A5053443683- Chromosomal and Genetic Variations
- Genetic diversity and population structure
- Genomics and Phylogenetic Studies
- Genetic and Clinical Aspects of Sex Determination and Chromosomal Abnormalities
- Genetic and Environmental Crop Studies
- RNA and protein synthesis mechanisms
- Genetic Mapping and Diversity in Plants and Animals
- Molecular Biology Techniques and Applications
- Cancer Genomics and Diagnostics
- Genomics and Rare Diseases
- HIV Research and Treatment
- Primate Behavior and Ecology
- Wildlife Ecology and Conservation
- Cancer-related molecular mechanisms research
- Bat Biology and Ecology Studies
- Plant Stress Responses and Tolerance
- RNA Research and Splicing
- Plant Diversity and Evolution
- Ecology and Vegetation Dynamics Studies
- Seed Germination and Physiology
- Forensic and Genetic Research
- Plant Molecular Biology Research
- Avian ecology and behavior
Charles University
2022-2023
Czech Academy of Sciences
2022
Uppsala University
2022
Czech Academy of Sciences, Institute of Vertebrate Biology
2022
Institut de Biologia Evolutiva
2022
University of Cape Town
2012-2020
Max Planck Institute for Ornithology
2016
Statistical Service
2016
Duke University
2016
University of Michigan
2016
Research on the genetics of natural populations was revolutionized in 1990s by methods for genotyping noninvasively collected samples. However, these have remained largely unchanged past 20 years and lag far behind genomics era. To close this gap, here we report an optimized laboratory protocol genome-wide capture endogenous DNA from samples, coupled with a novel computational approach to reconstruct pedigree links resulting low-coverage data. We validated both using fecal samples 62 wild...
Naturally occurring admixture has now been documented in every major primate lineage, suggesting its key role evolutionary history. Active hybrid zones can provide valuable insight into this process. Here, we investigate the history of one best-studied natural zones, between yellow baboons (Papio cynocephalus) and anubis anubis) Amboseli ecosystem Kenya. We generated a new genome assembly for baboon low-coverage genomewide resequencing data from baboons, known hybrids (n = 44). Using novel...
Nadav Ahituv, Nicola Illing, Jeff Wall and colleagues sequence the genome of bat Miniopterus natalensis perform RNA-seq ChIP-seq (H3K27ac H3K27me3) analyses on its developing forelimb hindlimb autopods at sequential embryonic stages. Their identify genomic regions that may contribute to wing formation. Bats are only mammals capable powered flight, but little is known about genetic determinants shape their wings. Here we generated a for performed stages decipher molecular events underlie...
Centromeres are an important part of chromosomes which direct chromosome segregation during cell division. Their modifications can therefore explain the unusual mitotic and meiotic behaviour certain chromosomes, such as germline-restricted (GRC) songbirds. This is eliminated from somatic cells early embryogenesis later also male germ spermatogenesis. Although mechanism elimination not yet known, it possible that involves a modification centromeric sequence on GRC, resulting in problems with...
Abstract The germline-restricted chromosome (GRC) is likely present in all songbird species but differs widely size and gene content. This extra has been described as either a microchromosome with only limited basic content or macrochromosome enriched functions related to female gonad embryo development. Here, we assembled, annotated, characterized the first micro-GRC blue tit (Cyanistes caeruleus) using high-fidelity long-read sequencing data. Although some genes on GRC show signals of...
The germline-restricted chromosome (GRC) of songbirds represents a taxonomically widespread example programmed DNA elimination. Despite its apparent indispensability, we still know very little about the GRC's genetic composition, function, and evolutionary significance. Here assemble GRC in two closely related species, common thrush nightingale. In total identify 192 genes across GRCs, with many them present multiple copies. Interestingly, appears to be under selective pressure, content...
It has been hypothesised that vegetative desiccation tolerance in resurrection plants evolved via reactivation of the canonical LAFL (i.e. LEC1, ABI3, FUS3 and LEC2) transcription factor (TF) network activates expression genes during maturation orthodox seeds leading to plant embryo most angiosperms. There is little direct evidence support this, however, transcriptional changes occur seed have not previously studied. Here we performed de novo transcriptome assembly for Xerophyta humilis,...
While the tempo of diversification in biodiversity hotspots has received much attention, spatial scale often been overlooked. Addressing this deficiency requires understanding drivers population divergence and scales at which they operate species-rich clades ecosystems. South Africa's Succulent Karoo (SK) hotspot provides an excellent system for such research, being both compact (ca. 110,000 km2 ) home to spectacular in-situ radiations, as ruschioid Aizoaceae. Here we use GBS document...
Sequencing the genomes of many scientifically fascinating plants and animals found in South Africa is fast becoming a viable option as result rapid sustained drop cost next generation sequencing over last five years. However, processing assembly sequence data produced not trivial. There are several factors which need to be taken into consideration when planning strategy assemble genome de novo. This paper reviews advances challenges two most rapidly developing areas field: technology...
ABSTRACT Research on the genetics of natural populations was revolutionized in 1990’s by methods for genotyping non-invasively collected samples. However, these have remained largely unchanged past 20 years and lag far behind genomics era. To close this gap, here we report an optimized laboratory protocol genome-wide capture endogenous DNA from samples, coupled with a novel computational approach to reconstruct pedigree links resulting low-coverage data. We validated both using fecal samples...
Abstract The germline-restricted chromosome (GRC) of songbirds represents an extraordinary and taxonomically widespread example programmed DNA elimination. Despite its apparent indispensability in songbirds, we still know very little about the GRC’s genetic composition, function, evolutionary significance. Here assembled GRC two closely related species, common thrush nightingale. We identified 585 406 genes on each respectively, many them present multiple copies. Interestingly, gene content...