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Movement of transposable elements contributes to cichlid diversity

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What this work says

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

inferredcites →https://doi.org/10.1002/bies.200800219openalex-snapshot

Transposable elements: powerful facilitators of evolution

inferredcites →https://doi.org/10.1002/dvg.22940openalex-snapshot

Proximate and ultimate causes of variable visual sensitivities: Insights from cichlid fish radiations

inferredcites →https://doi.org/10.1007/978-3-642-86659-3openalex-snapshot

Evolution by Gene Duplication

inferredcites →https://doi.org/10.1007/s00239-018-9847-7openalex-snapshot

Transposable Elements Activity is Positively Related to Rate of Speciation in Mammals

inferredcites →https://doi.org/10.1016/j.cell.2008.06.030openalex-snapshot

Evo-Devo and an Expanding Evolutionary Synthesis: A Genetic Theory of Morphological Evolution

inferredcites →https://doi.org/10.1016/j.cub.2005.08.010openalex-snapshot

Mix and Match Color Vision: Tuning Spectral Sensitivity by Differential Opsin Gene Expression in Lake Malawi Cichlids

inferredcites →https://doi.org/10.1016/j.cub.2010.11.029openalex-snapshot

Repeated colonization and hybridization in Lake Malawi cichlids

inferredcites →https://doi.org/10.1016/j.gde.2017.07.014openalex-snapshot

Beyond speciation genes: an overview of genome stability in evolution and speciation

inferredcites →https://doi.org/10.1016/j.gpb.2017.01.006openalex-snapshot

Silencing of Transposable Elements by piRNAs in Drosophila : An Evolutionary Perspective

inferredcites →https://doi.org/10.1016/j.tree.2004.01.003openalex-snapshot

Hybridization and adaptive radiation

inferredcites →https://doi.org/10.1016/j.tree.2011.04.005openalex-snapshot

Magic traits in speciation: ‘magic’ but not rare?

inferredcites →https://doi.org/10.1016/j.ydbio.2014.04.021openalex-snapshot

Transcriptional co-regulation of evolutionarily conserved microRNA/cone opsin gene pairs: Implications for photoreceptor subtype specification

inferredcites →https://doi.org/10.1017/s095252381200003xopenalex-snapshot

Evolutionary tinkering with visual photoreception

inferredcites →https://doi.org/10.1038/nature07285openalex-snapshot

Speciation through sensory drive in cichlid fish

inferredcites →https://doi.org/10.1038/nature13726openalex-snapshot

The genomic substrate for adaptive radiation in African cichlid fish

inferredcites →https://doi.org/10.1038/nbt.1754openalex-snapshot

Integrative genomics viewer

inferredcites →https://doi.org/10.1038/ncomms14363openalex-snapshot

Ancient hybridization fuels rapid cichlid fish adaptive radiations

inferredcites →https://doi.org/10.1038/ncomms4629openalex-snapshot

Wnt signalling underlies the evolution of new phenotypes and craniofacial variability in Lake Malawi cichlids

inferredcites →https://doi.org/10.1038/ncomms6149openalex-snapshot

The evolution of cichlid fish egg-spots is linked with a cis-regulatory change

inferredcites →https://doi.org/10.1038/nmeth.1923openalex-snapshot

Fast gapped-read alignment with Bowtie 2

inferredcites →https://doi.org/10.1038/nrg1316openalex-snapshot

Adaptive evolution and explosive speciation: the cichlid fish model

inferredcites →https://doi.org/10.1038/nrg2337openalex-snapshot

Transposable elements and the evolution of regulatory networks

inferredcites →https://doi.org/10.1038/s41467-019-13278-zopenalex-snapshot

The coincidence of ecological opportunity with hybridization explains rapid adaptive radiation in Lake Mweru cichlid fishes

inferredcites →https://doi.org/10.1038/s41559-018-0717-xopenalex-snapshot

Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow

inferredcites →https://doi.org/10.1038/s41586-020-2652-7openalex-snapshot

The ecological and genomic basis of explosive adaptive radiation

inferredcites →https://doi.org/10.1038/sj.hdy.6800635openalex-snapshot

Genome evolution and biodiversity in teleost fish

inferredcites →https://doi.org/10.1046/j.0962-1083.2001.01438.xopenalex-snapshot

Speciation via introgressive hybridization in East African cichlids?

inferredcites →https://doi.org/10.1046/j.1365-294x.2001.01283.xopenalex-snapshot

Speciation in rapidly diverging systems: lessons from Lake Malawi

inferredcites →https://doi.org/10.1046/j.1365-294x.2003.01905.xopenalex-snapshot

Hybrid origin of a cichlid population in Lake Malawi: implications for genetic variation and species diversity

inferredcites →https://doi.org/10.1073/pnas.0405302102openalex-snapshot

Parallelism of amino acid changes at the RH1 affecting spectral sensitivity among deep-water cichlids from Lakes Tanganyika and Malawi

inferredcites →https://doi.org/10.1073/pnas.0502127102openalex-snapshot

On the origin of Lake Malawi cichlid species: A population genetic analysis of divergence

inferredcites →https://doi.org/10.1073/pnas.0930235100openalex-snapshot

Directional selection has shaped the oral jaws of Lake Malawi cichlid fishes

inferredcites →https://doi.org/10.1073/pnas.1018456108openalex-snapshot

Craniofacial divergence and ongoing adaptation via the hedgehog pathway

inferredcites →https://doi.org/10.1073/pnas.1417803112openalex-snapshot

Ancestral duplications and highly dynamic opsin gene evolution in percomorph fishes

inferredcites →https://doi.org/10.1073/pnas.1614272113openalex-snapshot

Environmental context for understanding the iconic adaptive radiation of cichlid fishes in Lake Malawi

inferredcites →https://doi.org/10.1073/pnas.1719798115openalex-snapshot

Genetic and developmental origins of a unique foraging adaptation in a Lake Malawi cichlid genus

inferredcites →https://doi.org/10.1073/pnas.2332665100openalex-snapshot

Divergent selection during speciation of Lake Malawi cichlid fishes inferred from parallel radiations in nuptial coloration

inferredcites →https://doi.org/10.1086/689605openalex-snapshot

Differential Survival between Visual Environments Supports a Role of Divergent Sensory Drive in Cichlid Fish Speciation

inferredcites →https://doi.org/10.1093/bib/bbs017openalex-snapshot

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

inferredcites →https://doi.org/10.1093/bioinformatics/btu775openalex-snapshot

genomation: a toolkit to summarize, annotate and visualize genomic intervals

inferredcites →https://doi.org/10.1093/gigascience/giz030openalex-snapshot

Chromosome-scale assemblies reveal the structural evolution of African cichlid genomes

inferredcites →https://doi.org/10.1093/jhered/esx020openalex-snapshot

Determination of the Genetic Architecture Underlying Short Wavelength Sensitivity in Lake Malawi Cichlids

inferredcites →https://doi.org/10.1093/molbev/msaa062openalex-snapshot

Tbx2a Modulates Switching of RH2 and LWS Opsin Gene Expression

inferredcites →https://doi.org/10.1093/molbev/msi137openalex-snapshot

Adaptive Molecular Evolution in the Opsin Genes of Rapidly Speciating Cichlid Species

inferredcites →https://doi.org/10.1093/molbev/msj083openalex-snapshot

What Is the Role of Genome Duplication in the Evolution of Complexity and Diversity?

inferredcites →https://doi.org/10.1093/molbev/msl014openalex-snapshot

Evolution of the Cichlid Visual Palette through Ontogenetic Subfunctionalization of the Opsin Gene Arrays

inferredcites →https://doi.org/10.1093/molbev/msq171openalex-snapshot

Parallel Evolution of Opsin Gene Expression in African Cichlid Fishes

inferredcites →https://doi.org/10.1093/molbev/msq344openalex-snapshot

Reverse Evolution in RH1 for Adaptation of Cichlids to Water Depth in Lake Tanganyika

inferredcites →https://doi.org/10.1093/molbev/msu069openalex-snapshot

RNA-seq Reveals Transcriptomic Shock Involving Transposable Elements Reactivation in Hybrids of Young Lake Whitefish Species

inferredcites →https://doi.org/10.1093/molbev/msu172openalex-snapshot

Interspecific Variation in Rx1 Expression Controls Opsin Expression and Causes Visual System Diversity in African Cichlid Fishes

inferredcites →https://doi.org/10.1093/molbev/msz294openalex-snapshot

Ancestral Hybridization Facilitated Species Diversification in the Lake Malawi Cichlid Fish Adaptive Radiation

inferredcites →https://doi.org/10.1093/nar/gkv1189openalex-snapshot

Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation

inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a003940openalex-snapshot

Cone Opsin Genes of African Cichlid Fishes: Tuning Spectral Sensitivity by Differential Gene Expression

inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040023openalex-snapshot

Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees.

inferredcites →https://doi.org/10.1098/rspb.2006.3539openalex-snapshot

African cichlid fish: a model system in adaptive radiation research

inferredcites →https://doi.org/10.1098/rspb.2020.0270openalex-snapshot

Genetic architecture of a key reproductive isolation trait differs between sympatric and non-sympatric sister species of Lake Victoria cichlids

inferredcites →https://doi.org/10.1101/gr.107524.110openalex-snapshot

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

inferredcites →https://doi.org/10.1101/gr.4565806openalex-snapshot

An initial map of insertion and deletion (INDEL) variation in the human genome

inferredcites →https://doi.org/10.1111/brv.12598openalex-snapshot

The genetics of evolutionary radiations

inferredcites →https://doi.org/10.1111/j.0022-1112.2006.00992.xopenalex-snapshot

Photopigment spectral absorbance of Lake Malaŵi cichlids

inferredcites →https://doi.org/10.1111/j.1365-294x.2005.02735.xopenalex-snapshot

Colour vision and speciation in Lake Victoria cichlids of the genus Pundamilia

inferredcites →https://doi.org/10.1111/j.1365-294x.2010.04532.xopenalex-snapshot

Genomic islands of speciation or genomic islands and speciation?

inferredcites →https://doi.org/10.1111/j.1365-294x.2012.05617.xopenalex-snapshot

Molecular ecology and adaptation of visual photopigments in craniates

inferredcites →https://doi.org/10.1111/j.1525-142x.2011.00469.xopenalex-snapshot

New evidence for the role of heterochrony in the repeated evolution of cichlid opsin expression

inferredcites →https://doi.org/10.1111/j.1558-5646.2007.00105.xopenalex-snapshot

THE LOCUS OF EVOLUTION: EVO DEVO AND THE GENETICS OF ADAPTATION

inferredcites →https://doi.org/10.1111/j.1558-5646.2008.00450.xopenalex-snapshot

THE LOCI OF EVOLUTION: HOW PREDICTABLE IS GENETIC EVOLUTION?

inferredcites →https://doi.org/10.1111/j.1749-4877.2008.00137.xopenalex-snapshot

Cichlid fish visual systems: mechanisms of spectral tuning

inferredcites →https://doi.org/10.1111/mec.13205openalex-snapshot

A genetic demographic analysis of L ake M alawi rock‐dwelling cichlids using spatio‐temporal sampling

inferredcites →https://doi.org/10.1111/mec.13838openalex-snapshot

Demographic modelling with whole‐genome data reveals parallel origin of similarPundamiliacichlid species after hybridization

inferredcites →https://doi.org/10.1111/mec.14247openalex-snapshot

Jumping genes: Genomic ballast or powerhouse of biological diversification

inferredcites →https://doi.org/10.1111/mec.14439openalex-snapshot

Abundant recent activity of retrovirus‐like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes

inferredcites →https://doi.org/10.1111/mec.14969openalex-snapshot

Genome‐wide patterns of transposon proliferation in an evolutionary young hybrid fish

inferredcites →https://doi.org/10.1126/science.1174705openalex-snapshot

Sexual Conflict Resolved by Invasion of a Novel Sex Determiner in Lake Malawi Cichlid Fishes

inferredcites →https://doi.org/10.1126/science.1188021openalex-snapshot

A Draft Sequence of the Neandertal Genome

inferredcites →https://doi.org/10.1126/science.432658openalex-snapshot

Intraretinal Distribution of Cone Pigments in Certain Teleost Fishes

inferredcites →https://doi.org/10.1126/science.aab0800openalex-snapshot

A pharyngeal jaw evolutionary innovation facilitated extinction in Lake Victoria cichlids

inferredcites →https://doi.org/10.1126/science.aac9927openalex-snapshot

Genomic islands of speciation separate cichlid ecomorphs in an East African crater lake

inferredcites →https://doi.org/10.1126/science.aao6809openalex-snapshot

Agouti-related peptide 2 facilitates convergent evolution of stripe patterns across cichlid fish radiations

inferredcites →https://doi.org/10.1146/annurev.genet.34.1.401openalex-snapshot

POLYPLOID INCIDENCE AND EVOLUTION

inferredcites →https://doi.org/10.1146/annurev.genom.9.081307.164228openalex-snapshot

Evolution of Dim-Light and Color Vision Pigments

inferredcites →https://doi.org/10.1159/000113552openalex-snapshot

Interspecific Variation of Photoreceptors in Four Co-Existing Haplochromine Cichlid Fishes

inferredcites →https://doi.org/10.1186/1471-2105-5-113openalex-snapshot

MUSCLE: a multiple sequence alignment method with reduced time and space complexity

inferredcites →https://doi.org/10.1186/1471-2105-7-474openalex-snapshot

Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and Censor

inferredcites →https://doi.org/10.1186/1471-2148-11-120openalex-snapshot

Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes

inferredcites →https://doi.org/10.1186/1471-2148-12-251openalex-snapshot

Evolution of cichlid vision via trans-regulatory divergence

inferredcites →https://doi.org/10.1186/1471-2148-13-42openalex-snapshot

Genome differentiation in a species pair of coregonine fishes: an extremely rapid speciation driven by stress-activated retrotransposons mediating extensive ribosomal DNA multiplications

inferredcites →https://doi.org/10.1186/1741-7007-6-22openalex-snapshot

Visual sensitivities tuned by heterochronic shifts in opsin gene expression

inferredcites →https://doi.org/10.1186/s12862-020-01629-0openalex-snapshot

Analysis of structural variants in four African cichlids highlights an association with developmental and immune related genes

inferredcites →https://doi.org/10.1186/s12864-017-3723-5openalex-snapshot

A high quality assembly of the Nile Tilapia (Oreochromis niloticus) genome reveals the structure of two sex determination regions

inferredcites →https://doi.org/10.1186/s12864-018-4714-xopenalex-snapshot

Mobilization of retrotransposons as a cause of chromosomal diversification and rapid speciation: the case for the Antarctic teleost genus Trematomus

inferredcites →https://doi.org/10.1186/s12864-018-5328-zopenalex-snapshot

Multiple trans QTL and one cis-regulatory deletion are associated with the differential expression of cone opsins in African cichlids

inferredcites →https://doi.org/10.1186/s13100-015-0041-9openalex-snapshot

Repbase Update, a database of repetitive elements in eukaryotic genomes

inferredcites →https://doi.org/10.1186/s13100-018-0124-5openalex-snapshot

Transposable elements and gene expression during the evolution of amniotes

inferredcites →https://doi.org/10.13016/m27940x8dopenalex-snapshot

Mechanisms contributing to opsin expression divergence in the visual system of African Cichlids

inferredcites →https://doi.org/10.1371/journal.pbio.0040433openalex-snapshot

Divergent Selection on Opsins Drives Incipient Speciation in Lake Victoria Cichlids

inferredcites →https://doi.org/10.1371/journal.pbio.1000266openalex-snapshot

The Eyes Have It: Regulatory and Structural Changes Both Underlie Cichlid Visual Pigment Diversity

inferredcites →https://doi.org/10.1534/g3.118.200207openalex-snapshot

A Dense Linkage Map of Lake Victoria Cichlids Improved the Pundamilia Genome Assembly and Revealed a Major QTL for Sex-Determination

inferredcites →https://doi.org/10.3389/fgene.2014.00163openalex-snapshot

Evolution of genomic structural variation and genomic architecture in the adaptive radiations of African cichlid fishes

inferredcites →https://doi.org/10.3390/genes9050254openalex-snapshot

The Role of Transposable Elements in Speciation

inferredcites →https://doi.org/10.3390/genes9100480openalex-snapshot

Unusual Diversity of Sex Chromosomes in African Cichlid Fishes

inferredcites →https://doi.org/10.4061/2011/470875openalex-snapshot

Mating and Parental Care in Lake Tanganyika's Cichlids

inferredcites →https://doi.org/10.5860/choice.39-0311openalex-snapshot

The Cichlid fishes: nature's grand experiment in evolution

What points at this work

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

inferred← citeshttps://doi.org/10.5852/ejt.2022.819.1775zenodo-depositor-declared

Revision of the African cichlid fish genus Ctenochromis (Teleostei, Cichliformes), including a description of the new genus Shuja from Lake Tanganyika and the new species Ctenochromis scatebra from northern Tanzania

inferred← citeshttps://doi.org/10.1002/9781394312467.ch9openalex-snapshot

The Ecology of Transposable Elements

inferred← citeshttps://doi.org/10.1007/s10750-022-04957-yopenalex-snapshot

Environmental plasticity in opsin expression due to light and thyroid hormone in adult and developing Astatotilapia burtoni

inferred← citeshttps://doi.org/10.1007/s10750-022-05027-zopenalex-snapshot

A second locus contributing to the differential expression of the blue sensitive opsin SWS2A in Lake Malawi cichlids

inferred← citeshttps://doi.org/10.1016/b978-0-12-822273-7.00010-0openalex-snapshot

Evolution of ray-finned fish genomes: Status and directions with a primer on microRNA characterization

inferred← citeshttps://doi.org/10.1016/j.aquaculture.2023.740085openalex-snapshot

Transposon insertion into pmel-17 reduced melanin pigmentation, and growth, but increased locomotion of Mozambique tilapia

inferred← citeshttps://doi.org/10.1016/j.fgb.2026.104057openalex-snapshot

The dynamics of transposable element content in the genome of the human pathogen Histoplasma

inferred← citeshttps://doi.org/10.1016/j.tig.2022.02.009openalex-snapshot

Taming transposable elements in vertebrates: from epigenetic silencing to domestication

inferred← citeshttps://doi.org/10.1038/s41467-021-26166-2openalex-snapshot

Mapping epigenetic divergence in the massive radiation of Lake Malawi cichlid fishes

inferred← citeshttps://doi.org/10.1038/s41559-021-01452-wopenalex-snapshot

Extreme Y chromosome polymorphism corresponds to five male reproductive morphs of a freshwater fish

inferred← citeshttps://doi.org/10.1093/database/baae044openalex-snapshot

FishTEDB 2.0: an update fish transposable element (TE) database with new functions to facilitate TE research

inferred← citeshttps://doi.org/10.1093/evolinnean/kzae006openalex-snapshot

From microcosm to macrocosm: adaptive radiation of Darwin’s finches

inferred← citeshttps://doi.org/10.1093/molbev/msac251openalex-snapshot

Ecological Speciation Promoted by Divergent Regulation of Functional Genes Within African Cichlid Fishes

inferred← citeshttps://doi.org/10.1093/molbev/msae025openalex-snapshot

The Dynamic Interplay Between Ribosomal DNA and Transposable Elements: A Perspective From Genomics and Cytogenetics

inferred← citeshttps://doi.org/10.1101/2021.05.08.443214openalex-snapshot

Turning red to green repeatedly: ancient LWS duplications drive convergent visual tuning in teleost fishes

inferred← citeshttps://doi.org/10.1101/2021.08.05.455235openalex-snapshot

Differential use of multiple genetic sex determination systems in divergent ecomorphs of an African crater lake cichlid

inferred← citeshttps://doi.org/10.1101/2024.03.28.587230openalex-snapshot

A pangenomic perspective of the Lake Malawi cichlid radiation reveals extensive structural variation driven by transposable elements

inferred← citeshttps://doi.org/10.1101/2024.04.01.587621openalex-snapshot

Dynamic co-evolution of transposable elements and the piRNA pathway in African cichlid fishes

inferred← citeshttps://doi.org/10.1101/2024.09.30.614436openalex-snapshot

Genomic stability in the Galápagos Scalesia adaptive radiation: Consistent transposable element accumulation despite hybridization and ecological niche shifts

inferred← citeshttps://doi.org/10.1101/2025.09.17.676772openalex-snapshot

Genome dynamics across the radiation of a mega-diverse genus

inferred← citeshttps://doi.org/10.1101/gr.279674.124openalex-snapshot

Lake Malawi cichlid pangenome graph reveals extensive structural variation driven by transposable elements

inferred← citeshttps://doi.org/10.1111/evo.14319openalex-snapshot

P ‐elements strengthen reproductive isolation within the Drosophila simulans species complex

inferred← citeshttps://doi.org/10.1111/mec.17574openalex-snapshot

Population Genomics of Adaptive Radiation

inferred← citeshttps://doi.org/10.1146/annurev-animal-081221-064325openalex-snapshot

Adaptations and Diversity of Antarctic Fishes: A Genomic Perspective

inferred← citeshttps://doi.org/10.1186/s13059-025-03475-zopenalex-snapshot

Dynamic co-evolution of transposable elements and the piRNA pathway in African cichlid fishes

inferred← citeshttps://doi.org/10.1186/s13100-025-00362-zopenalex-snapshot

No evidence of transposable element bursts in the Galápagos Scalesia adaptive radiation despite hybridization, diversification and ecological niche shifts

inferred← citeshttps://doi.org/10.1186/s13227-022-00205-5openalex-snapshot

East African cichlid fishes

inferred← citeshttps://doi.org/10.12688/f1000research.130752.1openalex-snapshot

Anemonefishes: A model system for evolutionary genomics

inferred← citeshttps://doi.org/10.4102/aosis.2022.bk334openalex-snapshot

Science and Faith in Dialogue

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Rumours of war and evidence for peace between science and Christianity

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Comparative genomics of the unusual arachnid order Solifugae spotlight the molecular and genetic basis for adaptations to arid habitats

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