Forests in the East Ural Radioactive Trace: structure, spatial distribution, and the 90Sr inventory 63 years after the Kyshtym accident.

On 29 September 1957, the so-called Kyshtym accident occurred at the USSR's first nuclear weapons plutonium production facility. The East Ural State Reserve (EUSR) was established in the most contaminated part of the radioactive trace, where a substantial part of the forests died in the first years after the accident. The purpose of our study was to evaluate the natural restoration of forests and to verify and update the taxonomic parameters that characterize the current state of forest stands in the EUSR. Data on the forest inventory of 2003 and results of our research of 2020 performed by the same methods on 84 randomly selected sites served as the basis for this work. We developed models to approximate growth dynamics and then updated the 2003 taxation-related forest data for the entire EUSR. According to these models and ArcGIS construction of new data, forest-covered lands make up 55.8% of the whole EUSR territory. The proportion of birch forests in the forest-covered lands is 91.9%; 60.7% of wood resources are located in mature and overmature (81-120-year-old) birch forests. The total timber stock in the EUSR is > 1385 thousand tons. It was revealed that ~ 4.2 × 1014 Bq of 90Sr is situated within the EUSR. The main stock of 90Sr is found in soils. The 90Sr stock in the stands is ~ 1.6-3.0% of the total content in the forests. Only a part of the EUSR forest stands can be used for practical applications.

Whole genome sequencing data and analyses of the underlying SUP35 transcriptional regulation for a Saccharomyces cerevisiae nonsense suppressor mutant.

Termination of translation in eukaryotes is governed by two release factors encoded by the SUP45 and SUP35 genes in Saccharomyces cerevisiae. Previously, a set of mutations in these genes had been obtained. However, the exact sequence change associated with one mutation, sup35-222, was not identified by Sanger sequencing of the SUP35 region. Presented here are whole-genome sequencing data for the sup35-222 strain, data on copy number variation in its genome along with supporting pulse-field gel electrophoresis experiment data, and the list of single-nucleotide variations that differentiate this strain and its wild-type ancestor. One substitution upstream the SUP35 gene was located in a sequence corresponding to the Abf1-binding site. Data obtained from the introduction of this variation from sup35-222 strain into a different wild-type strain, specifically, detection of a nonsense-suppressor phenotype accompanied by a decrease in the Sup35 protein level, are also presented in this article.

Allelic variants of hereditary prions: The bimodularity principle.

Modern biology requires modern genetic concepts equally valid for all discovered mechanisms of inheritance, either "canonical" (mediated by DNA sequences) or epigenetic. Applying basic genetic terms such as "gene" and "allele" to protein hereditary factors is one of the necessary steps toward these concepts. The basic idea that different variants of the same prion protein can be considered as alleles has been previously proposed by Chernoff and Tuite. In this paper, the notion of prion allele is further developed. We propose the idea that any prion allele is a bimodular hereditary system that depends on a certain DNA sequence (DNA determinant) and a certain epigenetic mark (epigenetic determinant). Alteration of any of these 2 determinants may lead to establishment of a new prion allele. The bimodularity principle is valid not only for hereditary prions; it seems to be universal for any epigenetic hereditary factor.

Genome Sequencing and Comparative Analysis of Saccharomyces cerevisiae Strains of the Peterhof Genetic Collection.

The Peterhof genetic collection of Saccharomyces cerevisiae strains (PGC) is a large laboratory stock that has accumulated several thousands of strains for over than half a century. It originated independently of other common laboratory stocks from a distillery lineage (race XII). Several PGC strains have been extensively used in certain fields of yeast research but their genomes have not been thoroughly explored yet. Here we employed whole genome sequencing to characterize five selected PGC strains including one of the closest to the progenitor, 15V-P4, and several strains that have been used to study translation termination and prions in yeast (25-25-2V-P3982, 1B-D1606, 74-D694, and 6P-33G-D373). The genetic distance between the PGC progenitor and S288C is comparable to that between two geographically isolated populations. The PGC seems to be closer to two bakery strains than to S288C-related laboratory stocks or European wine strains. In genomes of the PGC strains, we found several loci which are absent from the S288C genome; 15V-P4 harbors a rare combination of the gene cluster characteristic for wine strains and the RTM1 cluster. We closely examined known and previously uncharacterized gene variants of particular strains and were able to establish the molecular basis for known phenotypes including phenylalanine auxotrophy, clumping behavior and galactose utilization. Finally, we made sequencing data and results of the analysis available for the yeast community. Our data widen the knowledge about genetic variation between Saccharomyces cerevisiae strains and can form the basis for planning future work in PGC-related strains and with PGC-derived alleles.