A5048846619- Insect symbiosis and bacterial influences
- Genomics and Phylogenetic Studies
- Plant Stress Responses and Tolerance
- Plant Pathogens and Fungal Diseases
- Probiotics and Fermented Foods
- Bacteriophages and microbial interactions
- Insect and Arachnid Ecology and Behavior
- Heavy metals in environment
- Fungal Biology and Applications
- Plant Micronutrient Interactions and Effects
- Plant-Microbe Interactions and Immunity
- Genetic diversity and population structure
- Plant Pathogenic Bacteria Studies
- Plant tissue culture and regeneration
- Entomopathogenic Microorganisms in Pest Control
- Plant and animal studies
- Berry genetics and cultivation research
- Invertebrate Taxonomy and Ecology
- Yeasts and Rust Fungi Studies
- Plant Gene Expression Analysis
- Botanical Research and Applications
- Plant Molecular Biology Research
- Plant Pathogens and Resistance
- Toxin Mechanisms and Immunotoxins
- Plant responses to water stress
University of Helsinki
2020-2022
University of Eastern Finland
2014-2019
Silver birch (Betula pendula) is a pioneer boreal tree that can be induced to flower within 1 year. Its rapid life cycle, small (440-Mb) genome, and advanced germplasm resources make an attractive model for forest biotechnology. We assembled chromosomally anchored the nuclear genome of inbred B. pendula individual. Gene duplicates from paleohexaploid event were enriched transcriptional regulation, whereas tandem overrepresented by environmental responses. Population resequencing 80...
Populations of Noccaea caerulescens show tremendous differences in their capacity to hyperaccumulate and hypertolerate metals. To explore the that could contribute these traits, we undertook SOLiD high-throughput sequencing root transcriptomes three phenotypically well-characterized N. accessions, i.e., Ganges, La Calamine, Monte Prinzera. Genes with possible contribution zinc, cadmium, nickel hyperaccumulation hypertolerance were predicted. The most significant between accessions related...
Crown rot (Phytophthora cactorum) causes significant economic losses in strawberry production. The best control strategy would be to use resistant cultivars, but polygenically inherited resistance makes the breeding of garden (Fragaria × ananassa) challenging. diploid wild Fragaria vesca Hawaii 4 genotype was shown previously have against crown rot. To explore mechanisms, we inoculated roots with P. cactorum a novel vitro hydroponic system minimize interference caused by other microbes....
Calamine accessions of the zinc/cadmium/nickel hyperaccumulator, Noccaea caerulescens, exhibit striking variation in foliar cadmium accumulation nature. The Ganges accession (GA) from Southern France displays hyperaccumulation (>1000 μg g-1 DW), whereas La (LC) Belgium, with similar local soil metal composition, does not (<100 DW). All calamine are hypertolerant. To find out differences between LC and GA their basic adaptation mechanisms, we bypassed excluding phenotype by exposing plants to...
Noccaea caerulescens of the Brassicaceae family has become key model plant among metal hyperaccumulator plants. Populations/accessions N. from geographic locations with different soil concentrations differ in their ability to hyperaccumulate and hypertolerate metals. Comparison transcriptomes several accessions provides candidates for detailed exploration mechanisms accumulation tolerance local adaptation. This can have implications development plants phytoremediation improved mineral...
Abstract Background The Glanville fritillary (Melitaea cinxia) butterfly is a model system for metapopulation dynamics research in fragmented landscapes. Here, we provide chromosome-level assembly of the butterfly's genome produced from Pacific Biosciences sequencing pool males, combined with linkage map population crosses. Results final size 484 Mb an increase 94 on previously published genome. Estimation completeness BUSCO indicates that contains 92–94% genes complete and single copies. We...
Abstract Background Maternally inherited bacterial symbionts are extremely widespread in insects. They owe their success to ability promote own transmission through various manipulations of hosts’ life-histories. Many however very often go undetected. Consequently, we have only a restricted idea the true symbiont diversity insects, which may hinder our understanding even bigger questions field such as evolution or establishment symbiosis. Results In this study, screened publicly available...
Here we report the draft genome sequence of Lactiplantibacillus plantarum IMI 507027 strain. The consists 37 contigs with a total size 3,235,614 bp and GC% 44.51. After trimming, 31 were annotated, revealing 3,126 genes, which 3,030 coding sequences. Average Nucleotide Identity (ANI) gave value 99.9926% between L. JDM1, identifying strain as plantarum. No genes concern for safety-related traits such antimicrobial resistance or virulence factors found. annotated raw reads deposited at NCBI...
The phytopathogen Phytophthora cactorum infects economically important herbaceous and woody plant species. P. isolates differ in host specificity; for example, strawberry crown rot is often caused by a specialized pathotype. Here we compared the transcriptomes of two that their virulence to garden (Pc407: high virulence; Pc440: low virulence). De novo transcriptome assembly clustering contigs resulted 19,372 gene clusters. Two days after inoculation Fragaria vesca roots, 3,995 genes were...
We report here the draft genome sequence of Pediococcus pentosaceus strain IMI 507024, a lactic acid bacterium isolated from fermented sausage in Kentucky (Nicholasville, KY, USA). The is deposited Centre for Agriculture and Bioscience International (CABI) Culture Collection with accession number 507024.
Here, we report the genome sequencing data for fermented milk isolate, Lactiplantibacillus plantarum (L. plantarum) IMI 507028. The Bioproject, SRA, and GenBank were deposited at NCBI under accession numbers PRJNA801616, SRR18323693, JAKMAX000000000, respectively. size of was 3,231,321 bp, with a GC% 44.52. Before sequence trimming, contained 40 contigs, in which 35 contigs annotated, revealing 2937 coding sequences out 3052 total genes. strain identified as L. an average nucleotide identity...
In the version of this article initially published, there was a mistake in calculation nucleotide mutation rate per site generation: 1 × 10−9 mutations generation used, whereas 9.5 correct. This error affects interpretation population-size changes over time and their possible correspondence with known geological events, as shown original Fig. 4 supporting discussion text, well details Supplementary Note. Neither data themselves nor any other results are affected. Figure has been revised...
Here, we announce the draft genome sequence of Lactiplantibacillus plantarum isolated from corn silage in Nicholasville, KY. L. IMI 507026 is deposited Centre for Agriculture and Bioscience International (CABI) Culture Collection with accession number 507026.
The genome sequence data for the pickled cucumbers isolate, Pediococcus pentosaceus IMI 507025, is reported. raw reads and analysed were deposited at NCBI under Bioproject with accession number PRJNA814992. of contigs before after trimming 17 12 contigs, respectively. total size was 1,795,439 bp containing 1,811 genes, which 1,751 coding sequences. 507025 identity determined via average nucleotide (ANI), obtaining an value 99.5994% between type strain P. ATCC 33316, identifying as...
We report here the draft genome sequence of Lacticaseibacillus rhamnosus strain IMI 507023, a lactic acid bacterium, isolated from corn silage in Nicholasville, Kentucky, USA. The is deposited Centre for Agriculture and Bioscience International (CABI) Culture Collection with accession number 507023.
Abstract The Glanville fritillary ( Melitaea cinxia ) butterfly is a long-term model system for metapopulation dynamics research in fragmented landscapes. Here, we provide chromosome level assembly of the butterfly’s genome produced from Pacific Biosciences sequencing pool males, combined with linkage map population crosses. final size 484 Mb an increase 94 on previously published genome. Estimation completeness BUSCO, indicates that contains 93 - 95% BUSCO genes complete and single copies....