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Christine Martineau, Céline Villeneuve, Florian Mauffrey, Richard Villemur
Hyphomicrobium nitrativorans strain NL23 has been isolated from the biofilm of a denitrification system treating seawater. This strain has the capacity to denitrify using methanol as a carbon source. Here, we report the complete genome sequence of this strain in an effort to increase understanding of the function of this bacterium within the biofilm.
2014: Genome Announcements
Christine Martineau, Céline Villeneuve, Florian Mauffrey, Richard Villemur
A budding prosthecate bacterial strain, designated NL23(T), was isolated from a methanol-fed denitrification system treating seawater at the Montreal Biodome, Canada. Phylogenetic analysis based on 16S rRNA (rRNA) gene sequences showed that the strain was affiliated with the genus Hyphomicrobium of the Alphaproteobacteria and was most closely related to Hyphomicrobium zavarzinii with 99.4 % sequence similarity. Despite this high level of 16S rRNA gene sequence similarity, DNA-DNA hybridization assays showed that strain NL23(T) was only distantly related to H...
October 2013: International Journal of Systematic and Evolutionary Microbiology
Céline Villeneuve, Christine Martineau, Florian Mauffrey, Richard Villemur
Two bacterial strains, designated JAM1(T) and JAM7(T), were isolated from a methanol-fed denitrification system treating seawater at the Montreal Biodome, Canada. They were affiliated within the genus Methylophaga of the Gammaproteobacteria by analysis of the 16S rRNA gene sequences. Strain JAM1(T) had the capacity to grow under denitrifying conditions by reducing nitrate into nitrite which is unique among the species of the genus Methylophaga. Major fatty acids were C16:1ω7c or ω6c, C16:0 and C18:1ω7c or ω6c...
June 2013: International Journal of Systematic and Evolutionary Microbiology
Julie Auclair, Serge Parent, Richard Villemur
Nitrate is a serious problem in closed-circuit public aquariums because its accumulation rapidly becomes toxic to many lifeforms. A moving bed biofilm denitrification reactor was installed at the Montreal Biodome to treat its 3,250-m(3) seawater system. Naturally occurring microorganisms from the seawater affluent colonized the reactor carriers to form a denitrifying biofilm. Here, we investigated the functional diversity of this biofilm by retrieving gene sequences related to narG, napA, nirK, nirS, cnorB, and nosZ...
May 2012: Microbial Ecology
Daniel Hechavarria, Abiche Dewilde, Susan Braunhut, Michael Levin, David L Kaplan
Previous research on vertebrate limb regeneration indicates there are several mediating factors involved during the re-growth process. These factors are both biochemical and biophysical. While the phenomenon of adult limb regeneration does not occur naturally in mammalian species, prior research has focused mainly on biochemical modes of stimulating tissue growth and regeneration. The BioDome was aimed at developing a new experimental tool to permit the more systematic study of the impact of biophysical and biochemical factors on mammalian tissue regeneration...
November 2010: Medical Engineering & Physics
Julie Auclair, François Lépine, Serge Parent, Richard Villemur
Methylophaga spp. are methylotrophs commonly associated with marine environments and have been defined as strict aerobic methylotrophs. They have been shown previously to represent 50-70% of the bacterial population in the biofilm of the methanol-fed denitrification reactor treating a large seawater aquarium at the Montreal Biodome. It was therefore surprising to find such a high concentration of Methylophaga spp. in anoxic conditions. In this study, we showed by cultivation-independent and -dependent approaches that one Methylophaga strain present in the anoxic biofilm is involved in the denitrification process...
October 2010: ISME Journal
Serge Parent, Serge Pépin, Jean-Pierre Genet, Laurent Misserey, Salvador Rojas
In 1997, the Montreal Biodome obtained five barndoor skates (Dipturus laevis) from the waters off Boston, Massachusetts. Six years later, those specimens began reproducing, and the first egg case was collected in November 2003. Since then, 73 hatchlings have been born and raised. Egg cases were observed year round, and annual fecundity was measured for the first time: one female laid 69 eggs in 2005, 85 in 2006 and 115 in 2007. Egg incubation was longer than believed previously, ranging from 342 to 494 days...
March 2008: Zoo Biology
Véronique Laurin, Normand Labbé, Serge Parent, Pierre Juteau, Richard Villemur
The marine methanol-fed fluidized denitrification system operated by the Montreal Biodome includes carriers on which a denitrifying biofilm has developed. Previous observations showed a high abundance of microeukaryotes living in and around the biofilm. These eukaryotes may influence the system's denitrification efficiency. The composition of the microeukaryote population was determined. Microscopic observations showed at least 20 different morphologies that included large numbers of ciliates. Molecular analyses of an 18S ribosomal RNA (rDNA) gene library revealed 31 different phylotypes...
November 2008: Microbial Ecology
Normand Labbé, Véronique Laurin, Pierre Juteau, Serge Parent, Richard Villemur
We demonstrated in a previous study that the biofilm of the methanol-fed fluidized marine denitrification reactor at the Montreal Biodome was composed of at least 15 bacterial phylotypes. Among those were 16S ribosomal RNA (rDNA) gene sequences affiliated to Hyphomicrobium spp., and Methylophaga spp.; the latter made up 70% of a clone library. By using fluorescent in situ hybridization (FISH), we investigated the structure of the biofilm during the colonization process in the denitrification reactor by targeting most of the bacterial families that the 16S rDNA gene library suggested would occur in the biofilm...
May 2007: Microbial Ecology
Philipp N Seibel, Jan Krüger, Sven Hartmeier, Knut Schwarzer, Kai Löwenthal, Henning Mersch, Thomas Dandekar, Robert Giegerich
BACKGROUND: Today, there is a growing need in bioinformatics to combine available software tools into chains, thus building complex applications from existing single-task tools. To create such workflows, the tools involved have to be able to work with each other's data--therefore, a common set of well-defined data formats is needed. Unfortunately, current bioinformatic tools use a great variety of heterogeneous formats. RESULTS: Acknowledging the need for common formats, the Helmholtz Open BioInformatics Technology network (HOBIT) identified several basic data types used in bioinformatics and developed appropriate format descriptions, formally defined by XML schemas, and incorporated them in a Java library (BioDOM)...
2006: BMC Bioinformatics
Véronique Laurin, Normand Labbé, Pierre Juteau, Serge Parent, Richard Villemur
The Montreal Biodome has a denitrification system to stabilize the nitrate concentration in its 3 million liter seawater aquarium. However, this microbial process has failed periodically due to various technical problems. The system can take several weeks to recover its full denitrification capacity. In order to provide the denitrification system with a backup of active biomass, different freezing conditions for the denitrifying biomass were tested. The biomass was conserved for 1 week-17 months at -20 degrees C with and without glycerol or at -80 degrees C with and without glycerol, and the denitrifying activity was tested in batch culture for 140 h periods at various intervals...
May 2006: Water Research
Normand Labbé, Serge Parent, Richard Villemur
The Montreal Biodome operates a methanol-fed denitrification system that treats the water in its three million litre marine mesocosm. An unknown bacterium, named strain NL21T, was isolated from this system on TSA and R2A agar. The organism is a Gram-negative, rod-shaped (1x3 microm) facultative aerobe. Optimal growth conditions on R2A agar are 30-35 degrees C, pH 7-7.5 and 1% (w/w) NaCl. Phylogenetic analysis of the 16S rDNA sequence reveals that strain NL21T forms a novel lineage in the family 'Phyllobacteriaceae' within the alpha2 subgroup of the Proteobacteria...
January 2004: International Journal of Systematic and Evolutionary Microbiology
N Labbé, P Juteau, S Parent, R Villemur
The bacterial biota of a methanol-fed denitrification reactor used to treat seawater at the Montreal Biodome were investigated using culture-dependent and molecular biology methods. The microbiota extracted from the reactor carriers were cultivated on three media. Three isolate types were recovered and their 16S ribosomal DNA (rDNA) genes were determined. The analysis showed that the isolate types were related to alpha-Proteobacteria. They are members of the Hyphomicrobium and Paracoccus genera and the Phyllobacteriaceae family...
July 2003: Microbial Ecology
Normand Labbé, Serge Parent, Richard Villemur
We investigated the effect of trace metals (Fe, Mn, Cu, Zn and Mo) on the denitrification unit at the Montreal Biodome. Two dosages of the five trace metals were tested on a denitrifying bacterial population which was extracted from the denitrification unit and cultured in 250 mL chemostats with artificial seawater. The low dosage showed a 20% increase in the denitrification rate whereas the high dosage had a more pronounced effect with a 250% increase. No increase in bacterial growth was observed, suggesting that the trace metals had an effect on the denitrification activity...
February 2003: Water Research
Claude Trépanier, Serge Parent, Yves Comeau, Jean Bouvrette
Since the start-up of the St. Lawrence Mesocosm (SLM) at the Montreal Biodome in 1992, phosphorus has accumulated slowly, reaching about 18 mg P l(-1) in 2000. It was decided that this concentration should be lowered to about 2mg P l(-1) to maintain a safe nitrogen:phosporus (N:P) ratio of about 10. Before deciding what type of treatment to use for the removal of phosphorus, a P budget was estimated for 1998 in order to evaluate the different pathways of phosphorus in the mesocosm. The resulting budget had only a 1% difference between the inputs (CV = 12...
February 2002: Water Research
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