Environmental DNA for wildlife biology and biodiversity monitoring

K Bohmann, A Evans, MTP Gilbert, GR Carvalho… - Trends in ecology & …, 2014 - cell.com
Extraction and identification of DNA from an environmental sample has proven noteworthy
recently in detecting and monitoring not only common species, but also those that are …

High-throughput genomic data in systematics and phylogenetics

EM Lemmon, AR Lemmon - Annual Review of Ecology …, 2013 - annualreviews.org
High-throughput genomic sequencing is rapidly changing the field of phylogenetics by
decreasing the cost and increasing the quantity and rate of data collection by several orders …

Targeted capture in evolutionary and ecological genomics

MR Jones, JM Good - Molecular ecology, 2016 - Wiley Online Library
The rapid expansion of next‐generation sequencing has yielded a powerful array of tools to
address fundamental biological questions at a scale that was inconceivable just a few years …

Unlocking the vault: Next‐generation museum population genomics

K Bi, T Linderoth, D Vanderpool, JM Good… - Molecular …, 2013 - Wiley Online Library
Natural history museum collections provide unique resources for understanding how
species respond to environmental change, including the abrupt, anthropogenic climate …

Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species

KR Bradnam, JN Fass, A Alexandrov, P Baranay… - …, 2013 - academic.oup.com
Background The process of generating raw genome sequence data continues to become
cheaper, faster, and more accurate. However, assembly of such data into high-quality …

Primate phylogenetic relationships and divergence dates inferred from complete mitochondrial genomes

L Pozzi, JA Hodgson, AS Burrell, KN Sterner… - Molecular phylogenetics …, 2014 - Elsevier
The origins and the divergence times of the most basal lineages within primates have been
difficult to resolve mainly due to the incomplete sampling of early fossil taxa. The main …

Avoiding missing data biases in phylogenomic inference: an empirical study in the landfowl (Aves: Galliformes)

PA Hosner, BC Faircloth, TC Glenn… - Molecular biology …, 2016 - academic.oup.com
Production of massive DNA sequence data sets is transforming phylogenetic inference, but
best practices for analyzing such data sets are not well established. One uncertainty is …

Shotgun mitogenomics provides a reference phylogenetic framework and timescale for living xenarthrans

GC Gibb, FL Condamine, M Kuch, J Enk… - Molecular Biology …, 2016 - academic.oup.com
Xenarthra (armadillos, sloths, and anteaters) constitutes one of the four major clades of
placental mammals. Despite their phylogenetic distinctiveness in mammals, a reference …

Sequence capture of ultraconserved elements from bird museum specimens

JE McCormack, WLE Tsai… - Molecular ecology …, 2016 - Wiley Online Library
New DNA sequencing technologies are allowing researchers to explore the genomes of the
millions of natural history specimens collected prior to the molecular era. Yet, we know little …

Neotropical plant evolution: assembling the big picture

CE Hughes, RT Pennington… - Botanical Journal of the …, 2013 - academic.oup.com
This paper and this issue attempt to address how, when and why the phenomenal c.
100,000 species of seed plants in tropical America (the Neotropics) arose. It is increasingly …