Mitochondrial Genomes, Phylogenetic Associations, and SNP Recovery for the Key Invasive Ponto-Caspian Amphipods in Europe

eDNA metabarcoding as a biomonitoring tool for marine protected areas

(2021) Zachary Gold et al.   PLoS One

Environmental DNA for biomonitoring

(2021) Jan Pawlowski et al.   MOLECULAR ECOLOGY

A New Family of DNA Viruses Causing Disease in Crustaceans from Diverse Aquatic Biomes

(2020) Kuttichantran Subramaniam et al.   mBio

Complete transcriptome assembly and annotation of a critically important amphipod species in freshwater ecotoxicological risk assessment: Gammarus fossarum

(2020) Domenico R. Caputo et al.   ENVIRONMENT INTERNATIONAL

Tracking invasions of a destructive defoliator, the gypsy moth (Erebidae: Lymantria dispar ): Population structure, origin of intercepted specimens, and Asian introgression into North America

(2020) Yunke Wu et al.   Evolutionary Applications

Cryptic diversity and mtDNA phylogeography of the invasive demon shrimp, Dikerogammarus haemobaphes (Eichwald, 1841), in Europe

(2020) Anna Maria Jażdżewska et al.   NeoBiota

Semimytilus algosus: first known hermaphroditic mussel with doubly uniparental inheritance of mitochondrial DNA

(2020) Marek Lubośny et al.   Scientific Reports

Continental-scale patterns of hyper-cryptic diversity within the freshwater model taxon Gammarus fossarum (Crustacea, Amphipoda)

(2020) Remi Wattier et al.   Scientific Reports

A novel nudivirus infecting the invasive demon shrimp Dikerogammarus haemobaphes (Amphipoda)

(2020) Thomas W. Allain et al.   Scientific Reports

Freshwater amphipods (Gammarus pulex/fossarum) and brown trout as bioindicators for PFC contamination with regard to the aquatic ecological status of a small stream

(2020) Ute Windisch et al.   Environmental Sciences Europe

Adrift across tectonic plates: molecular phylogenetics supports the ancient Laurasian origin of old limnic crangonyctid amphipods

(2019) Denis Copilaş-Ciocianu et al.   ORGANISMS DIVERSITY & EVOLUTION

Tracking genetic invasions: Genome‐wide single nucleotide polymorphisms reveal the source of pyrethroid‐resistant Aedes aegypti (yellow fever mosquito) incursions at international ports

(2019) Thomas L. Schmidt et al.   Evolutionary Applications

De novo transcriptomes of 14 gammarid individuals for proteogenomic analysis of seven taxonomic groups

(2019) Yannick Cogne et al.   Scientific Data

The mitochondrial genome of UK (non-native) Dikerogammarus haemobaphes (Amphipoda: Gammaridae) informs upon Dikerogammarus evolution, invasions and associated microparasites

(2019) Jamie Bojko   HYDROBIOLOGIA

The complete mitochondrial genome of Gammarus roeselii (Crustacea, Amphipoda): insights into mitogenome plasticity and evolution

(2018) Alexandre Cormier et al.   HYDROBIOLOGIA

Freiburg RNA tools: a central online resource for RNA-focused research and teaching

(2018) Martin Raden et al.   NUCLEIC ACIDS RESEARCH

Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

(2018) Andrew Rambaut et al.   SYSTEMATIC BIOLOGY

The killer shrimp, Dikerogammarus villosus , invading European Alpine Lakes: A single main source but independent founder events with an overall loss of genetic diversity

(2017) Tomasz Rewicz et al.   FRESHWATER BIOLOGY

Transcriptome-based phylogeny of endemic Lake Baikal amphipod species flock: fast speciation accompanied by frequent episodes of positive selection

(2017) Sergey A. Naumenko et al.   MOLECULAR ECOLOGY

Neogene paleogeography provides context for understanding the origin and spatial distribution of cryptic diversity in a widespread Balkan freshwater amphipod

(2017) Michał Grabowski et al.   PeerJ

The complete mitochondrial genome of a cryptic amphipod species from the Gammarus fossarum complex

(2017) Jan Niklas Macher et al.   Mitochondrial DNA Part B-Resources

Pathogens of Dikerogammarus haemobaphes regulate host activity and survival, but also threaten native amphipod populations in the UK

(2017) J Bojko et al.   DISEASES OF AQUATIC ORGANISMS

The impact of the invasive amphipod Dikerogammarus haemobaphes on leaf litter processing in UK rivers

(2016) Drew Constable et al.   AQUATIC ECOLOGY

Conquerors or exiles? Impact of interference competition among invasive Ponto-Caspian gammarideans on their dispersal rates

(2016) Jarosław Kobak et al.   BIOLOGICAL INVASIONS

Evolution of mitochondrial genomes in Baikalian amphipods

(2016) Elena V. Romanova et al.   BMC GENOMICS

Current velocity shapes co-existence patterns among invasiveDikerogammarusspecies

(2016) Péter Borza et al.   FRESHWATER BIOLOGY

Phylogeography of a freshwater crustacean species complex reflects a long-gone archipelago

(2016) Denis Copilaş-Ciocianu et al.   JOURNAL OF BIOGEOGRAPHY

The legacy of a vanished sea: a high level of diversification within a European freshwater amphipod species complex driven by 15 My of Paratethys regression

(2016) Tomasz Mamos et al.   MOLECULAR ECOLOGY

The genome of the crustacean Parhyale hawaiensis, a model for animal development, regeneration, immunity and lignocellulose digestion

(2016) Damian Kao et al.   eLife

The deepest mitochondrial genome sequenced from Mariana Trench Hirondellea gigas (Amphipoda)

(2016) Yi Lan et al.   Mitochondrial DNA Part B-Resources

Comparative mitogenomic analyses of three North American stygobiont amphipods of the genus Stygobromus (Crustacea: Amphipoda)

(2016) Aaron William Aunins et al.   Mitochondrial DNA Part B-Resources

Applications of next-generation sequencing to the study of biological invasions

(2015) Marc Rius et al.   Current Zoology

Longitudinal distributional patterns of Peracarida (Crustacea, Malacostraca) in the River Danube

(2015) Péter Borza et al.   Fundamental and Applied Limnology

Cucumispora ornata n. sp. (Fungi: Microsporidia) infecting invasive ‘demon shrimp’ (Dikerogammarus haemobaphes) in the United Kingdom

(2015) Jamie Bojko et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Database resources of the National Center for Biotechnology Information

(2015)   NUCLEIC ACIDS RESEARCH

A review of Gammaridae (Crustacea: Amphipoda): the family extent, its evolutionary history, and taxonomic redefinition of genera

(2015) Zhonge Hou et al.   ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY

Applications of next-generation sequencing to the study of biological invasions

(2015) Marc Rius et al.   Current Zoology

Out of the Black Sea: Phylogeography of the Invasive Killer Shrimp Dikerogammarus villosus across Europe

(2015) Tomasz Rewicz et al.   PLoS One

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

Next-generation sequencing, phylogenetic signal and comparative mitogenomic analyses in Metacrangonyctidae (Amphipoda: Crustacea)

(2014) Joan Pons et al.   BMC GENOMICS

Confrontation of cryptic diversity and mate discrimination withinGammarus pulexandGammarus fossarumspecies complexes

(2014) Clement Lagrue et al.   FRESHWATER BIOLOGY

BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

(2014) Remco Bouckaert et al.   PLoS Computational Biology

The ‘killer shrimp’Dikerogammarus villosus(Crustacea, Amphipoda) invading Alpine lakes: overland transport by recreational boats and scuba-diving gear as potential entry vectors?

(2013) Karolina Bacela-Spychalska et al.   AQUATIC CONSERVATION-MARINE AND FRESHWATER ECOSYSTEMS

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

RNA-Seq data: a goldmine for organelle research

(2013) D. R. Smith   Briefings in Functional Genomics

Baseline histopathological survey of a recently invading island population of ‘killer shrimp’, Dikerogammarus villosus

(2013) J Bojko et al.   DISEASES OF AQUATIC ORGANISMS

Molecular evidence for further overlooked species within the Gammarus fossarum complex (Crustacea: Amphipoda)

(2013) Martina Weiss et al.   HYDROBIOLOGIA

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

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

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

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

A Phylogeny and Classification of the Senticaudata subord. nov. Crustacea: Amphipoda)

(2013) J. K. LOWRY et al.   ZOOTAXA

Microsporidian disease of the invasive amphipod Dikerogammarus villosus and the potential for its transfer to local invertebrate fauna

(2012) Karolina Bacela-Spychalska et al.   BIOLOGICAL INVASIONS

The mitogenome of Gammarus duebeni (Crustacea Amphipoda): A new gene order and non-neutral sequence evolution of tandem repeats in the control region

(2012) Lukas Krebes et al.   Comparative Biochemistry and Physiology D-Genomics & Proteomics

There is more than one ‘killer shrimp’: trophic positions and predatory abilities of invasive amphipods of Ponto-Caspian origin

(2012) KAROLINA BACELA-SPYCHALSKA et al.   FRESHWATER BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

The river Rhine: a global highway for dispersal of aquatic invasive species

(2009) Rob S. E. W. Leuven et al.   BIOLOGICAL INVASIONS