High-Throughput DNA sequencing of ancient wood

TaqMan qPCR pushes boundaries for the analysis of millennial wood

(2017) Javier Gómez-Zeledón et al.   JOURNAL OF ARCHAEOLOGICAL SCIENCE

Improved recovery of ancient DNA from subfossil wood - application to the world's oldest Late Glacial pine forest

(2017) Bertalan Lendvay et al.   NEW PHYTOLOGIST

Extensive recent secondary contacts between four European white oak species

(2017) Thibault Leroy et al.   NEW PHYTOLOGIST

A new model for ancient DNA decay based on paleogenomic meta-analysis

(2017) Logan Kistler et al.   NUCLEIC ACIDS RESEARCH

The limits and potential of paleogenomic techniques for reconstructing grapevine domestication

(2016) Nathan Wales et al.   JOURNAL OF ARCHAEOLOGICAL SCIENCE

metaBIT, an integrative and automated metagenomic pipeline for analysing microbial profiles from high-throughput sequencing shotgun data

(2016) Guillaume Louvel et al.   Molecular Ecology Resources

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

(2016) Mikkel W. Pedersen et al.   NATURE

Introduction to the Changes in Global Forest Resources from 1990 to 2015

(2015) Kenneth MacDicken et al.   FOREST ECOLOGY AND MANAGEMENT

Comparing the performance of three ancient DNA extraction methods for high-throughput sequencing

(2015) Cristina Gamba et al.   Molecular Ecology Resources

Decoding the oak genome: public release of sequence data, assembly, annotation and publication strategies

(2015) Christophe Plomion et al.   Molecular Ecology Resources

MetaPhlAn2 for enhanced metagenomic taxonomic profiling

(2015) Duy Tin Truong et al.   NATURE METHODS

Reconstructing ancient genomes and epigenomes

(2015) Ludovic Orlando et al.   NATURE REVIEWS GENETICS

Introduction of chemically labile substructures intoArabidopsislignin through the use of LigD, the Cα-dehydrogenase fromSphingobiumsp. strain SYK-6

(2015) Yukiko Tsuji et al.   PLANT BIOTECHNOLOGY JOURNAL

History of Larix decidua Mill. (European larch) since 130 ka

(2015) Stefanie Wagner et al.   QUATERNARY SCIENCE REVIEWS

Sedimentary DNA from a submerged site reveals wheat in the British Isles 8000 years ago

(2015) Oliver Smith et al.   SCIENCE

Methanogenic degradation of lignin-derived monoaromatic compounds by microbial enrichments from rice paddy field soil

(2015) Souichiro Kato et al.   Scientific Reports

Contesting the presence of wheat in the British Isles 8,000 years ago by assessing ancient DNA authenticity from low-coverage data

(2015) Clemens L Weiß et al.   eLife

Optimal Ancient DNA Yields from the Inner Ear Part of the Human Petrous Bone

(2015) Ron Pinhasi et al.   PLoS One

Within-Range Translocations and Their Consequences in European Larch

(2015) Stefanie Wagner et al.   PLoS One

Regional patterns of settlement and woodland developments: Dendroarchaeology in the Neolithic pile-dwellings on Lake Constance (Germany)

(2014) André Billamboz   HOLOCENE

The genome of a Late Pleistocene human from a Clovis burial site in western Montana

(2014) Morten Rasmussen et al.   NATURE

Fifty thousand years of Arctic vegetation and megafaunal diet

(2014) Eske Willerslev et al.   NATURE

Characterization of ancient and modern genomes by SNP detection and phylogenomic and metagenomic analysis using PALEOMIX

(2014) Mikkel Schubert et al.   Nature Protocols

Optimization of DNA Recovery and Amplification from Non-Carbonized Archaeobotanical Remains

(2014) Nathan Wales et al.   PLoS One

Long livestock farming history and human landscape shaping revealed by lake sediment DNA

(2014) Charline Giguet-Covex et al.   Nature Communications

mapDamage2.0: fast approximate Bayesian estimates of ancient DNA damage parameters

(2013) Hákon Jónsson et al.   BIOINFORMATICS

Cellulose degradation by one mesophilic strain Caulobacter sp. FMC1 under both aerobic and anaerobic conditions

(2013) Na Song et al.   BIORESOURCE TECHNOLOGY

Evolutionary and plastic responses to climate change in terrestrial plant populations

(2013) Steven J. Franks et al.   Evolutionary Applications

Improving ancient DNA read mapping against modern reference genomes

(2012) Mikkel Schubert et al.   BMC GENOMICS

Metagenomic microbial community profiling using unique clade-specific marker genes

(2012) Nicola Segata et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Choosing the Best Plant for the Job: A Cost-Effective Assay to Prescreen Ancient Plant Remains Destined for Shotgun Sequencing

(2012) Nathan Wales et al.   PLoS One

Early Neolithic Water Wells Reveal the World's Oldest Wood Architecture

(2012) Willy Tegel et al.   PLoS One

The half-life of DNA in bone: measuring decay kinetics in 158 dated fossils

(2012) M. E. Allentoft et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Glacial Survival of Boreal Trees in Northern Scandinavia

(2012) L. Parducci et al.   SCIENCE

Towards the onset of fruit tree growing north of the Alps: Ancient DNA from waterlogged apple (Malus sp.) seed fragments

(2011) Angela Schlumbaum et al.   ANNALS OF ANATOMY-ANATOMISCHER ANZEIGER

A comparative study of ancient sedimentary DNA, pollen and macrofossils from permafrost sediments of northern Siberia reveals long-term vegetational stability

(2011) TINA JØRGENSEN et al.   MOLECULAR ECOLOGY

Two highly validated multiplexes (12-plex and 8-plex) for species delimitation and parentage analysis in oaks (Quercus spp.)

(2011) E. GUICHOUX et al.   Molecular Ecology Resources

2500 Years of European Climate Variability and Human Susceptibility

(2011) U. Buntgen et al.   SCIENCE

Metagenomic biomarker discovery and explanation

(2011) Nicola Segata et al.   GENOME BIOLOGY

Dating of 4th millennium BC pile-dwellings on Ljubljansko barje, Slovenia

(2010) Katarina Čufar et al.   JOURNAL OF ARCHAEOLOGICAL SCIENCE

Climate at the onset of western Mediterranean agriculture expansion: Evidence from stable isotopes of sub-fossil oak tree rings in Spain

(2010) M. Aguilera et al.   PALAEOGEOGRAPHY PALAEOCLIMATOLOGY PALAEOECOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

A multidisciplinary study of archaeological grape seeds

(2009) Enrico Cappellini et al.   NATURWISSENSCHAFTEN

New insights from old bones: DNA preservation and degradation in permafrost preserved mammoth remains

(2009) Carsten Schwarz et al.   NUCLEIC ACIDS RESEARCH

Adaptation, migration or extirpation: climate change outcomes for tree populations

(2008) Sally N. Aitken et al.   Evolutionary Applications

Genetic consequences of glacial survival and postglacial colonization in Norway spruce: combined analysis of mitochondrial DNA and fossil pollen

(2008) MARI METTE TOLLEFSRUD et al.   MOLECULAR ECOLOGY

Damage and degradation rates of extracellular DNA in marine sediments: implications for the preservation of gene sequences

(2008) C. CORINALDESI et al.   MOLECULAR ECOLOGY

Postglacial range expansion and its genetic imprints in Abies alba (Mill.) — A synthesis from palaeobotanic and genetic data

(2008) Sascha Liepelt et al.   REVIEW OF PALAEOBOTANY AND PALYNOLOGY

Patterns of post-glacial spread and the extent of glacial refugia of European beech (Fagus sylvatica)

(2007) Donatella Magri   JOURNAL OF BIOGEOGRAPHY