taxonomic study, strain BNT52T represents a novel species within the genus Amycolatopsis for which the name Amycolatopsis cihanbeyliensis sp. nov. is proposed (type strain BNT52T = KCTC 29065T = NRRL B-24886T = DSM 45679T).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Lechevalieria nigeriaca sp. nov., isolated from arid soil.

  Mustafa Camas, Aysel Veyisoglu, Demet Tatar, Hayrettin Saygin, Demet Cetin, Anil Sazak, Kiymet Guven, Nevzat Sahin
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  ABSTRACT: A novel actinobacteria, designated strain NJ2035T, was isolated from soil collected from Abuja, Nigeria, and characterized to determine its taxonomic position. The isolate was found to have chemical and morphological properties associated with members of the genus Lechevalieria. Phylogenetic analyses based on an almost-complete 16S rRNA gene sequences indicated that the isolate was closely related to members of the genus Lechevalieria, and was shown to form a distinct phyletic line in the Lechevalieria phylogenetic tree. Strain NJ2035T was most closely related to Lechevalieria roselyniae C81T, Lechevalieria atacamensis C61T and Lechevalieria deserti C68T (98.5 %). Sequence similarities with other strains of the genus Lechevalieria were lower than 98.2 %. The cell wall of the novel strain contained meso-diaminopimelic acid, and galactose, mannose and rhamnose as the diagnostic sugars. The predominant menaquinone was MK-9(H4). The polar lipids detected were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and phosphatidylinositol. DNA-DNA relatedness and phenotypic data showed that the isolate and L. roselyniae C81T, L. atacamensis C61T and L. deserti C68T belong to distinct genomic species. On the basis of the data from this polyphasic study, strain NJ2035T represents a novel species within the genus Lechevalieria for which the name Lechevalieria nigeriaca sp. nov. is proposed (type strain NJ2035T = DSM 45680T = KCTC 29057T = NRRL-B 24881T).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Azospirillum fermentarium sp. nov., a novel nitrogen-fixing species isolated from a fermenter in Taiwan.

  Shih-Yao Lin, You-Cheng Liu, Asif Hameed, Yi-Han Hsu, Wei-An Lai, Fo-Ting Shen, Chiu-Chung Young
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  ABSTRACT: An aerobic, Gram-negative, spiral or rod-shaped, non-spore-forming diazotrophic bacterium (strain CC-LY743T), was isolated from a fermentative tank in Taiwan. Strain CC-LY743T is able to grow at 20-37°C, pH 6.0-8.0 and tolerate NaCl up to 3.0% (w/v). Positive for nitrogen fixation and the activity was recorded as 10.6 nmol ethylene h-1. The 16S rRNA gene sequence analysis of strain CC-LY743T showed highest sequence similarity to Azospirillum picis DSM 19922T (96.1%), Azospirillum oryzae JCM 21588T (96.0%) and Azospirillum rugosum DSM 19657T (96.0%) and lower sequence similarity (< 96.0%) to all other Azospirillum species. The highest sequence similarities were obtained with the nifH sequence of Azospirillum brasilense BCRC 12270T (92.0%), Azospirillum formosense BCRC 80273T (92.3%) and A. rugosum DSM 19657T (91.8%). Positive for the rapid identification of the genus-specific primer set. The predominant quinone system is ubiquinone (Q-10) and the DNA G+C content is 69.6±0.1 mol%. The major fatty acids found in strain CC-LY743T were n-C16:0, C19:0 cyclo ω8c, C14:0 3-OH/C16:1 iso I, C16:1ω7c/C16:1ω6c and C18:1ω7c/C18:1ω6c. Based on the phylogenetic, phenotypic and chemotaxonomic features, strain CC-LY743T is proposed to represent a novel species within the genus Azospirillum for which the name Azospirillum fermentarium sp. nov. (=BCRC 80505T =JCM 18688T=LMG 27264T) is proposed.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Saccharothrix saharensis sp. nov., a novel actinomycete isolated from Algerian Saharan soil.

  Dalila Boubetra, Abdelghani Zitouni, Noureddine Bouras, Florence Mathieu, Ahmed Lebrihi, Peter Schumann, Cathrin Spröer, Hans-Peter Klenk, Nasserdine Sabaou
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  ABSTRACT: The taxonomic position of a novel actinomycete, strain SA152T, isolated from a sample of Algerian Saharan soil, was determined using a polyphasic taxonomic approach. The strain produced abundant aerial mycelium and fragmented substrate mycelium on most media tested. Chemotaxonomically and phylogenetically, the strain was related to the members of the genus Saccharothrix. Results of the 16S rRNA gene sequence comparison revealed that strain SA152T shares the highest degree of 16S rRNA gene sequence similarity to Saccharothrix xinjiangensis DSM 44896T (99.3%) and Saccharothrix texasensis DSM 44231T (98.9%). However, DNA-DNA hybridization studies showed only 16.2% similarity with S. xinjiangensis, and 33.9% similarity with S. texasensis. Based upon genotypic and phenotypic differences to other members of the genus, a novel species, Saccharothrix saharensis sp. nov., is proposed, with SA152T (=DSM 45456T =CCUG 60213T) as the type strain.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Taibaiella smilacinae gen. nov., sp. nov., a novel endophytic member of the family Chitinophagaceae isolated from the stem of Smilacina japonica and emended description of Flavihumibacter petaseus.

  Lei Zhang, Yang Wang, Linfang Wei, Yao Wang, Xihui Shen, Shiqing Li
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  ABSTRACT: A light-yellow-coloured bacterium, designated strain PTJT-5T, was isolated from the stem of Smilacina japonica A. Gray collected from Taibai Mountain in Shaanxi Province, north-west China, and was subjected to a taxonomic study by using a polyphasic approach. This novel isolate grew optimally at 25-28°C and pH 6.0-7.0. Flexirubin-type pigments were produced. Cells were Gram-reaction-negative, strictly aerobic, rod-shaped and non-motile. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain PTJT-5T was a member of the phylum Bacteroidetes, exhibiting the highest sequence similarity to Lacibacter cauensis NJ-8T (87.7 %). The major cellular fatty acids were iso-C15 : 0 (31.1 %), iso-C15 : 1 G (26.5 %), iso-C17 : 0 (12.7 %) and iso-C17 : 0 3-OH (12.3 %). The only polyamine was homospermidine and the major polar lipid was phosphatidylethanolamine. The only respiratory quinone was MK-7 and the DNA G+C content was 40.3 mol%. Based on the phenotypic, phylogenetic and genotypic data, strain PTJT-5T is considered to represent a novel species of a new genus in the family Chitinophagaceae, for which the name Taibaiella smilacinae gen. nov., sp. nov. is proposed. The type strain is PTJT-5T (=CCTCC AB 2013017T = KCTC 32316T). An emended description of Flavihumibacter petaseus is also proposed.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Nocardioides daeguensis sp. nov. a nitrate-reducing bacterium isolated from activated sludge of an industrial wastewater treatment plant.

  Yingshun Cui, Sung-Geun Woo, Jangho Lee, Sahastranshu Sinha, Myung-Suk Kang, Long Jin, Kwang Kyu Kim, Joonhong Park, Myungjin Lee, Sung-Taik Lee
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  ABSTRACT: A Gram-staining-positive, rod-shaped and non-spore-forming bacterium (2C1-5(T)) was isolated from the activated sludge of an industrial wastewater treatment in Daegu, South Korea. Their taxonomic positions were investigated by using a polyphasic study. On the basis of 16S rRNA gene sequence similarity, the closest phylogenetic relatives were Nocardioides nitrophenolicus (98.6 %), Nocardioides kongjuensis (98.5 %), Nocardioides caeni (98.4 %), Nocardioides simplex (98.3 %), Nocardioides aromaticivorans (98.1 %) and Nocardioides ginsengisoli (97.5 %), and the phylogenetic distance from any other validly published names within the genus Nocardioides was less than 97 %. It was characterized chemotaxonomically as having LL-2,6-diaminopimelic acid in cell-wall peptidoglycan, MK-8(H4) as the predominant menaquinone and iso-C16:0, C16:0, and C17:1ω6c as the major fatty acids. The G+C content of genomic DNA was 74.9 mol %. These chemotaxonomic properties and phenotypic characteristics supported the affiliation of strain 2C1-5(T) to the genus Nocardioides. The results of physiological and biochemical tests allowed genotypic and phenotypic differentiation of strain 2C1-5(T) from the validly published names. Therefore, strain 2C1-5(T) represents a novel species, for which the name Nocardioides daeguensis sp. nov. is proposed, with the type strain 2C1-5(T) (= JCM 17460(T) = KCTC 19799(T) ).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: Lactobacillus delbrueckii subsp. jakobsenii subsp. nov., isolated from dolo wort; an alcoholic fermented beverage in Burkina Faso.

  David B Adimpong, Dennis S Nielsen, Kim I Sørensen, Finn K Vogensen, Hagrétou Sawadogo-Lingani, Patrick M F Derkx, Lene Jespersen
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  ABSTRACT: Lactobacillus delbrueckii is divided into 5 subspecies based on pheno- and genotypic differences. A novel isolate designated as ZN7a-9T was isolated from malted sorghum wort used for making an alcoholic beverage (dolo) in Burkina Faso. The results of 16S rRNA gene sequencing, DNA-DNA hybridization and peptidoglycan cell-wall structure type analyses indicated that it belongs to the L. delbrueckii species. The genome sequence of isolate ZN7a-9T was determined by Illumina-based sequencing. Multilocus sequence typing (MLST) and splits-decomposition analyses were performed on 7 concatenated housekeeping genes obtained from the genome sequence of strain ZN7a-9T together with 41 L. delbrueckii sp. strains reported by Tanigawa and Watanabe (2011). The results of the MLST and splits-decomposition analyses could not establish the exact L. delbrueckii subspecies of strain ZN7a-9T as it clustered with L. delbrueckii sp. strains unassigned to any of the recognised L. delbrueckii subspecies. Strain ZN7a-9T additionally differed from the recognised L. delbrueckii subspecies type strains with respect to its carbohydrate fermentation profile. In conclusion, the cumulative results indicate that strain ZN7a-9T represents a novel L. delbrueckii subspecies closely related to L. delbrueckii subsp. lactis and L. delbrueckii subsp. delbrueckii for which the name Lactobacillus delbrueckii subsp. jakobsenii subsp. nov. is proposed. The type strain is ZN7a-9T = DSM 26046T = LMG 27067T.
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013;
• Article: International Committee on Systematics of Prokaryotes * Subcommittee on the taxonomy of Chlamydiae: Minutes of the closed meeting, 23 February 2011, Ascona, Switzerland.

  Gilbert Greub
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 05/2013; 63(Pt 5):1934-5.
• Article: Tetrapisispora taiwanensis sp. nov., and Tetrapisispora pingtungensis sp. nov. two ascosporogenous yeast species isolated from soil in Taiwan.

  Shan-Fu Chen, Shih Feng Lo, Chin-Feng Chang, Ching-Fu Lee
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  ABSTRACT: Two novel yeast species, Tetrapisispora taiwanensis sp. nov., and Tetrapisispora pingtungensis sp. nov., belonging to Saccharomycetaceae within the Saccharomycetales, are proposed to accommodate six strains isolated from Taiwanese samples of forest soil during 2006 and 2010. Sequence analysis of the internal transcribed spacer (ITS) and the D1/D2 domains of the large subunit (LSU) rRNA gene revealed that the two species are phylogenetically closely related to species of the genus Tetrapisispora. Moreover, the assimilation spectrum of carbon and nitrogen sources and morphological characteristics are very similar to other Tetrapisipora species. The molecular, morphological and physiological characteristics described above indicate these two species should be classified as members of the genus. While, the two species can be distinctly differentiated from each other and other Tetrapisispora species based on their LSU D1/D2 rRNA gene and internal transcribed spacer (ITS) sequences. Thus the two species could be regarded as novel species of the genus Tetrapisispora and the name Tetrapisispora taiwanensis sp. nov. and Terapisipora pintungensis are proposed. The type strains of the two species, SJ6S04 T and NC2S06T were isolated from forest soil in Leinhuatsu Park, Nantou, 2006 and Hungchun, Pingtung, 2009 in Taiwan, respectively. The type strains are T. taiwanensis SJ6S04T (=CBS10586T, =BCRC23090T) and T. pingtungensis NC2S06T (=CBS 12782T =BCRC 23409T).
  INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 04/2013;