A5042001359- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- Genetic and phenotypic traits in livestock
- Animal Behavior and Reproduction
- Evolution and Genetic Dynamics
- Evolution and Paleontology Studies
- Avian ecology and behavior
- Identification and Quantification in Food
- Wildlife Ecology and Conservation
- Genetic Mapping and Diversity in Plants and Animals
- Physiological and biochemical adaptations
- Rangeland Management and Livestock Ecology
- Insect symbiosis and bacterial influences
- Bird parasitology and diseases
- High Altitude and Hypoxia
- Environmental DNA in Biodiversity Studies
- Ichthyology and Marine Biology
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Insect and Pesticide Research
- Species Distribution and Climate Change
- Silk-based biomaterials and applications
- Amphibian and Reptile Biology
- Genetic and Environmental Crop Studies
- Insect behavior and control techniques
- Bat Biology and Ecology Studies
Kent State University
2020-2025
Uppsala University
2012-2023
Harvard University
2018-2021
Science for Life Laboratory
2015-2020
Leif Andersson and colleagues report the genome sequence of ruff, a bird species with three male morphs different reproductive strategies. Satellite faeder differ from common independent morph by 4.5-Mb inversion that occurred approximately 3.8 million years ago, multiple genetic changes within this inverted region are associated satellite morphs. The ruff is Palearctic wader spectacular lekking behavior where highly ornamented males compete for females1,2,3,4. This has one most remarkable...
Rapid hybrid speciation in Darwin's finches Galapagos have driven hypotheses of how occurs. Most commonly, it is assumed that natural selection separates species originating from a single population on the basis variation traits confer advantages for survival and reproduction. Lamichhaney et al. document case where cross-species hybridization established reproductively isolated lineage, which demonstrates process known as homoploid action (see Perspective by Wagner). The authors used genetic...
The Atlantic herring ( Clupea harengus ), one of the most abundant marine fishes in world, has historically been a critical food source Northern Europe. It is few species that can reproduce throughout brackish salinity gradient Baltic Sea. Previous studies based on genetic markers have revealed conspicuous lack differentiation between geographic regions, consistent with huge population sizes and minute drift. Here, we present cost-effective genome-wide study lacks genome sequence. We first...
Linked loci and Galapagos finch size Observations of parallel evolution in the finches Galapagos, including body beak size, contributed to Darwin's theories. Lamichhaney et al. carried out whole-genome sequencing 60 finches. These included small, medium, large ground as well tree A genomic region containing HMGA2 gene correlated strongly with across different species. This locus appears have played a role diversification throughout radiation Science , this issue p. 470
Ecological adaptation is of major relevance to speciation and sustainable population management, but the underlying genetic factors are typically hard study in natural populations due differentiation caused by selection being confounded with drift subdivided populations. Here, we use whole genome sequencing Atlantic Baltic herring reveal architecture at an unprecedented detailed resolution for both a new niche environment timing reproduction. We identify almost 500 independent loci...
Genomic comparisons of closely related species have identified “islands” locally elevated sequence divergence. islands may contain functional variants involved in local adaptation or reproductive isolation and therefore play an important role the speciation process. However, genomic can also arise through evolutionary processes unrelated to speciation, examination their properties illuminate how new evolve. Here, we performed scans for regions high relative divergence ( F ST ) 12 pairs...
Building the Tree of Life (ToL) is a major challenge modern biology, requiring advances in cyberinfrastructure, data collection, theory, and more. Here, we argue that phylogenomics stands to benefit by embracing many heterogeneous genomic signals emerging from first decade large-scale phylogenetic analysis spawned high-throughput sequencing (HTS). Such include those most commonly encountered phylogenomic datasets, such as incomplete lineage sorting, but also reticulate processes with greater...
Significance Identification of genetic changes that allow a species to adapt different environmental conditions is an important topic in evolutionary biology. In this study we analyzed whole-genome resequencing data Atlantic herring populations from both sides the Ocean and identified number loci show consistent associations with spawning time (spring or autumn). Several these loci, such as thyroid-stimulating hormone receptor ( TSHR ), have well-established role reproductive biology,...
Recent adaptive radiations are models for investigating mechanisms contributing to the evolution of biodiversity. An unresolved question is relative importance new mutations, ancestral variants, and introgressive hybridization phenotypic speciation. Here, we address this issue using Darwin’s finches investigate genomic architecture underlying their diversity. Admixture mapping beak body size in small, medium, large ground revealed 28 loci showing strong genetic differentiation. These...
The Atlantic herring is one of the most abundant vertebrates on earth but its nucleotide diversity moderate (π = 0.3%), only three-fold higher than in human. Here, we present a pedigree-based estimation mutation rate this species. Based whole-genome sequencing four parents and 12 offspring, estimated 2.0 × 10-9 per base generation. We observed high degree parental mosaicism indicating that large fraction these de novo mutations occurred during early germ cell development. – lowest among...
A paradox in evolutionary biology is how supergenes can maintain high fitness despite reduced effective population size, the suppression of recombination, and expected accumulation mutational load. The ruff supergene involves 2 rare inversion haplotypes (satellite faeder). These are recessive lethals but with dominant effects on male mating strategies, plumage, body size. Sequence divergence to wild-type (independent) haplotype indicates that could be as old 4 million years. Here, we have...
Abstract The corn snake ( Pantherophis guttatus ) is a new model species particularly appropriate for investigating the processes generating colours in reptiles because numerous colour and pattern mutants have been isolated last five decades. Using our captive-bred colony of snakes, transcriptomic genomic next-generation sequencing, exome assembly genotyping SNPs multiple families, we delimit interval bearing causal mutation amelanism, oldest variant observed that species. Proceeding with...
Abstract Feathered leg is a trait in domestic chickens that has undergone intense selection by fancy breeders. Previous studies have shown two major loci controlling feathered are located on chromosomes 13 and 15. Here, we present genetic evidence for the identification of candidate causal mutations at these loci. This was accomplished combining classical linkage mapping using an experimental cross segregating high-resolution identical-by-descent whole-genome sequence data from 167 samples...
Significance The mechanisms by which genomes become smaller in lineages with large genomes, such as many frogs, are poorly understood. Here, we present the sequence of a very small genome from frog—that ornate burrowing frog, Platyplectrum ornatum , whose is than that birds, group well known for genomes. Our data show this frog evolved molecular to keep check major process characterizing genomes: namely, proliferation transposable elements. We also basic on gene expression and sex...
Invasive species pose significant threats to island ecosystems, often leading the decline of native and disruption ecological balance. The avian vampire fly (Philornis downsi), introduced Galápagos Islands Ecuador, has emerged as a major threat endemic avifauna, parasitizing multiple Darwin's finches other passerines. Yet, genetic mechanisms its invasion remain unclear. In this study, we conducted first whole-genome sequencing analysis P. downsi populations from their range in mainland...
Endemic species are valuable models for understanding evolutionary processes and adaptation in isolated environments. The Helan Shan pika (Ochotona argentata), endemic to a small region the of China, represents unique case with restricted distribution that is vulnerable anthropogenic threats rapid environmental changes. Despite its endangered status, genomic research on O. argentata remains limited. In this study, we present high-quality genome assembly high contiguity gene-space...
Species residing across elevational gradients display adaptations in response to environmental changes such as oxygen availability, ultraviolet radiation, and temperature. Here, we study genomic variation, gene expression, long-term adaptation Tibetan Partridge (Perdix hodgsoniae) populations the gradient of Plateau. We generated a high-quality draft genome used it carry out downstream population transcriptomic analysis. The P. hodgsoniae various elevations were genetically distinct, their...
Ruffs are shorebirds with an elaborate lekking behavior involving three male morphs different mating strategies: Independents, Satellites, and Faeders 1,2 . The latter two heterozygous for versions of a supergene maintained by inversion that were estimated to have occurred about 4 million years ago 3 carry intact while the Satellite allele is recombinant, both which expected accumulate high mutational load because they recessive lethals. Here we constructed highly contiguous genome assembly...
Amphibian chytridiomycosis, caused by Batrachochytrium dendrobatidis (Bd), emerged from Asia and spread globally. By comparing functional MHC IIß1 alleles an Asian Bd-resistant anuran species (Bufo gargarizans) with those of Australasian Bd-susceptible (Litoria caerulea), we identified genotypes associated Bd resistance. These encode a glycine deletion (G90β1) adjacent motifs in the deepest pathogen-derived peptide-binding groove. Every individual, but no susceptible individuals, possessed...