A5055416392- Plant Pathogens and Fungal Diseases
- Plant-Microbe Interactions and Immunity
- Acute Lymphoblastic Leukemia research
- Plant Pathogens and Resistance
- Cancer Genomics and Diagnostics
- Genomics and Phylogenetic Studies
- Marine Sponges and Natural Products
- Microbial Community Ecology and Physiology
- Epigenetics and DNA Methylation
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Genomic variations and chromosomal abnormalities
- Microbial Natural Products and Biosynthesis
- Plant pathogens and resistance mechanisms
- Chromosomal and Genetic Variations
- Fungal and yeast genetics research
- Plant biochemistry and biosynthesis
- Geochemistry and Elemental Analysis
- Paleontology and Stratigraphy of Fossils
- Plant Disease Resistance and Genetics
- Plant Molecular Biology Research
- Bryophyte Studies and Records
- Mycorrhizal Fungi and Plant Interactions
- Bioenergy crop production and management
- SARS-CoV-2 and COVID-19 Research
- Autophagy in Disease and Therapy
Science for Life Laboratory
2018-2023
Uppsala University
2011-2023
Swedish University of Agricultural Sciences
2010-2017
New South Wales Department of Primary Industries
2002
Background Fungal mating types in self-incompatible Pezizomycotina are specified by one of two alternate sequences occupying the same locus on corresponding chromosomes. One sequence is characterized a gene encoding an HMG protein, while hallmark other protein with α1 domain showing similarity to Matα1p Saccharomyces cerevisiae. DNA-binding proteins ubiquitous and well characterized. In contrast, have limited distribution their evolutionary origin obscure, precluding complete understanding...
High-mobility group (HMG) B proteins are eukaryotic DNA-binding characterized by the HMG-box functional motif. These transcription factors play a pivotal role in global genomic functions and control of genes involved specific developmental or metabolic pathways. The filamentous ascomycete Podospora anserina contains 12 genes. Of these, four have been previously characterized; three mating-type that fertilization development fruit-body, whereas last one encodes factor mitochondrial DNA...
Sex chromosomes have evolved independently multiple times in eukaryotes and are therefore considered a prime example of convergent genome evolution. known to emerge after recombination is halted between homologous pair chromosomes, this leads range non-adaptive modifications causing gradual degeneration gene loss on the sex-limited chromosome. However, proximal causes suppression pace at which subsequently occurs remain unclear.
Autophagy, a major catabolic process in eukaryotes, was initially related to cell tolerance nutrient depletion. In plants autophagy has also been widely biotic and abiotic stresses (through the induction or repression of programmed death, PCD) as well promotion developmentally regulated PCD, starch degradation caloric restriction important for life span. Much less is known regarding its role plant differentiation. Here we show that macroautophagy, pathway driven by engulfment cytoplasmic...
The fungal pathogen Setosphaeria turcica causes turcicum or northern leaf blight disease on maize, sorghum and related grasses. A prevalent foliar found worldwide where the two host crops, maize are grown. aim of present study was to find genes controlling defense response this devastating plant pathogen. cDNA-AFLP approach taken identify candidate sequences, which functions were further validated via virus induced gene silencing (VIGS), real-time PCR analysis. Phylogenetic analysis...
Abstract Willow species ( Salix ) are important as short‐rotation biomass crops for bioenergy, which creates a demand faster genetic improvement and breeding through deployment of molecular marker‐assisted selection MAS ). To find markers associated with adaptive traits, such growth phenology, use in , we genetically dissected the trait variation viminalis (L.) population 323 accessions. The accessions were sampled throughout northern Europe established at two field sites Pustnäs, Sweden,...
Sponge microbiomes contribute to host health, nutrition, and defense through the production of secondary metabolites. Chlamydiae, a phylum obligate intracellular bacteria ranging from animal pathogens endosymbionts microbial eukaryotes, are frequently found associated with sponges. However, sponge-associated chlamydial diversity has not yet been investigated at genomic level interactions thus far remain unexplored. Here, we sequenced three sponge species high, though variable, Chlamydiae...
Microbe-mediated precipitation of Mn-oxides enriched in rare earth elements (REE) and other trace was discovered tunnels leading to the main shaft Ytterby mine, Sweden. Defining spatial distribution microorganisms this ecosystem provide a better understanding specific niches parameters driving emergence these communities associated mineral precipitates. Along with elemental analyses, high-throughput sequencing following four subsystems were conducted: (i) water seeping from rock fracture...
Abstract Structural chromosomal rearrangements that can lead to in-frame gene-fusions are a leading source of information for diagnosis, risk stratification, and prognosis in pediatric acute lymphoblastic leukemia (ALL). Traditional methods such as karyotyping FISH struggle accurately identify phase large-scale aberrations ALL genomes. We therefore evaluated linked-read WGS detecting primary samples from 12 patients diagnosed with ALL. assessed the effect input DNA quality on phased...
Abstract Asgard archaea is a recently proposed superphylum currently comprised of five recognised phyla: Lokiarchaeota, Thorarchaeota, Odinarchaeota, Heimdallarchaeota and Helarchaeota. Members this group have been identified based on culture-independent approaches with several metagenome-assembled genomes (MAGs) reconstructed to date. However, most these consist relatively small contigs, and, until recently, no complete genome yet available. Large scale phylogenetic analyses suggest that...
An earlier identified major quantitative trait locus for resistance towards the willow leaf rust fungus Melampsora larici-epitea in a Salix viminalis x (S. × S. schwerinii) population was used to identify potential genes pathogen. Screening genomic bacterial artificial chromosome library with markers from peak position of QTL region revealed one gene TIR-NBS-LRR (Toll Interleukin1 Receptor-Nucleotide Binding Site-Leucine-Rich Repeat) domain structure indicative gene. The analog denoted RGA1...
ABSTRACT Molecular characterization of a biological sample, e.g., with omics approaches, is fundamental for the development and implementation personalized precision medicine approaches. In this context, quality assessment one most critical aspects. Accurate performance interpretation techniques based on consensus, harmonization, standardization protocols, procedures, data analysis reference values materials. EATRIS, European Infrastructure Translational Medicine ( www.EATRIS.eu ), brings...
Microbial mats or biofilms are known to colonize a wide range of substrates in aquatic environments. These dense benthic communities efficiently recycle nutrients and often exhibit high tolerance environmental stressors, characteristics that enable them inhabit harsh ecological niches. In some special cases, floating form at the air-water interface residing on top hydrophobic microlayer. Here, we describe reside air-air by forming gas bubbles (bubble biofilms) former Ytterby mine, Sweden....
Abstract Objectives The aim of this data paper is to describe a collection 33 genomic, transcriptomic and epigenomic sequencing datasets the B-cell acute lymphoblastic leukemia (ALL) cell line REH. REH one most frequently used lines for functional studies pediatric ALL, these provide multi-faceted characterization its molecular features. described herein, generated with short- long-read technologies, can both insights into complex aberrant karyotype REH, be as reference quality assessment or...
ABSTRACT Structural chromosomal rearrangements that may lead to in-frame gene-fusions represent a leading source of information for diagnosis, risk stratification, and prognosis in pediatric acute lymphoblastic leukemia (ALL). However, short-read whole genome sequencing (WGS) technologies struggle accurately identify phase such large-scale aberrations cancer genomes. We therefore evaluated linked-read WGS detection an ALL cell line (REH) primary samples varying DNA quality from 12 patients...
Abstract Sex chromosomes have evolved independently multiple times in eukaryotes and are therefore considered a prime example of convergent genome evolution. known to emerge after recombination is halted between homologous pair this leads range non-adaptive modifications causing the gradual degeneration gene loss on sex-limited chromosome. However, because studies sex primarily focused old highly differentiated chromosomes, causes suppression pace at which subsequently occurs remain unclear....
ABSTRACT Sponge microbiomes contribute to host health, nutrition, and defense through the production of secondary metabolites. Chlamydiae, a phylum obligate intracellular bacteria ranging from animal pathogens endosymbionts microbial eukaryotes, are frequently found associated with sponges. However, sponge-associated chlamydial diversity has not yet been investigated at genomic level host-interactions remain thus far unexplored. Here, we sequenced three sponge species high, though variable,...
Abstract Objectives The aim of this data paper is to describe a collection 33 genomic, transcriptomic and epigenomic sequencing datasets the B-cell acute lymphoblastic leukemia (ALL) cell line REH. REH one most frequently used lines for functional studies pediatric ALL, these provide multi-faceted characterization its molecular features. described herein, generated with short- long-read technologies, can both insights into complex aberrant karyotype REH, be as reference quality assessment or...