The Crown Pearl: a draft genome assembly of the European freshwater pearl mussel Margaritifera margaritifera (Linnaeus, 1758)

A High-Quality Reference Genome for a Parasitic Bivalve with Doubly Uniparental Inheritance (Bivalvia: Unionida)

(2021) Chase H Smith   Genome Biology and Evolution

A draft genome sequence of the elusive giant squid, Architeuthis dux

(2020) Rute R da Fonseca et al.   GigaScience

GenomeScope 2.0 and Smudgeplot for reference-free profiling of polyploid genomes

(2020) T. Rhyker Ranallo-Benavidez et al.   Nature Communications

Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome

(2020) Yiqian Li et al.   BMC GENOMICS

Giant African snail genomes provide insights into molluscan whole‐genome duplication and aquatic–terrestrial transition

(2020) Conghui Liu et al.   Molecular Ecology Resources

The iron-responsive genome of the chiton Acanthopleura Granulata

(2020) Rebecca M Varney et al.   Genome Biology and Evolution

Gene family amplification facilitates adaptation in freshwater unionid bivalve Megalonaias nervosa

(2020) Rebekah L. Rogers et al.   MOLECULAR ECOLOGY

pblat: a multithread blat algorithm speeding up aligning sequences to genomes

(2019) Meng Wang et al.   BMC BIOINFORMATICS

Signatures of Divergence, Invasiveness, and Terrestrialization Revealed by Four Apple Snail Genomes

(2019) Jin Sun et al.   MOLECULAR BIOLOGY AND EVOLUTION

Molluscan genomics: the road so far and the way forward

(2019) André Gomes-dos-Santos et al.   HYDROBIOLOGIA

CDD/SPARCLE: the conserved domain database in 2020

(2019) Shennan Lu et al.   NUCLEIC ACIDS RESEARCH

Dorsoventral decoupling of Hox gene expression underpins the diversification of molluscs

(2019) Pin Huan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

High genetic diversity and low differentiation in North American Margaritifera margaritifera (Bivalvia: Unionida: Margaritiferidae)

(2018) David T Zanatta et al.   BIOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

A revised spiralian homeobox gene classification incorporating new polychaete transcriptomes reveals a diverse TALE class and a divergent Hox gene

(2018) Thomas Barton-Owen et al.   Genome Biology and Evolution

Genome Survey of the Freshwater Mussel Venustaconcha ellipsiformis (Bivalvia: Unionida) Using a Hybrid De Novo Assembly Approach

(2018) Sébastien Renaut et al.   Genome Biology and Evolution

Expansion and systematics redefinition of the most threatened freshwater mussel family, the Margaritiferidae

(2018) Manuel Lopes-Lima et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Exposure of zebra mussels to extracorporeal shock waves demonstrates formation of new mineralized tissue inside and outside the focus zone

(2018) Katharina Sternecker et al.   Biology Open

Genomic Tools and Selective Breeding in Molluscs

(2018) Christopher M. Hollenbeck et al.   Frontiers in Genetics

Transcriptomic responses of the endangered freshwater mussel Margaritifera margaritifera to trace metal contamination in the Dronne River, France

(2017) Anthony Bertucci et al.   ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH

Ecosystem services provided by freshwater mussels

(2017) Caryn C. Vaughn   HYDROBIOLOGIA

Short-term breeding: releasing post-parasitic juvenile Margaritifera into ideal small-scale receptor sites: a new technique for the augmentation of declining populations

(2017) Evelyn Ann Moorkens   HYDROBIOLOGIA

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Scallop genome reveals molecular adaptations to semi-sessile life and neurotoxins

(2017) Yuli Li et al.   Nature Communications

Adaptation to deep-sea chemosynthetic environments as revealed by mussel genomes

(2017) Jin Sun et al.   Nature Ecology & Evolution

Scallop genome provides insights into evolution of bilaterian karyotype and development

(2017) Shi Wang et al.   Nature Ecology & Evolution

Conservation status of freshwater mussels in Europe: state of the art and future challenges

(2016) Manuel Lopes-Lima et al.   BIOLOGICAL REVIEWS

Hox, Parahox, Ehgbox, and NK Genes in Bivalve Molluscs: Evolutionary Implications

(2016) M. Luz Pérez-Parallé et al.   JOURNAL OF SHELLFISH RESEARCH

Population-level variation in senescence suggests an important role for temperature in an endangered mollusc

(2016) C. Hassall et al.   JOURNAL OF ZOOLOGY

Phylogeny, phylogeography, and evolution in the Mediterranean region: News from a freshwater mussel ( Potomida , Unionida)

(2016) Elsa Froufe et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Multi-locus fossil-calibrated phylogeny, biogeography and a subgeneric revision of the Margaritiferidae (Mollusca: Bivalvia: Unionoida)

(2016) Ivan N. Bolotov et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Who lives where? Molecular and morphometric analyses clarify which Unio species (Unionida, Mollusca) inhabit the southwestern Palearctic

(2016) Elsa Froufe et al.   ORGANISMS DIVERSITY & EVOLUTION

Cementing mussels to oysters in the pteriomorphian tree: a phylogenomic approach

(2016) Sarah Lemer et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The origin and phylogeny of Margaritiferidae (Bivalvia, Unionoida): a synthesis of molecular and fossil data

(2016) Rafael Araujo et al.   ZOOLOGICA SCRIPTA

Pursuing the quest for better understanding the taxonomic distribution of the system of doubly uniparental inheritance of mtDNA

(2016) Arthur Gusman et al.   PeerJ

Bivalve-specific gene expansion in the pearl oyster genome: implications of adaptation to a sessile lifestyle

(2016) Takeshi Takeuchi et al.   Zoological Letters

BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS: Table 1.

(2015) Katharina J. Hoff et al.   BIOINFORMATICS

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

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Reinforcing the Egg-Timer: Recruitment of Novel Lophotrochozoa Homeobox Genes to Early and Late Development in the Pacific Oyster

(2015) Jordi Paps et al.   Genome Biology and Evolution

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

(2015) Caroline B. Albertin et al.   NATURE

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

A phylogenetic backbone for Bivalvia: an RNA-seq approach

(2015) V. L. Gonzalez et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Repbase Update, a database of repetitive elements in eukaryotic genomes

(2015) Weidong Bao et al.   Mobile DNA

Rcorrector: efficient and accurate error correction for Illumina RNA-seq reads

(2015) Li Song et al.   GigaScience

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Investigating the Bivalve Tree of Life – an exemplar-based approach combining molecular and novel morphological characters

(2014) Rüdiger Bieler et al.   INVERTEBRATE SYSTEMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Fast and sensitive protein alignment using DIAMOND

(2014) Benjamin Buchfink et al.   NATURE METHODS

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Historical geography of pearl harvesting and current status of populations of freshwater pearl mussel Margaritifera margaritifera (L.) in the western part of Northern European Russia

(2013) Alexander Makhrov et al.   HYDROBIOLOGIA

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

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

MITOS: Improved de novo metazoan mitochondrial genome annotation

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

The oyster genome reveals stress adaptation and complexity of shell formation

(2012) Guofan Zhang et al.   NATURE

Insights into bilaterian evolution from three spiralian genomes

(2012) Oleg Simakov et al.   NATURE

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

(2012) Fredrik Ronquist et al.   SYSTEMATIC BIOLOGY

Evolution of homeobox genes

(2012) Peter W. H. Holland   Wiley Interdisciplinary Reviews-Developmental Biology

Meraculous: De Novo Genome Assembly with Short Paired-End Reads

(2011) Jarrod A. Chapman et al.   PLoS One

Strategies for the conservation of endangered freshwater pearl mussels (Margaritifera margaritifera L.): a synthesis of Conservation Genetics and Ecology

(2010) Juergen Geist   HYDROBIOLOGIA

Novel Protein Genes in Animal mtDNA: A New Sex Determination System in Freshwater Mussels (Bivalvia: Unionoida)?

(2010) Sophie Breton et al.   MOLECULAR BIOLOGY AND EVOLUTION

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS