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Large scale gene duplication affected the European eel ( Anguilla anguilla ) after the 3R teleost duplication

https://doi.org/10.1101/232918
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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From 2R to 3R: evidence for a fish‐specific genome duplication (FSGD)
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Molecular Genetic Aspects of Tetraploidy in the Common Carp Cyprinus carpio
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Tetraploidy and the Evolution of Salmonid Fishes
inferredcites →https://doi.org/10.1007/978-3-642-86659-3openalex-snapshot
Evolution by Gene Duplication
inferredcites →https://doi.org/10.1007/bf00484500openalex-snapshot
Duplicate gene expression in diploid and tetraploid loaches (Cypriniformes, Cobitidae)
inferredcites →https://doi.org/10.1007/s00239-004-2613-zopenalex-snapshot
Phylogenetic Timing of the Fish-Specific Genome Duplication Correlates with the Diversification of Teleost Fish
inferredcites →https://doi.org/10.1007/s00438-014-0889-2openalex-snapshot
Whole-genome duplication in teleost fishes and its evolutionary consequences
inferredcites →https://doi.org/10.1016/0016-6480(88)90090-1openalex-snapshot
Stimulation of gonadotropin release and of ovarian development, by the administration of a gonadoliberin agonist and of dopamine antagonists, in female silver eel pretreated with estradiol
inferredcites →https://doi.org/10.1016/0024-3205(78)90016-4openalex-snapshot
Control of pancreatic enzyme secretion: A critique on the role of calcium
inferredcites →https://doi.org/10.1016/j.cbpa.2015.09.011openalex-snapshot
Abundance of specific mRNA transcripts impacts hatching success in European eel, Anguilla anguilla L
inferredcites →https://doi.org/10.1016/j.cbpa.2017.02.009openalex-snapshot
Nuclear and membrane progestin receptors in the European eel: Characterization and expression in vivo through spermatogenesis
inferredcites →https://doi.org/10.1016/j.jmb.2015.11.006openalex-snapshot
BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences
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Impact of gene gains, losses and duplication modes on the origin and diversification of vertebrates
inferredcites →https://doi.org/10.1016/j.ygcen.2015.08.006openalex-snapshot
Changes in ovarian gene expression profiles and plasma hormone levels in maturing European eel ( Anguilla anguilla ); Biomarkers for broodstock selection
inferredcites →https://doi.org/10.1016/j.ygcen.2015.11.021openalex-snapshot
Three nuclear and two membrane estrogen receptors in basal teleosts, Anguilla sp.: Identification, evolutionary history and differential expression regulation
inferredcites →https://doi.org/10.1016/j.ympev.2003.11.009openalex-snapshot
Mitogenomic evidence for the monophyly of elopomorph fishes (Teleostei) and the evolutionary origin of the leptocephalus larva
inferredcites →https://doi.org/10.1016/j.ympev.2004.09.003openalex-snapshot
Molecular phylogeny and evolution of the freshwater eels genus Anguilla based on the whole mitochondrial genome sequences
inferredcites →https://doi.org/10.1016/j.ympev.2012.10.024openalex-snapshot
Fourfold paralogy regions on human HOX-bearing chromosomes: Role of ancient segmental duplications in the evolution of vertebrate genome
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Phylogenomic analysis reveals ancient segmental duplications in the human genome
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Genomic Exploration of the Hemiascomycetous Yeasts: 18. Comparative analysis of chromosome maps and synteny withSaccharomyces cerevisiae
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Tyrosine Hydroxylase
inferredcites →https://doi.org/10.1016/s0169-5347(03)00033-8openalex-snapshot
Evolution by gene duplication: an update
inferredcites →https://doi.org/10.1016/s1055-7903(02)00331-7openalex-snapshot
Basal actinopterygian relationships: a mitogenomic perspective on the phylogeny of the “ancient fish”
inferredcites →https://doi.org/10.1038/25264openalex-snapshot
Do all freshwater eels migrate?
inferredcites →https://doi.org/10.1038/hdy.2014.44openalex-snapshot
Speciation and demographic history of Atlantic eels (Anguilla anguilla and A. rostrata) revealed by mitogenome sequencing
inferredcites →https://doi.org/10.1038/msb.2011.75openalex-snapshot
Fast, scalable generation of high‐quality protein multiple sequence alignments using Clustal Omega
inferredcites →https://doi.org/10.1038/nature03025openalex-snapshot
Genome duplication in the teleost fish Tetraodon nigroviridis reveals the early vertebrate proto-karyotype
inferredcites →https://doi.org/10.1038/nature05846openalex-snapshot
The medaka draft genome and insights into vertebrate genome evolution
inferredcites →https://doi.org/10.1038/nature12111openalex-snapshot
The zebrafish reference genome sequence and its relationship to the human genome
inferredcites →https://doi.org/10.1038/nature17164openalex-snapshot
The Atlantic salmon genome provides insights into rediploidization
inferredcites →https://doi.org/10.1038/ncomms4657openalex-snapshot
The rainbow trout genome provides novel insights into evolution after whole-genome duplication in vertebrates
inferredcites →https://doi.org/10.1038/ng.172openalex-snapshot
Mouse segmental duplication and copy number variation
inferredcites →https://doi.org/10.1038/ng.2604openalex-snapshot
The genome of the platyfish, Xiphophorus maculatus, provides insights into evolutionary adaptation and several complex traits
inferredcites →https://doi.org/10.1038/ng0616-700copenalex-snapshot
Erratum: Corrigendum: The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons
inferredcites →https://doi.org/10.1038/ng902openalex-snapshot
Age distribution of human gene families shows significant roles of both large- and small-scale duplications in vertebrate evolution
inferredcites →https://doi.org/10.1038/nmeth.4197openalex-snapshot
Salmon provides fast and bias-aware quantification of transcript expression
inferredcites →https://doi.org/10.1038/nprot.2013.084openalex-snapshot
De novo transcript sequence reconstruction from RNA-Seq: reference generation and analysis with Trinity
inferredcites →https://doi.org/10.1038/nprot.2013.141openalex-snapshot
Simultaneous isolation of high-quality DNA, RNA, miRNA and proteins from tissues for genomic applications
inferredcites →https://doi.org/10.1038/nprot.2016.095openalex-snapshot
Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown
inferredcites →https://doi.org/10.1038/nrg3053openalex-snapshot
The evolutionary origin of orphan genes
inferredcites →https://doi.org/10.1038/nrg705openalex-snapshot
Segmental duplications and the evolution of the primate genome
inferredcites →https://doi.org/10.1038/s41598-017-07650-6openalex-snapshot
Rapid de novo assembly of the European eel genome from nanopore sequencing reads
inferredcites →https://doi.org/10.1073/pnas.0307968100openalex-snapshot
Major events in the genome evolution of vertebrates: Paranome age and size differ considerably between ray-finned fishes and land vertebrates
inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot
Fast and accurate short read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/btp348openalex-snapshot
trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
inferredcites →https://doi.org/10.1093/bioinformatics/btp368openalex-snapshot
PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating
inferredcites →https://doi.org/10.1093/bioinformatics/btp698openalex-snapshot
Fast and accurate long-read alignment with Burrows–Wheeler transform
inferredcites →https://doi.org/10.1093/bioinformatics/btu170openalex-snapshot
Trimmomatic: a flexible trimmer for Illumina sequence data
inferredcites →https://doi.org/10.1093/bioinformatics/btv351openalex-snapshot
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs
inferredcites →https://doi.org/10.1093/gbe/evr041openalex-snapshot
Integration of the Genetic Map and Genome Assembly of Fugu Facilitates Insights into Distinct Features of Genome Evolution in Teleosts and Mammals
inferredcites →https://doi.org/10.1093/gbe/evv186openalex-snapshot
Whole Genome Sequencing of the Asian Arowana (Scleropages formosus) Provides Insights into the Evolution of Ray-Finned Fishes
inferredcites →https://doi.org/10.1093/genetics/116.4.579openalex-snapshot
Linkage Relationships Reflecting Ancestral Tetraploidy in Salmonid Fish
inferredcites →https://doi.org/10.1093/genetics/158.3.1203openalex-snapshot
Genome Duplication Events and Functional Reduction of Ploidy Levels in Sturgeon (Acipenser, Huso and Scaphirhynchus)
inferredcites →https://doi.org/10.1093/jhered/esp047openalex-snapshot
Distinguishing Among Evolutionary Models for the Maintenance of Gene Duplicates
inferredcites →https://doi.org/10.1093/molbev/msg173openalex-snapshot
Recent Duplication of the Common Carp (Cyprinus carpio L.) Genome as Revealed by Analyses of Microsatellite Loci
inferredcites →https://doi.org/10.1093/molbev/msh114openalex-snapshot
Fugu Genome Analysis Provides Evidence for a Whole-Genome Duplication Early During the Evolution of Ray-Finned Fishes
inferredcites →https://doi.org/10.1093/molbev/msl049openalex-snapshot
Gene Loss and Evolutionary Rates Following Whole-Genome Duplication in Teleost Fishes
inferredcites →https://doi.org/10.1093/nar/gkr367openalex-snapshot
HMMER web server: interactive sequence similarity searching
inferredcites →https://doi.org/10.1093/nar/gkv1248openalex-snapshot
eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences
inferredcites →https://doi.org/10.1095/biolreprod.104.030627openalex-snapshot
Dopamine Inhibits Luteinizing Hormone Synthesis and Release in the Juvenile European Eel: A Neuroendocrine Lock for the Onset of Puberty1
inferredcites →https://doi.org/10.1098/rsbl.2009.0989openalex-snapshot
Deep-ocean origin of the freshwater eels
inferredcites →https://doi.org/10.1098/rspb.2010.0900openalex-snapshot
Oceanic fronts in the Sargasso Sea control the early life and drift of Atlantic eels
inferredcites →https://doi.org/10.1098/rspb.2013.2881openalex-snapshot
A well-constrained estimate for the timing of the salmonid whole genome duplication reveals major decoupling from species diversification
inferredcites →https://doi.org/10.1098/rstb.1923.0004openalex-snapshot
IV.—The breeding places of the eel
inferredcites →https://doi.org/10.1101/gr.076588.108openalex-snapshot
On the origin of new genes in Drosophila
inferredcites →https://doi.org/10.1101/gr.080978.108openalex-snapshot
Unraveling ancient hexaploidy through multiply-aligned angiosperm gene maps
inferredcites →https://doi.org/10.1101/gr.086827.108openalex-snapshot
Evolution of gene function and regulatory control after whole-genome duplication: Comparative analyses in vertebrates
inferredcites →https://doi.org/10.1101/gr.1224503openalex-snapshot
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
inferredcites →https://doi.org/10.1101/gr.141978.112openalex-snapshot
Genome-scale coestimation of species and gene trees
inferredcites →https://doi.org/10.1101/gr.160001openalex-snapshot
Ancient Genome Duplications Did Not Structure the Human Hox-Bearing Chromosomes
inferredcites →https://doi.org/10.1101/gr.4825606openalex-snapshot
Widespread genome duplications throughout the history of flowering plants
inferredcites →https://doi.org/10.1111/j.1095-8649.2009.02483.xopenalex-snapshot
The role of the maturation‐inducing steroid, 17,20β‐dihydroxypregn‐4‐en‐3‐one, in male fishes: a review
inferredcites →https://doi.org/10.1126/sciadv.1501694openalex-snapshot
Empirical observations of the spawning migration of European eels: The long and dangerous road to the Sargasso Sea
inferredcites →https://doi.org/10.1126/science.1072047openalex-snapshot
Recent Segmental Duplications in the Human Genome
inferredcites →https://doi.org/10.1126/science.1072104openalex-snapshot
Whole-Genome Shotgun Assembly and Analysis of the Genome of Fugu rubripes
inferredcites →https://doi.org/10.1126/science.1197761openalex-snapshot
The Ecoresponsive Genome of Daphnia pulex
inferredcites →https://doi.org/10.1126/science.175.4022.644openalex-snapshot
Tetraploid Origin of the Karyotype of Catostomid Fishes
inferredcites →https://doi.org/10.1139/f02-165openalex-snapshot
Migration, speciation, and the evolution of diadromy in anguillid eels
inferredcites →https://doi.org/10.1146/annurev.genom.8.021307.110233openalex-snapshot
Gene Duplication: A Drive for Phenotypic Diversity and Cause of Human Disease
inferredcites →https://doi.org/10.1152/jn.01058.2002openalex-snapshot
Dopamine Modulates Synaptic Transmission Between Rat Olfactory Bulb Neurons in Culture
inferredcites →https://doi.org/10.1152/jn.1999.82.2.1082openalex-snapshot
Dopamine Depresses Synaptic Inputs Into the Olfactory Bulb
inferredcites →https://doi.org/10.1186/1471-2105-6-31openalex-snapshot
Automated generation of heuristics for biological sequence comparison
inferredcites →https://doi.org/10.1186/1471-2148-9-194openalex-snapshot
Did genome duplication drive the origin of teleosts? A comparative study of diversification in ray-finned fishes
inferredcites →https://doi.org/10.1186/1471-2156-13-96openalex-snapshot
B chromosome in the beetle Coprophanaeus cyanescens (Scarabaeidae): emphasis in the organization of repetitive DNA sequences
inferredcites →https://doi.org/10.1186/1471-2164-11-635openalex-snapshot
Sequencing, de novo annotation and analysis of the first Anguilla anguilla transcriptome: EeelBase opens new perspectives for the study of the critically endangered european eel
inferredcites →https://doi.org/10.1186/1471-2164-13-246openalex-snapshot
Profiling of gene duplication patterns of sequenced teleost genomes: evidence for rapid lineage-specific genome expansion mediated by recent tandem duplications
inferredcites →https://doi.org/10.1186/1471-2164-13-96openalex-snapshot
Transcriptome analysis reveals the time of the fourth round of genome duplication in common carp (Cyprinus carpio)
inferredcites →https://doi.org/10.1186/gb-2006-7-5-r43openalex-snapshot
The gain and loss of genes during 600 million years of vertebrate evolution
inferredcites →https://doi.org/10.1186/gb-2006-7-s1-s10openalex-snapshot
Automatic annotation of eukaryotic genes, pseudogenes and promoters
inferredcites →https://doi.org/10.1186/gb-2007-8-11-r251openalex-snapshot
Conservation and divergence of gene families encoding components of innate immune response systems in zebrafish
inferredcites →https://doi.org/10.1186/s12864-016-2709-zopenalex-snapshot
Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database
inferredcites →https://doi.org/10.1196/annals.1327.002openalex-snapshot
Dopaminergic Inhibition of Reproduction in Teleost Fishes: Ecophysiological and Evolutionary Implications
inferredcites →https://doi.org/10.1210/en.2005-1477openalex-snapshot
Androgen-Dependent Stimulation of Brain Dopaminergic Systems in the Female European Eel (Anguilla anguilla)
inferredcites →https://doi.org/10.1210/en.2008-0578openalex-snapshot
Two Distinct Dopamine D2 Receptor Genes in the European Eel: Molecular Characterization, Tissue-Specific Transcription, and Regulation by Sex Steroids
inferredcites →https://doi.org/10.1242/jeb.01524openalex-snapshot
Eel migration to the Sargasso: remarkably high swimming efficiency and low energy costs
inferredcites →https://doi.org/10.12688/f1000research.6924.1openalex-snapshot
The khmer software package: enabling efficient nucleotide sequence analysis
inferredcites →https://doi.org/10.1371/journal.pbio.0030314openalex-snapshot
Two Rounds of Whole Genome Duplication in the Ancestral Vertebrate
inferredcites →https://doi.org/10.1371/journal.pgen.1004830openalex-snapshot
Extensive Copy-Number Variation of Young Genes across Stickleback Populations
inferredcites →https://doi.org/10.1371/journal.pone.0032231openalex-snapshot
Primitive Duplicate Hox Clusters in the European Eel's Genome
inferredcites →https://doi.org/10.1371/journal.pone.0048931openalex-snapshot
Multiple Kisspeptin Receptors in Early Osteichthyans Provide New Insights into the Evolution of This Receptor Family
inferredcites →https://doi.org/10.1371/journal.pone.0054583openalex-snapshot
Positive Outcomes Influence the Rate and Time to Publication, but Not the Impact Factor of Publications of Clinical Trial Results
inferredcites →https://doi.org/10.1371/journal.pone.0077396openalex-snapshot
The Pituitary Gland of the European Eel Reveals Massive Expression of Genes Involved in the Melanocortin System
inferredcites →https://doi.org/10.1371/journal.pone.0102089openalex-snapshot
The Genome and Linkage Map of the Northern Pike (Esox lucius): Conserved Synteny Revealed between the Salmonid Sister Group and the Neoteleostei
inferredcites →https://doi.org/10.1371/journal.pone.0126008openalex-snapshot
Duplicated Leptin Receptors in Two Species of Eel Bring New Insights into the Evolution of the Leptin System in Vertebrates
inferredcites →https://doi.org/10.1371/journal.pone.0131080openalex-snapshot
Biodiversity on the Rocks: Macrofauna Inhabiting Authigenic Carbonate at Costa Rica Methane Seeps
inferredcites →https://doi.org/10.1371/journal.pone.0135184openalex-snapshot
Demonstration of the Coexistence of Duplicated LH Receptors in Teleosts, and Their Origin in Ancestral Actinopterygians

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1093/gbe/evy130openalex-snapshot
Whole Genome Sequencing of the Pirarucu (Arapaima gigas) Supports Independent Emergence of Major Teleost Clades
inferred← citeshttps://doi.org/10.1186/s12864-019-5969-6openalex-snapshot
Cold seawater induces early sexual developmental stages in the BPG axis of European eel males
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