Genome Analysis and Potential Ecological Functions of Members of the Genus <i>Ensifer</i> from Subsurface Environments and Description of <i>Ensifer oleiphilus</i> sp. nov.

The current work deals with genomic analysis, possible ecological functions, and biotechnological potential of two bacterial strains, HO-A22T and SHC 2-14, isolated from unique subsurface environments, the Cheremukhovskoe oil field (Tatarstan, Russia) and nitrate- and radionuclide-contaminated groundwater (Tomsk region, Russia), respectively. New isolates were characterized using polyphasic taxonomy approaches and genomic analysis. The genomes of the strains HO-A22T and SHC 2-14 contain the genes involved in nitrate reduction, hydrocarbon degradation, extracellular polysaccharide synthesis, and heavy metal detoxification, confirming the potential for their application in various environmental biotechnologies. Genomic data were confirmed by cultivation studies. Both strains were found to be neutrophilic, chemoorganotrophic, facultatively anaerobic bacteria, growing at 15–33 °C and 0–1.6% NaCl (w/v). The 16S rRNA gene sequences of the strains were similar to those of the type strains of the genus Ensifer (99.0–100.0%). Nevertheless, genomic characteristics of strain HO-A22T were below the thresholds for species delineation: the calculated average nucleotide identity (ANI) values were 83.7–92.4% (T (=VKM B-3646T = KCTC 92427T) represented a novel species of the genus Ensifer, with the proposed name Ensifer oleiphilus sp. nov. Strain SHC 2-14 was assigned to the species ‘Ensifer canadensis’, which has not been validly published. This study expanded the knowledge about the phenotypic diversity among members of the genus Ensifer and its potential for the biotechnologies of oil recovery and radionuclide pollution treatment

Whole-genome sequence data and analysis of type strains ‘Pusillimonas nitritireducens’ and ‘Pusillimonas subterraneus’ isolated from nitrate- and radionuclide-contaminated groundwater in Russia

Two strains, ‘Pusillimonas nitritireducens’ JR1/69-2-13T and ‘Pusillimonas subterraneus’ JR1/69-3-13T, of aerobic, motile, Gram-negative, non-spore-forming, organotrophic, psychrotolerant bacteria were isolated from a sample of nitrate- and radionuclide-contaminated groundwater in Russia. Here we describe the draft genomes of these strains. The sequenced and annotated genome of the strain JR1/69-2-13T contained 4.3 Mbp with 4108 protein-coding genes. The genome of the strain JR1/69-3-13T contained 4.5 Mbp with 4260 protein-coding genes. Genome analysis of both strains provides an insight into the genomic basis of their resistance to nitrate, heavy metals and metalloids. The draft genome sequences of strains ‘Pusillimonas nitritireducens’ JR1/69-2-13T and ‘Pusillimonas subterraneus’ JR1/69-3-13T are available at DDBJ/EMBL/GenBank under the accession nos. https://www.ncbi.nlm.nih.gov/nuccore/PDNV00000000 and https://www.ncbi.nlm.nih.gov/nuccore/PDNW00000000, respectively. Keywords: Draft genome, Gene prediction, ‘Pusillimonas nitritireducens’, ‘Pusillimonas subterraneus’, denitrification, Metal resistanc

Correction: Semenova et al. Physiological and Genomic Characterization of <i>Actinotalea subterranea</i> sp. nov. from Oil-Degrading Methanogenic Enrichment and Reclassification of the Family <i>Actinotaleaceae. Microorganisms</i> 2022, <i>10,</i> 378

The authors wish to make the following correction to this paper [...

Modern strategy of tumor suppressor gene cloning: B-cell chronic lymphocytic leukemia candidate genes search as an illustration

Genes that normally function to prevent or suppress malignancy are known as "tumor suppressor genes" or TSG. It is supposed that the chromosomal region lost in the tumor cells harbors TSG preventing cancer. The examination of this region in the normal chromosome would permit identification of the particular suppressor gene. The methods employed in such search are diverse. As a rule, success is achieved by combining cytogenetic, genetic and physical genome mapping with analysis of genomic and cDNA clones. We have constructed a cosmid contig in the 13q14.3 region which is expected to contain a putative B-cell chronic lymphocytic leukemia (BCLL) TSG, cDNA clones corresponding to new human gene Leu5 have been found to locate nearby the borders of homo- and hemizygous deletions in BCLL patients. Gene Leu5 encodes a zinc-finger protein that shares homology with some mammalian genes taking part in early embryogenesis and tumor progression. Leu5 gene could be an interesting candicate for BCLL TSG