A5029734164- Genomics and Phylogenetic Studies
- Genetic diversity and population structure
- Chromosomal and Genetic Variations
- RNA Research and Splicing
- Identification and Quantification in Food
- Wildlife Ecology and Conservation
- Genetic and phenotypic traits in livestock
- Evolution and Genetic Dynamics
- Nuclear Structure and Function
- RNA modifications and cancer
- Aquaculture disease management and microbiota
- Genomics and Chromatin Dynamics
- RNA and protein synthesis mechanisms
- Evolution and Paleontology Studies
- Insect and Pesticide Research
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Pregnancy and preeclampsia studies
- Plant Taxonomy and Phylogenetics
- Animal Ecology and Behavior Studies
- Genetics and Neurodevelopmental Disorders
- Genetic Associations and Epidemiology
- Amphibian and Reptile Biology
- Molecular Biology Techniques and Applications
- Liver Diseases and Immunity
- Biochemical and Molecular Research
University of Copenhagen
2023-2025
Institute of Molecular and Cell Biology
2019-2022
Siberian Branch of the Russian Academy of Sciences
2019-2022
Institut de Biologie Moléculaire et Cellulaire
2021
St Petersburg University
2014-2019
All-Russian Research Institute of Agricultural Microbiology
2018
Patterns of genetic and genomic variance are informative in inferring population history for human, model species endangered populations. Here the genome sequence wild-born African cheetahs reveals extreme depletion SNV incidence, density, SNVs coding genes, MHC class I II mitochondrial DNA SNVs. Cheetah genomes on average 95 % homozygous compared to outbred domestic cat (24.08 homozygous), Virunga Mountain Gorilla (78.12 %), inbred Abyssinian (62.63 Tasmanian devil, dog other mammalian...
Pangolins, unique mammals with scales over most of their body, no teeth, poor vision, and an acute olfactory system, comprise the only placental order (Pholidota) without a whole-genome map. To investigate pangolin biology evolution, we developed genome assemblies Malayan ( Manis javanica ) Chinese M. pentadactyla pangolins. Strikingly, found that interferon epsilon IFNE ), exclusively expressed in epithelial cells important skin mucosal immunity, is pseudogenized all African Asian species...
The white shark ( Carcharodon carcharias ; Chondrichthyes, Elasmobranchii) is one of the most publicly recognized marine animals. Here we report genome sequence and comparative evolutionary genomic analyses to chondrichthyans, whale (Elasmobranchii) elephant (Holocephali), as well various vertebrates. 4.63-Gbp contains 24,520 predicted genes, has a repeat content 58.5%. We provide evidence for history positive selection gene-content enrichments regarding important stability-related genes...
Abstract Despite its recent invasion into the marine realm, sea otter (Enhydra lutris) has evolved a suite of adaptations for life in cold coastal waters, including limb modifications and dense insulating fur. This uniquely coat led to near-extinction otters during 18th–20th century fur trade an extreme population bottleneck. We used de novo genome southern (E. l. nereis) reconstruct evolutionary history, identify genes influencing aquatic adaptation, detect signals bottlenecks. compared...
Mutations in genomes of species are frequently distributed non-randomly, resulting mutation clusters, including recently discovered kataegis tumors. DNA editing deaminases play the prominent role etiology these mutations. To gain insight into enigmatic mechanisms localized hypermutagenesis that lead to cluster formation, we analyzed mutational single nucleotide variations (SNV) data obtained by whole-genome sequencing drug-resistant mutants induced yeast diploids AID/APOBEC deaminase and...
Abstract The stone marten (Martes foina) is an important species for cytogenetic studies in the order Carnivora. ZooFISH probes created from its chromosomes provided a strong and clean signal chromosome painting experiments were valuable studying evolution of carnivoran genome architecture. research revealed that set similar to presumed ancestral karyotype Carnivora, which added additional value species. Using linked-read Hi-C sequencing, we generated chromosome-length assembly male (Gansu...
Within the Canidae, African wild dog (Lycaon pictus) is most specialized with regards to cursorial adaptations (specialized for running), having only four digits on their forefeet. In addition, this species one of few canids considered be an obligate meat-eater, possessing a robust dentition taking down large prey, and displays variable coat colorations amongst mammals. Here, we used comparative genomic analysis investigate evolutionary history genetic basis associated cursoriality,...
Closely related to the model plant Arabidopsis thaliana, genus Boechera is known contain both sexual and apomictic species or accessions. retrofracta a diploid sexually reproducing thought be an ancestral parent of species. Here we report de novo assembly B. genome using short Illumina Roche reads from 1 paired-end 3 mate pair libraries. The distribution 23-mers paired end library has indicated low level heterozygosity presence detectable duplications triplications. size was estimated equal...
Genome-wide assessment of genetic diversity has the potential to increase ability understand admixture, inbreeding, kinship and erosion affecting both captive (ex situ) wild (in populations threatened species. The sable antelope (Hippotragus niger), native savannah woodlands sub-Saharan Africa, is a species that being managed ex situ in public (zoo) private (ranch) collections United States. Our objective was develop whole genome sequence resources will serve as foundation for characterizing...
Genome assemblies are in the process of becoming an increasingly important tool for understanding genetic diversity threatened species. Unfortunately, due to limited budgets typical area conservation biology, genome species, when available, tend be highly fragmented, represented by tens thousands scaffolds not assigned chromosomal locations. The recent advent high-throughput chromosome conformation capture (Hi-C) enables more contiguous containing spanning length entire chromosomes little...
Abstract Species of the mustelid subfamily Guloninae inhabit diverse habitats on multiple continents, and occupy a variety ecological niches. They differ in feeding ecologies, reproductive strategies morphological adaptations. To identify candidate loci associated with adaptations to their respective environments, we generated de novo assembly tayra ( Eira barbara ), earliest diverging species subfamily, compared this genomes available for wolverine Gulo gulo ) sable Martes zibellina ). Our...
Pusa sibirica, the Baikal seal, is only extant, exclusively freshwater, pinniped species. The pending issue is, how and when they reached their current habitat—the rift lake Baikal, more than three thousand kilometers away from Arctic Ocean. To explore demographic history genetic diversity of this species, we generated a de novo chromosome-length assembly, compared it with closely related marine Multiple whole genome alignment four species karyotypes showed high conservation chromosomal...
Abstract The black-footed ferret (Mustela nigripes) narrowly avoided extinction to become an oft-cited example of the benefits intensive management, research, and collaboration save a species through ex situ conservation breeding reintroduction into its former range. However, remains at risk due possible inbreeding, disease susceptibility, multiple fertility challenges. Here, we report de novo genome assembly male generated combination linked-read sequencing, optical mapping, Hi-C proximity...
Solenodons are insectivores that live in Hispaniola and Cuba. They form an isolated branch the tree of placental mammals highly divergent from other eulipothyplan The history, unique biology, adaptations these enigmatic venomous species could be illuminated by availability genome data. However, a whole assembly for solenodons has not been previously performed, partially due to difficulty obtaining samples field. Island isolation reduced numbers have likely resulted high homozygosity within...
The extant reptiles are one of the most diverse clades among terrestrial vertebrates and a few groups with instances parthenogenesis. Due to hybrid origin parthenogenetic species, reference genomes parental species as well progeny indispensable explore genetic foundations reproduction. Here, we report on first genome assembly rock lizard Darevskia valentini, paternal for several lineages. novel was used in reconstruction comprehensive phylogeny Squamata inferred independently from 7369 trees...
Abstract Aim Our aim was to assess the population structure, genetic diversity and demographic history of wolverine ( Gulo gulo ) throughout its entire Eurasian range. Additionally, we aimed contextualize put into perspective state endangered Fennoscandian by emphasizing connectivity other populations. Location The main study area covered most range, with samples from Finland, Russia, Kazakhstan Mongolia. Methods Using a 495 bp fragment mitochondrial DNA control region frequently used set 14...
Since the 19th century, addax (Addax nasomaculatus) has lost approximately 99% of its former range. Along with close relatives, blue antelope (Hippotragus leucophaeus) and scimitar-horned oryx (Oryx dammah), may be third large African mammal species to go extinct in wild recent times. Despite this, evolutionary history this critically endangered remains virtually unknown. To gain insight into population addax, we used hybridization capture generate ten complete mitochondrial genomes from...
Amazon parrots (Amazona spp.) colonized the islands of Greater Antilles from Central American mainland, but there has not been a consensus as to how and when this happened. Today, most five remaining island species are listed endangered, threatened, or vulnerable consequence human activity. We sequenced annotated full mitochondrial genomes all extant parrot Antillean (A. leucocephala (Cuba), A. agilis, collaria (both Jamaica), ventralis (Hispaniola), vittata (Puerto Rico)), albifrons...
Islands have been used as model systems for studies of speciation and extinction since Darwin published his observations about finches found on the Galapagos. Amazon parrots inhabiting Greater Antillean represent a fascinating species diversification. Unfortunately, many these birds are threatened result human activity some, like Puerto Rican parrot, now critically endangered. In this study we combination de novo reference-assisted assembly methods, integrating it with information obtained...