Genome-Wide SNP Data Revealed Notable Spatial Genetic Structure in the Deep-Sea Precious Coral Corallium japonicum

The potential role of temperate Japanese regions as refugia for the coral Acropora hyacinthus in the face of climate change

(2019) Aki Nakabayashi et al.   Scientific Reports

Multiplexed ISSR genotyping by sequencing distinguishes two precious coral species (Anthozoa: Octocorallia: Coralliidae) that share a mitochondrial haplotype

(2019) Kenji Takata et al.   PeerJ

Living upside down: patterns of red coral settlement in a cave

(2018) Federica Costantini et al.   PeerJ

Integrated evidence reveals a new species in the ancient blue coral genus Heliopora (Octocorallia)

(2018) Zoe T. Richards et al.   Scientific Reports

Purge Haplotigs: allelic contig reassignment for third-gen diploid genome assemblies

(2018) Michael J. Roach et al.   BMC BIOINFORMATICS

Deriving genotypes from RAD-seq short-read data using Stacks

(2017) Nicolas C Rochette et al.   Nature Protocols

Bioinformatic processing of RAD-seq data dramatically impacts downstream population genetic inference

(2016) Aaron B. A. Shafer et al.   Methods in Ecology and Evolution

Sexual Reproduction in Precious Corals (Coralliidae) Collected in the Ryukyu Archipelago

(2015) Masanori Nonaka et al.   PACIFIC SCIENCE

MIG-seq: an effective PCR-based method for genome-wide single-nucleotide polymorphism genotyping using the next-generation sequencing platform

(2015) Yoshihisa Suyama et al.   Scientific Reports

Population genetic structure of the Pocillopora damicornis morphospecies along Ningaloo Reef, Western Australia

(2014) L Thomas et al.   MARINE ECOLOGY PROGRESS SERIES

Unforeseen Consequences of Excluding Missing Data from Next-Generation Sequences: Simulation Study of RAD Sequences

(2014) Huateng Huang et al.   SYSTEMATIC BIOLOGY

Growth characteristics and growth rate estimation of Japanese precious corals

(2013) Nguyen Trong Luan et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

RADseq underestimates diversity and introduces genealogical biases due to nonrandom haplotype sampling

(2013) B. Arnold et al.   MOLECULAR ECOLOGY

Stacks: an analysis tool set for population genomics

(2013) Julian Catchen et al.   MOLECULAR ECOLOGY

Quantifying Spatial Genetic Structuring in Mesophotic Populations of the Precious Coral Corallium rubrum

(2013) Federica Costantini et al.   PLoS One

GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research--an update

(2012) R. Peakall et al.   BIOINFORMATICS

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Impact of Missing Data on Phylogenies Inferred from Empirical Phylogenomic Data Sets

(2012) Béatrice Roure et al.   MOLECULAR BIOLOGY AND EVOLUTION

Understanding age-specific dispersal in fishes through hydrodynamic modelling, genetic simulations and microsatellite DNA analysis

(2012) OLIVER BERRY et al.   MOLECULAR ECOLOGY

Population genomics based on low coverage sequencing: how low should we go?

(2012) C. Alex Buerkle et al.   MOLECULAR ECOLOGY

Genome-wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the Lake Victoria cichlid adaptive radiation

(2012) Catherine E. Wagner et al.   MOLECULAR ECOLOGY

Inferring Phylogenies from RAD Sequence Data

(2012) Benjamin E. R. Rubin et al.   PLoS One

PGDSpider: an automated data conversion tool for connecting population genetics and genomics programs

(2011) H. E. L. Lischer et al.   BIOINFORMATICS

Comparison ofFSToutlier tests for SNP loci under selection

(2011) SHAWN R. NARUM et al.   Molecular Ecology Resources

Using the Acropora digitifera genome to understand coral responses to environmental change

(2011) Chuya Shinzato et al.   NATURE

Fine-scale genetic structure and inferences on population biology in the threatened Mediterranean red coral, Corallium rubrum

(2010) J.-B. LEDOUX et al.   MOLECULAR ECOLOGY

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Deep-waterCorallium rubrum(L., 1758) from the Mediterranean Sea: preliminary genetic characterisation

(2009) Federica Costantini et al.   Marine Ecology-An Evolutionary Perspective

Why sampling scheme matters: the effect of sampling scheme on landscape genetic results

(2008) Michael K. Schwartz et al.   CONSERVATION GENETICS