A phylogeny of Cenozoic macroperforate planktonic foraminifera from fossil data

T Aze, THG Ezard, A Purvis, HK Coxall… - Biological …, 2011 - Wiley Online Library
We present a complete phylogeny of macroperforate planktonic foraminifer species of the
Cenozoic Era (∼ 65 million years ago to present). The phylogeny is developed from a large …

Speciation in fungi

T Giraud, G Refrégier, M Le Gac, DM de Vienne… - Fungal Genetics and …, 2008 - Elsevier
In this review on fungal speciation, we first contrast the issues of species definition and
species criteria and show that by distinguishing the two concepts the approaches to studying …

A general species delimitation method with applications to phylogenetic placements

J Zhang, P Kapli, P Pavlidis, A Stamatakis - Bioinformatics, 2013 - academic.oup.com
Motivation: Sequence-based methods to delimit species are central to DNA taxonomy,
microbial community surveys and DNA metabarcoding studies. Current approaches either …

Delimiting species using single-locus data and the Generalized Mixed Yule Coalescent approach: a revised method and evaluation on simulated data sets

T Fujisawa, TG Barraclough - Systematic biology, 2013 - academic.oup.com
DNA barcoding-type studies assemble single-locus data from large samples of individuals
and species, and have provided new kinds of data for evolutionary surveys of diversity. An …

Bayesian species delimitation using multilocus sequence data

Z Yang, B Rannala - … of the National Academy of Sciences, 2010 - National Acad Sciences
In the absence of recent admixture between species, bipartitions of individuals in gene trees
that are shared across loci can potentially be used to infer the presence of two or more …

Revisiting the insect mitochondrial molecular clock: the mid-Aegean trench calibration

A Papadopoulou, I Anastasiou… - Molecular biology and …, 2010 - academic.oup.com
Phylogenetic trees in insects are frequently dated by applying a “standard” mitochondrial
DNA (mtDNA) clock estimated at 2.3% My− 1, but despite its wide use reliable calibration …

DNA-based species delimitation in algae

F Leliaert, H Verbruggen… - European journal of …, 2014 - Taylor & Francis
Given the problems of species delimitation in algae using morphology or sexual
compatibility, molecular data are becoming the standard for delimiting species and testing …

DNA barcoding the floras of biodiversity hotspots

R Lahaye, M Van der Bank, D Bogarin… - Proceedings of the …, 2008 - National Acad Sciences
DNA barcoding is a technique in which species identification is performed by using DNA
sequences from a small fragment of the genome, with the aim of contributing to a wide range …

Accelerated species inventory on Madagascar using coalescent-based models of species delineation

MT Monaghan, R Wild, M Elliot, T Fujisawa… - Systematic …, 2009 - academic.oup.com
High-throughput DNA sequencing has the potential to accelerate species discovery if it is
able to recognize evolutionary entities from sequence data that are comparable to species …

Metabarcoding vs. morphological identification to assess diatom diversity in environmental studies

J Zimmermann, G Glöckner, R Jahn… - Molecular ecology …, 2015 - Wiley Online Library
Diatoms are frequently used for water quality assessments; however, identification to
species level is difficult, time‐consuming and needs in‐depth knowledge of the organisms …