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 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 Neptuniibacter caesariensis gen. nov., sp. nov., a novel marine genome-sequenced gammaproteobacterium

2007 ◽  
Vol 57 (5) ◽  
pp. 1000-1006 ◽  
Author(s):  
David R. Arahal ◽  
Itziar Lekunberri ◽  
José M. González ◽  
Javier Pascual ◽  
María J. Pujalte ◽  
...  
Keyword(s):  
Eastern Mediterranean ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Carbon Sources ◽  
Whole Genome Sequence ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Polar Lipid Profile ◽  
Novel Genus And Species ◽  
Bacterium Strain

A Gram-negative, slightly halophilic, strictly aerobic, motile chemoorganotrophic bacterium, strain MED92T, was isolated from a surface water sample from the eastern Mediterranean Sea. Phylogenetic analysis based on its 16S rRNA gene sequence, retrieved from the whole-genome sequence, demonstrated that this isolate is unique, showing <93 % sequence similarity to species of the families Oceanospirillaceae and Alteromonadaceae. The polar lipid profile of the novel strain consisted of phosphatidylethanolamine, phosphatidylglycerol, an unknown aminophospholipid and diphosphatidylglycerol. Major fatty acids are 16 : 1ω7c/15 iso 2-OH (41.2 % relative amount), 18 : 1ω7c (35.9 %), 16 : 0 (16.1 %), 10 : 0 3-OH (5.0 %) and 18 : 0 (1.0 %). Preferred carbon sources are organic acids and amino acids. The DNA G+C content is 46.6 mol%. Based on a phenotypic, chemotaxonomic and phylogenetic analyses, it is proposed that this marine bacterium represents a novel genus and species, for which the name Neptuniibacter caesariensis gen. nov., sp. nov. is proposed. The type strain is MED92T (=CECT 7075T=CCUG 52065T).

scholarly journals Foraging dives of sperm whales in the north-western Mediterranean Sea

2012 ◽  
Vol 92 (8) ◽  
pp. 1799-1808 ◽  
Author(s):  
Alexandre Gannier ◽  
Estelle Petiau ◽  
Violaine Dulau ◽  
Luke Rendell
Keyword(s):  
Prey Capture ◽  
Sperm Whale ◽  
Western Mediterranean ◽  
Sperm Whales ◽  
The North ◽  
Western Mediterranean Sea ◽  
Single Animal ◽  
Components Analysis ◽  
Passive Acoustic ◽  
North Western

Oceanic odontocetes rely on echolocation to forage on pelagic or benthic prey, but their feeding ecology is difficult to study. We studied sperm whale foraging dives during summer in the north-western Mediterranean, using visual and passive acoustic observations. Clicking and creaking activities were recorded during dives of focal whales, at distances <3000 m using a towed hydrophone and DAT recorder. A total of 52 sperm whales were recorded over at least one full dive cycle. Data were obtained for 156 complete dives in total, including sequences of up to nine consecutive dives. Various dive and environmental variables were entered in multiple linear regression and principal components analysis, as well as estimated mass of whales. Creak rate was 0.80 creak/minute on average, with moderate variance. Bigger whales tended to dive longer at greater depths (as suggested by ascent durations), and emitted more creaks during a dive: 20.2 creaks/dive on average for individuals <24 tons, compared to 25.6 creaks/dive for animals >24 tons of estimated mass. For individual whales, creak rates did not vary significantly with size (range 0.78–0.80 creak/minute), but decreased with time of the day, and increased for shorter foraging phases. For different dives, higher creak rates were also observed earlier in the day, and linked to shorter foraging phases and surface durations. Although the exact significance of creak emissions (i.e. foraging attempt or prey capture) is not precisely determined, creak rates may be reliably used to quantify sperm whale foraging when single animal dives can be followed acoustically.

Aquimarina megaterium sp. nov., isolated from seawater

2014 ◽  
Vol 64 (Pt_1) ◽  
pp. 122-127 ◽  
Author(s):  
Tong Yu ◽  
Zenghu Zhang ◽  
Xiaoyang Fan ◽  
Xiaochong Shi ◽  
Xiao-Hua Zhang
Keyword(s):  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Gliding Motility ◽  
Polar Lipids ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Integrated Ocean Drilling Program

A novel Gram-stain-negative, rod-shaped, non-flagellated, strictly aerobic strain with gliding motility, designated XH134T, was isolated from surface seawater of the South Pacific Gyre (45° 58′ S 163° 11′ W) during the Integrated Ocean Drilling Program Expedition 329. The major respiratory quinone of strain XH134T was MK-6. The dominant fatty acids of strain XH134T were iso-C15 : 0, iso-C15 : 1 G, C16 : 1ω6c and/or C16 : 1ω7c, iso-C17 : 0 3-OH, iso-C15 : 0 3-OH and 10-methyl C16 : 0 and/or iso-C17 : 1ω9c. The polar lipids of strain XH134T comprised phosphatidylethanolamine, one unknown aminolipid and three unknown polar lipids. The DNA G+C content of strain XH134T was 32.4 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the novel strain was related most closely to Aquimarina macrocephali JAMB N27T with 96.9 % sequence similarity. A number of phenotypic characteristics distinguished strain XH134T from described members of the genus Aquimarina . On the basis of combined phenotypic and phylogenetic analyses, strain XH134T represents a novel species of the genus Aquimarina , for which the name Aquimarina megaterium sp. nov. is proposed. The type strain is XH134T ( = CGMCC 1.12186T = JCM 18215T).

scholarly journals Balneola vulgaris gen. nov., sp. nov., a member of the phylum Bacteroidetes from the north-western Mediterranean Sea

2006 ◽  
Vol 56 (8) ◽  
pp. 1883-1887 ◽  
Author(s):  
Laurent Urios ◽  
Hélène Agogué ◽  
Françoise Lesongeur ◽  
Erko Stackebrandt ◽  
Philippe Lebaron
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Mediterranean Sea ◽  
Gene Sequence ◽  
Western Mediterranean ◽  
16S Rrna Gene Sequence ◽  
Rrna Gene ◽  
Rrna Gene Sequence ◽  
Western Mediterranean Sea ◽  
North Western

A novel aerobic, Gram-negative bacterium, named 13IX/A01/164T, was isolated from surface waters in the coastal north-western Mediterranean Sea. Cells were motile, straight rods, 2.5 μm long and 0.2 μm wide, and formed orange colonies on marine agar medium. The G+C content of the genomic DNA of strain 13IX/A01/164T was 42 mol%. Phylogenetic analysis of the 16S rRNA gene sequence placed the strain in the phylum Bacteroidetes within the family Crenotrichaceae. On the basis of 16S rRNA gene sequence comparison and physiological and biochemical characteristics, this isolate represents a novel species of a new genus, for which the name Balneola vulgaris gen. nov., sp. nov. is proposed. The type strain of Balneola vulgaris is 13IX/A01/164T (=DSM 17893T=CIP 109092T=OOB 256T).

scholarly journals The impact of Saharan dust on the particulate export in the water column of the North Western Mediterranean Sea

2010 ◽  
Vol 7 (3) ◽  
pp. 809-826 ◽  
Author(s):  
E. Ternon ◽  
C. Guieu ◽  
M.-D. Loÿe-Pilot ◽  
N. Leblond ◽  
E. Bosc ◽  
...  
Keyword(s):  
Atmospheric Deposition ◽  
Mass Flux ◽  
Total Mass ◽  
Spring Bloom ◽  
Western Mediterranean ◽  
Saharan Dust ◽  
The North ◽  
Western Mediterranean Sea ◽  
Total Mass Flux ◽  
North Western

Abstract. Simultaneous measurements of atmospheric deposition and of sinking particles at 200 and 1000 m depth, were performed in the Ligurian Sea (North-Western Mediterranean) between 2003 and 2007, along with phytoplanktonic activity derived from satellite images. Atmospheric deposition of Saharan dust particles was very irregular and confirmed the importance of sporadic high magnitude events over the annual average (11.4 g m−2 yr−1 for the 4 years). The average marine total mass flux was 31 g m−2 yr−1, the larger fraction being the lithogenic one (~37%). The marine total mass flux displayed a seasonal pattern with a maximum in winter, occurring before the onset of the spring bloom. The highest POC fluxes did not occur during the spring bloom nor could they be directly related to any noticeable increase in the surface phytoplanktonic biomass. Over the 4 years of the study, the strongest POC fluxes were concomitant with large increases of the lithogenic marine flux, which had originated from either recent Saharan fallout events (February 2004 and August 2005), from "old" Saharan dust "stored" in the upper water column layer (March 2003 and February 2005), or alternatively from lithogenic material originating from Ligurian riverine flooding (December 2003, Arno, Roya and Var rivers). Those associated export fluxes defined as "lithogenic events", are believed to result from a combination of forcing (winter mixing or Saharan events, in particular extreme ones), biological (zooplankton) activity, and also organic-mineral aggregation inducing a ballast effect. By fertilising the surface layer, mixed Saharan dust events were shown to be able to induce "lithogenic events" during the stratification period. These events would be more efficient in transferring POC to the deeper layers than the spring bloom itself. The extreme Saharan event of February 2004 exported ~45% of the total annual POC, compared to an average of ~25% for the bloom period. This emphasises the role played by these "lithogenic events", and in particular those that are induced by the more extreme Saharan events, in the carbon export efficiency in the North-western Mediterranean Sea.

scholarly journals Rufibacter latericius sp. nov., isolated from Baiyang Lake

2020 ◽  
Vol 70 (11) ◽  
pp. 5943-5949 ◽  
Author(s):  
Yun-zhen Yang ◽  
Ji-feng Chen ◽  
Wan-ru Huang ◽  
Ran-ran Zhang ◽  
Shuangjiang Liu ◽  
...  
Keyword(s):  
Type Species ◽  
Sequence Similarity ◽  
Phylogenetic Analyses ◽  
Draft Genome ◽  
Rrna Gene ◽  
Strictly Aerobic ◽  
Respiratory Quinone ◽  
Content Type ◽  
Link Type ◽  
Pr China

A novel Gram-stain-negative, strictly aerobic, rod-shaped, brick red-pigmented bacterium, designated R-22-1 c-1T, was isolated from water from Baiyang Lake, Hebei Province, PR China. The strain was able to grow at 20–30 °C (optimum, 30 °C) and pH 6–7 (optimum, pH 6) in Reasoner’s 2A medium. 16S rRNA gene sequence and phylogenetic analyses of R-22-1 c-1T revealed closest relationships to Rufibacter immobilis MCC P1T (97.8 %), Rufibacter sediminis H-1T (97.9 %) and Rufibacter glacialis MDT1-10-3T (97.0 %), with other species of the genus Rufibacter showing less than 97.0 % sequence similarity. The predominant polar lipids were phosphatidylethanolamine, two unidentified aminophospholipids and three unidentified lipids. The major cellular fatty acids were iso-C15 : 0, C15 : 1  ω6c, C17 : 1  ω6c, anteiso-C15 : 0, summed feature 3 (iso-C15 : 0 2-OH and/or C16 : 1  ω7c and/or C16 : 1  ω6c) and summed feature 4 (iso-C17 : 1I and/or anteiso-C17 : 1B). The respiratory quinone was MK-7. The draft genome of R-22-1 c-1T was 5.6 Mbp in size, with a G+C content of 50.2 mol%. The average nucleotide identity and digital DNA–DNA hybridization relatedness values between strain R-22-1 c-1T and related type strains were R. immobilis MCC P1T (77.2 and 21.8 %), R. sediminis H-1T (81.6 and 21.4 %) and R. tibetensis 1351T (78.5 and 22.9 %). Based on these phylogenetic, chemotaxonomic and genotypic results, strain R-22-1 c-1T represents a novel species in the genus Rufibacter , for which the name Rufibacter latericius sp. nov. is proposed. The type strain is R-22-1 c-1T (=CGMCC 1.13570T=KCTC 62781T).

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