selected publications
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academic article
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Ancient genomes revisit the ancestry of domestic and Przewalski’s horses.
Science.
360.
2018
Early pastoral economies along the Ancient Silk Road: Biomolecular evidence from the Alay Valley, Kyrgyzstan.
PLoS ONE.
13.
2018
FANCD2 binding identifies conserved fragile sites at large transcribed genes in avian cells.
Nucleic Acids Research.
46.
2018
High‐Throughput DNA sequencing of ancient wood.
Molecular Ecology.
27.
2018
Improved de novo genomic assembly for the domestic donkey.
Science Advances.
4.
2018
Physiological and Genetic Adaptations to Diving in Sea Nomads.
Cell.
173.
2018
The first horse herders and the impact of early Bronze Age steppe expansions into Asia.
Science.
360.
2018
The prehistoric peopling of Southeast Asia.
Science.
361.
2018
Ancient genomes show social and reproductive behavior of early Upper Paleolithic foragers.
Science.
358.
2017
Ancient genomic changes associated with domestication of the horse.
Science.
356.
2017
Evaluating the impact of domestication and captivity on the horse gut microbiome.
Scientific Reports.
7.
2017
Experimental conditions improving in‐solution target enrichment for ancient DNA.
Molecular Ecology Resources.
17.
2017
Less effective selection leads to larger genomes.
Genome Research.
27.
2017
The Effects of Captivity on the Mammalian Gut Microbiome..
Integrative and Comparative Biology.
57.
2017
Zonkey: A simple, accurate and sensitive pipeline to genetically identify equine F1-hybrids in archaeological assemblages.
Journal of Archaeological Science.
78.
2017
Fast, Accurate and Automatic Ancient Nucleosome and Methylation Maps with epiPALEOMIX.
Molecular Biology and Evolution.
33.
2016
Genomic Characterization of a South American Phytophthora Hybrid Mandates Reassessment of the Geographic Origins of Phytophthora infestans.
Molecular Biology and Evolution.
33.
2016
Amplification of TruSeq ancient DNA libraries with AccuPrime Pfx: consequences on nucleotide misincorporation and methylation patterns.
STAR Science & Technology of Archaeological Research.
1.
2015
Ancient genomics.
Philosophical Transactions of the Royal Society B Biological Sciences.
370.
2015
Evolutionary Genomics and Conservation of the Endangered Przewalski’s Horse.
Current Biology.
25.
2015
Genomic evidence for the Pleistocene and recent population history of Native Americans.
Science.
349.
2015
Mitochondrial genome sequences reveal evolutionary relationships of the Phytophthora 1c clade species.
Current Genetics.
61.
2015
Mitochondrial genomes reveal the extinct Hippidion as an outgroup to all living equids.
Biology Letters.
11.
2015
Pros and cons of methylation-based enrichment methods for ancient DNA.
Scientific Reports.
5.
2015
Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments.
Proceedings of the National Academy of Sciences of the United States of America.
112.
2015
Transcriptome and Genome Size Analysis of the Venus Flytrap.
PLoS ONE.
10.
2015
Genome-wide Ancestry Patterns in Rapanui Suggest Pre-European Admixture with Native Americans.
Current Biology.
24.
2014
Genomic structure in Europeans dating back at least 36,200 years.
Science.
346.
2014
Prehistoric genomes reveal the genetic foundation and cost of horse domestication.
Proceedings of the National Academy of Sciences of the United States of America.
111.
2014
Speciation with gene flow in equids despite extensive chromosomal plasticity.
Proceedings of the National Academy of Sciences of the United States of America.
111.
2014
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dataset
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ALL.0.0.treemix.gz.
dryad.
2018
ALL.beagle.
dryad.
2018
ALL.beagle.gprobs.maf0.
dryad.
2018
ALL_maxmiss3.TransversionOnly.beagle.
dryad.
2018
ALL_maxmiss3.TransversionOnly.noCAGT.beagle.
dryad.
2018
Diet.Matrix.taxonomy.
dryad.
2018
Genetic identification of species and sex of Equus specimens found in Alay archaeological contexts through DNA sequencing..
public-library-of-science.
2018
Radiocarbon dates from 2017 fieldwork in the Alay Valley..
public-library-of-science.
2018
Sample metadata, Supplementary Table 3.
dryad.
2018
chry_All.1.fasta.reduced.
dryad.
2018
chry_AllNoOut.1.fasta.
dryad.
2018
trnL data set.
dryad.
2018
Diet.Matrix.taxonomy.
dryad.
2017
trnL data set.
dryad.
2017
Statistics of transcriptome sequencing and assembly of D. muscipula..
public-library-of-science.
2015
Summary of BLASTx search results of D. muscipula transcriptome..
public-library-of-science.
2015
Summary of qPCR-based estimates of haploid genome sizes..
public-library-of-science.
2015
Transcriptome and Genome Size Analysis of the Venus Flytrap.
public-library-of-science.
2015
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hide from search
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Average node ages from BEAST..
public-library-of-science.
2013
Ligation Bias in Illumina Next-Generation DNA Libraries: Implications for Sequencing Ancient Genomes.
public-library-of-science.
2013
Mean substitution rate averaged across the whole tree for each analysis run in BEAST with 95% HPD and 25% burn-in..
public-library-of-science.
2013
Mitochondrial Phylogenomics of Modern and Ancient Equids.
public-library-of-science.
2013
Sample information..
public-library-of-science.
2013
Sequence data..
public-library-of-science.
2013
Ligation Bias in Illumina Next-Generation DNA Libraries: Implications for Sequencing Ancient Genomes.
PLoS ONE.
2013
Mitochondrial Phylogenomics of Modern and Ancient Equids.
PLoS ONE.
2013
Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse.
Nature.
2013
Reconstructing genome evolution in historic samples of the Irish potato famine pathogen.
Nature Communications.
2013