Novel genomic resources for shelled pteropods: a draft genome and target capture probes for Limacina bulimoides, tested for cross-species relevance

A High-Quality De novo Genome Assembly from a Single Mosquito Using PacBio Sequencing

(2019) Sarah Kingan et al.   Genes

Towards population genomics in non-model species with large genomes: a case study of the marine zooplankton Calanus finmarchicus

(2019) Marvin Choquet et al.   Royal Society Open Science

Large Contribution of Pteropods to Shallow CaCO 3 Export

(2019) Erik T. Buitenhuis et al.   GLOBAL BIOGEOCHEMICAL CYCLES

Assessing species boundaries in the open sea: an integrative taxonomic approach to the pteropod genus Diacavolinia

(2019) Alice K Burridge et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species

(2018) Daniel W. Förster et al.   Molecular Ecology Resources

The evolution of mollusc shells

(2018) Carmel McDougall et al.   Wiley Interdisciplinary Reviews-Developmental Biology

GenBank

(2018) Eric W Sayers et al.   NUCLEIC ACIDS RESEARCH

New Approaches for Genome Assembly and Scaffolding

(2018) Edward S. Rice et al.   Annual Review of Animal Biosciences

Extreme Mitogenomic Variation in Natural Populations of Chaetognaths

(2017) Ferdinand Marlétaz et al.   Genome Biology and Evolution

An Annotated Draft Genome for Radix auricularia (Gastropoda, Mollusca)

(2017) Tilman Schell et al.   Genome Biology and Evolution

Exposure to CO 2 influences metabolism, calcification and gene expression of the thecosome pteropod Limacina retroversa

(2017) Amy E. Maas et al.   JOURNAL OF EXPERIMENTAL BIOLOGY

Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: New approaches to long-standing problems

(2017) Andrea M. Quattrini et al.   Molecular Ecology Resources

Time-calibrated molecular phylogeny of pteropods

(2017) Alice K. Burridge et al.   PLoS One

Diversity and abundance of pteropods and heteropods along a latitudinal gradient across the Atlantic Ocean

(2017) Alice K. Burridge et al.   PROGRESS IN OCEANOGRAPHY

Sea shell diversity and rapidly evolving secretomes: insights into the evolution of biomineralization

(2016) Kevin M. Kocot et al.   Frontiers in Zoology

Near-future pH conditions severely impact calcification, metabolism and the nervous system in the pteropodHeliconoides inflatus

(2016) Aurelie Moya et al.   GLOBAL CHANGE BIOLOGY

Capturing Darwin's dream

(2016) Travis C. Glenn et al.   Molecular Ecology Resources

Identification and qualification of 500 nuclear, single-copy, orthologous genes for the Eupulmonata (Gastropoda) using transcriptome sequencing and exon capture

(2016) Luisa C. Teasdale et al.   Molecular Ecology Resources

Exome capture from the spruce and pine giga-genomes

(2016) H. Suren et al.   Molecular Ecology Resources

An evaluation of transcriptome-based exon capture for frog phylogenomics across multiple scales of divergence (Class: Amphibia, Order: Anura)

(2016) Daniel M. Portik et al.   Molecular Ecology Resources

Harnessing the power of RADseq for ecological and evolutionary genomics

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

The minimal amount of starting DNA for Agilent’s hybrid capture-based targeted massively parallel sequencing

(2016) Jongsuk Chung et al.   Scientific Reports

Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives

(2016) Pierpaolo Maisano Delser et al.   Scientific Reports

Mitochondrial DNA hyperdiversity and its potential causes in the marine periwinkleMelarhaphe neritoides(Mollusca: Gastropoda)

(2016) Séverine Fourdrilis et al.   PeerJ

Capturing protein-coding genes across highly divergent species

(2016) Chenhong Li et al.   BIOTECHNIQUES

Sequence Capture and Phylogenetic Utility of Genomic Ultraconserved Elements Obtained from Pinned Insect Specimens

(2016) Bonnie B. Blaimer et al.   PLoS One

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Global biogeography and evolution of Cuvierina pteropods

(2015) Alice K Burridge et al.   BMC EVOLUTIONARY BIOLOGY

Impact of glaciations on genetic diversity of pelagic mollusks: Antarctic Limacina antarctica and Arctic Limacina helicina

(2015) L Sromek et al.   MARINE ECOLOGY PROGRESS SERIES

Antarctic krill population genomics: apparent panmixia, but genome complexity and large population size muddy the water

(2015) Bruce E. Deagle et al.   MOLECULAR ECOLOGY

SNP genotyping and population genomics from expressed sequences - current advances and future possibilities

(2015) Pierre De Wit et al.   MOLECULAR ECOLOGY

Targeted capture in evolutionary and ecological genomics

(2015) Matthew R. Jones et al.   MOLECULAR ECOLOGY

Impact of enrichment conditions on cross-species capture of fresh and degraded DNA

(2015) Johanna L. A. Paijmans et al.   Molecular Ecology Resources

Sequence capture of ultraconserved elements from bird museum specimens

(2015) John E. McCormack et al.   Molecular Ecology Resources

Exon capture phylogenomics: efficacy across scales of divergence

(2015) Jason G. Bragg et al.   Molecular Ecology Resources

The octopus genome and the evolution of cephalopod neural and morphological novelties

(2015) Caroline B. Albertin et al.   NATURE

Low cost sequencing of mitogenomes from museum samples using baits capture and Ion Torrent

(2015) Spyros Kollias et al.   Conservation Genetics Resources

Impact of glaciations on genetic diversity of pelagic mollusks: Antarctic Limacina antarctica and Arctic Limacina helicina

(2015) L Sromek et al.   MARINE ECOLOGY PROGRESS SERIES

Characterization of the pigmented shell-forming proteome of the common grove snail Cepaea nemoralis

(2014) Karlheinz Mann et al.   BMC GENOMICS

SNP ascertainment bias in population genetic analyses: Why it is important, and how to correct it

(2013) Joseph Lachance et al.   BIOESSAYS

The MaSuRCA genome assembler

(2013) Aleksey V. Zimin et al.   BIOINFORMATICS

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Unlocking the vault: next-generation museum population genomics

(2013) Ke Bi et al.   MOLECULAR ECOLOGY

High evolutionary potential of marine zooplankton

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

Transcriptome-based exon capture enables highly cost-effective comparative genomic data collection at moderate evolutionary scales

(2012) Ke Bi et al.   BMC GENOMICS

Hi–C: A comprehensive technique to capture the conformation of genomes

(2012) Jon-Matthew Belton et al.   METHODS

MITOS: Improved de novo metazoan mitochondrial genome annotation

(2012) Matthias Bernt et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Insights into bilaterian evolution from three spiralian genomes

(2012) Oleg Simakov et al.   NATURE

Hybrid error correction and de novo assembly of single-molecule sequencing reads

(2012) Sergey Koren et al.   NATURE BIOTECHNOLOGY

A fast, lock-free approach for efficient parallel counting of occurrences of k-mers

(2011) Guillaume Marçais et al.   BIOINFORMATICS

The variant call format and VCFtools

(2011) P. Danecek et al.   BIOINFORMATICS

Applications of next-generation sequencing to phylogeography and phylogenetics

(2011) John E. McCormack et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

Repetitive DNA and next-generation sequencing: computational challenges and solutions

(2011) Todd J. Treangen et al.   NATURE REVIEWS GENETICS

Impact of aragonite saturation state changes on migratory pteropods

(2011) S. Comeau et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Local Adaptation in Marine Invertebrates

(2010) Eric Sanford et al.   Annual Review of Marine Science

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

(2010) A. McKenna et al.   GENOME RESEARCH

Target-enrichment strategies for next-generation sequencing

(2010) Lira Mamanova et al.   NATURE METHODS

Poles Apart: The “Bipolar” Pteropod Species Limacina helicina Is Genetically Distinct Between the Arctic and Antarctic Oceans

(2010) Brian Hunt et al.   PLoS One

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

DISENTANGLING THE EFFECTS OF EVOLUTIONARY, DEMOGRAPHIC, AND ENVIRONMENTAL FACTORS INFLUENCING GENETIC STRUCTURE OF NATURAL POPULATIONS: ATLANTIC HERRING AS A CASE STUDY

(2009) Oscar E. Gaggiotti et al.   EVOLUTION

Solution hybrid selection with ultra-long oligonucleotides for massively parallel targeted sequencing

(2009) Andreas Gnirke et al.   NATURE BIOTECHNOLOGY

Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers

(2008) Nathan A. Baird et al.   PLoS One

Pteropods in Southern Ocean ecosystems

(2008) B.P.V. Hunt et al.   PROGRESS IN OCEANOGRAPHY