New insights into global biogeography, population structure and natural selection from the genome of the epipelagic copepod Oithona

Global phylogeography of Oithona similis s.l. (Crustacea, Copepoda, Oithonidae) – A cosmopolitan plankton species or a complex of cryptic lineages?

(2017) Astrid Cornils et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Embryonic development and a quantitative model of programmed DNA elimination in Mesocyclops edax (S. A. Forbes, 1891) (Copepoda: Cyclopoida)

(2016) Michelle K. Clower et al.   JOURNAL OF CRUSTACEAN BIOLOGY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

New view of population genetics of zooplankton: RAD-seq analysis reveals population structure of the North Atlantic planktonic copepod Centropages typicus

(2016) L. Blanco-Bercial et al.   MOLECULAR ECOLOGY

Harnessing the power of RADseq for ecological and evolutionary genomics

(2016) Kimberly R. Andrews et al.   NATURE REVIEWS GENETICS

Survey of the green picoalga Bathycoccus genomes in the global ocean

(2016) Thomas Vannier et al.   Scientific Reports

First report of the planktonic copepod Oithona davisae in the northern Wadden Sea (North Sea): Evidence for recent invasion?

(2015) Astrid Cornils et al.   HELGOLAND MARINE RESEARCH

dipSPAdes: Assembler for Highly Polymorphic Diploid Genomes

(2015) Yana Safonova et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Oithona similislikes it cool: evidence from two long-term time series

(2015) Claudia Castellani et al.   JOURNAL OF PLANKTON RESEARCH

Eukaryotic plankton diversity in the sunlit ocean

(2015) C. de Vargas et al.   SCIENCE

Open science resources for the discovery and analysis of Tara Oceans data

(2015) Stéphane Pesant et al.   Scientific Data

Temporal Stability of Genetic Structure in a Mesopelagic Copepod

(2015) Erica Goetze et al.   PLoS One

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

BESST - Efficient scaffolding of large fragmented assemblies

(2014) Kristoffer Sahlin et al.   BMC BIOINFORMATICS

Billions of basepairs of recently expanded, repetitive sequences are eliminated from the somatic genome during copepod development

(2014) Cheng Sun et al.   BMC GENOMICS

Chromatin diminution in Copepoda (Crustacea): pattern, biological role and evolutionary aspects

(2014) Andrey Grishanin   Comparative Cytogenetics

A metagenetic approach for revealing community structure of marine planktonic copepods

(2014) J. Hirai et al.   Molecular Ecology Resources

A Connectivity-Based Eco-Regionalization Method of the Mediterranean Sea

(2014) Léo Berline et al.   PLoS One

Informed and automated k-mer size selection for genome assembly

(2013) R. Chikhi et al.   BIOINFORMATICS

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

hzar: hybrid zone analysis using an R software package

(2013) Elizabeth P. Derryberry et al.   Molecular Ecology Resources

High evolutionary potential of marine zooplankton

(2013) Katja T. C. A. Peijnenburg et al.   Ecology and Evolution

Oases: robust de novo RNA-seq assembly across the dynamic range of expression levels

(2012) Marcel H. Schulz et al.   BIOINFORMATICS

The insulin-like androgenic gland hormone in crustaceans: From a single gene silencing to a wide array of sexual manipulation-based biotechnologies

(2012) Tomer Ventura et al.   BIOTECHNOLOGY ADVANCES

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Molecular Systematic of Three Species of Oithona (Copepoda, Cyclopoida) from the Atlantic Ocean: Comparative Analysis Using 28S rDNA

(2012) Georgina D. Cepeda et al.   PLoS One

Multi-Gene Analysis Reveals a Lack of Genetic Divergence between Calanus agulhensis and C. sinicus (Copepoda; Calanoida)

(2012) Robert Kozol et al.   PLoS One

Unusual augmentation of germline genome size in Cyclops kolensis (Crustacea, Copepoda): further evidence in support of a revised model of chromatin diminution

(2011) Grace A. Wyngaard et al.   CHROMOSOME RESEARCH

Comparative phylogeography and connectivity of sibling species of the marine copepod Clausocalanus (Calanoida)

(2011) Leocadio Blanco-Bercial et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

Speciation of two salinity-associated size forms ofOithona dissimilis(Copepoda: Cyclopoida) in estuaries

(2011) Hiroshi Ueda et al.   JOURNAL OF NATURAL HISTORY

The Ecoresponsive Genome of Daphnia pulex

(2011) J. K. Colbourne et al.   SCIENCE

A Holistic Approach to Marine Eco-Systems Biology

(2011) Eric Karsenti et al.   PLOS BIOLOGY

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Detecting Selection in Population Trees: The Lewontin and Krakauer Test Extended

(2010) Maxime Bonhomme et al.   GENETICS

Seasonal production of Oithona nana Giesbrecht, 1893 (Copepoda: Cyclopoida) in temperate coastal waters off Argentina

(2010) B. Temperoni et al.   JOURNAL OF PLANKTON RESEARCH

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Physiology, Ecological Niches and Species Distribution

(2009) Pierre Helaouët et al.   ECOSYSTEMS

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH