9 research outputs found
Symmetry in a Four-Cluster Triangle Structure of the Siberian Stone Pine (Pinus sibirica Du Tour) Transcriptome
No full textThe RNA isolated from three different tissues of Siberian stone pine—cambium, needles and buds—were sequenced and assembled for each tissue separately. [...
De novo sequencing, assembly and functional annotation of Armillaria borealis genome
No full textOpen-Access-Publikationsfonds 202
Complete mitochondrial genome of a woolly mammoth (Mammuthus primigenius) from Maly Lyakhovsky Island (New Siberian Islands, Russia) and its phylogenetic assessment
No full textWe present a complete sequence and an annotation of the mitochondrial genome of the woolly mammoth (Mammuthus primigenius) found in 2012 on Maly Lyakhovsky Island (North-Eastern Siberia, Russia). The genome was 16,851 bp long and contained 13 protein-coding, 22 tRNA, and 2 rRNA genes. It was AT reach (61.3%) with A = 32.9%, T = 28.4%, C = 25.3%, and G = 13.4%. © 2018 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group
De Novo Assembly and Cluster Analysis of Siberian Larch Transcriptome and Genome
No full textТекст статьи не публикуется в открытом доступе в соответствии с политикой журнала.We studied Siberian Larch (Larix Sibirica) transcriptome making de novo assembly and cluster analysis of contigs frequency dictionaries. Also, some preliminary results of similar study of the larch genome are present. It was found that the larch transcriptome yields a number of unexpected symmetries in the statistical and combinatorial properties of the entities
De Novo Assembly and Cluster Analysis of Siberian Larch Transcriptome and Genome
No full textТекст статьи не публикуется в открытом доступе в соответствии с политикой журнала.We studied Siberian Larch (Larix Sibirica) transcriptome making de novo assembly and cluster analysis of contigs frequency dictionaries. Also, some preliminary results of similar study of the larch genome are present. It was found that the larch transcriptome yields a number of unexpected symmetries in the statistical and combinatorial properties of the entities
De novo sequencing, assembly and functional annotation of Armillaria borealis genome
No full textСтатья из журнала.BACKGROUND: Massive forest decline has been observed almost everywhere as a result of negative anthropogenic and climatic effects, which can interact with pests, fungi and other phytopathogens and aggravate their effects. Climatic changes can weaken trees and make fungi, such as Armillaria more destructive. Armillaria borealis (Marxm. & Korhonen) is a fungus from the Physalacriaceae family (Basidiomycota) widely distributed in Eurasia, including Siberia and the Far East. Species from this genus cause the root white rot disease that weakens and often kills woody plants. However, little is known about ecological behavior and genetics of A. borealis. According to field research data, A. borealis is less pathogenic than A. ostoyae, and its aggressive behavior is quite rare. Mainly A. borealis behaves as a secondary pathogen killing trees already weakened by other factors. However, changing environment might cause unpredictable effects in fungus behavior. RESULTS: The de novo genome assembly and annotation were performed for the A. borealis species for the first time and presented in this study. The A. borealis genome assembly contained ~ 68 Mbp and was comparable with ~ 60 and ~ 79.5 Mbp for the A. ostoyae and A. mellea genomes, respectively. The N50 for contigs equaled 50,544 bp. Functional annotation analysis revealed 21,969 protein coding genes and provided data for further comparative analysis. Repetitive sequences were also identified. The main focus for further study and comparative analysis will be on the enzymes and regulatory factors associated with pathogenicity. CONCLUSIONS: Pathogenic fungi such as Armillaria are currently one of the main problems in forest conservation. A comprehensive study of these species and their pathogenicity is of great importance and needs good genomic resources. The assembled genome of A. borealis presented in this study is of sufficiently good quality for further detailed comparative study on the composition of enzymes in other Armillaria species. There is also a fundamental problem with the identification and classification of species of the Armillaria genus, where the study of repetitive sequences in the genomes of basidiomycetes and their comparative analysis will help us identify more accurately taxonomy of these species and reveal their evolutionary relationships
Семикластерная структура генома хлоропласта лиственницы
No full textThe paper presents a novel approach to study a nucleotide sequence structure with respect to
the chloroplast genome DNA sequence analysis. A specific frequencies distribution pattern of the
consecutive triple nucleotide fragments was identified in the chloroplast genome DNA sequence,
which demonstrated a non-degenerated pattern with seven clustersПроанализированы структуры, выделяемые в нуклеотидных последовательностях с
помощью анализа распределений фрагментов генома. Показано, что последовательность
генома хлоропласта обладает невырожденной семикластерной структурой в
распределении таких фрагментов по частотам триплето
Семикластерная структура генома хлоропласта лиственницы
No full textThe paper presents a novel approach to study a nucleotide sequence structure with respect to
the chloroplast genome DNA sequence analysis. A specific frequencies distribution pattern of the
consecutive triple nucleotide fragments was identified in the chloroplast genome DNA sequence,
which demonstrated a non-degenerated pattern with seven clustersПроанализированы структуры, выделяемые в нуклеотидных последовательностях с
помощью анализа распределений фрагментов генома. Показано, что последовательность
генома хлоропласта обладает невырожденной семикластерной структурой в
распределении таких фрагментов по частотам триплето
