A 2-million-year-old ecosystem in Greenland uncovered by environmental DNA

Placing Ancient DNA Sequences into Reference Phylogenies

(2022) Rui Martiniano et al.   MOLECULAR BIOLOGY AND EVOLUTION

ngs LCA —A toolkit for fast and flexible lowest common ancestor inference and taxonomic profiling of metagenomic data

(2022) Yucheng Wang et al.   Methods in Ecology and Evolution

Million-year-old DNA sheds light on the genomic history of mammoths

(2021) Tom van der Valk et al.   NATURE

Dung analysis of the East Milford mastodons: dietary and environmental reconstructions from central Nova Scotia at ~75 ka yr BP.

(2021) Scott L. Cocker et al.   CANADIAN JOURNAL OF EARTH SCIENCES

Environmental genomics of Late Pleistocene black bears and giant short-faced bears

(2021) Mikkel Winther Pedersen et al.   CURRENT BIOLOGY

Sedimentary ancient DNA shows terrestrial plant richness continuously increased over the Holocene in northern Fennoscandia

(2021) Dilli P. Rijal et al.   Science Advances

Late Quaternary dynamics of Arctic biota from ancient environmental genomics

(2021) Yucheng Wang et al.   NATURE

DNA Repair and the Stability of the Plant Mitochondrial Genome

(2020) Nicolas Chevigny et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Four decades of new vascular plant records for Greenland

(2020) Christian Bay   PhytoKeys

Evidence of human occupation in Mexico around the Last Glacial Maximum

(2020) Ciprian F. Ardelean et al.   NATURE

Last Glacial Maximum environmental conditions at Andøya, northern Norway; evidence for a northern ice-edge ecological “hotspot”

(2020) Inger G. Alsos et al.   QUATERNARY SCIENCE REVIEWS

Optimizing extraction and targeted capture of ancient environmental DNA for reconstructing past environments using the PalaeoChip Arctic-1.0 bait-set

(2020) Tyler J. Murchie et al.   QUATERNARY RESEARCH

American mastodon mitochondrial genomes suggest multiple dispersal events in response to Pleistocene climate oscillations

(2020) Emil Karpinski et al.   Nature Communications

Community-led, integrated, reproducible multi-omics with anvi’o

(2020) A. Murat Eren et al.   Nature Microbiology

Plastomes of Betulaceae and phylogenetic implications

(2019) Xiao-Yue Yang et al.   Journal of Systematics and Evolution

Shotgun Environmental DNA, Pollen, and Macrofossil Analysis of Lateglacial Lake Sediments From Southern Sweden

(2019) Laura Parducci et al.   Frontiers in Ecology and Evolution

A raster version of the Circumpolar Arctic Vegetation Map (CAVM)

(2019) Martha K. Raynolds et al.   REMOTE SENSING OF ENVIRONMENT

MEGA X: Molecular Evolutionary Genetics Analysis across Computing Platforms

(2018) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

Plant DNA metabarcoding of lake sediments: How does it represent the contemporary vegetation

(2018) Inger Greve Alsos et al.   PLoS One

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

Plastome phylogeny and lineage diversification of Salicaceae with focus on poplars and willows

(2018) Lei Zhang et al.   Ecology and Evolution

PoLAR-FIT: Pliocene Landscapes and Arctic Remains—Frozen in Time

(2017) John C. Gosse et al.   GEOSCIENCE CANADA

Ancient plant DNA in lake sediments

(2017) Laura Parducci et al.   NEW PHYTOLOGIST

Phylogenomic Analysis and Dynamic Evolution of Chloroplast Genomes in Salicaceae

(2017) Yuan Huang et al.   Frontiers in Plant Science

A basal ursine bear (Protarctos abstrusus) from the Pliocene High Arctic reveals Eurasian affinities and a diet rich in fermentable sugars

(2017) Xiaoming Wang et al.   Scientific Reports

Postglacial viability and colonization in North America’s ice-free corridor

(2016) Mikkel W. Pedersen et al.   NATURE

Timing and causes of mid-Holocene mammoth extinction on St. Paul Island, Alaska

(2016) Russell W. Graham et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Megafauna and ecosystem function from the Pleistocene to the Anthropocene

(2016) Yadvinder Malhi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

GenBank

(2015) Karen Clark et al.   NUCLEIC ACIDS RESEARCH

Profex: a graphical user interface for the Rietveld refinement programBGMN

(2015) Nicola Doebelin et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

Whole plastome sequencing reveals deep plastid divergence and cytonuclear discordance between closely related balsam poplars,Populus balsamiferaandP. trichocarpa(Salicaceae)

(2014) Daisie I. Huang et al.   NEW PHYTOLOGIST

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Climate sensitivity, sea level and atmospheric carbon dioxide

(2013) J. Hansen et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY A-MATHEMATICAL PHYSICAL AND ENGINEERING SCIENCES

Pliocene Warmth, Polar Amplification, and Stepped Pleistocene Cooling Recorded in NE Arctic Russia

(2013) J. Brigham-Grette et al.   SCIENCE

Mid-Pliocene warm-period deposits in the High Arctic yield insight into camel evolution

(2013) Natalia Rybczynski et al.   Nature Communications

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Pleistocene Speciation in the Genus Populus (Salicaceae)

(2012) Nicholas D. Levsen et al.   SYSTEMATIC BIOLOGY

Improving SNP discovery by base alignment quality

(2011) H. Li   BIOINFORMATICS

A Holistic Approach to Marine Eco-Systems Biology

(2011) Eric Karsenti et al.   PLOS BIOLOGY

Macrofossils in an interglacial peat deposit at Kap København, North Greenland

(2010) BENT FREDSKILD et al.   BOREAS

A Bayesian Phylogenetic Method to Estimate Unknown Sequence Ages

(2010) B. Shapiro et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Biopython: freely available Python tools for computational molecular biology and bioinformatics

(2009) P. J. A. Cock et al.   BIOINFORMATICS