Ancient DNA analysis

L Orlando, R Allaby, P Skoglund… - Nature reviews …, 2021‏ - nature.com
Although the first ancient DNA molecules were extracted more than three decades ago, the
first ancient nuclear genomes could only be characterized after high-throughput sequencing …

Cutaneous mycobacterial infections

C Franco-Paredes, LA Marcos… - Clinical microbiology …, 2018‏ - journals.asm.org
Humans encounter mycobacterial species due to their ubiquity in different environmental
niches. In many individuals, pathogenic mycobacterial species may breach our first-line …

[HTML][HTML] Reconstruction of ancient microbial genomes from the human gut

MC Wibowo, Z Yang, M Borry, A Hübner, KD Huang… - Nature, 2021‏ - nature.com
Loss of gut microbial diversity,,,,–in industrial populations is associated with chronic
diseases, underscoring the importance of studying our ancestral gut microbiome. However …

Ancient pathogen genomics as an emerging tool for infectious disease research

MA Spyrou, KI Bos, A Herbig, J Krause - Nature Reviews Genetics, 2019‏ - nature.com
Over the past decade, a genomics revolution, made possible through the development of
high-throughput sequencing, has triggered considerable progress in the study of ancient …

Stone Age Yersinia pestis genomes shed light on the early evolution, diversity, and ecology of plague

A Andrades Valtueña, GU Neumann… - Proceedings of the …, 2022‏ - pnas.org
The bacterial pathogen Yersinia pestis gave rise to devastating outbreaks throughout
human history, and ancient DNA evidence has shown it afflicted human populations as far …

EAGER: efficient ancient genome reconstruction

A Peltzer, G Jäger, A Herbig, A Seitz, C Kniep, J Krause… - Genome biology, 2016‏ - Springer
Background The automated reconstruction of genome sequences in ancient genome
analysis is a multifaceted process. Results Here we introduce EAGER, a time-efficient …

Salmonella enterica genomes from victims of a major sixteenth-century epidemic in Mexico

ÅJ Vågene, A Herbig, MG Campana… - Nature ecology & …, 2018‏ - nature.com
Indigenous populations of the Americas experienced high mortality rates during the early
contact period as a result of infectious diseases, many of which were introduced by …

Pleistocene mitochondrial genomes suggest a single major dispersal of non-Africans and a Late Glacial population turnover in Europe

C Posth, G Renaud, A Mittnik, DG Drucker, H Rougier… - Current Biology, 2016‏ - cell.com
How modern humans dispersed into Eurasia and Australasia, including the number of
separate expansions and their timings, is highly debated [1, 2]. Two categories of models …

Bayesian inference of ancestral dates on bacterial phylogenetic trees

X Didelot, NJ Croucher, SD Bentley… - Nucleic acids …, 2018‏ - academic.oup.com
The sequencing and comparative analysis of a collection of bacterial genomes from a single
species or lineage of interest can lead to key insights into its evolution, ecology or …

Yersinia pestis and the Plague of Justinian 541–543 AD: a genomic analysis

DM Wagner, J Klunk, M Harbeck, A Devault… - The Lancet infectious …, 2014‏ - thelancet.com
Background Yersinia pestis has caused at least three human plague pandemics. The
second (Black Death, 14–17th centuries) and third (19–20th centuries) have been …