ABSTRACT
BACKGROUND: The Uzon Caldera is one of the places on our planet with unique geological, ecological, and microbiological characteristics. Uzon oil is the youngest on Earth. Uzon oil has unique composition, with low proportion of heavy fractions and relatively high content of saturated hydrocarbons. Microbial communities of the «oil site¼ have a diverse composition and live at high temperatures (up to 97 °C), significant oscillations of Eh and pH, and high content of sulfur, sulfides, arsenic, antimony, and mercury in water and rocks. RESULTS: The study analyzed the composition, structure and unique genetics characteristics of the microbial communities of the oil site, analyzed the metabolic pathways in the communities. Metabolic pathways of hydrocarbon degradation by microorganisms have been found. The study found statistically significant relationships between geochemical parameters, taxonomic composition and the completeness of metabolic pathways. It was demonstrated that geochemical parameters determine the structure and metabolic potential of microbial communities. CONCLUSIONS: There were statistically significant relationships between geochemical parameters, taxonomic composition, and the completeness of metabolic pathways. It was demonstrated that geochemical parameters define the structure and metabolic potential of microbial communities. Metabolic pathways of hydrocarbon oxidation was found to prevail in the studied communities, which corroborates the hypothesis on abiogenic synthesis of Uzon hydrothermal petroleum.
Subject(s)
Archaea/classification , Bacteria/classification , Hot Springs/microbiology , Hydrocarbons/metabolism , Soil/chemistry , Archaea/genetics , Archaea/isolation & purification , Bacteria/genetics , Bacteria/isolation & purification , Biodegradation, Environmental , DNA, Ribosomal/genetics , Hot Springs/chemistry , Hydrogen-Ion Concentration , Metabolic Networks and Pathways , Microbiota , Phylogeny , RNA, Ribosomal, 16S/geneticsABSTRACT
The Halomonas sp. isolate SL48-SHIP-3 genome was obtained from metagenomics sequencing of the microbial mat of Salt Lake Number 48 (54.201806N, 78.179194E; Novosibirsk region, Russia). The sequenced and annotated genome is 2,575,909 bp and encodes 2,368 genes.
ABSTRACT
The Phormidium sp. strain SL48-SHIP genome was obtained from metagenomics sequencing of the microbial mat of Salt Lake No. 48 (54.201806 N, 78.179194 E; Novosibirsk Region, Russia). The sequenced and annotated genome is 4,384,607 bp and encodes 3,807 genes.
ABSTRACT
Halorubrum sp. strain 48-1-W was isolated from a water sample from a saline lake (Novosibirsk Region, Russia, 54°14'N 78°13'E). The sequenced and annotated genome is 3,584,929 bp and contains 3,506 genes.
ABSTRACT
The Bacillus altitudinis strain KL4 was isolated from bottom sediments in Lake Krotovaya Lyaga (Novosibirsk Region, Russia, 53.7°N, 77.9°E). The sequenced and annotated genome is 3,738,419 bp long and carries 3,909 genes.
ABSTRACT
Bacillus altitudinis strain KU-skv2(2) was isolated from a microbial mat on an anthropogenic pipe from Caldera Uzon (Kamchatka, Russia, 54°30'0.23â³N, 160°0'15.18â³E). The sequenced and annotated genome is 3,739,340 bp in size and encodes 3,929 genes.
ABSTRACT
The Anoxybacillus flavithermus KU2-6-11 was isolated from sediments of a nameless hot spring. The hot spring is located in Uzon caldera (Kamchatka, Russia). The sequenced and annotated genome is 2,646,305 bp and encodes 2787genes. The draft genome sequence of the Anoxybacillus flavithermus KU2-6-11 has been deposited at DDBJ/EMBL/GenBank under the accession PEDM01000000 and the sequences could be found at the site https://www.ncbi.nlm.nih.gov/nuccore/PEDM01000000.
ABSTRACT
Using the ability of poorly differentiated cells to natively internalize fragments of extracellular double-stranded DNA as a marker, we isolated a tumorigenic subpopulation present in Krebs-2 ascites that demonstrated the features of tumor-inducing cancer stem cells. Having combined TAMRA-labeled DNA probe and the power of RNA-seq technology, we identified a set of 168 genes specifically expressed in TAMRA-positive cells (tumor-initiating stem cells), these genes remaining silent in TAMRA-negative cancer cells. TAMRA+ cells displayed gene expression signatures characteristic of both stem cells and cancer cells. The observed expression differences between TAMRA+ and TAMRA- cells were validated by Real Time PCR. The results obtained corroborated the biological data that TAMRA+ murine Krebs-2 tumor cells are tumor-initiating stem cells. The approach developed can be applied to profile any poorly differentiated cell types that are capable of immanent internalization of double-stranded DNA.
Subject(s)
Biomarkers, Tumor/genetics , Carcinoma, Krebs 2/genetics , Cell Differentiation , Gene Expression Profiling/methods , Transcriptome , Alu Elements , Animals , Biomarkers, Tumor/metabolism , Carcinoma, Krebs 2/pathology , DNA/genetics , DNA/metabolism , Fluorescent Dyes/metabolism , Gene Expression Regulation, Neoplastic , Gene Regulatory Networks , High-Throughput Nucleotide Sequencing , Neoplastic Stem Cells/metabolism , Neoplastic Stem Cells/pathology , Phenotype , Real-Time Polymerase Chain Reaction , Rhodamines/metabolism , Sequence Analysis, RNA , Signal TransductionABSTRACT
The Thermoactinomyces sp. strain Gus2-1 was isolated from hot-spring sediments sample from the hot-spring Gusikha in Bargusin Valley (Baikal Rift Zone, Russia). The sequenced and annotated genome is 2,623,309 bp and encodes 2513 genes. The draft genome sequence of the Thermoactinomyces sp. strain Gus2-1 has been deposited at DDBJ/EMBL/GenBank under the accession JPZM01000000 and the sequences could be found at the site https://www.ncbi.nlm.nih.gov/nuccore/JPZM01000000.
ABSTRACT
The draft genome sequence of Aeribacillus pallidus strain 8m3, a thermophilic aerobic oil-oxidizing bacterium isolated from production water from the Dagang high-temperature oil field, China, is presented here. The genome is annotated to provide insights into the genomic and phenotypic diversity of the genus Aeribacillus.
ABSTRACT
A Halorubrum H3 strain was isolated from a water and silt sample from Burlinskoye Lake (Altai Krai, Russia, 53°8'19â³N 78°24'27â³E). According to 16S rRNA sequences, this strain is most closely related to Halorubrum saccharovorum. The completely sequenced and annotated genome is 3,282,373 bp and contains 3,237 genes.
ABSTRACT
Anoxybacillus flavithermus strain 25 was isolated from a sediment sample from the Garga hot spring in the Barguzin Valley, Baikal Region, Russian Federation (54°19'3.72â³N, 110°59'38.4â³E). The sequenced and annotated genome is 2,838,680 bp and encodes 3,009 genes.
ABSTRACT
Geobacillus stearothermophilus strains 22 and 53 were isolated from sediment samples isolated from the Garga hot spring (72°C) located in the valley of the river Barguzin (the Baikal region, Russian Federation) (54°19'3.72â³N, 110°59'38.4â³E).
ABSTRACT
The Geobacillus icigianus G1w1(T) strain was isolated from sludge samples of unnamed vaporing hydrothermal (97°Ð¡) outlets situated in a geyser in the Troinoy region (Valley of Geysers, Kronotsky Nature Reserve, Kamchatka, Russian Federation; 54°25'51.40â³N, 160°7'41.40â³E). The sequenced and annotated genome is 3,457,810 bp and encodes 3,342 genes.
