Publication

COI Barcoding of Nebelid Testate Amoebae (Amoebozoa: Arcellinida): Extensive Cryptic Diversity and Redefinition of the Hyalospheniidae Schultze

Publications associées (43)

Rare but active taxa contribute to community dynamics of benthic biofilms in glacier-fed streams

Glaciers harbour diverse microorganisms, which upon ice melt can be released downstream. In glacier-fed streams microorganisms can attach to stones or sediments to form benthic biofilms. We used 454-pyrosequencing to explore the bulk (16S rDNA) and putativ ...

Wiley-Blackwell2014

A taxonomy of demand uncensoring methods in revenue management

Shadi Sharif Azadeh

Revenue management systems rely on customer data, and are thus affected by the absence of registered demand that arises when a product is no longer available. In the present work, we review the uncensoring (or unconstraining) techniques that have been prop ...

2014

An ancestral regulatory mechanism underlies Hoxd gene expression in both developing genitals and digits

Nicolas Lonfat

Coordinated expression of HoxD cluster genes is crucial for the emergence and patterning of both developing digits and external genitalia. As a shared evolutionary origin has been proposed for these secondary structures, which may have accompanied the tran ...

EPFL2013

Models and Algorithms for Whole-Genome Evolution and their Use in Phylogenetic Inference

Yu Lin

The rapid accumulation of sequenced genomes offers the chance to resolve longstanding questions about the evolutionary histories, or phylogenies, of groups of organisms. The relatively rare occurrence of large-scale evolutionary events in a whole genome, e ...

EPFL2012

Refining Regulatory Networks through Phylogenetic Transfer of Information

Bernard Moret, Xiuwei Zhang

The experimental determination of transcriptional regulatory networks in the laboratory remains difficult and time-consuming, while computational methods to infer these networks provide only modest accuracy. The latter can be attributed partly to the limit ...

2012

A Metric for Phylogenetic Trees Based on Matching

Bernard Moret, Yu Lin, Vaibhav Rajan

Comparing two or more phylogenetic trees is a fundamental task in computational biology. The simplest outcome of such a comparison is a pairwise measure of similarity, dissimilarity, or distance. A large number of such measures have been proposed, but so f ...

2012

Bootstrapping phylogenies inferred from rearrangement data

Bernard Moret, Yu Lin, Vaibhav Rajan

Background: Large-scale sequencing of genomes has enabled the inference of phylogenies based on the evolution of genomic architecture, under such events as rearrangements, duplications, and losses. Many evolutionary models and associated algorithms have be ...

BioMed Central2012

Comparing COI and SSU rDNA barcodes for assessing the diversity and phylogenetic relationships of cyphoderiid testate amoebae (Rhizaria: Euglyphida)

Edward Mitchell, Enrique Lara, Thierry Jean Heger

The mitochondrial Cytochrome Oxidase Subunit 1 gene (COI) has been promoted as an ideal “DNA barcode” for animal species and other groups of eukaryotes. However, the utility of the COI marker for species level discrimination and for phylogenetic analyses h ...

2011

Identification of Scarabaeus micans Drury and taxonomic notes on Dicronorhina Hope, with description of a new species (Coleoptera, Scarabaeidae, Cetoniinae)

Michele De Palma

The complex of Dicronorhina Hope taxa without cretaceous marks on head and body (“micans group”) is here diagnosed, discussed and revised. The type species of the genus, Scarabaeus micans Drury, 1773, is identified and re-described. D. johnstoni Waterhouse ...

2011

Fast and accurate phylogenetic reconstruction from high-resolution whole-genome data and a novel robustness estimator

Bernard Moret, Yu Lin, Vaibhav Rajan

The rapid accumulation of whole-genome data has renewed interest in the study of genomic rearrangements. Comparative genomics, evolutionary biology, and cancer research all require models and algorithms to elucidate the mechanisms, history, and consequence ...

2011

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