scholarly journals Borrelia yangtzensis sp. nov., a rodent-associated species in Asia, is related to Borrelia valaisiana

2015 ◽  
Vol 65 (Pt_11) ◽  
pp. 3836-3840 ◽  
Author(s):  
Gabriele Margos ◽  
Chen-Yi Chu ◽  
Ai Takano ◽  
Bao-Gui Jiang ◽  
Wei Liu ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Related Species ◽  
Type Strain ◽  
Strong Support ◽  
Housekeeping Genes ◽  
Species Status ◽  
Closely Related Species ◽  
Typing System ◽  
China And Japan ◽  
Associated Species

Twenty-nine isolates of Lyme borreliosis (LB) group spirochaetes collected from ticks and rodents in China and Japan were included in a multilocus sequence analysis (MLSA). Using a different typing system, three of these strains had previously been identified as being divergent from other LB spirochaete species and the name ‘Borrelia yangtze’ sp. nov. was proposed. The data presented here confirm that the genetic distance, calculated using sequences of MLSA housekeeping genes, to other known LB group spirochaete species was < 95 % and to Borrelia valaisiana was 96.67 % (which represents the most closely related species within the group of LB spirochaetes). This and the fact that these strains are ecologically distinct from B. valaisiana (rodent-transmitted vs bird-transmitted) provide strong support for the validation of the proposed species status. We suggest the name Borrelia yangtzensis sp. nov. The type strain is Okinawa-CW62T ( = DSM 24625T = JCM 17189T).

scholarly journals A New Borrelia Species Defined by Multilocus Sequence Analysis of Housekeeping Genes

2009 ◽  
Vol 75 (16) ◽  
pp. 5410-5416 ◽  
Author(s):  
Gabriele Margos ◽  
Stephanie A. Vollmer ◽  
Muriel Cornet ◽  
Martine Garnier ◽  
Volker Fingerle ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
Lyme Borreliosis ◽  
Phylogenetic Trees ◽  
Evolutionary History ◽  
Housekeeping Genes ◽  
Multilocus Sequence Analysis ◽  
Species Status ◽  
Borrelia Garinii ◽  
Analysis Scheme ◽  
History Of

ABSTRACT Analysis of Lyme borreliosis (LB) spirochetes, using a novel multilocus sequence analysis scheme, revealed that OspA serotype 4 strains (a rodent-associated ecotype) of Borrelia garinii were sufficiently genetically distinct from bird-associated B. garinii strains to deserve species status. We suggest that OspA serotype 4 strains be raised to species status and named Borrelia bavariensis sp. nov. The rooted phylogenetic trees provide novel insights into the evolutionary history of LB spirochetes.

A clarification of Medicago sinskiae

1991 ◽  
Vol 69 (1) ◽  
pp. 100-106 ◽  
Author(s):  
Ernest Small ◽  
Brenda Brookes
Keyword(s):  
Chromosome Number ◽  
Key Words ◽  
Related Species ◽  
The Other ◽  
Species Status ◽  
Closely Related Species

Little information has been available to justify the species status of the rare Turkmenian Medicago sinskiae Uljan. recognized by Uljanova in 1964. The holotype and plants raised from its seeds were examined, the chromosome number was determined, and a numerical taxonomic comparison was made of M. sinskiae and the other 12 species of Medicago section Spirocarpos subsection Pachyspirae. It was found that M. sinskiae is well separated from the most closely related species of Medicago and deserves recognition at the rank of species. Key words: Medicago sinskiae, Leguminoseae, alfalfa, taxonomy.

scholarly journals The larvae of Chinese Hydropsychidae (Insecta: Trichoptera), Part II: Potamyia chinensis and Cheumatopsyche trifascia

Zootaxa ◽  
2021 ◽  
Vol 4926 (4) ◽  
pp. 547-558
Author(s):  
AO ZHANG ◽  
XIN ZHOU
Keyword(s):  
Dna Markers ◽  
Related Species ◽  
Morphological Characteristics ◽  
Species Boundaries ◽  
Closely Related Species ◽  
Molecular Analyses ◽  
Mitochondrial Coi ◽  
Associated Species

The larvae of Chinese caddisflies Potamyia chinensis and Cheumatopsyche trifascia were successfully associated with identifiable adults using independent DNA markers, mitochondrial COI barcodes and nuclear ribosomal 28S D2 genes. A total of 49 specimens collected in China were employed in the molecular analyses. The two markers were congruent on species boundaries for 11 distinctive haplogroups, while D2 failed in differentiating two closely related species. A brief summary for larval studies of both genera is given, followed by an introduction to the generic morphological characteristics, and detailed morphological descriptions and illustrations for the two successfully associated species. The larva of P. chinensis is re-described here based on Chinese materials, following the previous larval description for P. echigoensis, which was recently synonymized with P. chinensis.

scholarly journals Burkholderia aspalathi sp. nov., isolated from root nodules of the South African legume Aspalathus abietina Thunb

2014 ◽  
Vol 64 (Pt_6) ◽  
pp. 1906-1912 ◽  
Author(s):  
Natasha R. Mavengere ◽  
Allan G. Ellis ◽  
Johannes J. Le Roux
Keyword(s):  
South African ◽  
Type Strain ◽  
Sequence Similarity ◽  
Root Nodules ◽  
Phylogenetic Analyses ◽  
Cape Floristic Region ◽  
Closely Related Species ◽  
Content Type ◽  
Link Type ◽  
Associated Species

During a study to investigate the diversity of rhizobia associated with native legumes in South Africa’s Cape Floristic Region, a Gram-negative bacterium designated VG1CT was isolated from the root nodules of Aspalathus abietina Thunb. Based on phylogenetic analyses of the 16S rRNA and recA genes, VG1CT belongs to the genus Burkholderia , with the highest degree of sequence similarity to the type strain of Burkholderia sediminicola (98.5 % and 98 %, respectively). The DNA G+C content of strain VG1CT was 60.1 mol%, and DNA–DNA relatedness values to the type strain of closely related species were found to be substantially lower than 70 %. As evidenced by results of genotypic, phenotypic and chemotaxonomic tests provided here, we conclude that isolate VG1CT represents a novel rhizosphere-associated species in the genus Burkholderia , for which the name Burkholderia aspalathi sp. nov. is proposed, with the type strain VG1CT ( = DSM 27239T = LMG 27731T).

Sphingomonas yabuuchiae sp. nov. and Brevundimonas nasdae sp. nov., isolated from the Russian space laboratory Mir

2004 ◽  
Vol 54 (3) ◽  
pp. 819-825 ◽  
Author(s):  
Ying Li ◽  
Yoshiaki Kawamura ◽  
Nagatoshi Fujiwara ◽  
Takashi Naka ◽  
Hongsheng Liu ◽  
...  
Keyword(s):  
Sequence Analysis ◽  
16S Rdna ◽  
Related Species ◽  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Biochemical Properties ◽  
Rdna Sequence ◽  
Rrna Gene ◽  
16S Rdna Sequence

On the basis of phenotypic and genotypic characteristics and 16S rRNA gene sequence analysis, novel species belonging to the genera Sphingomonas and Brevundimonas were identified from samples taken from the Russian space laboratory Mir. Strain A1-18T was isolated from the air. 16S rDNA sequence analysis showed that strain A1-18T formed a coherent cluster with Sphingomonas sanguinis, Sphingomonas parapaucimobilis, Sphingomonas paucimobilis and Sphingomonas roseiflava with sequence similarity of 97·5–98·6 %. Similar to other Sphingomonas species, the G+C content was 66·1 mol%, but DNA–DNA hybridization rates at optimal temperatures among these related species were only 24·7–51·7 %. Strain A1-18T can be differentiated biochemically from related species. Strain W1-2BT was isolated from condensation water. It forms a distinct lineage within the genus Brevundimonas, forming a coherent cluster with Brevundimonas vesicularis, Brevundimonas aurantiaca and Brevundimonas intermedia. 16S rDNA sequence similarities were 98·6–99·5 % and the G+C content was 66·5 mol%, similar to other Brevundimonas species, but DNA–DNA relatedness was only 50·2–54·8 %. Strain W1-2BT also showed some differential biochemical properties from its related species. A series of polyphasic taxonomic studies led to the proposal of two novel species, Sphingomonas yabuuchiae sp. nov. (type strain A1-18T=GTC 868T=JCM 11416T=DSM 14562T) and Brevundimonas nasdae sp. nov. (type strain W1-2BT=GTC 1043T=JCM 11415T=DSM 14572T).

scholarly journals Pseudonocardia mongoliensis sp. nov. and Pseudonocardia khuvsgulensis sp. nov., isolated from soil

2011 ◽  
Vol 61 (4) ◽  
pp. 747-756 ◽  
Author(s):  
Ismet Ara ◽  
Baljinova Tsetseg ◽  
Damdinsuren Daram ◽  
Manabu Suto ◽  
Katsuhiko Ando
Keyword(s):  
Related Species ◽  
Type Strain ◽  
Diaminopimelic Acid ◽  
Rrna Gene ◽  
Closely Related Species ◽  
Whole Cell ◽  
Hybridization Data ◽  
Physiological And Biochemical Characteristics ◽  
Phenotypic Tests ◽  
Physiological And Biochemical

Two actinomycetes, designated MN08-A0270T and MN08-A0297T, were isolated from soil from the area around Khuvsgul Lake, Khuvsgul province, Mongolia, and subjected to phenotypic and genotypic characterization. They produced well-developed, branched substrate hyphae and, similar to closely related species of the genus Pseudonocardia, produced zigzag-shaped aerial hyphae by acropetal budding and blastospores. A comparative analysis of 16S rRNA gene sequences indicated that strains MN08-A0270T and MN08-A0297T formed two distinct clades within the genus Pseudonocardia and were respectively most closely related to Pseudonocardia yunnanensis NBRC 15681T (97.3 % similarity) and Pseudonocardia thermophila IMSNU 20112T (97.1 %). Chemotaxonomic characteristics, including cell-wall diaminopimelic acid, whole-cell sugars, fatty acid components and major menaquinones, suggested that the two organisms belonged to the genus Pseudonocardia. Strains MN08-A0270T and MN08-A0297T could be differentiated from each other and from closely related species of the genus Pseudonocardia by physiological and biochemical characteristics, predominant fatty acids, menaquinones and whole-cell sugar components. Combined with the results of a broad range of phenotypic tests and DNA–DNA hybridization data and phylogenetic analysis, these results support the conclusion that these strains represent two novel species of the genus Pseudonocardia, for which we propose the names Pseudonocardia mongoliensis sp. nov. (type strain MN08-A0270T  = NBRC 105885T  = VTCC D9-25T) and Pseudonocardia khuvsgulensis sp. nov. (type strain MN08-A0297T  = NBRC 105886T  = VTCC D9-26T).

scholarly journals Taxonomic evaluation of Streptomyces albus and related species using multilocus sequence analysis and proposals to emend the description of Streptomyces albus and describe Streptomyces pathocidini sp. nov.

2014 ◽  
Vol 64 (Pt_3) ◽  
pp. 894-900 ◽  
Author(s):  
D. P. Labeda ◽  
J. R. Doroghazi ◽  
K.-S. Ju ◽  
W. W. Metcalf
Keyword(s):  
Sequence Analysis ◽  
16S Rrna ◽  
Type Strain ◽  
Type Species ◽  
Housekeeping Genes ◽  
Rrna Gene ◽  
16S Rrna Gene Sequences ◽  
Content Type ◽  
Link Type ◽  
Streptomyces Albus

In phylogenetic analyses of the genus Streptomyces using 16S rRNA gene sequences, Streptomyces albus subsp . albus NRRL B-1811T forms a cluster with five other species having identical or nearly identical 16S rRNA gene sequences. Moreover, the morphological and physiological characteristics of these other species, including Streptomyces almquistii NRRL B-1685T, Streptomyces flocculus NRRL B-2465T, Streptomyces gibsonii NRRL B-1335T and Streptomyces rangoonensis NRRL B-12378T are quite similar. This cluster is of particular taxonomic interest because Streptomyces albus is the type species of the genus Streptomyces . The related strains were subjected to multilocus sequence analysis (MLSA) utilizing partial sequences of the housekeeping genes atpD, gyrB, recA, rpoB and trpB and confirmation of previously reported phenotypic characteristics. The five strains formed a coherent cluster supported by a 100 % bootstrap value in phylogenetic trees generated from sequence alignments prepared by concatenating the sequences of the housekeeping genes, and identical tree topology was observed using various different tree-making algorithms. Moreover, all but one strain, S. flocculus NRRL B-2465T, exhibited identical sequences for all of the five housekeeping gene loci sequenced, but NRRL B-2465T still exhibited an MLSA evolutionary distance of 0.005 from the other strains, a value that is lower than the 0.007 MLSA evolutionary distance threshold proposed for species-level relatedness. These data support a proposal to reclassify S. almquistii , S. flocculus , S. gibsonii and S. rangoonensis as later heterotypic synonyms of S. albus with NRRL B-1811T as the type strain. The MLSA sequence database also demonstrated utility for quickly and conclusively confirming that numerous strains within the ARS Culture Collection had been previously misidentified as subspecies of S. albus and that Streptomyces albus subsp. patho cidicus should be redescribed as a novel species, Streptomyces pathocidini sp. nov., with the type strain NRRL B-24287T.

scholarly journals Veillonella nakazawae sp. nov., an anaerobic Gram-negative coccus isolated from the oral cavity of Japanese children

2020 ◽  
Author(s):  
Izumi Mashima ◽  
Citra F. Theodorea ◽  
Ariadna A. Djais ◽  
Tadao Kunihiro ◽  
Yoshiaki Kawamura ◽  
...  
Keyword(s):  
16S Rrna ◽  
Oral Cavity ◽  
Related Species ◽  
Type Strain ◽  
Type Species ◽  
Japanese Children ◽  
Closely Related Species ◽  
Gram Negative ◽  
Content Type ◽  
Link Type

Two strains of previously unknown Gram-negative cocci, T1-7T and S6-16, were isolated from the oral cavity of healthy Japanese children. The two strains showed atypical phenotypic characteristics of members of the genus Veillonella , including catalase production. Sequencing of their 16S rRNA genes confirmed that they belong to genus Veillonella . Under anaerobic conditions, the two strains produced acetic acid and propionic acid as metabolic end-products in a trypticase–yeast extract–haemin medium containing 1 % (w/v) glucose, 1 % (w/v) fructose and 1 % (v/v) sodium lactate. Comparative analysis of the 16S rRNA, dnaK, rpoB and gltA gene sequences revealed that the two strains are phylogenetically homogeneous and comprise a distinct, novel lineage within the genus Veillonella . The sequences from the two strains shared the highest similarity, at 99.9, 95.8, 96.9 and 96.7 %, using the partial 16S rRNA, dnaK, rpoB and gltA gene sequences, respectively, with the type strains of the two most closely related species, Veillonella dispar ATCC 17748T and Veillonella infantium JCM 31738T. Furthermore, strain T1-7T shared the highest average nucleotide identity (ANI) value (94.06 %) with type strain of the most closely related species, V. infantium . At the same time, strain T1-7T showed the highest digital DNA–DNA hybridization (dDDH) value (55.5 %) with the type strain of V. infantium . The two strains reported in this study were distinguished from the previously reported species from the genus Veillonella based on catalase production, partial dnaK, rpoB and gltA sequences, average ANI and dDDH values. Based on these observations, the two strains represent a novel species, for which the name Veillonella nakazawae sp. nov. is proposed. The type strain is T1-7T (JCM 33966T=CCUG 74597T).

A comparative study of the immature stages of closely related species Cassida pfefferi Sekerka, 2006, Cassida nobilis Linnaeus, 1758 and Cassida vittata Villers, 1789 (Coleoptera: Chrysomelidae: Cassidinae: Cassidini)

Zootaxa ◽  
2021 ◽  
Vol 4942 (4) ◽  
pp. 451-500
Author(s):  
JOLANTA ŚWIĘTOJAŃSKA ◽  
EWA BELCZYK
Keyword(s):  
Comparative Study ◽  
Related Species ◽  
Immature Stages ◽  
Body Structure ◽  
Species Status ◽  
Closely Related Species ◽  
Preimaginal Stages ◽  
First Time

Immature stages of Cassida pfefferi Sekerka, 2006 from Cyprus are described and illustrated for the first time and compared with immatures of closely related species Cassida nobilis Linnaeus, 1758 and Cassida vittata Villers, 1789. Detailed descriptions of mature larvae and pupae of C. nobilis and C. vittata are also given. Analysis of the morphological body structure of the preimaginal stages of the studied species reveals subtle characters distinguishing C. pfefferi from other species of C. nobilis groups and confirms its species status. 

scholarly journals Definition of Plant-Pathogenic Pseudomonas Genomospecies of the Pseudomonas syringae Complex Through Multiple Comparative Approaches

2014 ◽  
Vol 104 (12) ◽  
pp. 1274-1282 ◽  
Author(s):  
Simone Marcelletti ◽  
Marco Scortichini
Keyword(s):  
Pseudomonas Syringae ◽  
Related Species ◽  
Housekeeping Genes ◽  
Bacterial Strains ◽  
Closely Related Species ◽  
Network Analyses ◽  
Taxonomic Relationships ◽  
Pseudomonas Species ◽  
Definition Of ◽  
Phenotypic Tests

A total of 34 phytopathogenic strain genomes belonging to the Pseudomonas syringae species complex and related species, including many pathotype strains, were assessed using average nucleotide identity (ANI) analysis. Their taxonomic relationships were consistently confirmed by the tetranucleotide frequency correlation coefficient (TETRA) values, multilocus sequence typing analysis (MLSA) performed with seven housekeeping genes, using both maximum likelihood and Bayesian methods, and split consensus network analyses. The ANI, MLSA, and split consensus analyses provided consistent and identical results. We confirmed the occurrence of the well-demarcated genomospecies inferred sensu Gardan et al. using DNA-DNA hybridization and ribotyping analyses. However, some P. syringae strains of the pathovars morsprunorum and lachrymans were placed in different genomospecies in our analyses. Genomospecies 1, 2, 4, 6, and 9 resulted well demarcated, whereas strains of genomospecies 3 and 8 had ANI values between 95 and 96% in some cases, confirming that this threshold reveals very closely related species that might represent cases of splitting entities or the convergence of different species to the same ecological niche. This study confirms the robustness of the combination of genomic and phylogenetic approaches in revealing taxonomic relationships among closely related bacterial strains and provides the basis for a further reliable demarcation of the phytopathogenic Pseudomonas species. Within each species, the pathovars might represent distinct ecological units. The possibility of performing extensive and standardized host range and phenotypic tests with many strains of different pathovars can assist phytobacteriologists for better determining the boundaries of these ecological units.

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