scholarly journals Leeuwenhoekiella blandensis sp. nov., a genome-sequenced marine member of the family Flavobacteriaceae

2006 ◽  
Vol 56 (7) ◽  
pp. 1489-1493 ◽  
Author(s):  
Jarone Pinhassi ◽  
John P. Bowman ◽  
Olga I. Nedashkovskaya ◽  
Itziar Lekunberri ◽  
Laura Gomez-Consarnau ◽  
...  
Keyword(s):  
Algal Blooms ◽  
Phylogenetic Analyses ◽  
Western Mediterranean ◽  
Whole Genome Sequence ◽  
Rrna Gene ◽  
The North ◽  
Western Mediterranean Sea ◽  
A Genome ◽  
The Family ◽  
Gliding Bacterium

Bacteria in the family Flavobacteriaceae are increasingly recognized to play important roles in the degradation of organic matter during and following algal blooms. A novel heterotrophic, rod-shaped, aerobic, yellow-pigmented and gliding bacterium was isolated from a seawater sample collected in the Bay of Blanes in the north-western Mediterranean Sea. Analysis of its 16S rRNA gene sequence, retrieved from the whole-genome sequence, showed that the bacterium was closely related to members of the genus Leeuwenhoekiella within the family Flavobacteriaceae, phylum Bacteroidetes. Phenotypic, genotypic, chemotaxonomic and phylogenetic analyses supported the creation of a novel species to accommodate this bacterium, for which the name Leeuwenhoekiella blandensis sp. nov. is proposed. The type strain is MED 217T (=CECT 7118T=CCUG 51940T).

scholarly journals Reinekea blandensis sp. nov., a marine, genome-sequenced gammaproteobacterium

2007 ◽  
Vol 57 (10) ◽  
pp. 2370-2375 ◽  
Author(s):  
Jarone Pinhassi ◽  
María J. Pujalte ◽  
M. Carmen Macián ◽  
Itziar Lekunberri ◽  
José M. González ◽  
...  
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Single Species ◽  
Western Mediterranean ◽  
Whole Genome Sequence ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
The North ◽  
Western Mediterranean Sea ◽  
North Western

A novel heterotrophic, moderately halophilic, strictly aerobic, motile bacterium was isolated from a seawater sample collected at the Blanes Bay Microbial Observatory in the north-western Mediterranean Sea. Analysis of its 16S rRNA gene sequence, retrieved from the whole-genome sequence, showed that this bacterium was most closely related to the single-species genera Reinekea and Saccharospirillum (95 and 94 % sequence similarity, respectively) within the class Gammaproteobacteria. The data from phenotypic, genotypic, chemotaxonomic and phylogenetic analyses supported the creation of a novel species of the genus Reinekea to accommodate this bacterium, for which the name Reinekea blandensis sp. nov. is proposed. The type strain is MED297T (=CECT 7120T =CCUG 52066T).

scholarly journals Thalassobaculum salexigens sp. nov., a new member of the family Rhodospirillaceae from the NW Mediterranean Sea, and emended description of the genus Thalassobaculum

2010 ◽  
Vol 60 (1) ◽  
pp. 209-213 ◽  
Author(s):  
Laurent Urios ◽  
Valérie Michotey ◽  
Laurent Intertaglia ◽  
Françoise Lesongeur ◽  
Philippe Lebaron
Keyword(s):  
Mediterranean Sea ◽  
Reductase Activity ◽  
Fatty Acid Content ◽  
Western Mediterranean ◽  
Rrna Gene ◽  
The North ◽  
Western Mediterranean Sea ◽  
The Family ◽  
Emended Description ◽  
Nw Mediterranean

A novel Gram-negative bacteria, named CZ41_10aT, was isolated from coastal surface waters of the north-western Mediterranean Sea. Cells were motile, pleomorphic rods, 1.6 μm long and 0.7 μm wide and formed cream colonies on marine agar medium. The G+C content of the genomic DNA was 65 mol%. Phylogenetic analysis of 16S rRNA gene sequences placed the new isolate in the genus Thalassobaculum, a member of the family Rhodospirillaceae, class Alphaproteobacteria. Unlike Thalassobaculum litoreum CL-GR58T, its closest relative, strain CZ41_10aT was unable to grow anaerobically and did not exhibit nitrate reductase activity. On the basis of DNA–DNA hybridization, fatty acid content and physiological and biochemical characteristics, this isolate represents a novel species for which the name Thalassobaculum salexigens sp. nov. is proposed. The type strain is CZ41_10aT (=DSM 19539T=CIP 109064T=MOLA 84T). An emended description of the genus Thalassobaculum is also given.

Micromonospora tarapacensis sp. nov., a bacterium isolated from a hypersaline lake

2021 ◽  
Vol 71 (11) ◽  
Author(s):  
Alvaro S. Villalobos ◽  
Jutta Wiese ◽  
Erik Borchert ◽  
Tanja Rahn ◽  
Beate M. Slaby ◽  
...  
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Polar Lipids ◽  
Diaminopimelic Acid ◽  
Hypersaline Lake ◽  
Rrna Gene ◽  
Content Type ◽  
Link Type ◽  
A Genome ◽  
The Family

Strain Llam7T was isolated from microbial mat samples from the hypersaline lake Salar de Llamará, located in Taracapá region in the hyper-arid core of the Atacama Desert (Chile). Phenotypic, chemotaxonomic and genomic traits were studied. Phylogenetic analyses based on 16S rRNA gene sequences assigned the strain to the family Micromonosporaceae with affiliation to the genera Micromonospora and Salinispora . Major fatty acids were C17 : 1ω8c, iso-C15 : 0, iso-C16 : 0 and anteiso-C17 : 0. The cell walls contained meso-diaminopimelic acid and ll-2,6 diaminopimelic acid (ll-DAP), while major whole-cell sugars were glucose, mannose, xylose and ribose. The major menaquinones were MK-9(H4) and MK-9(H6). As polar lipids phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol and several unidentified lipids, i.e. two glycolipids, one aminolipid, three phospholipids, one aminoglycolipid and one phosphoglycolipid, were detected. Genome sequencing revealed a genome size of 6.894 Mb and a DNA G+C content of 71.4 mol%. Phylogenetic analyses with complete genome sequences positioned strain Llam7T within the family Micromonosporaceae forming a distinct cluster with Micromonospora (former Xiangella ) phaseoli DSM 45730T. This cluster is related to Micromonospora pelagivivens KJ-029T, Micromonospora craterilacus NA12T, and Micromonospora craniellae LHW63014T as well as to all members of the former genera Verrucosispora and Jishengella , which were re-classified as members of the genus Micromonospora , forming a clade distinct from the genus Salinispora . Pairwise whole genome average nucleotide identity (ANI) values, digital DNA–DNA hybridization (dDDH) values, the presence of the diamino acid ll-DAP, and the composition of whole sugars and polar lipids indicate that Llam7T represents a novel species, for which the name Micromonospora tarapacensis sp. nov. is proposed, with Llam7T (=DSM 109510T,=LMG 31023T) as the type strain.

scholarly journals Glaesserella australis sp. nov., isolated from the lungs of pigs

2020 ◽  
Vol 70 (6) ◽  
pp. 3686-3692 ◽  
Author(s):  
Conny Turni ◽  
Yunchen Wu ◽  
Lida Omaleki ◽  
Nhan Giang ◽  
P.J. Blackall ◽  
...  
Keyword(s):  
Type Strain ◽  
Type Species ◽  
Phylogenetic Analyses ◽  
Whole Genome Sequence ◽  
Rrna Gene ◽  
Phenotypic Properties ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Dna Renaturation

Twenty-nine isolates of an unknown haemophilic organism were isolated from the lungs of pigs from 14 farms in Australia. Phylogenetic analyses based on the 16S rRNA gene, recN and rpoA showed a monophyletic group that was most closely related to Glaesserella parasuis and [ Actinobacillus ] indolicus. Whole genome sequence analysis indicated that the Glaesserella parasuis and this group, using the type strain HS4635T for comparison, showed a similarity of 30.9 % DNA–DNA renaturation. The isolates were Gram-stain-negative, NAD-dependent, CAMP-negative and were oxidase-positive, catalase-negative and produced indole but not urease. The isolates could be separated from all currently recognized haemophilic and non-haemophilic members of the family Pastuerellaceae. Key phenotypic properties were the production of indole, the lack of urease activity, production of β-galactosidase but not α-fucosidase, acid formation from (−)-d-arabinose, (+)-d-galactose, maltose and trehalose and a failure to produce acid from (−)-d-mannitol. Taken together, these data indicate that the isolates belong to a novel species for which the name Glaesserella australis sp. nov. is proposed. The type strain is HS4635T (=CCUG 71931T and LMG 30645T).

scholarly journals Olsenella lakotia SW165 sp. nov., an acetate producing obligate anaerobe with a GC rich genome

2019 ◽  
Author(s):  
Supapit Wongkuna ◽  
Sudeep Ghimire ◽  
Roshan Kumar ◽  
Linto Antony ◽  
Surang Chankhamhaengdecha ◽  
...  
Keyword(s):  
South Dakota ◽  
Type Strain ◽  
Gene Sequence ◽  
Novel Species ◽  
Phylogenetic Analyses ◽  
Rrna Gene ◽  
Obligate Anaerobe ◽  
Rrna Gene Sequence ◽  
A Genome ◽  
The Family

ABSTRACTA Gram-positive and obligately anaerobic bacterium was isolated from cecal content of feral chickens in Brookings, South Dakota, USA. The microorganism grew at 37-45° C and pH 6-7.5. This strain produced acetic acid as the primary metabolic end product. Major fatty acids were C12:0, C14:0, C14:0 DMA and summed feature 1 (C13:1 at 12-13 and C14:0 aldehyde). Phylogenetic analyses based on 16S rRNA gene sequence suggested that strain SW165 belongs to the family Atopobiaceae with the closest relatives being Olsenella profusa DSM 13989T (96.33% similarity), Olsenella umbonate DSM 26220T (96.18%) and Olsenella uli DSM 7084T (96.03%). Genome sequencing revealed a genome size of 2.43 Mbp with a G+C content of 67.59 mol%, which is the highest G+C content among members of the genus Olsenella. Phylogenetic and phenotypic comparison indicated that strain SW165 represents a novel species of the genus Olsenella, for which the name Olsenella lakotia sp. nov. is proposed. The type strain is SW165 (=DSM 107283T).

scholarly journals Mariniflexile gromovii gen. nov., sp. nov., a gliding bacterium isolated from the sea urchin Strongylocentrotus intermedius

2006 ◽  
Vol 56 (7) ◽  
pp. 1635-1638 ◽  
Author(s):  
Olga I. Nedashkovskaya ◽  
Seung Bum Kim ◽  
Jangryul Kwak ◽  
Valery V. Mikhailov ◽  
Kyung Sook Bae
Keyword(s):  
Phylogenetic Analyses ◽  
Cellular Fatty Acid ◽  
Rrna Gene ◽  
Gene Sequence Analysis ◽  
The Family ◽  
Novel Genus And Species ◽  
Respective Type ◽  
Gliding Bacterium ◽  
Type Strains ◽  
Sequence Similarities

A marine bacterium, designated strain KMM 6038T, was subjected to taxonomic analysis via a polyphasic approach. Cells of the strain were heterotrophic, orange-pigmented, Gram-negative and motile by means of gliding. 16S rRNA gene sequence analysis indicated that strain KMM 6038T was closely related to the type species of the genera Algibacter and Yeosuana, members of the family Flavobacteriaceae, with sequence similarities of 93.8 and 93.6 % to the respective type strains. However, several chemotaxonomic and phenotypic characteristics, such as the cellular fatty acid profile (iso-C15 : 0, anteiso-C15 : 0, iso-C15 : 1, C15 : 0, C15 : 1 ω6c, iso-C15 : 0 3-OH and iso-C17 : 0 3-OH) and the low G+C content of the DNA (35.7 mol%), indicated that the strain should be separated from these two genera. From the results of phenotypic, genotypic, chemotaxonomic and phylogenetic analyses, the bacterium should be classified as representing a novel genus and species, for which the name Mariniflexile gromovii gen. nov., sp. nov. is proposed. The type strain of Mariniflexile gromovii is KMM 6038T (=KCTC 12570T=LMG 22578T).

scholarly journals Dynamical Downscaling of ERA5 Data on the North-Western Mediterranean Sea: From Atmosphere to High-Resolution Coastal Wave Climate

2021 ◽  
Vol 9 (2) ◽  
pp. 208
Author(s):  
Valentina Vannucchi ◽  
Stefano Taddei ◽  
Valerio Capecchi ◽  
Michele Bendoni ◽  
Carlo Brandini
Keyword(s):  
Mediterranean Sea ◽  
Wind Wave ◽  
Dynamical Downscaling ◽  
Wave Climate ◽  
Western Mediterranean ◽  
Limited Area ◽  
Computational Domain ◽  
Wave Hindcast ◽  
The North ◽  
Western Mediterranean Sea

A 29-year wind/wave hindcast is produced over the Mediterranean Sea for the period 1990–2018. The dataset is obtained by downscaling the ERA5 global atmospheric reanalyses, which provide the initial and boundary conditions for a numerical chain based on limited-area weather and wave models: the BOLAM, MOLOCH and WaveWatch III (WW3) models. In the WW3 computational domain, an unstructured mesh is used. The variable resolutions reach up to 500 m along the coasts of the Ligurian and Tyrrhenian seas (Italy), the main objects of the study. The wind/wave hindcast is validated using observations from coastal weather stations and buoys. The wind validation provides velocity correlations between 0.45 and 0.76, while significant wave height correlations are much higher—between 0.89 and 0.96. The results are also compared to the original low-resolution ERA5 dataset, based on assimilated models. The comparison shows that the downscaling improves the hindcast reliability, particularly in the coastal regions, and especially with regard to wind and wave directions.

Feeding Habits of Alepocephalus Rostratus (Pisces: Alepocephalidae) in the Western Mediterranean Sea

1998 ◽  
Vol 78 (4) ◽  
pp. 1295-1306 ◽  
Author(s):  
M. Carrassón ◽  
J. Matallanas
Keyword(s):  
Mediterranean Sea ◽  
Prey Item ◽  
Narrow Range ◽  
Feeding Habits ◽  
Western Mediterranean ◽  
Western Mediterranean Sea ◽  
The Family ◽  
Different Seasons ◽  
Scarcity Of Resources ◽  
Important Fish

The present study examines the feeding habits of Alepocephalus rostratus, the only species of the family Alepocephalidae in the Mediterranean Sea and the second most important fish species, in terms of biomass, inhabiting the deep slope of the Catalan Sea. Samples were obtained at depths between 1000–2250 m. Diet was analysed for two different size-classes (immature and mature specimens) at three different bathymetric strata during two different seasons. The feeding habits of A. rostratus included a narrow range of mobile macroplanktonic organisms (e.g. Pyrosoma atlanticum and Chelophyes appendiculata) and some material of benthic origin. Pyrosoma atlanticum was the preferred prey item in spring at 1000–1425 m, being very scarce in summer at the same depth as a consequence of its scarcity in the environment during this season. There were some ontogenic differences in the diet of A. rostratus at 1425–2250 m. Adults ingested more and larger prey than juvenile specimens. The scarcity of resources below 1200–1400 m fostered a more diversified diet, as well as passive predation of sedimented material.

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