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

Phylogenetic relationships of the Australian Oligo-Miocene ratite Emuarius gidju Casuariidae

(2013) Trevor H. WORTHY et al.   Integrative Zoology

Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

Improving ancient DNA read mapping against modern reference genomes

(2012) Mikkel Schubert 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

Twenty-first century advances in knowledge of the biology of moa (Aves: Dinornithiformes): a new morphological analysis and moa diagnoses revised

(2012) TH Worthy et al.   NEW ZEALAND JOURNAL OF ZOOLOGY

Multiple nuclear genes and retroposons support vicariance and dispersal of the palaeognaths, and an Early Cretaceous origin of modern birds

(2012) O. Haddrath et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Ratite Nonmonophyly: Independent Evidence from 40 Novel Loci

(2012) Jordan V. Smith et al.   SYSTEMATIC BIOLOGY

MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

mapDamage: testing for damage patterns in ancient DNA sequences

(2011) Aurelien Ginolhac et al.   BIOINFORMATICS

Late Cretaceous bioconnections between Indo-Madagascar and Antarctica: refutation of the Gunnerus Ridge causeway hypothesis

(2011) Jason R. Ali et al.   JOURNAL OF BIOGEOGRAPHY

New morphological evidence supports congruent phylogenies and Gondwana vicariance for palaeognathous birds

(2011) PETER JOHNSTON   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

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

Continental drift, paleoclimatology, and the evolution and biogeography of birds

(2009) Joel Cracraft   JOURNAL OF ZOOLOGY

The evolutionary history of the extinct ratite moa and New Zealand Neogene paleogeography

(2009) M. Bunce et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Tinamous and Moa Flock Together: Mitochondrial Genome Sequence Analysis Reveals Independent Losses of Flight among Ratites

(2009) Matthew J. Phillips et al.   SYSTEMATIC BIOLOGY

A Complete Neandertal Mitochondrial Genome Sequence Determined by High-Throughput Sequencing

(2008) Richard E. Green et al.   CELL

PHYLOGENY AND EVOLUTION OF THE RATITE BIRDS

(2008) Joel Cracraft   IBIS

Phylogenomic evidence for multiple losses of flight in ratite birds

(2008) J. Harshman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY