A5031989836- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- Molecular Biology Techniques and Applications
- Cancer-related molecular mechanisms research
- Nematode management and characterization studies
- Reproductive Physiology in Livestock
- Skin and Cellular Biology Research
- Agriculture, Plant Science, Crop Management
- Botany and Plant Ecology Studies
- Insect symbiosis and bacterial influences
- Plant Virus Research Studies
- Entomopathogenic Microorganisms in Pest Control
- Bioinformatics and Genomic Networks
- Wnt/β-catenin signaling in development and cancer
- Genomics, phytochemicals, and oxidative stress
- Environmental Impact and Sustainability
- Forest Management and Policy
- RNA Research and Splicing
- Insect and Pesticide Research
- Forest Biomass Utilization and Management
- Wheat and Barley Genetics and Pathology
- Plant Pathogenic Bacteria Studies
- Dermatological and Skeletal Disorders
- RNA modifications and cancer
- Genetic and phenotypic traits in livestock
University of Life Sciences in Poznań
2014-2024
Poznań University of Technology
2011
High-throughput sequencing technologies, such as the Illumina Hi-seq, are powerful new tools for investigating a wide range of biological and medical problems. Massive complex data sets produced by sequencers create need development statistical computational methods that can tackle analysis management data. The normalization is one most crucial steps processing this process must be carefully considered it has profound effect on results analysis. In work, we focus comprehensive comparison...
Cryptorchidism is the most common form of disorder sex development in male dogs, but its hereditary predisposition poorly elucidated. The gonadal transcriptome nine unilaterally cryptorchid dogs and seven control was analyzed using RNA-seq. Comparison between scrotal inguinal gonads unilateral revealed 8,028 differentially expressed genes (DEGs) (3,377 up-regulated 4,651 down-regulated). A similar number DEGs (7,619) found by comparing undescended testicles with descended dogs. methylation...
Summary Cassava brown streak virus (CBSV) and Ugandan cassava (UCBSV) are responsible for significant yield losses in eastern sub‐Saharan Africa. To study the possible mechanisms of plant resistance to CBSVs, we inoculated CBSV‐susceptible CBSV‐resistant varieties with a mixed infection CBSVs using top‐cleft grafting. Transcriptome profiling two was performed at earliest time point full (28 days after grafting) susceptible scions. The expression genes encoding proteins RNA silencing,...
Abstract Cereal leaf beetle (CLB, Oulema melanopus , Coleoptera, Chrysomelidae) is a serious agricultural pest that causes considerable damages to production. The aim of this study was characterize the bacterial communities associated with larvae and imagoes CLB collected from various cereal host species locations. profile characterized by 16S rRNA gene sequencing at V3-V4 hypervariable region. Using taxonomy-based analysis, community containing 16 phyla, 26 classes, 49 orders, 78 families,...
The aim of the study was to test applicability forecasting in analysis variability prices and supply wood Poland. It relies on autoregressive integrated model (ARIMA) that takes into account level cyclic, seasonal, irregular fluctuations long-term trend as tools for assessment predictions selected medium-sized assortments. Elements time series were determined taking cyclical character quarterly distribution. data included information about (amount) (value) sold by state forests years...
Abstract The cereal leaf beetle (CLB, Oulema melanopus ) is one of the major pests. effect insecticides belonging to different chemical classes, with mechanisms action and active substances' concentrations on CLB bacterial microbiome, was investigated. Targeted metagenomic analysis V3–V4 regions 16S ribosomal gene used determine composition microbiome. Each caused a decrease in abundance bacteria genus Pantoea , an increase Stenotrophomonas Acinetobacter compared untreated insects. After...
Herein we present the applicability of single-molecule (PacBio RS) and second-generation sequencing technology (Illumina) to characterization large genomic deletions. By testing samples previously characterized using a Sanger approach, our methods determined that both next-generation platforms were able identify position deletion breakpoints. Our results point out various advantages when characterizing deletions; however, special attention must be dedicated identical sequences flanking...
Resistance to anti-cancer drugs is the main challenge in oncology. In pre-clinical studies, established cancer cell lines are primary tools deciphering molecular mechanisms of this phenomenon. study, we proposed a new, transcriptome-focused approach, utilizing model isogenic with gradually changing resistance. We analyzed trends gene expression aim find out scaffold resistance development process. The ovarian line A2780 was treated stepwise increased concentrations paclitaxel (PTX) generate...
Nrf2 (nuclear factor erythroid 2 (NF-E2)-related 2) transcription is recognized for its pro-survival and cell protective role upon exposure to oxidative, chemical, or metabolic stresses. controls a number of cellular processes such as proliferation, differentiation, apoptosis, autophagy, lipid synthesis, metabolism glucose target activation in chronic diseases like diabetes, neurodegenerative, inflammatory diseases. The dark side revealed when regulation imbalanced (e.g., via oncogene...
Disorders of sex development (DSDs) are congenital malformations defined as discrepancies between chromosomes and phenotypical sex. Testicular or ovotesticular XX DSDs frequently observed in female dogs, while monogenic XY less frequent. Here, we applied whole genome sequencing (WGS) to search for causative mutations DSD females French Bulldogs (FB) American Staffordshire Terries (AST) Yorkshire (YT). The WGS results were validated by Sanger ddPCR. It was shown that a missense SNP the PADI6...
We investigated gut bacteria from three insect species for the presence of plant growth properties (PGP). Out 146 bacterial strains obtained 20 adult specimens Scolytidae sp., 50 Oulema melanopus, and 150 Diabrotica virgifera, we selected 11 displaying following: PGP, phosphate solubility, production cellulase, siderophore, lipase, protease, hydrogen cyanide. The were tested promotion ability on tomato (Lycopersicon esculentum) plants. Each strain was individually, all together as a...
Two-color DNA microarrays are commonly used for the analysis of global gene expression. They provide information on relative abundance thousands mRNAs. However, generated data need to be normalized minimize systematic variations so that biologically significant differences can more easily identified. A large number normalization procedures have been proposed and many softwares microarray available. Here, we applied two methods (median loess) from packages softwares. were examined using a...
Summary We compared two of the most common methods for differential expression analysis in RNA-seq field: edgeR and DESeq2. evaluated these based on four real plant datasets. The results indicate that there is a large number joint differentially expressed genes between methods. However, depending research goal preparation an experiment, different approaches to statistical interpretation can be suggested. focus answering question: what workflow should used datasets under consideration...
Loricrin keratoderma (LK) is a rare autosomal dominant genodermatosis caused by LORICRIN gene mutations. The pathogenesis of the disease not yet fully understood. So far, only 10 pathogenic variants in have been described, with all them but one being deletions or insertions. significance nonsense remains unclear. Furthermore, no data regarding RNA expression affected patients are available. aim this study to describe two found distinct families: novel variant c.639_642dup and c.10C > T...
The main scope of the study is ambiguous genes, i.e. genes whose expression difficult to estimate from data produced by next-generation sequencing technologies. We focused on RNA (RNA-Seq) type experiment performed Illumina platform. It crucial identify such and understand cause their difficulty, as these may be involved in some diseases. By giving misleading results, they could contribute a misunderstanding certain diseases, which lead inappropriate treatment. thought that would map because...
The informational content of RNA sequencing is currently far from being completely explored. Most the analyses focus on processing tables counts or finding isoform deconvolution via exon junctions. This article presents a comparison several techniques that can be used to estimate differential expression exons small genomic regions expression, based their coverage function shapes. problem defined as differentially expressed between two samples using local profile normalization and statistical...
SUMMARY Cassava brown streak viruses (CBSVs) are responsible for significant cassava yield losses in eastern sub–Saharan Africa. In the present work, we inoculated CBSV–susceptible and –resistant varieties with a mixed infection of CBSVs using top-cleft grafting. Virus titres grafted scions were monitored time course experiment both varieties. We performed RNA-seq two at earliest time-point full susceptible scions. Genes encoding proteins RNA silencing salicylic acid pathways regulated...
This paper presents the application of prediction in analysis market price volatility Polish conditions wood processing by-products form biomass. The ARIMA model, which takes into account cyclical, seasonal, irregular fluctuations historical data on basis forecast and long-term trends selected products were made, was used predicting prices. Comparisons made between method multiplicative Winters–Holt model. During period studied (2017–2022), changes biomass characterized by a wide spread...
The study attempted to estimate the lactation curves of primiparous dairy cows in relation their feeding management. Therefore, first aim was determine and compare using Wood’s model association between second objective investigate effect culling rate on improvement milk yield herds. conducted four commercial farms Polish Holstein–Friesian different systems (TMR—total mixed ration PMR—partial ration) management (T1—one TMR throughout lactation; P1—one PMR T2 T3—three feed periods such as...
DNA microarrays, which are among the most popular genomic tools, widely applied in biology and medicine. Boutique arrays, small, spotted, dedicated constitute an inexpensive alternative to whole-genome screening methods. The data extracted from each microarray-based experiment must be transformed processed prior further analysis eliminate any technical bias. normalization of is crucial step microarray pre-processing this process carefully considered as it has a profound effect on results...
By the process of branch duplication, any tree may be generated from a type called seed. We describe correspondence between trees and seeds by showing that each grows unique seed giving an algorithm to produce this Using results about structure seeds, we enumerate given diameter.
<title>Abstract</title> <bold>Background</bold>: The Mendelian Disorders of Cornification (MeDOC) comprise a large number disorders that are manifested by either localised (palmoplantar keratoderma, PPK) or generalised (ichthyoses) symptoms. MeDOC highly heterogenic in terms genetics and phenotype. Consequently, diagnostic process is challenging before implementation the next generation sequencing, was mostly symptomatic, not causal, which limited research on those diseases. aim study to...
Abstract Background The Mendelian Disorders of Cornification (MeDOC) comprise a large number disorders that present with either localised (palmoplantar keratoderma, PPK) or generalised (ichthyoses) signs. MeDOC are highly heterogenic in terms genetics and phenotype. Consequently, diagnostic process is challenging before implementation the next generation sequencing, was mostly symptomatic, not causal, which limited research on those diseases. aim study to genetically characterise cohort 265...