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The Stone Age Plague: 1000 years of Persistence in Eurasia
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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From FastQ Data to High‐Confidence Variant Calls: The Genome Analysis Toolkit Best Practices Pipeline
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ggplot2: Elegant Graphics for Data Analysis
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Preparation of Next-Generation Sequencing Libraries from Damaged DNA
inferredcites →https://doi.org/10.1016/j.aeae.2012.02.011openalex-snapshot
Ancient agriculture in Western Siberia: problems of argumentation, paleoethnobotanic methods, and analysis of data
inferredcites →https://doi.org/10.1016/j.cell.2015.10.009openalex-snapshot
Early Divergent Strains of Yersinia pestis in Eurasia 5,000 Years Ago
inferredcites →https://doi.org/10.1016/j.chom.2014.04.003openalex-snapshot
Retracing the Evolutionary Path that Led to Flea-Borne Transmission of Yersinia pestis
inferredcites →https://doi.org/10.1016/j.chom.2016.05.012openalex-snapshot
Historical Y. pestis Genomes Reveal the European Black Death as the Source of Ancient and Modern Plague Pandemics
inferredcites →https://doi.org/10.1016/j.mib.2012.02.003openalex-snapshot
Yersinia–flea interactions and the evolution of the arthropod-borne transmission route of plague
inferredcites →https://doi.org/10.1016/s1438-4221(00)80070-3openalex-snapshot
Murine toxin of Yersinia pestis shows phospholipase D activity but is not required for virulence in mice
inferredcites →https://doi.org/10.1016/s1473-3099(13)70323-2openalex-snapshot
Yersinia pestis and the Plague of Justinian 541–543 AD: a genomic analysis
inferredcites →https://doi.org/10.1017/cbo9780511618451openalex-snapshot
The Urals and Western Siberia in the Bronze and Iron Ages
inferredcites →https://doi.org/10.1017/s0025727300072100openalex-snapshot
4 Epidemiology of the Black Death and Successive Waves of Plague
inferredcites →https://doi.org/10.1038/nature10549openalex-snapshot
A draft genome of Yersinia pestis from victims of the Black Death
inferredcites →https://doi.org/10.1038/nature14317openalex-snapshot
Massive migration from the steppe was a source for Indo-European languages in Europe
inferredcites →https://doi.org/10.1038/nature14507openalex-snapshot
Population genomics of Bronze Age Eurasia
inferredcites →https://doi.org/10.1038/nature16152openalex-snapshot
Genome-wide patterns of selection in 230 ancient Eurasians
inferredcites →https://doi.org/10.1038/ncomms8487openalex-snapshot
Early emergence of Yersinia pestis as a severe respiratory pathogen
inferredcites →https://doi.org/10.1073/pnas.0509544103openalex-snapshot
Role of the Yersinia pestis plasminogen activator in the incidence of distinct septicemic and bubonic forms of flea-borne plague
inferredcites →https://doi.org/10.1073/pnas.0606831103openalex-snapshot
Early-phase transmission of Yersinia pestis by unblocked fleas as a mechanism explaining rapidly spreading plague epizootics
inferredcites →https://doi.org/10.1073/pnas.0704665104openalex-snapshot
Patterns of damage in genomic DNA sequences from a Neandertal
inferredcites →https://doi.org/10.1073/pnas.1105107108openalex-snapshot
Targeted enrichment of ancient pathogens yielding the pPCP1 plasmid of Yersinia pestis from victims of the Black Death
inferredcites →https://doi.org/10.1073/pnas.1205750110openalex-snapshot
Historical variations in mutation rate in an epidemic pathogen, Yersinia pestis
inferredcites →https://doi.org/10.1073/pnas.1221359110openalex-snapshot
DNA analysis of an early modern human from Tianyuan Cave, China
inferredcites →https://doi.org/10.1073/pnas.1314445110openalex-snapshot
Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments
inferredcites →https://doi.org/10.1073/pnas.1412887112openalex-snapshot
Climate-driven introduction of the Black Death and successive plague reintroductions into Europe
inferredcites →https://doi.org/10.1073/pnas.1413209111openalex-snapshot
Silencing urease: A key evolutionary step that facilitated the adaptation of Yersinia pestis to the flea-borne transmission route
inferredcites →https://doi.org/10.1078/1438-4639-00259openalex-snapshot
The history of the plague and the research on the causative agent Yersinia pestis
inferredcites →https://doi.org/10.1086/314456openalex-snapshot
Evaluation of the Role of theYersinia pestisPlasminogen Activator and Other Plasmid‐Encoded Factors in Temperature‐Dependent Blockage of the Flea
inferredcites →https://doi.org/10.1093/bib/bbs017openalex-snapshot
Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration
inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot
Fast and accurate short read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/btp352openalex-snapshot
The Sequence Alignment/Map format and SAMtools
inferredcites →https://doi.org/10.1093/bioinformatics/btq033openalex-snapshot
BEDTools: a flexible suite of utilities for comparing genomic features
inferredcites →https://doi.org/10.1093/bioinformatics/btt193openalex-snapshot
mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters
inferredcites →https://doi.org/10.1093/bioinformatics/btv566openalex-snapshot
Qualimap 2: advanced multi-sample quality control for high-throughput sequencing data
inferredcites →https://doi.org/10.1093/jme/tjv128openalex-snapshot
The Role of Early-Phase Transmission in the Spread ofYersinia pestis
inferredcites →https://doi.org/10.1093/molbev/mss075openalex-snapshot
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
inferredcites →https://doi.org/10.1093/molbev/mst197openalex-snapshot
MEGA6: Molecular Evolutionary Genetics Analysis Version 6.0
inferredcites →https://doi.org/10.1093/molbev/msw170openalex-snapshot
A High-CoverageYersinia pestisGenome from a Sixth-Century Justinianic Plague Victim
inferredcites →https://doi.org/10.1093/nar/gkr771openalex-snapshot
Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform
inferredcites →https://doi.org/10.1093/sysbio/syq010openalex-snapshot
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
inferredcites →https://doi.org/10.1098/rstb.2013.0624openalex-snapshot
Partial uracil–DNA–glycosylase treatment for screening of ancient DNA
inferredcites →https://doi.org/10.1099/mic.0.037952-0openalex-snapshot
Biofilm formation is not required for early-phase transmission of Yersinia pestis
inferredcites →https://doi.org/10.1099/mic.0.082123-0openalex-snapshot
Yersinia murine toxin is not required for early-phase transmission of Yersinia pestis by Oropsylla montana (Siphonaptera: Ceratophyllidae) or Xenopsylla cheopis (Siphonaptera: Pulicidae)
inferredcites →https://doi.org/10.1099/mic.0.2007/010918-0openalex-snapshot
The Yersinia pestis autotransporter YapC mediates host cell binding, autoaggregation and biofilm formation
inferredcites →https://doi.org/10.1101/113241openalex-snapshot
The Genetic History of Northern Europe
inferredcites →https://doi.org/10.1101/135616openalex-snapshot
The Genomic History Of Southeastern Europe
inferredcites →https://doi.org/10.1101/gr.092759.109openalex-snapshot
Circos: An information aesthetic for comparative genomics
inferredcites →https://doi.org/10.1101/pdb.prot5448openalex-snapshot
Illumina Sequencing Library Preparation for Highly Multiplexed Target Capture and Sequencing
inferredcites →https://doi.org/10.1111/j.1365-2958.2006.05570.xopenalex-snapshot
A horizontally acquired filamentous phage contributes to the pathogenicity of the plague bacillus
inferredcites →https://doi.org/10.1126/science.1058543openalex-snapshot
Genes Lost and Genes Found: Evolution of Bacterial Pathogenesis and Symbiosis
inferredcites →https://doi.org/10.1126/science.1069972openalex-snapshot
Role of Yersinia Murine Toxin in Survival of Yersinia pestis in the Midgut of the Flea Vector
inferredcites →https://doi.org/10.1126/science.1137195openalex-snapshot
A Plasminogen-Activating Protease Specifically Controls the Development of Primary Pneumonic Plague
inferredcites →https://doi.org/10.1128/cmr.10.1.35openalex-snapshot
Yersinia pestis--etiologic agent of plague
inferredcites →https://doi.org/10.1128/genomea.01030-15openalex-snapshot
Genome Assemblies for 11 Yersinia pestis Strains Isolated in the Caucasus Region
inferredcites →https://doi.org/10.1128/genomea.01342-15openalex-snapshot
Nineteen Whole-Genome Assemblies of Yersinia pestis subsp. microtus , Including Representatives of Biovars caucasica, talassica, hissarica, altaica, xilingolensis, and ulegeica
inferredcites →https://doi.org/10.1128/iai.00568-08openalex-snapshot
Characterization of Chromosomal Regions Conserved in Yersinia pseudotuberculosis and Lost by Yersinia pestis
inferredcites →https://doi.org/10.1128/iai.69.1.170-176.2001openalex-snapshot
Silencing and Reactivation of Urease in Yersinia pestis Is Determined by One G Residue at a Specific Position in the ureD Gene
inferredcites →https://doi.org/10.1128/iai.70.3.1453-1460.2002openalex-snapshot
Role of Fraction 1 Antigen ofYersinia pestisin Inhibition of Phagocytosis
inferredcites →https://doi.org/10.1128/jb.00489-09openalex-snapshot
The Single Substitution I259T, Conserved in the Plasminogen Activator Pla of PandemicYersinia pestisBranches, Enhances Fibrinolytic Activity
inferredcites →https://doi.org/10.1146/annurev.anthro.27.1.247openalex-snapshot
EMERGING AND RE-EMERGING INFECTIOUS DISEASES: The Third Epidemiologic Transition
inferredcites →https://doi.org/10.1186/1471-2105-10-421openalex-snapshot
BLAST+: architecture and applications
inferredcites →https://doi.org/10.1186/s13059-016-0918-zopenalex-snapshot
EAGER: efficient ancient genome reconstruction
inferredcites →https://doi.org/10.1371/journal.pmed.0050003openalex-snapshot
Plague: Past, Present, and Future
inferredcites →https://doi.org/10.1371/journal.pone.0139705openalex-snapshot
Rewriting the Central European Early Bronze Age Chronology: Evidence from Large-Scale Radiocarbon Dating
inferredcites →https://doi.org/10.1371/journal.pone.0145194openalex-snapshot
Genotyping Yersinia pestis in Historical Plague: Evidence for Long-Term Persistence of Y. pestis in Europe from the 14th to the 17th Century
inferredcites →https://doi.org/10.1515/pz-2016-0005openalex-snapshot
Bronzization: The Bronze Age as Pre-Modern Globalization
inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot
R: A Language and Environment for Statistical Computing
inferredcites →https://doi.org/10.3389/fmicb.2014.00701openalex-snapshot
YpfΦ: a filamentous phage acquired by Yersinia pesti
inferredcites →https://doi.org/10.4161/fly.19695openalex-snapshot
A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff
inferredcites →https://doi.org/10.7554/elife.12994openalex-snapshot
Eighteenth century Yersinia pestis genomes reveal the long-term persistence of an historical plague focus
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.1007/978-3-031-58831-0_7openalex-snapshot
The Evolutionary History of Yersinia pestis
inferred← citeshttps://doi.org/10.1016/j.jaa.2018.11.004openalex-snapshot
De-Neolithisation in southern Norway inferred from statistical modelling of radiocarbon dates
inferred← citeshttps://doi.org/10.1016/j.tig.2017.05.005openalex-snapshot
Mining Metagenomic Data Sets for Ancient DNA: Recommended Protocols for Authentication
inferred← citeshttps://doi.org/10.1073/pnas.1706355114openalex-snapshot
Female exogamy and gene pool diversification at the transition from the Final Neolithic to the Early Bronze Age in central Europe
inferred← citeshttps://doi.org/10.1093/molbev/msab147openalex-snapshot
Analysis of Genomic DNA from Medieval Plague Victims Suggests Long-Term Effect of Yersinia pestis on Human Immunity Genes
inferred← citeshttps://doi.org/10.1101/135962openalex-snapshot
The Beaker Phenomenon and the Genomic Transformation of Northwest Europe
inferred← citeshttps://doi.org/10.1134/s1022795421020113openalex-snapshot
Genomogenesis of the Plague Bacteria Yersinia pestis as a Process of Mosaic Evolution
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