Descriptions of Actinoplanes ianthinogenes nom. rev. and Actinoplanes octamycinicus corrig. comb. nov., nom. rev.

2011 ◽  
Vol 61 (12) ◽  
pp. 2916-2921 ◽  
Author(s):  
Tomohiko Tamura ◽  
Yuumi Ishida ◽  
Ken-ichiro Suzuki
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Sequencing Data ◽  
Separate Species ◽  
Hybridization Data ◽  
The Family ◽  
The Status ◽  
Rrna Gene Sequencing

Phylogenetic analysis of ‘Actinoplanes ianthinogenes’ Coronelli et al. 1974 and ‘Actinoplanes ianthinogenes subsp. octamycini’ Gauze et al. 1979 based on 16S rRNA gene sequencing data revealed that these organisms form a clade in the family Micromonosporaceae. Morphological and chemotaxonomic characteristics of strains of these species were consistent with those of members of the genus Actinoplanes. Morphological, DNA–DNA hybridization, physiological, biochemical and chemotaxonomic data showed that ‘A. ianthinogenes’ and ‘A. ianthinogenes subsp. octamycini’ can be easily differentiated from each other and that they merit separate species status. On the basis of morphological, physiological, biochemical, chemotaxonomic and DNA–DNA hybridization data, it is concluded that ‘A. ianthinogenes’ and ‘A. ianthinogenes subsp. octamycini’ should be assigned the status of two novel species: Actinoplanes ianthinogenes nom. rev. (type strain NBRC 13996T = A/1668T = ATCC 21884T = BCRC 13611T = DSM 43864T = IMSNU 20032T = JCM 3249T = KCTC 9347T = KCTC 9592T = NCIMB 12639T = NRRL B-16720T) and Actinoplanes octamycinicus corrig. comb. nov., nom. rev. (type strain NBRC 14524T = INA 4041T = ATCC 43632T = JCM 9649T = KCTC 9593T), respectively.

scholarly journals Fontibacillus panacisegetis sp. nov., isolated from soil of a ginseng field

2011 ◽  
Vol 61 (2) ◽  
pp. 369-374 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Mi Kyung Eom ◽  
Mi Jeong Kim ◽  
Jung-Sook Lee
Keyword(s):  
Dna Hybridization ◽  
Novel Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Major Fatty Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Hybridization Data ◽  
The Family ◽  
Rrna Gene Sequencing

A facultatively anaerobic, endospore-forming bacterium, designated strain P11-6T, was isolated from soil of a ginseng field located in Geumsan County, Republic of Korea. Cells of strain P11-6T were Gram-stain-negative, catalase-negative, motile rods and produced semi-translucent, circular, white colonies on tryptic soy agar. The isolate contained MK-7 as the only menaquinone and anteiso-C15 : 0 as the major fatty acid. Diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, an unknown aminophosphoglycolipid, an unknown aminophospholipid, two unknown phospholipids, three unknown glycolipids and three unknown lipids were detected in the polar lipid profile. The DNA G+C content of strain P11-6T was 41.9 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain P11-6T was most closely related to Fontibacillus aquaticus GPTSA 19T (97.2 % sequence similarity) and that it formed a separate lineage with F. aquaticus in the family Paenibacillaceae. Combined phenotypic and DNA–DNA hybridization data supported the conclusion that strain P11-6T represents a novel species in the genus Fontibacillus, for which the name Fontibacillus panacisegetis sp. nov. is proposed; the type strain is P11-6T (=KCTC 13564T =CECT 7605T).

scholarly journals Halomonas stevensii sp. nov., Halomonas hamiltonii sp. nov. and Halomonas johnsoniae sp. nov., isolated from a renal care centre

2010 ◽  
Vol 60 (2) ◽  
pp. 369-377 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
Hee-Mock Oh ◽  
Jung-Sook Lee
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Care Centre ◽  
Hybridization Data ◽  
Rrna Gene Sequencing

A total of 14 Halomonas strains were isolated from the blood of two patients and from dialysis machines of a renal care centre. The strains were Gram-negative, halophilic, motile and non-spore-forming rods. They produced cream-coloured colonies and contained Q-9 as the predominant ubiquinone and C18 : 1 ω7c and C16 : 0 as the major fatty acids. Phylogenetic analysis based on 16S rRNA gene sequencing showed that the 14 isolates were most closely related to Halomonas magadiensis 21 MIT with 98.1–98.9 % sequence similarity and that they formed three separate lineages among themselves. Combined phenotypic and DNA–DNA hybridization data support the conclusion that they represent three novel species of the genus Halomonas, for which the names Halomonas stevensii sp. nov. (type strain S18214T=KCTC 22148T=DSM 21198T), Halomonas hamiltonii sp. nov. (type strain W1025T=KCTC 22154T=DSM 21196T) and Halomonas johnsoniae sp. nov. (type strain T68687T=KCTC 22157T=DSM 21197T) are proposed.

scholarly journals Leuconostoc durionis sp. nov., a heterofermenter with no detectable gas production from glucose

2005 ◽  
Vol 55 (3) ◽  
pp. 1267-1270 ◽  
Author(s):  
J. J. Leisner ◽  
M. Vancanneyt ◽  
R. Van der Meulen ◽  
K. Lefebvre ◽  
K. Engelbeen ◽  
...  
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Gas Production ◽  
Rrna Gene ◽  
Nearest Neighbour ◽  
Sds Page ◽  
Rrna Gene Sequencing

Three lactic acid bacterial (LAB) strains obtained from a Malaysian acid-fermented condiment, tempoyak (made from pulp of the durian fruit), showed analogous but distinct patterns after screening by SDS-PAGE of whole-cell proteins and comparison with profiles of all recognized LAB species. 16S rRNA gene sequencing of one representative strain showed that the taxon belongs phylogenetically to the genus Leuconostoc, with its nearest neighbour being Leuconostoc fructosum (98 % sequence similarity). Biochemical characteristics and DNA–DNA hybridization experiments demonstrated that the strains differ from Leuconostoc fructosum and represent a single, novel Leuconostoc species for which the name Leuconostoc durionis sp. nov. is proposed. The type strain is LMG 22556T (=LAB 1679T=D-24T=CCUG 49949T).

scholarly journals Multilocus sequence analysis of the genus Citrobacter and description of Citrobacter pasteurii sp. nov.

2015 ◽  
Vol 65 (Pt_5) ◽  
pp. 1486-1490 ◽  
Author(s):  
Dominique Clermont ◽  
Laurence Motreff ◽  
Virginie Passet ◽  
José-Carlos Fernandez ◽  
Chantal Bizet ◽  
...  
Keyword(s):  
Type Species ◽  
16S Rrna Gene Sequencing ◽  
Housekeeping Genes ◽  
Rrna Gene ◽  
Biochemical Tests ◽  
Separate Species ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Rrna Gene Sequencing

Strains originating from various sources and classified as members of the genus Citrobacter within the family Enterobacteriaceae were characterized by sequencing internal portions of genes rpoB, fusA, pyrG and leuS, 16S rRNA gene sequencing, average nucleotide identity (ANI) of genomic sequences and biochemical tests. Phylogenetic analysis based on the four housekeeping genes showed that the 11 species of the genus Citrobacter with validly published names are well demarcated. Strains CIP 55.13T and CIP 55.9 formed a distinct branch associated with Citrobacter youngae . The ANI between CIP 55.9 and CIP 55.13T was 99.19 %, whereas it was 94.75 % between CIP 55.13T and strain CIP 105016T of the species C. youngae , the most closely related species. Biochemical characteristics consolidated the fact that the two isolates represent a separate species, for which the name Citrobacter pasteurii sp. nov. is proposed. The type strain is CIP 55.13T ( = DSM 28879T = Na 1aT).

scholarly journals Transfer of Pantoea citrea, Pantoea punctata and Pantoea terrea to the genus Tatumella emend. as Tatumella citrea comb. nov., Tatumella punctata comb. nov. and Tatumella terrea comb. nov. and description of Tatumella morbirosei sp. nov.

2010 ◽  
Vol 60 (3) ◽  
pp. 484-494 ◽  
Author(s):  
Carrie L. Brady ◽  
Stephanus N. Venter ◽  
Ilse Cleenwerck ◽  
Katrien Vandemeulebroecke ◽  
Paul De Vos ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Dna Hybridization ◽  
Type Strain ◽  
Branch Length ◽  
Rrna Gene ◽  
Phylogenetic Distance ◽  
Japanese Species ◽  
Separate Species ◽  
Hybridization Data ◽  
Phenotypic Tests

Pantoea citrea, Pantoea punctata and Pantoea terrea were described for strains isolated from fruit and soil originating in Japan. These three ‘Japanese’ species have been shown to be phylogenetically distant from other species of the genus Pantoea. It has been observed previously that, using multilocus sequence analysis (MLSA), the ‘Japanese’ species consistently formed a distinct clade with an extended branch length, casting doubt on the inclusion of these species within the genus Pantoea. Furthermore, the ‘Japanese’ species are closely related to Tatumella ptyseos, strains of which originate from human clinical specimens. DNA–DNA hybridization and phenotypic tests confirmed the observed phylogenetic distance of P. citrea, P. punctata and P. terrea from the genus Pantoea and the affiliation of these species with Tatumella. In addition, strains causing pink disease of pineapple, identified previously as P. citrea, were shown to represent a separate species by using 16S rRNA gene sequence analysis, and MLSA and DNA–DNA hybridization data. The name Tatumella morbirosei sp. nov. with the type strain LMG 23360T (=BD 878T=NCPPB 4036T=CMC6T) is proposed to accommodate these strains. The new combinations Tatumella citrea (Kageyama et al. 1992) comb. nov. (type strain, SHS 2003T=ATCC 31623T=BD 875T=CCUG 30156T=CIP 105599T=DSM 13699T=JCM 8882T=LMG 22049T), Tatumella punctata (Kageyama et al. 1992) comb. nov. (type strain, SHS 2006T=ATCC 31626T=BD 876T=CCUG 30159T=CIP 105598T=DSM 13700T=JCM 8885T=LMG 22050T) and Tatumella terrea (Kageyama et al. 1992) comb. nov. (type strain, SHS 2008T=ATCC 31628T=BD 877T=CCUG 30161T=CIP 105600T=DSM 13701T=JCM 8887T=LMG 22051T) are proposed for P. citrea, P. punctata and P. terrea, respectively.

scholarly journals Emended description of the genus Pantoea, description of four species from human clinical samples, Pantoea septica sp. nov., Pantoea eucrina sp. nov., Pantoea brenneri sp. nov. and Pantoea conspicua sp. nov., and transfer of Pectobacterium cypripedii (Hori 1911) Brenner et al. 1973 emend. Hauben et al. 1998 to the genus as Pantoea cypripedii comb. nov.

2010 ◽  
Vol 60 (10) ◽  
pp. 2430-2440 ◽  
Author(s):  
Carrie L. Brady ◽  
Ilse Cleenwerck ◽  
Stephanus N. Venter ◽  
Katrien Engelbeen ◽  
Paul De Vos ◽  
...  
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Dna Hybridization ◽  
Type Strain ◽  
16S Rrna Gene Sequencing ◽  
Clinical Samples ◽  
Rrna Gene ◽  
Enterobacter Agglomerans ◽  
Bacterial Strains ◽  
Separate Species

Bacterial strains belonging to DNA hybridization groups (HG) II, IV and V, in the Erwinia herbicola–Enterobacter agglomerans complex, of Brenner et al. [Int J Syst Bacteriol 34 (1984), 45–55] were suggested previously to belong to the genus Pantoea, but have never been formally described and classified. Additionally, it has been shown in several studies that Pectobacterium cypripedii is more closely related to species of Pantoea than to those of Pectobacterium. In this study, the phylogenetic positions of Brenner's DNA HG II, IV and V and Pectobacterium cypripedii were re-examined by both 16S rRNA gene sequencing and multilocus sequence analyses (MLSA) based on the gyrB, rpoB, atpD and infB genes. The analyses revealed that DNA HG II, IV and V and Pectobacterium cypripedii form five separate branches within the genus Pantoea (strains from HG V were split into two branches). DNA–DNA hybridization data further confirmed that DNA HG II, IV and V constitute four separate species. Pectobacterium cypripedii was shown to be a close phylogenetic relative of Pantoea dispersa and DNA HG IV by both 16S rRNA gene sequence and MLSA analyses. Biochemical analyses performed on strains from DNA HG II, IV and V and Pectobacterium cypripedii confirmed their taxonomic position within the genus Pantoea and revealed phenotypic characteristics that allow the differentiation of these species from each other and from their closest phylogenetic neighbours. It is proposed to emend the description of the genus Pantoea and to describe Pantoea septica sp. nov. for DNA HG II (type strain LMG 5345T =BD 874T =CDC 3123-70T), Pantoea eucrina sp. nov. for DNA HG IV (type strain LMG 2781T =BD 872T =CDC 1741-71T =LMG 5346T), Pantoea brenneri sp. nov. for strains of DNA HG V excluding LMG 24534 (type strain LMG 5343T =BD 873T =CDC 3482-71T) and Pantoea conspicua sp. nov. for the remaining strain of DNA HG V (type strain LMG 24534T =BD 805T =CDC 3527-71T) and to transfer Pectobacterium cypripedii to the genus as Pantoea cypripedii comb. nov. (type strain LMG 2657T =ATCC 29267T =DSM 3873T =LMG 2655T).

scholarly journals Patulibacter ginsengiterrae sp. nov., isolated from soil of a ginseng field, and an emended description of the genus Patulibacter

2012 ◽  
Vol 62 (Pt_3) ◽  
pp. 563-568 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Keun Chul Lee ◽  
Jung-Sook Lee
Keyword(s):  
Cell Wall ◽  
Dna Hybridization ◽  
16S Rrna Gene Sequencing ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Polar Lipid Profile ◽  
Hybridization Data ◽  
Emended Description ◽  
Diamino Acid ◽  
Rrna Gene Sequencing

A novel actinobacterial strain, designated P4-5T, was isolated from soil of a ginseng field located in Geumsan County, Republic of Korea. Cells of strain P4-5T were Gram-stain-positive, oxidase- and catalase-positive, motile, short rods and the strain produced creamy white colonies on trypticase soy agar. The isolate contained demethylmenaquinone 7 (DMK-7) as the predominant isoprenoid quinone, C18 : 1ω9c and anteiso-C15 : 0 as major fatty acids, diphosphatidylglycerol, phosphatidylglycerol and several unknown lipids in the polar lipid profile, galactose, glucose, mannose, arabinose, xylose (trace) and rhamnose as cell-wall sugars, and meso-diaminopimelic acid as the diagnostic diamino acid in the cell-wall peptidoglycan. The DNA G+C content of strain P4-5T was 74.6 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain P4-5T was related most closely to Patulibacter minatonensis KV-614T and Patulibacter americanus CP177-2T (98.4 and 98.2 % similarity, respectively) and that it formed a separate lineage in the genus Patulibacter. Combined phenotypic and DNA–DNA hybridization data supported the conclusion that strain P4-5T represents a novel species of the genus Patulibacter, for which the name Patulibacter ginsengiterrae sp. nov. is proposed. The type strain is P4-5T ( = KCTC 19427T  = CECT 7603T). An emended description of the genus Patulibacter is also provided.

scholarly journals Halomonas gomseomensis sp. nov., Halomonas janggokensis sp. nov., Halomonas salaria sp. nov. and Halomonas denitrificans sp. nov., moderately halophilic bacteria isolated from saline water

2007 ◽  
Vol 57 (4) ◽  
pp. 675-681 ◽  
Author(s):  
Kwang Kyu Kim ◽  
Long Jin ◽  
Hee Chan Yang ◽  
Sung-Taik Lee
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Saline Water ◽  
Halophilic Bacteria ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Phenotypic Data ◽  
Moderately Halophilic ◽  
Hybridization Data ◽  
Rrna Gene Sequencing

A total of 34 Halomonas strains were isolated from saline water in Anmyeondo, Korea. Ten of these strains, considered to belong to novel species, were subjected to a polyphasic taxonomic investigation. The strains were Gram-negative, moderately halophilic, motile and non-spore-forming rods that contained Q-9 as the predominant ubiquinone and C18 : 1 ω7c, C16 : 0 and either summed feature 4 (C16 : 1 ω7c/C15 : 0 iso 2-OH) or C19 : 0 cyclo ω8c as the major fatty acids. Phylogenetic analysis, based on 16S rRNA gene sequencing, showed that the ten isolates formed four separate lineages in the genus Halomonas. Combined phenotypic data and DNA–DNA hybridization data supported the conclusion that they represent four novel species in the genus Halomonas, for which the names Halomonas gomseomensis sp. nov. (type strain M12T=KCTC 12662T=DSM 18042T), Halomonas janggokensis sp. nov. (type strain M24T=KCTC 12663T=DSM 18043T), Halomonas salaria sp. nov. (type strain M27T=KCTC 12664T=DSM 18044T) and Halomonas denitrificans sp. nov. (type strain M29T=KCTC 12665T=DSM 18045T) are proposed.

scholarly journals Lachnoanaerobaculum gen. nov., a new genus in the Lachnospiraceae : characterization of Lachnoanaerobaculum umeaense gen. nov., sp. nov., isolated from the human small intestine, and Lachnoanaerobaculum orale sp. nov., isolated from saliva, and reclassification of Eubacterium saburreum (Prévot 1966) Holdeman and Moore 1970 as Lachnoanaerobaculum saburreum comb. nov.

2012 ◽  
Vol 62 (Pt_11) ◽  
pp. 2685-2690 ◽  
Author(s):  
Maria E. Hedberg ◽  
Edward R. B. Moore ◽  
Liselott Svensson-Stadler ◽  
Per Hörstedt ◽  
Vladimir Baranov ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
New Genus ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Rrna Gene Sequencing

Two novel obligately anaerobic, Gram-stain-positive, saccharolytic and non-proteolytic spore-forming bacilli (strains CD3 : 22T and N1T) are described. Strain CD3 : 22T was isolated from a biopsy of the small intestine of a child with coeliac disease, and strain N1T from the saliva of a healthy young man. The cells of both strains were observed to be filamentous, approximately 5 to >20 µm long, some of them curving and with swellings. The novel organisms produced H2S, NH3, butyric acid and acetic acid as major metabolic end products. Phylogenetic analyses, based on comparative 16S rRNA gene sequencing, revealed close relationships (98 % sequence similarity) between the two isolates, as well as the type strain of Eubacterium saburreum and four other Lachnospiraceae bacterium-/ E. saburreum -like organisms. This group of bacteria were clearly different from any of the 19 known genera in the family Lachnospiraceae . While Eubacterium species are reported to be non-spore-forming, reanalysis of E. saburreum CCUG 28089T confirmed that the bacterium is indeed able to form spores. Based on 16S rRNA gene sequencing, phenotypic and biochemical properties, strains CD3 : 22T and N1T represent novel species of a new and distinct genus, named Lachnoanaerobaculum gen. nov., in the family Lachnospiraceae [within the order Clostridiales , class Clostridia , phylum Firmicutes ]. Strain CD3 : 22T ( = CCUG 58757T  = DSM 23576T) is the type strain of the type species, Lachnoanaerobaculum umeaense gen. nov., sp. nov., of the proposed new genus. Strain N1T ( = CCUG 60305T = DSM 24553T) is the type strain of Lachnoanaerobaculum orale sp. nov. Moreover, Eubacterium saburreum is reclassified as Lachnoanaerobaculum saburreum comb. nov. (type strain CCUG 28089T  = ATCC 33271T  = CIP 105341T  = DSM 3986T  = JCM 11021T  = VPI 11763T).

scholarly journals Streptosporangium yunnanense sp. nov. and Streptosporangium purpuratum sp. nov., from soil in China

2005 ◽  
Vol 55 (2) ◽  
pp. 719-724 ◽  
Author(s):  
Li-Ping Zhang ◽  
Cheng-Lin Jiang ◽  
Wen-Xin Chen
Keyword(s):  
Dna Hybridization ◽  
Type Strain ◽  
Yunnan Province ◽  
Novel Species ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Physiological Properties ◽  
Rrna Gene Sequencing ◽  
Physiological And Biochemical

Two strains of Streptosporangium were isolated from Yunnan Province, a region of China with specific geographical conditions that contribute to its great microbiological diversity. They were identified using a polyphasic approach employing phenotypic, genotypic and phylogenetic techniques, such as study of morphological and physiological properties, cell chemistry, G+C content of the genomic DNA, DNA–DNA hybridization and phylogenetic analysis. The strains belong to two novel species of Streptosporangium on the basis of 16S rRNA gene sequencing. The results of morphological, physiological and biochemical investigations and DNA–DNA hybridization indicated that the two strains are different from known members of the genus Streptosporangium. The names Streptosporangium yunnanense sp. nov. (type strain CY-11007T=CCTCC AA 97009T=CCRC 16307T=DSM 44663T) and Streptosporangium purpuratum sp. nov. (type strain CY-15110T=CCTCC AA 97010T=CCRC 16308T=DSM 44688T) are proposed. They have been deposited in CCTCC in Wuhan.

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