Reference health
Movement of transposable elements contributes to cichlid diversity
98/98 checkable references clean · checked 2026-10-10
Every reference with a DOI or an arXiv id in the deposited reference list resolved to a known work in Crossref or DataCite at the dated check, and none carried a retraction, withdrawal, or removal notice.
8 with no DOI or arXiv id: not checked. A reference deposited without a DOI is checked only when it names an arXiv id, under that id’s DataCite DOI. The rest are never matched by title or guessed at; they stay outside the checked set, and this line says so.
The 98 checked references that resolve
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A high quality assembly of the Nile Tilapia (Oreochromis niloticus) genome reveals the structure of two sex determination regions
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Ancestral duplications and highly dynamic opsin gene evolution in percomorph fishes
resolves10.1093/molbev/msj083
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RNA-seq Reveals Transcriptomic Shock Involving Transposable Elements Reactivation in Hybrids of Young Lake Whitefish Species
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resolves10.1534/g3.118.200207
A Dense Linkage Map of Lake Victoria Cichlids Improved the
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The Eyes Have It: Regulatory and Structural Changes Both Underlie Cichlid Visual Pigment Diversity
resolves10.1111/mec.13205
A genetic demographic analysis of <scp>L</scp>ake <scp>M</scp>alawi rock‐dwelling cichlids using spatio‐temporal sampling
resolves10.1186/1471-2105-7-474
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resolves10.1126/science.aao6809
Agouti-related peptide 2 facilitates convergent evolution of stripe patterns across cichlid fish radiations
resolves10.1016/j.gpb.2017.01.006
Silencing of Transposable Elements by piRNAs in
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Differential Survival between Visual Environments Supports a Role of Divergent Sensory Drive in Cichlid Fish Speciation
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Genomic islands of speciation separate cichlid ecomorphs in an East African crater lake
resolves10.1073/pnas.1614272113
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resolves10.1038/s41559-018-0717-x
Whole-genome sequences of Malawi cichlids reveal multiple radiations interconnected by gene flow
resolves10.1126/science.aab0800
A pharyngeal jaw evolutionary innovation facilitated extinction in Lake Victoria cichlids
resolves10.1101/gr.107524.110
The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data
resolves10.1111/mec.13838
Demographic modelling with whole‐genome data reveals parallel origin of similar<i>Pundamilia</i>cichlid species after hybridization
resolves10.1038/s41467-019-13278-z
The coincidence of ecological opportunity with hybridization explains rapid adaptive radiation in Lake Mweru cichlid fishes
resolves10.1101/gr.4565806
An initial map of insertion and deletion (INDEL) variation in the human genome
resolves10.1093/molbev/msq344
Reverse Evolution in RH1 for Adaptation of Cichlids to Water Depth in Lake Tanganyika
resolves10.1186/s12864-018-5328-z
Multiple trans QTL and one cis-regulatory deletion are associated with the differential expression of cone opsins in African cichlids
resolves10.1093/jhered/esx020
Determination of the Genetic Architecture Underlying Short Wavelength Sensitivity in Lake Malawi Cichlids
resolves10.1093/nar/gkv1189
Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
resolves10.1111/j.1525-142X.2011.00469.x
New evidence for the role of heterochrony in the repeated evolution of cichlid opsin expression
resolves10.1186/1471-2148-11-120
Divergence in cis-regulatory sequences surrounding the opsin gene arrays of African cichlid fishes
resolves10.1016/j.cub.2005.08.010
Mix and Match Color Vision: Tuning Spectral Sensitivity by Differential Opsin Gene Expression in Lake Malawi Cichlids
resolves10.1038/ncomms4629
Wnt signalling underlies the evolution of new phenotypes and craniofacial variability in Lake Malawi cichlids
resolves10.1007/s00239-018-9847-7
Transposable Elements Activity is Positively Related to Rate of Speciation in Mammals
resolves10.1073/pnas.1018456108
Craniofacial divergence and ongoing adaptation via the hedgehog pathway
resolves10.1126/science.1174705
Sexual Conflict Resolved by Invasion of a Novel Sex Determiner in Lake Malawi Cichlid Fishes
resolves10.1046/j.0962-1083.2001.01438.x
Speciation via introgressive hybridization in East African cichlids?
resolves10.1093/molbev/msaa062
<i>Tbx2a</i>
Modulates Switching of
<i>RH2</i>
and
<i>LWS</i>
Opsin Gene Expression
resolves10.1038/ncomms6149
The evolution of cichlid fish egg-spots is linked with a cis-regulatory change
resolves10.1093/molbev/msu172
Interspecific Variation in Rx1 Expression Controls Opsin Expression and Causes Visual System Diversity in African Cichlid Fishes
resolves10.1046/j.1365-294X.2003.01905.x
Hybrid origin of a cichlid population in Lake Malawi: implications for genetic variation and species diversity
resolves10.1093/molbev/msl014
Evolution of the Cichlid Visual Palette through Ontogenetic Subfunctionalization of the Opsin Gene Arrays
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Adaptive Molecular Evolution in the Opsin Genes of Rapidly Speciating Cichlid Species
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THE LOCI OF EVOLUTION: HOW PREDICTABLE IS GENETIC EVOLUTION?
resolves10.1073/pnas.0405302102
Parallelism of amino acid changes at the RH1 affecting spectral sensitivity among deep-water cichlids from Lakes Tanganyika and Malawi
resolves10.1111/mec.14439
Abundant recent activity of retrovirus‐like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes
resolves10.1093/molbev/msz294
Ancestral Hybridization Facilitated Species Diversification in the Lake Malawi Cichlid Fish Adaptive Radiation
resolves10.1186/1471-2148-13-42
Genome differentiation in a species pair of coregonine fishes: an extremely rapid speciation driven by stress-activated retrotransposons mediating extensive ribosomal DNA multiplications
resolves10.1371/journal.pbio.0040433
Divergent Selection on Opsins Drives Incipient Speciation in Lake Victoria Cichlids
resolves10.1093/bib/bbs017
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resolves10.1111/j.1365-294X.2010.04532.x
Genomic islands <i>of</i> speciation or genomic islands <i>and</i> speciation?
resolves10.1159/000113552
Interspecific Variation of Photoreceptors in Four Co-Existing Haplochromine Cichlid Fishes
resolves10.1073/pnas.0502127102
On the origin of Lake Malawi cichlid species: A population genetic analysis of divergence
resolves10.1186/s13100-018-0124-5
Transposable elements and gene expression during the evolution of amniotes
The 8 references with no DOI or arXiv id, listed, not checked
no DOI — not checkedThe cichlid fishes: Nature's grand experiment in evolution
no DOI — not checkedMalawi cichlids in their natural habitat
no DOI — not checkedMechanisms contributing to opsin expression divergence in the visual system of African cichlids
no DOI — not checkedAnalysis of structural variants in four African Cichlids highlights an association with developmental and immune related genes
no DOI — not checkedLake Victoria rock cichlids
no DOI — not checkedRepeatModeler
no DOI — not checkedRepeatMasker
no DOI — not checkedEstimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
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