Successful Recovery of Nuclear Protein-Coding Genes from Small Insects in Museums Using Illumina Sequencing

The use of museum specimens with high-throughput DNA sequencers

(2015) Andrew S. Burrell et al.   JOURNAL OF HUMAN EVOLUTION

Singing from the Grave: DNA from a 180 Year Old Type Specimen Confirms the Identity of Chrysoperla carnea (Stephens)

(2015) Ben W. Price et al.   PLoS One

An Analysis of Factors Affecting Genotyping Success from Museum Specimens Reveals an Increase of Genetic and Morphological Variation during a Historical Range Expansion of a European Spider

(2015) Henrik Krehenwinkel et al.   PLoS One

The future of ancient DNA: Technical advances and conceptual shifts

(2014) Michael Hofreiter et al.   BIOESSAYS

Whole genome sequencing of the black grouse (Tetrao tetrix): reference guided assembly suggests faster-Z and MHC evolution

(2014) Biao Wang et al.   BMC GENOMICS

De novo transcriptome assembly for a non-model species, the blood-sucking bug Triatoma brasiliensis, a vector of Chagas disease

(2014) A. Marchant et al.   GENETICA

From museums to genomics: old herbarium specimens shed light on a C3 to C4 transition

(2014) Guillaume Besnard et al.   JOURNAL OF EXPERIMENTAL BOTANY

Ancient Whole Genome Enrichment Using Baits Built from Modern DNA

(2014) Jacob M. Enk et al.   MOLECULAR BIOLOGY AND EVOLUTION

Sequencing depth and coverage: key considerations in genomic analyses

(2014) David Sims et al.   NATURE REVIEWS GENETICS

Sequencing Degraded DNA from Non-Destructively Sampled Museum Specimens for RAD-Tagging and Low-Coverage Shotgun Phylogenetics

(2014) Mandy Man-Ying Tin et al.   PLoS One

Ancient DNA reveals elephant birds and kiwi are sister taxa and clarifies ratite bird evolution

(2014) K. J. Mitchell et al.   SCIENCE

Species delimitation in the ground beetle subgenusLiocosmius(Coleoptera: Carabidae:Bembidion), including standard and next-generation sequencing of museum specimens

(2014) David R. Maddison et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Phylogenetic relationships of the South American ground beetle subgenus Chilioperyphus Jeannel (Coleoptera: Carabidae: Trechinae: Bembidiini: Bembidion Latreille)

(2014) DAVID R. MADDISON et al.   ZOOTAXA

Pulling out the 1%: Whole-Genome Capture for the Targeted Enrichment of Ancient DNA Sequencing Libraries

(2013) Meredith L. Carpenter et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Fossil carabids from Baltic amber -II - A new subgenus ofBembidionLatreille 1802 (Coleoptera: Carabidae: Bembidiini)

(2013) Vicente M. Ortuño et al.   ANNALES DE LA SOCIETE ENTOMOLOGIQUE DE FRANCE

Unlocking the vault: next-generation museum population genomics

(2013) Ke Bi et al.   MOLECULAR ECOLOGY

Characterizing DNA preservation in degraded specimens ofAmara alpina(Carabidae: Coleoptera)

(2013) Peter D. Heintzman et al.   Molecular Ecology Resources

Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse

(2013) Ludovic Orlando et al.   NATURE

aLeaves facilitates on-demand exploration of metazoan gene family trees on MAFFT sequence alignment server with enhanced interactivity

(2013) Shigehiro Kuraku et al.   NUCLEIC ACIDS RESEARCH

Genomic Treasure Troves: Complete Genome Sequencing of Herbarium and Insect Museum Specimens

(2013) Martijn Staats et al.   PLoS One

Next-Generation Museomics Disentangles One of the Largest Primate Radiations

(2013) Katerina Guschanski et al.   SYSTEMATIC BIOLOGY

Quantitative RNA-Seq analysis in non-model species: assessing transcriptome assemblies as a scaffold and the utility of evolutionary divergent genomic reference species

(2012) Emily A Hornett et al.   BMC GENOMICS

Improving ancient DNA read mapping against modern reference genomes

(2012) Mikkel Schubert et al.   BMC GENOMICS

A tale of three next generation sequencing platforms: comparison of Ion torrent, pacific biosciences and illumina MiSeq sequencers

(2012) Michael Quail et al.   BMC GENOMICS

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogeny of Bembidion and related ground beetles (Coleoptera: Carabidae: Trechinae: Bembidiini: Bembidiina)

(2012) David R. Maddison   MOLECULAR PHYLOGENETICS AND EVOLUTION

De novo genome assembly: what every biologist should know

(2012) Monya Baker   NATURE METHODS

jModelTest 2: more models, new heuristics and parallel computing

(2012) Diego Darriba 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

New genome size estimates of 134 species of arthropods

(2011) Shawn Jason Hanrahan et al.   CHROMOSOME RESEARCH

Efficient cross-species capture hybridization and next-generation sequencing of mitochondrial genomes from noninvasively sampled museum specimens

(2011) V. C. Mason et al.   GENOME RESEARCH

True single-molecule DNA sequencing of a pleistocene horse bone

(2011) L. Orlando et al.   GENOME RESEARCH

Museum genomics: low-cost and high-accuracy genetic data from historical specimens

(2011) KEVIN C. ROWE et al.   Molecular Ecology Resources

Next-generation transcriptome assembly

(2011) Jeffrey A. Martin et al.   NATURE REVIEWS GENETICS

Double indexing overcomes inaccuracies in multiplex sequencing on the Illumina platform

(2011) Martin Kircher et al.   NUCLEIC ACIDS RESEARCH

Reference-guided assembly of four diverse Arabidopsis thaliana genomes

(2011) K. Schneeberger et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

De novo assembly and analysis of RNA-seq data

(2010) Gordon Robertson et al.   NATURE METHODS

Targeted Investigation of the Neandertal Genome by Array-Based Sequence Capture

(2010) H. A. Burbano et al.   SCIENCE

A Draft Sequence of the Neandertal Genome

(2010) R. E. Green et al.   SCIENCE

A preliminary characterization of Bembidion perspicuum LeConte, with a reclassification of related species (Coleoptera, Carabidae) north of México

(2010) David Maddison et al.   ZooKeys

Biological collections and ecological/environmental research: a review, some observations and a look to the future

(2009) Graham H. Pyke et al.   BIOLOGICAL REVIEWS

Recovery of DNA from archaeological insect remains: first results, problems and potential

(2009) Gary A. King et al.   JOURNAL OF ARCHAEOLOGICAL SCIENCE

Non-Destructive Sampling of Ancient Insect DNA

(2009) Philip Francis Thomsen et al.   PLoS One

Assisted assembly: how to improve a de novo genome assembly by using related species

(2009) Sante Gnerre et al.   GENOME BIOLOGY

Systematics of the North American beetle subgenus Pseudoperyphus (Coleoptera: Carabidae: Bembidion) based upon morphological, chromosomal, and molecular data

(2008) David R. Maddison   ANNALS OF CARNEGIE MUSEUM

Next-Generation DNA Sequencing Methods

(2008) Elaine R. Mardis   Annual Review of Genomics and Human Genetics

Sequencing the nuclear genome of the extinct woolly mammoth

(2008) Webb Miller et al.   NATURE

Accurate whole human genome sequencing using reversible terminator chemistry

(2008) David R. Bentley et al.   NATURE

The genome of the model beetle and pest Tribolium castaneum

(2008) Stephen Richards et al.   NATURE

Resolving Arthropod Phylogeny: Exploring Phylogenetic Signal within 41 kb of Protein-Coding Nuclear Gene Sequence

(2008) Jerome C. Regier et al.   SYSTEMATIC BIOLOGY

New developments in ancient genomics

(2008) Craig D. Millar et al.   TRENDS IN ECOLOGY & EVOLUTION