A5046992674- RNA Research and Splicing
- MicroRNA in disease regulation
- Chromosomal and Genetic Variations
- DNA Repair Mechanisms
- Genetic and Environmental Crop Studies
- Entomopathogenic Microorganisms in Pest Control
- Insect Resistance and Genetics
- CRISPR and Genetic Engineering
- RNA regulation and disease
- Cytomegalovirus and herpesvirus research
- Advanced biosensing and bioanalysis techniques
- Congenital heart defects research
- Toxoplasma gondii Research Studies
- Single-cell and spatial transcriptomics
- Research Data Management Practices
- Cancer Genomics and Diagnostics
- Bacterial Genetics and Biotechnology
- Genomics and Chromatin Dynamics
- Scientific Computing and Data Management
- Genetic diversity and population structure
- Phosphodiesterase function and regulation
- Gene expression and cancer classification
- Plant Disease Resistance and Genetics
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Neuropeptides and Animal Physiology
Science for Life Laboratory
2018-2024
Stockholm University
2018-2024
KTH Royal Institute of Technology
2024
Abstract The exosome is a ribonucleolytic complex that plays important roles in RNA metabolism. Here we show the necessary for repair of DNA double-strand breaks (DSBs) human cells and clearance an essential step homologous recombination. Transcription DSB-flanking sequences results production damage-induced long non-coding RNAs (dilncRNAs) engage DNA-RNA hybrid formation. Depletion EXOSC10, catalytic subunit, leads to increased dilncRNA levels. Moreover, targeting ssDNA-binding protein RPA...
Abstract Standardised analysis pipelines are an important part of FAIR bioinformatics research. Over the last decade, there has been a notable shift from point-and-click pipeline solutions such as Galaxy towards command-line Nextflow and Snakemake. We report on recent developments in nf-core frameworks that have led to widespread adoption across many scientific communities. describe how adopting standards enables faster development, improved interoperability, collaboration with >8,000...
Recent studies suggest that transcription takes place at DNA double-strand breaks (DSBs), transcripts DSBs are processed by Drosha and Dicer into damage-induced small RNAs (diRNAs), diRNAs required for repair. However, have been mostly detected in reporter constructs or repetitive sequences, their existence endogenous loci has questioned recent reports. Using the homing endonuclease I-PpoI, we investigated diRNA production genetically unperturbed human mouse cells. I-PpoI is an ideal tool to...
Schizophrenia may arise from subtle abnormalities in brain development due to alterations the functions of candidate susceptibility genes such as Disrupted-in-schizophrenia 1 (DISC1) and Neuregulin (NRG1) . To provide novel insights into DISC1 development, we mapped expression zebrafish disc1 set out characterize its role early embryonic using morpholino antisense methods. These studies revealed a critical requirement for oligodendrocyte by promoting specification olig2 -positive cells...
Abstract MicroRNAs (miRNAs) exert their gene regulatory effects on numerous biological processes based selection of target transcripts. Current experimental methods available to identify miRNA targets are laborious and require millions cells. Here we have overcome these limitations by fusing the effector protein Argonaute2 RNA editing domain ADAR2, allowing detection transcriptome-wide in single miRNAs guide fusion natural transcripts, causing them undergo A>I editing, which can be...
Abstract RNA polymerase II is recruited to DNA double‐strand breaks (DSBs), transcribes the sequences that flank break and produces a novel type has been termed damage‐induced long non‐coding (dilncRNA). DilncRNAs can be processed into short, miRNA‐like molecules or degraded by different ribonucleases. They also form double‐stranded RNAs DNA:RNA hybrids. The hybrids formed at DSBs contribute recruitment of repair factors during early steps homologous recombination (HR) and, in this way,...
The widespread protozoan Toxoplasma gondii chronically infects neural tissue in vertebrates and is linked to various neurological neuropsychiatric disorders humans. However, its effects on sparsely infected neurons broader circuits remain elusive. Our study reveals that T. infection disrupts cytoskeletal dynamics SH-SY5Y neuronal cells primary cortical neurons. Infected undergo significant cytomorphological changes, including retraction of dendritic extensions alterations microtubule F-actin...
Callosobruchus maculatus is a major agricultural pest of legume crops worldwide and an established model system in ecology evolution. Yet, current molecular biological resources for this species are limited. Here, we employ Hi-C sequencing to generate greatly improved genome assembly annotate its repetitive elements dedicated in-depth effort where manually curate classify the most abundant unclassified repeat subfamilies. We present scaffolded chromosome-level assembly, which 1.01 Gb total...
Abstract Objectives Triple-negative breast cancer (TNBC) is a highly aggressive subtype with limited treatment options. Unlike other subtypes, the scarcity of specific therapies and greater frequencies distant metastases contribute to its aggressiveness. We aimed find epigenetic changes that aid in understanding dissemination process these cancers. Data description Using CRISPR/Cas9, our experimental approach led us identify disrupt an insulator element, IE8, whose activity seemed relevant...
Abstract MicroRNAs are small RNA molecules that can repress the expression of protein coding genes post-transcriptionally. Previous studies have shown microRNAs also alternative functions including target noise buffering and co-expression, but these observations been limited to a few microRNAs. Here we systematically study microRNA in mouse embryonic stem cells, by genetically deleting Drosha - leading global loss We apply complementary single-cell RNA-seq methods variation targets...
The early evolution of sex chromosomes has remained obscure for more than a century. Vandiemenella viatica species group morabine grasshoppers is highly suited studying the stages chromosome divergence and degeneration Y chromosome. This stems from fact that neo-XY have independently evolved multiple times by X-autosome fusions with different autosomes. Here, we generated new chromosome-level assemblies two chromosomal races representing karyotypes without neo-sex (P24XY P24X0), sequence...
Abstract MicroRNAs are gene regulatory molecules that play important roles in numerous biological processes including human health. The function of a given microRNA is defined by its selection target transcripts, yet current state-of-the-art experimental methods to identify targets laborious and require millions cells. We have overcome these limitations fusing the effector protein Argonaute2 RNA editing domain ADAR2, allowing for first time detection transcriptome-wide single Our agoTRIBE...