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 …

Quantifying temporal genomic erosion in endangered species

D Díez-del-Molino, F Sánchez-Barreiro, I Barnes… - Trends in Ecology & …, 2018 - cell.com
Many species have undergone dramatic population size declines over the past centuries.
Although stochastic genetic processes during and after such declines are thought to elevate …

Grey wolf genomic history reveals a dual ancestry of dogs

A Bergström, DWG Stanton, UH Taron, L Frantz… - Nature, 2022 - nature.com
The grey wolf (Canis lupus) was the first species to give rise to a domestic population, and
they remained widespread throughout the last Ice Age when many other large mammal …

Early human dispersals within the Americas

JV Moreno-Mayar, L Vinner, P de Barros Damgaard… - Science, 2018 - science.org
INTRODUCTION Genetic studies of the Pleistocene peopling of the Americas have focused
on the timing and number of migrations from Siberia into North America. They show that …

A fast and efficient single-stranded genomic library preparation method optimized for ancient DNA

JD Kapp, RE Green, B Shapiro - Journal of Heredity, 2021 - academic.oup.com
We present a protocol to prepare extracted DNA for sequencing on the Illumina sequencing
platform that has been optimized for ancient and degraded DNA. Our approach, the Santa …

Ancient and modern genomes unravel the evolutionary history of the rhinoceros family

S Liu, MV Westbury, N Dussex, KJ Mitchell… - Cell, 2021 - cell.com
Only five species of the once-diverse Rhinocerotidae remain, making the reconstruction of
their evolutionary history a challenge to biologists since Darwin. We sequenced genomes …

Efficient and unique cobarcoding of second-generation sequencing reads from long DNA molecules enabling cost-effective and accurate sequencing, haplotyping …

O Wang, R Chin, X Cheng, MKY Wu, Q Mao… - Genome …, 2019 - genome.cshlp.org
Here, we describe single-tube long fragment read (stLFR), a technology that enables
sequencing of data from long DNA molecules using economical second-generation …

Assessment of the cPAS-based BGISEQ-500 platform for metagenomic sequencing

C Fang, H Zhong, Y Lin, B Chen, M Han, H Ren… - …, 2018 - academic.oup.com
Background More extensive use of metagenomic shotgun sequencing in microbiome
research relies on the development of high-throughput, cost-effective sequencing. Here we …

The Mutationathon highlights the importance of reaching standardization in estimates of pedigree-based germline mutation rates

LA Bergeron, S Besenbacher, T Turner, CJ Versoza… - Elife, 2022 - elifesciences.org
In the past decade, several studies have estimated the human per-generation germline
mutation rate using large pedigrees. More recently, estimates for various nonhuman species …

Comparative analysis of sequencing technologies for single-cell transcriptomics

KN Natarajan, Z Miao, M Jiang, X Huang, H Zhou, J Xie… - Genome Biology, 2019 - Springer
Single-cell RNA-seq technologies require library preparation prior to sequencing. Here, we
present the first report to compare the cheaper BGISEQ-500 platform to the Illumina HiSeq …