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List of works by Julian Catchen

A RAD-tag genetic map for the platyfish (Xiphophorus maculatus) reveals mechanisms of karyotype evolution among teleost fish

scientific article

Adapterama IV: Sequence Capture of Dual-digest RADseq Libraries with Identifiable Duplicates (RADcap)

Antarctic blackfin icefish genome reveals adaptations to extreme environments

scientific article published on 25 February 2019

Automated identification of conserved synteny after whole-genome duplication

scientific article published on 22 May 2009

Chromonomer: A Tool Set for Repairing and Enhancing Assembled Genomes Through Integration of Genetic Maps and Conserved Synteny

scientific article published on 10 September 2020

Comparative oncogenomic analysis of copy number alterations in human and zebrafish tumors enables cancer driver discovery

scientific article

Consequences of lineage-specific gene loss on functional evolution of surviving paralogs: ALDH1A and retinoic acid signaling in vertebrate genomes

scientific article

Conserved synteny and the zebrafish genome

scientific article published in January 2011

Corrigendum: The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons.

scientific article published in May 2016

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

scientific article

Evaluating Illumina-, Nanopore-, and PacBio-based genome assembly strategies with the bald notothen, <i>Trematomus borchgrevinki</i>

scientific article published in 2022

Evaluating the genome-wide impacts of species translocations: the greater prairie-chicken as a case study

scientific article published in 2021

Evolution of a new function by degenerative mutation in cephalochordate steroid receptors

scientific article

Evolution of developmental regulation in the vertebrate FgfD subfamily

scientific article

Evolution of stickleback in 50 years on earthquake-uplifted islands.

scientific article

Expression profiling of zebrafish sox9 mutants reveals that Sox9 is required for retinal differentiation

scientific article published on 13 January 2009

Footprints in time: comparative quantitative trait loci mapping of the pitcher-plant mosquito, Wyeomyia smithii

scientific article published on 26 September 2012

Genome Evolution and Meiotic Maps by Massively Parallel DNA Sequencing: Spotted Gar, an Outgroup for the Teleost Genome Duplication ⬇️

scientific article (publication date: August 2011)

Genomic Resources for Darters (Percidae: Etheostominae) Provide Insight into Postzygotic Barriers Implicated in Speciation

scientific article published on 01 March 2020

Genomic diversity is similar between Atlantic Forest restorations and natural remnants for the native tree Casearia sylvestris Sw.

scientific article

Hybridization and postzygotic isolation promote reinforcement of male mating preferences in a diverse group of fishes with traditional sex roles

scientific article published on 24 August 2018

Identification of transcriptome SNPs between Xiphophorus lines and species for assessing allele specific gene expression within F₁ interspecies hybrids

scientific article

Incomplete lineage sorting and ancient admixture, and speciation without morphological change in ghost-worm cryptic species

scientific article published on 09 February 2021

Inferring ancestral gene order

scientific article published on January 2008

Leafy and weedy seadragon genomes connect genic and repetitive DNA features to the extravagant biology of syngnathid fishes

scientific article published in 2022

Male and female contributions to behavioral isolation in darters as a function of genetic distance and color distance.

scientific article

Next-generation RAD sequencing identifies thousands of SNPs for assessing hybridization between rainbow and westslope cutthroat trout

scientific article

Parallel selection on thermal physiology facilitates repeated adaptation of city lizards to urban heat islands

scientific article published on 09 March 2020

Population genomic analysis of model and nonmodel organisms using sequenced RAD tags

scientific article

RADcap: sequence capture of dual-digest RADseq libraries with identifiable duplicates and reduced missing data

scientific article

Repeated Selection of Alternatively Adapted Haplotypes Creates Sweeping Genomic Remodeling in Stickleback

article

Replicate phylogenies and post-glacial range expansion of the pitcher-plant mosquito, Wyeomyia smithii, in North America

scientific article

Resolving postglacial phylogeography using high-throughput sequencing.

scientific article

Retinoic acid metabolic genes, meiosis, and gonadal sex differentiation in zebrafish

scientific article

Selection, Linkage, and Population Structure Interact To Shape Genetic Variation Among Threespine Stickleback Genomes

scientific article published on 18 June 2019

Simulation with RADinitio improves RADseq experimental design and sheds light on sources of missing data

scientific article published on 10 April 2020

Stacks 2: Analytical methods for paired-end sequencing improve RADseq-based population genomics

scientific article published on 17 October 2019

Stacks: Building and Genotyping Loci De Novo From Short-Read Sequences ⬇️

scientific article published on August 1, 2011

Stacks: an analysis tool set for population genomics

scientific article published on 24 May 2013

The Developmental and Genetic Architecture of the Sexually Selected Male Ornament of Swordtails

scientific article published on 02 December 2020

The Novel Evolution of the Sperm Whale Genome

scientific article

The gene history of zebrafish tlr4a and tlr4b is predictive of their divergent functions.

scientific article

The genome of the platyfish, Xiphophorus maculatus, provides insights into evolutionary adaptation and several complex traits

scientific article

The population structure and recent colonization history of Oregon threespine stickleback determined using restriction-site associated DNA-sequencing.

scientific article published on June 2013

The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons

scientific article

UDP xylose synthase 1 is required for morphogenesis and histogenesis of the craniofacial skeleton

scientific article

Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations.

scientific article

When structure leads to sex: Untangling signals in population genetic data sets

scientific article published in December 2017

Winter storms drive rapid phenotypic, regulatory, and genomic shifts in the green anole lizard.

scientific article

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