Anna K. Fotakis
A5067254470- Salmonella and Campylobacter epidemiology
- Vibrio bacteria research studies
- Forensic Anthropology and Bioarchaeology Studies
- Forensic and Genetic Research
- Genomics and Phylogenetic Studies
- Bone and Dental Protein Studies
- Indigenous Studies and Ecology
- Pleistocene-Era Hominins and Archaeology
- Identification and Quantification in Food
- Mycobacterium research and diagnosis
- Molecular Biology Techniques and Applications
- Leprosy Research and Treatment
- Archaeology and ancient environmental studies
- Yersinia bacterium, plague, ectoparasites research
- Genetic diversity and population structure
- Tuberculosis Research and Epidemiology
- Race, Genetics, and Society
- Evolution and Paleontology Studies
- Dental Radiography and Imaging
- Paleontology and Evolutionary Biology
- Digestive system and related health
- Infant Nutrition and Health
- Protein Hydrolysis and Bioactive Peptides
- Phytase and its Applications
- Oral microbiology and periodontitis research
University of Copenhagen
2014-2022
University of Stavanger
2020
Evolutionary Genomics (United States)
2019
Natural History Museum Aarhus
2014-2018
Natural History Museum of Denmark
2018
Proteins persist longer in the fossil record than DNA, but longevity, survival mechanisms and substrates remain contested. Here, we demonstrate role of mineral binding preserving protein sequence ostrich (Struthionidae) eggshell, including from palaeontological sites Laetoli (3.8 Ma) Olduvai Gorge (1.3 Tanzania. By tracking diagenesis back time find consistent patterns preservation, demonstrating authenticity surviving sequences. Molecular dynamics simulations struthiocalcin-1 -2, dominant...
Abstract Milk is a major food of global economic importance and its consumption regarded as classic example gene-culture evolution. Humans have exploited animal milk resource for at least 8500 years, but the origins, spread scale dairying remain poorly understood. Indirect lines evidence, such lipid isotopic ratios pottery residues, faunal mortality profiles lactase persistence allele frequencies, provide partial picture this process; however, in order to understand how, where when humans...
Ancient protein analysis provides clues to human life and diseases from ancient times. Here, we performed shotgun proteomics of archeological bones for the first time, using rib Hitotsubashi site (AD 1657-1683) in Tokyo, called Edo The output data obtained were analysed Gene Ontology label-free quantification. We detected leucocyte-derived proteins, possibly originating bone marrow rib. Particularly prevalent relatively high expression eosinophil peroxidase suggests influence infectious...
The rise of ancient genomics has revolutionised our understanding human prehistory but this work depends on the availability suitable samples. Here we present a complete genome and oral microbiome sequenced from 5700 year-old piece chewed birch pitch Denmark. We sequence to an average depth 2.3× find that individual who was female she genetically more closely related western hunter-gatherers mainland Europe than central Scandinavia. also likely had dark skin, brown hair blue eyes. In...
Salmonella enterica serovar Paratyphi C causes enteric (paratyphoid) fever in humans. Its presentation can range from asymptomatic infections of the blood stream to gastrointestinal or urinary tract infection even a fatal septicemia [1Jacobs M.R. Koornhof H.J. Crisp S.I. Palmhert H.L. Fitzstephens A. Enteric caused by paratyphi South and West Africa.S. Afr. Med. J. 1978; 54: 434-438PubMed Google Scholar]. is very rare Europe North America except for occasional travelers East Asia Africa,...
The composition of ancient oral microbiomes has recently become accessible owing to advanced biomolecular methods such as metagenomics and metaproteomics, but the utility metaproteomics for analyses is less explored. Here, we use quantitative characterize dental calculus associated with remains 21 humans retrieved during archeological excavation medieval (ca. 1100-1450 CE) cemetery Tjærby, Denmark. We identify 3671 protein groups, covering 220 bacterial species 81 genera across all samples....
Mineralized dental plaque (calculus) has proven to be an excellent source of ancient biomolecules. Here we present a Mycobacterium leprae genome (6.6-fold), the causative agent leprosy, recovered via shotgun sequencing sixteenth-century human calculus from individual Trondheim, Norway. When phylogenetically placed, this falls in branch 3I among diversity other contemporary strains Northern Europe. Moreover, mycobacterial peptides were retrieved mass spectrometry-based proteomics, further...
Human populations have been shaped by catastrophes that may left long-lasting signatures in their genomes. One notable example is the second plague pandemic entered Europe ca. 1,347 CE and repeatedly returned for over 300 years, with typical village town mortality estimated at 10%–40%.1Slack P. The Impact of Plague Tudor Stuart England. Routledge & K. Paul, 1985Google Scholar It assumed this high affected gene pools these populations. First, local population crashes reduced genetic...
Like modern metagenomics, ancient metagenomics is a highly data-rich discipline, with the added challenge that DNA of interest degraded and, depending on sample type, in low abundance. This requires application specialized measures during molecular experiments and computational analyses. Furthermore, researchers often work finite sizes, which impedes optimal experimental design control confounding factors, ethically sensitive samples necessitating consideration additional guidelines. In...
Abstract Recent improvements in the analysis of ancient biomolecules from human remains and associated dental calculus have provided new insights into prehistoric diet genetic diversity our species. Here we present a multi-omics study, integrating metagenomic proteomic analyses calculus, DNA petrous bones two post-Last Glacial Maximum (LGM) individuals San Teodoro cave (Italy), to reconstruct their lifestyle post-LGM resettlement Europe. Our show homogeneity Sicily during Palaeolithic,...
Abstract The Viking maritime expansion from Scandinavia (Denmark, Norway, and Sweden) marks one of the swiftest most far-flung cultural transformations in global history. During this time (c. 750 to 1050 CE), Vikings reached western Eurasia, Greenland, North America, left a legacy that persists till today. To understand genetic structure influence expansion, we sequenced genomes 442 ancient humans across Europe Greenland ranging Bronze Age 2400 BC) early Modern period 1600 with particular...
ABSTRACT Ancient DNA (aDNA) sequencing has enabled unprecedented reconstruction of speciation, migration, and admixture events for extinct taxa 1 . Outside the permafrost, however, irreversible aDNA post-mortem degradation 2 so far limited recovery within ˜0.5 million years (Ma) time range 3 Tandem mass spectrometry (MS)-based collagen type I (COL1) provides direct access to older biomolecular information 4 , though with phylogenetic use. In absence molecular evidence, speciation several...
Abstract Salmonella enterica serovar Paratyphi C is the causative agent of enteric (paratyphoid) fever. While today a potentially lethal infection humans that occurs in Africa and Asia, early 20 th century observations Eastern Europe suggest it may once have had wider-ranging impact on human societies. We recovered draft genome from 800-year-old skeleton young woman Trondheim, Norway, who likely died Analysis this against new, significantly expanded database related modern genomes...
Salmonella enterica serovar Paratyphi C causes enteric (paratyphoid) fever in humans. Its presentation can range from asymptomatic infections of the blood stream to gastrointestinal or urinary tract infection even a fatal septicemia. is very rare Europe and North America, except for occasional travelers South East Asia Africa where disease more common. However, early 20th century observations Eastern suggest that may once have had wide-ranging impact on human societies. Here we describe...
We present a complete ancient human genome and oral microbiome sequenced from piece of resinous "chewing gum" recovered Stone Age site on the island Lolland, Denmark, directly dated to 5,858-5,661 cal. BP (GrM-13305; 5,007+/-11). an average depth-of-coverage 2.3x find that individual who chewed resin was female genetically more closely related western hunter-gatherers mainland Europe, than central Scandinavia. use imputed genotypes predict physical characteristics she had dark skin hair,...
Abstract Recent improvements in the analysis of ancient biomolecules from human remains and associated dental calculus have provided new insights into prehistoric diet past genetic diversity our species. Here we present a “multi-omics” study, integrating genomic proteomic analyses two post-Last Glacial Maximum (LGM) individuals San Teodoro cave (Italy), to reconstruct their lifestyle post-LGM resettlement Europe. Our show homogeneity Sicily during Palaeolithic, representing hitherto unknown...