Genome‐wide patterns of transposon proliferation in an evolutionary young hybrid fish
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[1] David J. Miller,et al. Finding Nemo’s Genes: A chromosome‐scale reference assembly of the genome of the orange clownfish Amphiprion percula , 2018, bioRxiv.
[2] T. Bureau,et al. Exaptation of transposable element coding sequences. , 2018, Current opinion in genetics & development.
[3] B. Gaut,et al. Modeling Interactions between Transposable Elements and the Plant Epigenetic Response: A Surprising Reliance on Element Retention , 2018, Genome biology and evolution.
[4] J. de Meaux,et al. Robustness of Transposable Element Regulation but No Genomic Shock Observed in Interspecific Arabidopsis Hybrids , 2018, bioRxiv.
[5] Alexander Suh,et al. Abundant recent activity of retrovirus‐like retrotransposons within and among flycatcher species implies a rich source of structural variation in songbird genomes , 2018, Molecular ecology.
[6] D. Barbash,et al. Beyond speciation genes: an overview of genome stability in evolution and speciation. , 2017, Current opinion in genetics & development.
[7] Neva C. Durand,et al. Hybrid de novo genome assembly and centromere characterization of the gray mouse lemur (Microcebus murinus) , 2017, BMC Biology.
[8] E. Betrán,et al. Transposable Element Domestication As an Adaptation to Evolutionary Conflicts. , 2017, Trends in genetics : TIG.
[9] D. Barbash,et al. Double insertion of transposable elements provides a substrate for the evolution of satellite DNA , 2017, bioRxiv.
[10] Cesar Martins,et al. Centromeric enrichment of LINE-1 retrotransposons and its significance for the chromosome evolution of Phyllostomid bats , 2017, Chromosome Research.
[11] C. Vieira,et al. High-Throughput Sequencing of Transposable Element Insertions Suggests Adaptive Evolution of the Invasive Asian Tiger Mosquito Towards Temperate Environments , 2016, bioRxiv.
[12] R. B. Azevedo,et al. The Evolution of Small RNA-Mediated Silencing of an Invading Transposable Element , 2017, bioRxiv.
[13] C. Vieira,et al. Transposable Element Misregulation Is Linked to the Divergence between Parental piRNA Pathways in Drosophila Hybrids , 2017, Genome biology and evolution.
[14] F. Sedlazeck,et al. Copy number increases of transposable elements and protein‐coding genes in an invasive fish of hybrid origin , 2017, Molecular ecology.
[15] Steven G. Schroeder,et al. Single-molecule sequencing and chromatin conformation capture enable de novo reference assembly of the domestic goat genome , 2017, Nature Genetics.
[16] S. Koren,et al. Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation , 2016, bioRxiv.
[17] B. Mellone,et al. Centromeres Drive a Hard Bargain. , 2017, Trends in genetics : TIG.
[18] Evan A. Clayton,et al. Population and clinical genetics of human transposable elements in the (post) genomic era , 2017, Mobile genetic elements.
[19] L. Hurst,et al. Mutation rate analysis via parent–progeny sequencing of the perennial peach. I. A low rate in woody perennials and a higher mutagenicity in hybrids , 2016, Proceedings of the Royal Society B: Biological Sciences.
[20] M. Quail,et al. The industrial melanism mutation in British peppered moths is a transposable element , 2016, Nature.
[21] C. Parisod,et al. Differential introgression and reorganization of retrotransposons in hybrid zones between wild wheats , 2016, Molecular ecology.
[22] C. Vieira,et al. Genomic evidence for adaptive evolution of the invasive Asian tiger mosquito towards temperate environment , 2016 .
[23] F. Han,et al. De Novo Centromere Formation and Centromeric Sequence Expansion in Wheat and its Wide Hybrids , 2016, PLoS genetics.
[24] C. Feschotte,et al. Regulatory evolution of innate immunity through co-option of endogenous retroviruses , 2016, Science.
[25] Robert D. Finn,et al. The Pfam protein families database: towards a more sustainable future , 2015, Nucleic Acids Res..
[26] Elizabeth Hénaff,et al. Jitterbug: somatic and germline transposon insertion detection at single-nucleotide resolution , 2015, BMC Genomics.
[27] Xiayun Jiang,et al. Tc1-like Transposase Thm3 of Silver Carp (Hypophthalmichthys molitrix) Can Mediate Gene Transposition in the Genome of Blunt Snout Bream (Megalobrama amblycephala) , 2015, G3: Genes, Genomes, Genetics.
[28] Evgeny M. Zdobnov,et al. BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs , 2015, Bioinform..
[29] T. Wicker,et al. Genome-wide comparison of Asian and African rice reveals high recent activity of DNA transposons , 2015, Mobile DNA.
[30] C. Parisod,et al. Genome reorganization in F1 hybrids uncovers the role of retrotransposons in reproductive isolation , 2015, Proceedings of the Royal Society B: Biological Sciences.
[31] L. Bernatchez,et al. Reproductive isolation in a nascent species pair is associated with aneuploidy in hybrid offspring , 2015, Proceedings of the Royal Society B: Biological Sciences.
[32] Floriane Plard,et al. Comparative Analysis of Transposable Elements Highlights Mobilome Diversity and Evolution in Vertebrates , 2015, Genome biology and evolution.
[33] A. Belyayev. Bursts of transposable elements as an evolutionary driving force , 2014, Journal of evolutionary biology.
[34] Maite G. Barrón,et al. Population genomics of transposable elements in Drosophila. , 2014, Annual review of genetics.
[35] Matthias Zytnicki,et al. Tedna: a transposable element de novo assembler , 2014, Bioinform..
[36] A. Quinlan. BEDTools: The Swiss‐Army Tool for Genome Feature Analysis , 2014, Current protocols in bioinformatics.
[37] L. Rieseberg,et al. Genomics of homoploid hybrid speciation: diversity and transcriptional activity of long terminal repeat retrotransposons in hybrid sunflowers , 2014, Philosophical Transactions of the Royal Society B: Biological Sciences.
[38] C. Vieira,et al. Specific Activation of an I-Like Element in Drosophila Interspecific Hybrids , 2014, Genome biology and evolution.
[39] H. Quesneville,et al. PASTEC: An Automatic Transposable Element Classification Tool , 2014, PloS one.
[40] L. Bernatchez,et al. RNA-seq reveals transcriptomic shock involving transposable elements reactivation in hybrids of young lake whitefish species. , 2014, Molecular biology and evolution.
[41] Andrew C. Adey,et al. Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions , 2013, Nature Biotechnology.
[42] Arndt von Haeseler,et al. NextGenMap: fast and accurate read mapping in highly polymorphic genomes , 2013, Bioinform..
[43] S. Boissinot,et al. Lizards and LINEs: Selection and Demography Affect the Fate of L1 Retrotransposons in the Genome of the Green Anole (Anolis carolinensis) , 2013, Genome biology and evolution.
[44] Aaron A. Klammer,et al. Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data , 2013, Nature Methods.
[45] A. Wong,et al. RECURRENT AND RECENT SELECTIVE SWEEPS IN THE piRNA PATHWAY , 2013, Evolution; international journal of organic evolution.
[46] Josefa González,et al. The impact of transposable elements in environmental adaptation , 2013, Molecular ecology.
[47] Thomas M. Keane,et al. RetroSeq: transposable element discovery from next-generation sequencing data , 2013, Bioinform..
[48] Robert A. Martienssen,et al. RNA interference in the nucleus: roles for small RNAs in transcription, epigenetics and beyond , 2013, Nature Reviews Genetics.
[49] U. Dieckmann,et al. Hybridization and speciation , 2013, Journal of evolutionary biology.
[50] C. Bergman,et al. An Age-of-Allele Test of Neutrality for Transposable Element Insertions , 2012, Genetics.
[51] D. Mager,et al. Transposable elements: an abundant and natural source of regulatory sequences for host genes. , 2012, Annual review of genetics.
[52] J. Boeke,et al. Active transposition in genomes. , 2012, Annual review of genetics.
[53] D. Barbash,et al. Drosophila Interspecific Hybrids Phenocopy piRNA-Pathway Mutants , 2012, PLoS biology.
[54] Ira M. Hall,et al. YAHA: fast and flexible long-read alignment with optimal breakpoint detection , 2012, Bioinform..
[55] Miriam K. Konkel,et al. Centromere Remodeling in Hoolock leuconedys (Hylobatidae) by a New Transposable Element Unique to the Gibbons , 2012, Genome biology and evolution.
[56] A. Fujiyama,et al. Centromere-targeted de novo integrations of an LTR retrotransposon of Arabidopsis lyrata. , 2012, Genes & development.
[57] S. Maheshwari,et al. The genetics of hybrid incompatibilities. , 2011, Annual review of genetics.
[58] D. Petrov,et al. Population genomics of transposable elements in Drosophila melanogaster. , 2011, Molecular biology and evolution.
[59] D. Tautz,et al. Rapid formation of distinct hybrid lineages after secondary contact of two fish species (Cottus sp.) , 2011, Molecular ecology.
[60] A. Futschik,et al. PoPoolation: A Toolbox for Population Genetic Analysis of Next Generation Sequencing Data from Pooled Individuals , 2011, PloS one.
[61] D. Tautz,et al. Copy number changes of CNV regions in intersubspecific crosses of the house mouse. , 2010, Molecular biology and evolution.
[62] Diethard Tautz,et al. Understanding the onset of hybrid speciation. , 2010, Trends in genetics : TIG.
[63] Y. Wakamatsu,et al. Distribution of complete and defective copies of the Tol1 transposable element in natural populations of the medaka fish Oryzias latipes. , 2009, Genes & genetic systems.
[64] I. Amit,et al. Comprehensive mapping of long range interactions reveals folding principles of the human genome , 2011 .
[65] Richard C. Moore,et al. The genomic organization of Ty3/gypsy-like retrotransposons in Helianthus (Asteraceae) homoploid hybrid species. , 2009, American journal of botany.
[66] Josefa González,et al. High Rate of Recent Transposable Element–Induced Adaptation in Drosophila melanogaster , 2008, PLoS biology.
[67] C. Feschotte. Transposable elements and the evolution of regulatory networks , 2008, Nature Reviews Genetics.
[68] R. O’Neill,et al. Genomic Instability Within Centromeres of Interspecific Marsupial Hybrids , 2007, Genetics.
[69] J. Bennetzen,et al. A unified classification system for eukaryotic transposable elements , 2007, Nature Reviews Genetics.
[70] B. Koop,et al. Bursts and horizontal evolution of DNA transposons in the speciation of pseudotetraploid salmonids , 2007, BMC Genomics.
[71] M. A. McClure,et al. Identification of Novel Retroid Agents in Danio rerio, Oryzias latipes, Gasterosteus aculeatus and Tetraodon nigroviridis , 2007, Evolutionary bioinformatics online.
[72] C. Bergman,et al. Recent LTR retrotransposon insertion contrasts with waves of non-LTR insertion since speciation in Drosophila melanogaster , 2007, Proceedings of the National Academy of Sciences.
[73] P. Deininger,et al. Inviting instability: Transposable elements, double-strand breaks, and the maintenance of genome integrity. , 2007, Mutation research.
[74] J. Mallet. Hybrid speciation , 2007, Nature.
[75] Jerzy Jurka,et al. Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and Censor , 2006, BMC Bioinformatics.
[76] J. Hancock,et al. Ethylene-induced stomatal closure in Arabidopsis occurs via AtrbohF-mediated hydrogen peroxide synthesis. , 2006, The Plant journal : for cell and molecular biology.
[77] A. Iida,et al. Vertebrate DNA transposon as a natural mutator: the medaka fish Tol2 element contributes to genetic variation without recognizable traces. , 2006, Molecular biology and evolution.
[78] D. Tautz,et al. When invaders meet locally adapted types: rapid moulding of hybrid zones between sculpins (Cottus, Pisces) in the Rhine system , 2006, Molecular ecology.
[79] S. Jackson,et al. Retrotransposon accumulation and satellite amplification mediated by segmental duplication facilitate centromere expansion in rice. , 2005, Genome research.
[80] D. Tautz,et al. An invasive lineage of sculpins, Cottus sp. (Pisces, Teleostei) in the Rhine with new habitat adaptations has originated from hybridization between old phylogeographic groups , 2005, Proceedings of the Royal Society B: Biological Sciences.
[81] A. Fontdevila. Hybrid genome evolution by transposition , 2005, Cytogenetic and Genome Research.
[82] J. Jurka,et al. Repbase Update, a database of eukaryotic repetitive elements , 2005, Cytogenetic and Genome Research.
[83] E. Eichler,et al. Punctuated duplication seeding events during the evolution of human chromosome 2p11. , 2005, Genome research.
[84] Stefan R. Henz,et al. A gene expression map of Arabidopsis thaliana development , 2005, Nature Genetics.
[85] D. Hartl,et al. Different regulatory mechanisms underlie similar transposable element profiles in pufferfish and fruitflies. , 2004, Molecular biology and evolution.
[86] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[87] S. Wright,et al. Effects of recombination rate and gene density on transposable element distributions in Arabidopsis thaliana. , 2003, Genome research.
[88] J. Weissenbach,et al. An active non-LTR retrotransposon with tandem structure in the compact genome of the pufferfish Tetraodon nigroviridis. , 2003, Genome research.
[89] G. Carvalho,et al. Timing of the population dynamics of bullhead Cottus gobio (Teleostei: Cottidae) during the Pleistocene , 2002 .
[90] S. Henikoff,et al. The Centromere Paradox: Stable Inheritance with Rapidly Evolving DNA , 2001, Science.
[91] R. O’Neill,et al. Chromosome heterozygosity and de novo chromosome rearrangements in mammalian interspecies hybrids , 2001, Mammalian Genome.
[92] J. Volff,et al. Multiple lineages of the non-LTR retrotransposon Rex1 with varying success in invading fish genomes. , 2000, Molecular biology and evolution.
[93] D. Tautz,et al. Phylogeography of the bullhead Cottus gobio (Pisces: Teleostei: Cottidae) suggests a pre‐Pleistocene origin of the major central European populations , 2000, Molecular ecology.
[94] G. Benson,et al. Tandem repeats finder: a program to analyze DNA sequences. , 1999, Nucleic acids research.
[95] M. Plohl,et al. Evolution of satellite DNAs from the genus Palorus--experimental evidence for the "library" hypothesis. , 1998, Molecular biology and evolution.
[96] R. O’Neill,et al. Undermethylation associated with retroelement activation and chromosome remodelling in an interspecific mammalian hybrid , 1998, Nature.
[97] B. Charlesworth,et al. The distribution of transposable elements within and between chromosomes in a population of Drosophila melanogaster. III. Element abundances in heterochromatin. , 1994, Genetical research.
[98] B. Charlesworth,et al. The population genetics of Drosophila transposable elements. , 1989, Annual review of genetics.
[99] B. Mcclintock,et al. The significance of responses of the genome to challenge. , 1984, Science.
[100] J. Sambrook,et al. Molecular Cloning: A Laboratory Manual , 2001 .
[101] B. Charlesworth,et al. The population dynamics of transposable elements , 1983 .
[102] N. Fedoroff,et al. Investigation of the organization of mammalian chromosomes at the DNA sequence level. , 1976, Federation proceedings.