High-quality draft genome of the methanotroph Methylovulum psychrotolerans Str. HV10-M2 isolated from plant material at a high-altitude environment

Here we present the genome of Methylovulum psychrotolerans strain HV10-M2, a methanotroph isolated from Hardangervidda national park (Norway). This strain represents the second of the two validly published species genus with a sequenced genome. The other is M. miyakonense HT12, which is the type strain of the species and the type species of the genus Methylovulum. We present the genome of M. psychrotolerants str. HV10-M2 and discuss the differences between M. psychrotolerans and M. miyakonense. The genome size of M. psychrotolerans str. HV10-M2 is 4,923,400 bp and contains 4415 protein-coding genes, 50 RNA genes and an average GC content of 50.88%.publishedVersio

Microbial iron reduction and greenhouse gas production in response to organic matter amendment and temperature increase of periglacial sediments, Bolterdalen, Svalbard

Arctic permafrost soils store substantial reserves of organic matter (OM) from which microbial transformation contributes significantly to greenhouse gas emissions of CH4 and CO2. However, many younger sediments exposed by glacier retreat and sea level change in fjord landscapes lack significant organic carbon resources, so their capacity to promote greenhouse gas emissions is unclear. We therefore studied the effects of increased temperatures (4°C and 21°C) and OM on rates of Fe(III) reduction, CO2 production, and methanogenesis in three different Holocene sedimentary units from a single site within the former marine limit of Adventdalen, Svalbard. Higher temperature and OM addition generally stimulated CH4 production and CO2 production and an increase in Bacteria and Archaea abundance in all units, whereas an equal stimulation of Fe(II) production by OM amendment and an increase in temperature to 21°C was only observed in a diamicton. We observed an accumulation of Fe(II) in beach and delta deposits as well but saw no stimulating effect of additional OM or increased temperature. Interestingly, we observed a small but significant production of CH4 in all units despite the presence of large reservoirs of Fe(III), sulfate, and nitrate, indicating either the availability of substrates that are primarily used by methanogens or a tight physical coupling between fermentation and methanogenesis by direct electron transfer. Our study clearly illustrates a significant challenge that comes with the large heterogeneity on a narrow spatial scale that one encounters when studying soils that have complex histories.publishedVersio

Gut microbiome and metabolome of sea cucumber (Stichopus ocellatus) as putative markers for monitoring the marine sediment pollution in Pahang, Malaysia

Antibiotic contamination in the marine environment forms an emerging threat to marine ecosystems. This study aimed to compare the gut and coelomic microbiota of Stichopus ocellatus with sediments between two coastal districts of Pahang, which potentially conferring as putative biomarkers for sediment pollution monitoring. The composition of the bacteria communities was determined using 16S rRNA V3-region gene amplicon sequencing, while hybrid whole-genome sequencing was employed to analyze the genome of Vibrio parahaemolyticus. The trace elements and antibiotic compositions were access using high-throughput spectrometry. The alpha- and beta-diversity of bacteria in gut and sediment samples from Kuantan differed substantially within (p-value = 0.017604) and between samples (p-value <0.007), respectively. Vibrio genera predominated in Kuantan samples, while Flavobacterium and Synechococcus_E genera predominated in Pekan samples. Vibrio parahaemolyticus revealed the presence of tet(35) and blaCARB-33 genes that conceived resistance towards tetracycline and betalactam antibiotics, respectively, which were detected in sediment and gut samples

Streptococcus sp. genome sequencing

Novel Streptococcus species, Streptococcus sp. 'caviae' strain:Cavy grass

Labilibaculum manganireducens gen. nov., sp. nov. and Labilibaculum filiforme sp. nov., Novel Bacteroidetes Isolated from Subsurface Sediments of the Baltic Sea

Microbial communities in deep subsurface sediments are challenged by the decrease in amount and quality of organic substrates with depth. In sediments of the Baltic Sea, they might additionally have to cope with an increase in salinity from ions that have diffused downward from the overlying water during the last 9000 years. Here, we report the isolation and characterization of four novel bacteria of the Bacteroidetes from depths of 14–52 m below seafloor (mbsf) of Baltic Sea sediments sampled during International Ocean Discovery Program (IODP) Expedition 347. Based on physiological, chemotaxonomic and genotypic characterization, we propose that the four strains represent two new species within a new genus in the family Marinifilaceae, with the proposed names Labilibaculum manganireducens gen. nov., sp. nov. (type strain 59.10-2MT ) and Labilibaculum filiforme sp. nov. (type strains 59.16BT ) with additional strains of this species (59.10-1M and 60.6M). The draft genomes of the two type strains had sizes of 5.2 and 5.3 Mb and reflected the major physiological capabilities. The strains showed gliding motility, were psychrotolerant, neutrophilic and halotolerant. Growth by fermentation of mono- and disaccharides as well as pyruvate, lactate and glycerol was observed. During glucose fermentation, small amounts of electron equivalents were transferred to Fe(III) by all strains, while one of the strains also reduced Mn(IV). Thereby, the four strains broaden the phylogenetic range of prokaryotes known to reduce metals to the group of Bacteroidetes. Halotolerance and metal reduction might both be beneficial for survival in deep subsurface sediments of the Baltic Sea

Streptococcus sp. genome sequencing

Novel Streptococcus species, Streptococcus sp. 'caviae' strain:Cavy grass

Draft genome sequence of Sphingomonas sp. strain Sph1(2015), isolated from a fouled membrane filter used to produce drinking water

We report here the high-quality draft genome sequence of Sphingomonas sp. strain Sph1(2015), isolated from a fouled reverse osmosis membrane used for the production of high-quality drinking water. The draft sequence provides insights into the modus operandi of this strain to form biofilms on membrane surfaces. This knowledge offers tools to develop novel antifouling strategie

Draft genome sequence of Streptococcus caviae strain Cavy grass 6^T, isolated from domesticated guinea pig fecal samples

Streptococcus caviae strain Cavy grass 6T, isolated from fecal samples of pet guinea pigs, can metabolize a range of plant mono- and disaccharides, as well as polymeric carbohydrates. Here, we report the draft genome sequence of this strain, which comprises 2.11 Mb.</p

High-quality draft genome of the methanotroph Methylovulum psychrotolerans Str. HV10-M2 isolated from plant material at a high-altitude environment

Here we present the genome of Methylovulum psychrotolerans strain HV10-M2, a methanotroph isolated from Hardangervidda national park (Norway). This strain represents the second of the two validly published species genus with a sequenced genome. The other is M. miyakonense HT12, which is the type strain of the species and the type species of the genus Methylovulum. We present the genome of M. psychrotolerants str. HV10-M2 and discuss the differences between M. psychrotolerans and M. miyakonense. The genome size of M. psychrotolerans str. HV10-M2 is 4,923,400 bp and contains 4415 protein-coding genes, 50 RNA genes and an average GC content of 50.88%