scholarly journals Vibrio ostreicida sp. nov., a new pathogen of bivalve larvae

2014 ◽  
Vol 64 (Pt_5) ◽  
pp. 1641-1646 ◽  
Author(s):  
Susana Prado ◽  
Javier Dubert ◽  
Jesús L. Romalde ◽  
Alicia E. Toranzo ◽  
Juan L. Barja
Keyword(s):  
Novel Species ◽  
16S Rrna Gene Sequencing ◽  
Housekeeping Genes ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Oyster Spat ◽  
Content Type ◽  
Link Type ◽  
Bivalve Larvae ◽  
Rrna Gene Sequencing

The taxonomic position of the bivalve pathogen PP-203T was studied together with those of two similar isolates (PP-200 and PP-204). The bacterial strains were isolated from samples of young oyster spat in a bivalve hatchery in Galicia (NW Spain), which was continually affected by outbreaks of disease and severe mortalities. On the basis of 16S rRNA gene sequencing, the three strains formed a cluster within the genus Vibrio and were most closely related to Vibrio pectenicida DSM 19585T (97.9 % similarity). Additional multilocus sequence analysis, including sequences of the housekeeping genes rpoA, recA, pyrH, gyrB and ftsZ, and DNA–DNA hybridization experiments indicated that the strains were distinct from currently known species of the genus Vibrio and confirmed the clustering of the three isolates. Several phenotypic features, such as growth in TCBS medium and nitrate reduction, proved useful for distinguishing the proposed novel species from its closest relatives. The findings support the description of a novel species to include the three isolates, for which the name Vibrio ostreicida sp. nov. (type strain PP-203T = CECT 7398T = DSM 21433T) is proposed.

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).

Lactococcus taiwanensis sp. nov., a lactic acid bacterium isolated from fresh cummingcordia

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2405-2409 ◽  
Author(s):  
Yi-sheng Chen ◽  
Chi-huan Chang ◽  
Shwu-fen Pan ◽  
Li-ting Wang ◽  
Yu-chung Chang ◽  
...  
Keyword(s):  
Lactococcus Lactis ◽  
Type Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Housekeeping Genes ◽  
Fermented Food ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Rrna Gene Sequencing

One coccal strain, designated 0905C15T, was isolated from fresh cummingcordia, which is the main ingredient of pobuzihi (fermented cummingcordia), a traditional fermented food in Taiwan. 16S rRNA gene sequencing results showed that strain 0905C15T had 98.22–98.82 % sequence similarity to that of the type strains of four Lactococcus lactis subspecies ( L. lactis subsp. lactis BCRC 12312T, L. lactis subsp. cremoris BCRC 12586T, L. lactis subsp. hordniae BCRC 80474T and L. lactis subsp. tructae BCRC 80475T). Comparison of two housekeeping genes, recA and rpoB, revealed that strain 0905C15T was well separated from the reference strains of the genus Lactococcus . DNA–DNA hybridization studies indicated that strain 0905C15T had low DNA relatedness to the four Lactococcus lactis subspecies (9.7–15.24 %). The DNA G+C content of strain 0905C15T was 39.6 mol %. Based on the evidence, strain 0905C15T represents a novel species of the genus Lactococcus , for which the name Lactococcus taiwanensis sp. nov. is proposed. The type strain is 0905C15T ( = NBRC 109049T = BCRC 80460T).

scholarly journals Mucilaginibacter gotjawali sp. nov., isolated from soil of a lava forest

2015 ◽  
Vol 65 (Pt_3) ◽  
pp. 952-958 ◽  
Author(s):  
Keun Chul Lee ◽  
Kwang Kyu Kim ◽  
Mi Kyung Eom ◽  
Jong-Shik Kim ◽  
Dae-Shin Kim ◽  
...  
Keyword(s):  
Type Strain ◽  
Novel Species ◽  
Sequence Similarity ◽  
Gene Sequencing ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Gram Stain ◽  
Content Type ◽  
Link Type ◽  
Rrna Gene Sequencing

A novel bacterial strain, designated SA3-7T, was isolated from soil of a lava forest located in Jeju, Republic of Korea. Cells of strain SA3-7T were Gram-stain-negative, oxidase- and catalase-positive, non-motile rods and produced creamy white colonies on ten-fold-diluted R2A agar. The isolate contained menaquinone-7 (MK-7) as the predominant isoprenoid quinone and summed feature 3 (C16 : 1ω7c/C16 : 1ω6c), iso-C15 : 0 and iso-C17 : 0 3-OH as the major fatty acids. The DNA G+C content was 43.1 mol%. Phylogenetic analysis based on 16S rRNA gene sequencing showed that strain SA3-7T was related most closely to Mucilaginibacter frigoritolerans FT22T (96.7 % sequence similarity) and that it formed a separate lineage in the genus Mucilaginibacter . Combined phenotypic, chemotaxonomic and phylogenetic characteristics supported the conclusion that strain SA3-7T represents a novel species of the genus Mucilaginibacter , for which the name Mucilaginibacter gotjawali sp. nov. is proposed; the type strain is SA3-7T ( = KCTC 32515T = CECT 8628T = DSM 29289T).

Vibrio caribbeanicus sp. nov., isolated from the marine sponge Scleritoderma cyanea

2012 ◽  
Vol 62 (Pt_8) ◽  
pp. 1736-1743 ◽  
Author(s):  
Maria Hoffmann ◽  
Steven R. Monday ◽  
Marc W. Allard ◽  
Errol A. Strain ◽  
Paul Whittaker ◽  
...  
Keyword(s):  
Marine Sponge ◽  
Type Species ◽  
Novel Species ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
The Novel ◽  
Biochemical Tests ◽  
Content Type ◽  
Link Type ◽  
Rrna Gene Sequencing

A Gram-negative, oxidase-positive, catalase-negative, facultatively anaerobic, motile, curved rod-shaped bacterium, strain N384T, was isolated from a marine sponge (Scleritoderma cyanea; phylum Porifera) collected from a depth of 795 feet (242 m) off the west coast of Curaçao. On the basis of 16S rRNA gene sequencing, strain N384T was shown to belong to the genus Vibrio , most closely related to Vibrio brasiliensis LMG 20546T (98.8 % similarity), Vibrio nigripulchritudo ATCC 27043T (98.5 %), Vibrio tubiashii ATCC 19109T (98.6 %) and V. sinaloensis DSM 21326T (98.2 %). The DNA G+C content of strain N384T was 41.6 mol%. An analysis of concatenated sequences of five genes (gyrB, rpoA, pyrH, mreB and ftsZ; 4068 bp) demonstrated a clear separation between strain N384T and its closest neighbours and clustered strain N384T into the ‘Orientalis’ clade of vibrios. Phenotypically, the novel species belonged to the arginine dihydrolase-positive, lysine decarboxylase- and ornithine decarboxylase-negative (A+/L−/O−) cluster. The novel species was also differentiated on the basis of fatty acid composition, specifically that the proportions of iso-C13 : 0, iso-C15 : 0, C15 : 0, iso-C16 : 0, C16 : 0, iso-C17 : 0, C17 : 1ω8c and C17 : 0 were significantly different from those found in V. brasiliensis and V. sinaloensis . The results of DNA–DNA hybridization, average nucleotide identity and physiological and biochemical tests further allowed differentiation of this strain from other described species of the genus Vibrio . Collectively, these findings confirm that strain N384T represents a novel Vibrio species, for which the name Vibrio caribbeanicus sp. nov. is proposed, with the type strain N384T ( = ATCC BAA-2122T = DSM 23640T).

Vibrio ulleungensis sp. nov., isolated from Mytilus coruscus

2021 ◽  
Vol 71 (12) ◽  
Author(s):  
Yea-Lin Moon ◽  
Jin-Sook Park
Keyword(s):  
Type Species ◽  
Novel Species ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Mytilus Coruscus ◽  
Link Type ◽  
Light Yellow ◽  
Rrna Gene Sequencing

A Gram-stain-negative, rod-shaped, motile via polar flagellum, facultatively aerobic, light-yellow, bacterium (designated 188UL20-2T) was isolated from a mussel sample of Mytilus coruscus collected on Ulleung Island, Ulleung-gun, Gyeongsangbuk-do, Republic of Korea. On the basis of 16S rRNA gene sequencing results, strain 188UL20-2T clustered with species of the genus Vibrio and appeared closely related to Vibrio marisflavi DSM 23086T (96.59%), Vibrio variabilis DSM 26147T (96.57%), Vibrio penaeicida DSM 14398T (96.37%) and Vibrio litoralis DSM 17657T (95.97%). The average nucleotide identity and digital DNA–DNA hybridization values between strain 188UL20-2T and its closest related strain were 71.3 and 16.4%, indicating that 188UL20-2T represents a novel species of the genus Vibrio . Growth occurred at 18–37 °C on MA medium in the presence of 1–4% NaCl (w/v) and at pH 5.0–10.0. The DNA G+C content of the genomic DNA was 45.4 mol%, and ubiquinone-8 (Q-8) was the major respiratory quinone. The major cellular fatty acids (>5%) were C16:1 ω6c and/or C16:1 ω7c (summed feature 3), C18:1 ω7c and/or C18:1 ω6c (summed feature 8), C16:0, C16:0 iso, C14:0, C14:0 iso and C12:0. The polar lipids consisted of phosphatidylglycerol, phosphatidylethanolamine, two unidentified phospholipids, unidentified aminophospholipid, unidentified glycolipid and seven unidentified lipids. Physiological and biochemical characteristics indicated that strain 188UL20-2T represents a novel species of the genus Vibrio , for which the name Vibrio ulleungensis sp. nov. is proposed. The type strain is 188UL20-2T (=KACC 22258T=LMG 32202T).

Streptococcus tigurinus sp. nov., isolated from blood of patients with endocarditis, meningitis and spondylodiscitis

2012 ◽  
Vol 62 (Pt_12) ◽  
pp. 2941-2945 ◽  
Author(s):  
Andrea Zbinden ◽  
Nicolas J. Mueller ◽  
Philip E. Tarr ◽  
Cathrin Spröer ◽  
Peter M. Keller ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Viridans Streptococci ◽  
Content Type ◽  
Link Type ◽  
Sequencing Studies ◽  
Rrna Gene Sequencing

Four Gram-stain-positive, catalase-negative, coccus-shaped bacterial strains were isolated from multiple blood cultures of patients with endocarditis, meningitis and spondylodiscitis. The isolates were tentatively identified as viridans streptococci on the basis of phenotypic characteristics. Comparative 16S rRNA gene sequencing studies showed that the organisms were members of the Streptococcus mitis group but did not correspond to any recognized species. The nearest phylogenetic relative was S. mitis ATCC 49456T, with 98.6 % sequence similarity. The representative strain AZ_3aT showed less than 96.8, 97.6, 94.5 and 95.5 % similarity to the phylogenetically most closely related species by recA, rpoB, sodA and groEL gene sequence analysis, respectively. DNA–DNA hybridization analyses showed a low reassociation value of 32.2 % between strain AZ_3aT and S. mitis DSM 12643T. Reassociation values with members of other S. mitis group species ranged from 27.3 to 49.7 %. The G+C content of the DNA was 40.0 mol%. Based on our biochemical and molecular analyses, the isolates represent a novel species, for which the name Streptococcus tigurinus sp. nov. is proposed. The type strain is AZ_3aT ( = CCOS 600T  = DSM 24864T).

scholarly journals Pseudogulbenkiania gefcensis sp. nov., isolated from soil

2013 ◽  
Vol 63 (Pt_1) ◽  
pp. 187-191 ◽  
Author(s):  
Dong-Geol Lee ◽  
Dong-Moon Im ◽  
HeeCheol Kang ◽  
Pyeong Yun ◽  
Sun-Ki Park ◽  
...  
Keyword(s):  
Type Species ◽  
Novel Species ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Sequencing Studies ◽  
Major Respiratory Quinone ◽  
Rrna Gene Sequencing

A novel strain, yH16, was isolated on nutrient agar from soil samples collected at KyungHee University, Suwon City, Republic of Korea. Cells of strain yH16T were short rods, Gram-negative-staining, motile and non-spore-forming, with a polar flagellum. Biochemical and molecular characterization revealed that this strain was most similar to Pseudogulbenkiania subflava BP-5T. Further 16S rRNA gene sequencing studies revealed that the new strain clustered with Pseudogulbenkiania subflava BP-5T (95.9 % similarity), Paludibacterium yongneupense 5YN8-15T (95.2 % similarity), Gulbenkiania mobilis E4FC31-5T (94.6 % similarity) and Chromobacterium aquaticum CC-SE-YA-1T (93.9 % similarity). The isolate was able to grow at 25–40 °C, 0.3–2 % NaCl and pH 5.5–7. The DNA G+C content was 65.9±1.0 mol%. The predominant fatty acids were summed feature 3 (C16 : 1ω7c and/or iso-C15 : 0 2-OH) and C16:0. Ubiquinone 8 was the major respiratory quinone. It was evident from the data obtained that the strain should be classified as a novel species of the genus Pseudogulbenkiania . The name proposed for this taxon is Pseudogulbenkiania gefcensis sp. nov., and the type strain is yH16T ( = KCCM 90100T = JCM 17850T).

scholarly journals Pantoea rodasii sp. nov., Pantoea rwandensis sp. nov. and Pantoea wallisii sp. nov., isolated from Eucalyptus

2012 ◽  
Vol 62 (Pt_7) ◽  
pp. 1457-1464 ◽  
Author(s):  
Carrie L. Brady ◽  
Ilse Cleenwerck ◽  
Lorinda van der Westhuizen ◽  
Stephanus N. Venter ◽  
Teresa A. Coutinho ◽  
...  
Keyword(s):  
South Africa ◽  
Type Strain ◽  
Type Species ◽  
Novel Species ◽  
16S Rrna Gene Sequencing ◽  
Culture Collection ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
Rrna Gene Sequencing

Several Gram-negative-staining, facultatively anaerobic bacterial isolates were obtained from Eucalyptus seedlings showing symptoms of bacterial blight and dieback in Colombia, Rwanda and South Africa. Partial 16S rRNA gene sequencing, together with partial gyrB sequencing, placed the isolates in the genus Pantoea and indicated that they constituted three novel species. Multilocus sequence analysis (MLSA) based on partial sequences of gyrB, rpoB, infB and atpD revealed Pantoea dispersa , Pantoea eucrina and Pantoea cypripedii as their closest phylogenetic relatives. DNA–DNA hybridization studies confirmed the classification of the new isolates as three novel species and phenotypic tests allowed them to be differentiated from their closest phylogenetic neighbours. The names Pantoea rodasii sp. nov. [type strain LMG 26273T = BD 943T (deposited with the Plant Pathogenic and Plant Protecting Bacteria Collection, South Africa) = BCC 581T (deposited with the Bacterial Culture Collection, Forestry and Agricultural Institute, South Africa)], Pantoea rwandensis sp. nov. (type strain LMG 26275T = BD 944T = BCC 571T) and Pantoea wallisii sp. nov. (type strain LMG 26277T = BD 946T = BCC 682T) are proposed.

scholarly journals Citroniella saccharovorans gen. nov. sp. nov., a member of the family Peptoniphilaceae isolated from a human fecal sample from a coastal traditional community member

2019 ◽  
Vol 69 (4) ◽  
pp. 1142-1148 ◽  
Author(s):  
Nisha B. Patel ◽  
Alexandra J. Obregón-Tito ◽  
Raul Y. Tito ◽  
Omar Trujillo-Villaroel ◽  
Luis Marin-Reyes ◽  
...  
Keyword(s):  
Fecal Sample ◽  
16S Rrna Gene Sequencing ◽  
Rrna Gene ◽  
The Novel ◽  
Content Type ◽  
Link Type ◽  
Novel Bacterium ◽  
The Family ◽  
Diamino Acid ◽  
Rrna Gene Sequencing

A novel Gram-stain-positive, non-motile, non-spore-forming coccus-shaped obligately anaerobic bacterium was recovered from a fecal sample obtained from an individual from a traditional community located on the southern coast of Peru. The results of analysis based on 16S rRNA gene sequencing indicated the novel bacterium to be phylogenetically distinct from other genera of members of the Peptoniphilaceae family, sharing a loose affinity with the genera Ezakiella , Finegoldia , Gallicola and Parvimonas . The major cellular fatty acids of the novel isolate were determined to be C16:0, C17:1ω8c, and C18:1ω9c. The DNA G+C content was 29.9 mol%. End products of metabolism from peptone yeast glucose broth (PYG) were determined to be acetate and methyl succinate. The diagnostic diamino acid present in the cell wall was lysine. On the basis of the phenotypic, chemotaxonomic and phylogenetic results the organism is a member of a novel genus belonging to the family Peptoniphilaceae for which the name Citroniella saccharovorans gen nov. sp. nov., is proposed. The type strain is M6.X9T (DSM 29873T=CCUG 66799T).

Acinetobacter kookii sp. nov., isolated from soil

2013 ◽  
Vol 63 (Pt_12) ◽  
pp. 4402-4406 ◽  
Author(s):  
Ji Young Choi ◽  
Gwangpyo Ko ◽  
Weonghwa Jheong ◽  
Geert Huys ◽  
Harald Seifert ◽  
...  
Keyword(s):  
16S Rrna ◽  
Related Species ◽  
Type Species ◽  
Novel Species ◽  
Sequence Similarity ◽  
Rrna Gene ◽  
Bacterial Strains ◽  
Gene Sequences ◽  
Content Type ◽  
Link Type

Two Gram-stain-negative, non-fermentative bacterial strains, designated 11-0202T and 11-0607, were isolated from soil in South Korea, and four others, LUH 13522, LUH 8638, LUH 10268 and LUH 10288, were isolated from a beet field in Germany, soil in the Netherlands, and sediment of integrated fish farms in Malaysia and Thailand, respectively. Based on 16S rRNA, rpoB and gyrB gene sequences, they are considered to represent a novel species of the genus Acinetobacter . Their 16S rRNA gene sequences showed greatest pairwise similarity to Acinetobacter beijerinckii NIPH 838T (97.9–98.4 %). They shared highest rpoB and gyrB gene sequence similarity with Acinetobacter johnsonii DSM 6963T and Acinetobacter bouvetii 4B02T (85.4–87.6 and 78.1–82.7 %, respectively). Strain 11-0202T displayed low DNA–DNA reassociation values (<40 %) with the most closely related species of the genus Acinetobacter . The six strains utilized azelate, 2,3-butanediol, ethanol and dl-lactate as sole carbon sources. Cellular fatty acid analyses showed similarities to profiles of related species of the genus Acinetobacter : summed feature 3 (C16 : 1ω7c, C16 : 1ω6c; 24.3–27.2 %), C18 : 1ω9c (19.9–22.1 %), C16 : 0 (15.2–22.0 %) and C12 : 0 (9.2–14.2 %). On the basis of the current findings, it is concluded that the six strains represent a novel species, for which the name Acinetobacter kookii sp. nov. is proposed. The type strain is 11-0202T ( = KCTC 32033T = JCM 18512T).

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