like like like like Hétérochromatine péricentromérique Hétérochromatine péricentromérique Hétérochromatine péricentromérique Hétérochromatine péricentromérique 16 [15-18, pp.13-15 ,
Eu-heterochromatic Rearrangements Induce Replication of Heterochromatic Sequences Normally Underreplicated in Polytene Chromosomes of Drosophila melanogaster, Genetics, vol.171, issue.4, pp.1673-1681, 2005. ,
DOI : 10.1534/genetics.105.044461
The Genome Sequence of Drosophila melanogaster, Science, vol.287, issue.5461, pp.2185-2195, 2000. ,
DOI : 10.1126/science.287.5461.2185
Basic local alignment search tool, Journal of Molecular Biology, vol.215, issue.3, pp.403-410, 1990. ,
DOI : 10.1016/S0022-2836(05)80360-2
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Research, vol.25, issue.17, pp.3389-3402, 1997. ,
DOI : 10.1093/nar/25.17.3389
Complex structure of knob DNA on maize chromosome 9. Retrotransposon invasion into heterochromatin, Genetics, vol.149, pp.2025-2037, 1998. ,
Complex structure of knobs and centromeric regions in maize chromosomes, Tsitol Genet, vol.34, pp.11-15, 2000. ,
Detection of transposable elements by their compositional bias, BMC Bioinformatics, vol.5, issue.1, p.94, 2004. ,
DOI : 10.1186/1471-2105-5-94
Enrichment of segmental duplications in regions of breaks of synteny between the human and mouse genomes suggest their involvement in evolutionary rearrangements, Human Molecular Genetics, vol.12, issue.17, pp.2201-2208, 2003. ,
DOI : 10.1093/hmg/ddg223
Drosophila. A Laboratory Manual, 1989. ,
URL : https://hal.archives-ouvertes.fr/hal-00134981
Segmental Duplications: Organization and Impact Within the Current Human Genome Project Assembly, Genome Research, vol.11, issue.6, pp.1005-1017, 2001. ,
DOI : 10.1101/gr.GR-1871R
Recent Segmental Duplications in the Human Genome, Science, vol.297, issue.5583, pp.1003-1007, 2002. ,
DOI : 10.1126/science.1072047
Primate segmental duplications: crucibles of evolution, diversity and disease, Nature Reviews Genetics, vol.440, issue.7, pp.552-564, 2006. ,
DOI : 10.1038/nrg1895
Do Plants Have a One-Way Ticket to Genomic Obesity?, THE PLANT CELL ONLINE, vol.9, issue.9, pp.1509-1514, 1997. ,
DOI : 10.1105/tpc.9.9.1509
Transposable element contributions to plant gene and genome evolution, Plant Mol Biol, vol.42, pp.251-269, 2000. ,
DOI : 10.1007/978-94-011-4221-2_13
Mechanisms of Recent Genome Size Variation in Flowering Plants, Annals of Botany, vol.95, issue.1, pp.127-132, 2005. ,
DOI : 10.1093/aob/mci008
Tandem repeats finder: a program to analyze DNA sequences, Nucleic Acids Research, vol.27, issue.2, pp.573-580, 1999. ,
DOI : 10.1093/nar/27.2.573
A search for reverse transcriptasecoding sequences reveals new non-LTR retrotransposons in the genome of Drosophila melanogaster, Genome Biol, vol.1, p.12, 2000. ,
Recurrent insertion and duplication generate networks of transposable element sequences in Drosophila melanogaster genome, 2006. ,
URL : https://hal.archives-ouvertes.fr/hal-00134981
Maintenance of transposable element copy number in natural populations of Drosophila melanogaster and D. simulans, Genetica, vol.100, pp.161-166, 1997. ,
DOI : 10.1007/978-94-011-4898-6_16
URL : https://hal.archives-ouvertes.fr/hal-00434972
Patterns of Insertion and Deletion in Contrasting Chromatin Domains, Molecular Biology and Evolution, vol.19, issue.12, pp.2211-2225, 2002. ,
DOI : 10.1093/oxfordjournals.molbev.a004045
Discrete Small RNA-Generating Loci as Master Regulators of Transposon Activity in Drosophila, Cell, vol.128, issue.6, pp.1089-1103, 2007. ,
DOI : 10.1016/j.cell.2007.01.043
The evolution of a plant globin gene family, Journal of Molecular Evolution, vol.77, issue.1, pp.19-32, 1984. ,
DOI : 10.1007/BF02100624
Improved detection and annotation of transposable elements in sequenced genomes using multiple reference sequence sets, Genomics, vol.91, issue.5, 2008. ,
DOI : 10.1016/j.ygeno.2008.01.005
URL : https://hal.archives-ouvertes.fr/hal-00280496
An Arabidopsis hAT-like transposase is essential for plant development, Nature, vol.436, issue.7048, pp.282-284, 2005. ,
DOI : 10.1038/nature03667
Damage pattern as a function of radiation quality and other factors, Comptes Rendus de l'Acad??mie des Sciences - Series III - Sciences de la Vie, vol.322, issue.2-3, pp.89-101, 1999. ,
DOI : 10.1016/S0764-4469(99)80029-8
MIWI2 Is Essential for Spermatogenesis and Repression of Transposons in the Mouse Male Germline, Developmental Cell, vol.12, issue.4, pp.503-514, 2007. ,
DOI : 10.1016/j.devcel.2007.03.001
Finishing a whole-genome shotgun: release 3 of the Drosophila melanogaster euchromatic genome sequence, Genome Biol, vol.3, p.79, 2002. ,
The evolution of restricted recombination and the accumulation of repeated DNA sequences, Genetics, vol.112, pp.947-962, 1986. ,
A genome-wide comparison of recent chimpanzee and human segmental duplications, Nature, vol.215, issue.7055, pp.88-93, 2005. ,
DOI : 10.1371/journal.pbio.0020207
Recent segmental and gene duplications in the mouse genome, Genome Biology, vol.4, issue.8, p.47, 2003. ,
DOI : 10.1186/gb-2003-4-8-r47
R2 Target-Primed Reverse Transcription: Ordered Cleavage and Polymerization Steps by Protein Subunits Asymmetrically Bound to the Target DNA, Molecular and Cellular Biology, vol.25, issue.15, pp.6617-6628, 2005. ,
DOI : 10.1128/MCB.25.15.6617-6628.2005
Evolution of genes and genomes on the Drosophila phylogeny, Nature, vol.2, issue.7167, pp.203-218, 2007. ,
DOI : 10.1038/nature06341
Something from nothing: the evolution and utility of satellite repeats, Trends in Genetics, vol.14, issue.5, pp.200-204, 1998. ,
DOI : 10.1016/S0168-9525(98)01444-9
The outs and ins of transposition: from mu to kangaroo, Nature Reviews Molecular Cell Biology, vol.4, issue.11, pp.865-877, 2003. ,
DOI : 10.1038/nrm1241
Remarkable compartmentalization of transposable elements and pseudogenes in the heterochromatin of the Tetraodon nigroviridis genome, Proceedings of the National Academy of Sciences, vol.99, issue.21, pp.13636-13641, 2002. ,
DOI : 10.1073/pnas.202284199
Transcription-related mutations and GC content drive variation in nucleotide substitution rates across the genomes of Arabidopsis thaliana and Arabidopsis lyrata, BMC Evolutionary Biology, vol.7, issue.1, p.66, 2007. ,
DOI : 10.1186/1471-2148-7-66
Genome Size Reduction through Illegitimate Recombination Counteracts Genome Expansion in Arabidopsis, Genome Research, vol.12, issue.7, 2002. ,
DOI : 10.1101/gr.132102
Homology requirements for targeting heterologous sequences during P-induced gap repair in Drosophila melanogaster, Genetics, vol.147, pp.689-699, 1997. ,
Variation in crossing-over rates across chromosome 4 of Arabidopsis thaliana reveals the presence of meiotic recombination "hot spots", Genome Research, vol.16, issue.1, pp.106-114, 2006. ,
DOI : 10.1101/gr.4319006
URL : https://hal.archives-ouvertes.fr/hal-00017439
PILER: identification and classification of genomic repeats, Bioinformatics, vol.21, issue.Suppl 1, pp.152-158, 2005. ,
DOI : 10.1093/bioinformatics/bti1003
An efficient and accurate distance based algorithm to reconstruct tandem duplication trees, Bioinformatics, vol.18, issue.Suppl 2, pp.92-99, 2002. ,
DOI : 10.1093/bioinformatics/18.suppl_2.S92
Reconstructing the Duplication History of Tandemly Repeated Genes, Molecular Biology and Evolution, vol.19, issue.3, pp.278-288, 2002. ,
DOI : 10.1093/oxfordjournals.molbev.a004081
URL : https://hal.archives-ouvertes.fr/lirmm-00268603
Microsatellites: simple sequences with complex evolution, Nature Reviews Genetics, vol.164, issue.6, pp.435-445, 2004. ,
DOI : 10.1016/S0379-0738(01)00564-3
High-frequency P element loss in Drosophila is homolog dependent, Cell, vol.62, issue.3, pp.515-525, 1990. ,
DOI : 10.1016/0092-8674(90)90016-8
Recombinational repair of gaps in DNA is asymmetric in Ustilago maydis and can be explained by a migrating D-loop model., Proceedings of the National Academy of Sciences, vol.93, issue.11, pp.5419-5424, 1996. ,
DOI : 10.1073/pnas.93.11.5419
PLANT TRANSPOSABLE ELEMENTS: WHERE GENETICS MEETS GENOMICS, Nature Reviews Genetics, vol.3, issue.5, pp.329-341, 2002. ,
DOI : 10.1038/nrg793
Eukaryotic transposable elements and genome evolution, Trends in Genetics, vol.5, pp.103-107, 1989. ,
DOI : 10.1016/0168-9525(89)90039-5
Molecular basis for the discrimination of repressive methyl-lysine marks in histone H3 by Polycomb and HP1 chromodomains, Genes & Development, vol.17, issue.15, pp.1870-1881, 2003. ,
DOI : 10.1101/gad.1110503
A model of segmental duplication formation in Drosophila melanogaster, Genome Research, vol.17, issue.10, pp.1458-1470, 2007. ,
DOI : 10.1101/gr.6208307
Phylogenies constrained by the crossover process as illustrated by human hemoglobins and a thirteen-cycle, eleven-amino-acid repeat in human apolipoprotein A-I, Genetics, vol.86, pp.623-644, 1977. ,
Purification and characterization of the T4 bacteriophage uvsX protein, J Biol Chem, vol.261, pp.6107-6118, 1986. ,
Cytogenetics for the model system Arabidopsis thaliana, The Plant Journal, vol.14, issue.6, pp.867-876, 1998. ,
DOI : 10.1093/nar/24.15.3017
Integrated Cytogenetic Map of Chromosome Arm 4S of A. thaliana, Cell, vol.100, issue.3, pp.367-376, 2000. ,
DOI : 10.1016/S0092-8674(00)80672-8
BIONJ: an improved version of the NJ algorithm based on a simple model of sequence data, Molecular Biology and Evolution, vol.14, issue.7, pp.685-695, 1997. ,
DOI : 10.1093/oxfordjournals.molbev.a025808
URL : https://hal.archives-ouvertes.fr/lirmm-00730410
De novo synthesis of an intron by the maize transposable element Dissociation., Proceedings of the National Academy of Sciences, vol.91, issue.25, pp.12150-12154, 1994. ,
DOI : 10.1073/pnas.91.25.12150
It takes two transposons to tango:transposable-element-mediated chromosomal rearrangements, Trends in Genetics, vol.16, issue.10, pp.461-468, 2000. ,
DOI : 10.1016/S0168-9525(00)02104-1
URL : http://hdl.handle.net/1885/89003
2x genomes Does depth matter?, Genome Research, vol.17, issue.11, pp.1547-1549, 2007. ,
DOI : 10.1101/gr.7050807
URL : http://www.genome.org/cgi/content/short/17/11/1547
The modulation of DNA content: proximate causes and ultimate consequences, Genome Res, vol.9, pp.317-324, 1999. ,
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood, Systematic Biology, vol.52, issue.5, pp.696-704, 2003. ,
DOI : 10.1080/10635150390235520
DNA recombination: the replication connection, Trends in Biochemical Sciences, vol.24, issue.7, pp.271-275, 1999. ,
DOI : 10.1016/S0968-0004(99)01413-9
Dynamic evolution at pericentromeres, Genome Research, vol.16, issue.3, pp.355-364, 2006. ,
DOI : 10.1101/gr.4399206
Transposition rates of movable genetic elements in Drosophila melanogaster., Proceedings of the National Academy of Sciences, vol.87, issue.8, pp.3248-3252, 1990. ,
DOI : 10.1073/pnas.87.8.3248
Dating of the human-ape splitting by a molecular clock of mitochondrial DNA, Journal of Molecular Evolution, vol.275, issue.3, pp.160-174, 1985. ,
DOI : 10.1007/BF02101694
History, protohistory and prehistory of the Arabidopsis thaliana chromosome complement, Trends in Plant Science, vol.11, issue.6, pp.267-273, 2006. ,
DOI : 10.1016/j.tplants.2006.04.002
The effect of linkage on limits to artificial selection, Genetical Research, vol.18, issue.03, pp.269-294, 1966. ,
DOI : 10.2307/2405995
The Induction of Mitotic Recombination by Mitomycin C in Ustilago and Saccharomyces, Genetics, vol.50, pp.323-335, 1964. ,
Characterization of RAD51-Independent Break-Induced Replication That Acts Preferentially with Short Homologous Sequences, Molecular and Cellular Biology, vol.22, issue.18, pp.6384-6392, 2002. ,
DOI : 10.1128/MCB.22.18.6384-6392.2002
Hypervariable minisatellites: recombinators or innocent bystanders?, Trends in Genetics, vol.5, pp.367-371, 1989. ,
DOI : 10.1016/0168-9525(89)90171-6
Structure of Chromosomal Duplicons and their Role in Mediating Human Genomic Disorders, Genome Research, vol.10, issue.5, pp.597-610, 2000. ,
DOI : 10.1101/gr.10.5.597
Repbase Update: a database and an electronic journal of repetitive elements, Trends in Genetics, vol.16, issue.9, pp.418-420, 2000. ,
DOI : 10.1016/S0168-9525(00)02093-X
The Long Terminal Repeat of an Endogenous Retrovirus Induces Alternative Splicing and Encodes an Additional Carboxy-Terminal Sequence in the Human Leptin Receptor, Journal of Molecular Evolution, vol.48, issue.2, pp.248-251, 1999. ,
DOI : 10.1007/PL00013153
Rolling-circle transposons in eukaryotes, Proceedings of the National Academy of Sciences, vol.98, issue.15, pp.8714-8719, 2001. ,
DOI : 10.1073/pnas.151269298
Self-synthesizing DNA transposons in eukaryotes, Proceedings of the National Academy of Sciences, vol.103, issue.12, pp.4540-4545, 2006. ,
DOI : 10.1073/pnas.0600833103
Helitrons on a roll: eukaryotic rolling-circle transposons, Trends in Genetics, vol.23, issue.10, pp.521-529, 2007. ,
DOI : 10.1016/j.tig.2007.08.004
Dinucleotide relative abundance extremes: a genomic signature, Trends Genet, vol.11, pp.283-290, 1995. ,
Distribution of Induced Breaks along the X-Chromosome of Drosophila Melanogaster, Proceedings of the National Academy of Sciences, vol.25, issue.11, pp.571-577, 1939. ,
DOI : 10.1073/pnas.25.11.571
Stable DNA replication: interplay between DNA replication, homologous recombination, and transcription, Microbiol Mol Biol Rev, vol.61, pp.212-238, 1997. ,
Eucaryotic genome evolution through the spontaneous duplication of large chromosomal segments, The EMBO Journal, vol.23, issue.1, pp.234-243, 2004. ,
DOI : 10.1038/sj.emboj.7600024
The Maize Transposable Element Activator (Ac), Curr Top Microbiol Immunol, vol.204, pp.161-194, 1996. ,
DOI : 10.1007/978-3-642-79795-8_8
Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins, Nature, vol.410, issue.6824, pp.116-120, 2001. ,
DOI : 10.1038/35065132
Initial sequencing and analysis of the human genome, Nature, vol.6, issue.6822, pp.860-921, 2001. ,
DOI : 10.1038/35057062
Saccharomyces Ku70, Mre11/Rad50, and RPA Proteins Regulate Adaptation to G2/M Arrest after DNA Damage, Cell, vol.94, issue.3, pp.399-409, 1998. ,
DOI : 10.1016/S0092-8674(00)81482-8
Codon Usage and the Origin of P Elements, Molecular Biology and Evolution, vol.17, issue.3, pp.467-468, 2000. ,
DOI : 10.1093/oxfordjournals.molbev.a026326
URL : https://hal.archives-ouvertes.fr/hal-00427091
Human subtelomeres are hot spots of interchromosomal recombination and segmental duplication, Nature, vol.49, issue.7055, pp.94-100, 2005. ,
DOI : 10.1093/nar/gkg623
Role of transposable elements in heterochromatin and epigenetic control, Nature, vol.88, issue.6998, pp.471-476, 2004. ,
DOI : 10.1198/1085711031256
Refinement of a chimpanzee pericentric inversion breakpoint to a segmental duplication cluster, Genome Biology, vol.4, issue.8, p.50, 2003. ,
DOI : 10.1186/gb-2003-4-8-r50
Break-induced replication and telomerase-independent telomere maintenance require Pol32, Nature, vol.408, issue.7155, pp.820-823, 2007. ,
DOI : 10.1016/S1097-2765(03)00269-7
Rates of movement of transposable elements on the second chromosome of Drosophila melanogaster, Genetical Research, vol.75, issue.3, pp.275-284, 2000. ,
DOI : 10.1017/S0016672399004474
Rates of movement and distribution of transposable elements in Drosophila melanogaster: in situ hybridization vs Southern blotting data, Genetics Research, vol.78, issue.02, pp.121-136, 2001. ,
DOI : 10.1017/S0016672301005201
Expression and Organization of Histone Genes, Annual Review of Genetics, vol.17, issue.1, pp.239-277, 1983. ,
DOI : 10.1146/annurev.ge.17.120183.001323
The origin and behavior of mutable loci in maize, Proc Natl Acad Sci U S A, vol.36, pp.344-355, 1950. ,
CHROMOSOME MORPHOLOGY IN ZEA MAYS, Science, vol.69, issue.1798, p.629, 1929. ,
DOI : 10.1126/science.69.1798.629
Evidence for Multiple Cycles of Strand Invasion During Repair of Double-Strand Gaps in Drosophila, Genetics, vol.167, issue.2, pp.699-705, 2004. ,
DOI : 10.1534/genetics.103.025411
A test for the role of natural selection in the stabilization of transposable element copy number in a population of Drosophila melanogaster, Genetical Research, vol.45, issue.01, pp.31-41, 1987. ,
DOI : 10.1007/BF00330332
Break copy" duplication: a model for chromosome fragment formation in Saccharomyces cerevisiae, Genetics, vol.147, pp.371-382, 1997. ,
The Essential Role of Recombination in Phage T4 Growth, Annual Review of Genetics, vol.21, issue.1, pp.347-371, 1987. ,
DOI : 10.1146/annurev.ge.21.120187.002023
A Whole-Genome Assembly of Drosophila, Science, vol.287, issue.5461, pp.2196-2204, 2000. ,
DOI : 10.1126/science.287.5461.2196
Efficient copying of nonhomologous sequences from ectopic sites via P-element-induced gap repair., Molecular and Cellular Biology, vol.14, issue.3, pp.1613-1625, 1994. ,
DOI : 10.1128/MCB.14.3.1613
A general method applicable to the search for similarities in the amino acid sequence of two proteins, Journal of Molecular Biology, vol.48, issue.3, pp.443-453, 1970. ,
DOI : 10.1016/0022-2836(70)90057-4
Concerted and Birth-and-Death Evolution of Multigene Families, Annual Review of Genetics, vol.39, issue.1, pp.121-152, 2005. ,
DOI : 10.1146/annurev.genet.39.073003.112240
A genome-wide survey of structural variation between human and chimpanzee, Genome Research, vol.15, issue.10, pp.1344-1356, 2005. ,
DOI : 10.1101/gr.4338005
Structure, molecular evolution and maintenance of copy number of extended repeated structures in the X-heterochromatin of Drosophila melanogaster, Chromosoma, vol.42, issue.4, pp.277-285, 1994. ,
DOI : 10.1007/BF00352252
The genomic rate of transposable element movement in Drosophila melanogaster., Molecular Biology and Evolution, vol.12, issue.1, pp.180-181, 1995. ,
DOI : 10.1093/oxfordjournals.molbev.a040188
Accumulation of transposable elements in laboratory lines of Drosophila melanogaster, Genetica, vol.100, pp.167-175, 1997. ,
DOI : 10.1007/978-94-011-4898-6_17
Sure facts, speculations, and open questions about the evolution of transposable element copy number, Genetica, vol.107, pp.129-137, 1999. ,
DOI : 10.1007/978-94-011-4156-7_15
Mighty Piwis Defend the Germline against Genome Intruders, Cell, vol.129, issue.1, pp.37-44, 2007. ,
DOI : 10.1016/j.cell.2007.03.028
A unique pathway of double-strand break repair operates in tandemly repeated genes., Molecular and Cellular Biology, vol.11, issue.3, pp.1222-1231, 1991. ,
DOI : 10.1128/MCB.11.3.1222
Multiple pathways of recombination induced by double-strand breaks in Saccharomyces cerevisiae, Microbiol Mol Biol Rev, vol.63, pp.349-404, 1999. ,
Highly repeated DNA sequence limited to knob heterochromatin in maize, Proceedings of the National Academy of Sciences, vol.78, issue.7, pp.4490-4494, 1981. ,
DOI : 10.1073/pnas.78.7.4490
Insertion bias and purifying selection of retrotransposons in the Arabidopsis thaliana genome, Genome Biology, vol.5, issue.10, p.79, 2004. ,
DOI : 10.1186/gb-2004-5-10-r79
High intrinsic rate of DNA loss in Drosophila, Nature, vol.384, issue.6607, pp.346-349, 1996. ,
DOI : 10.1038/384346a0
Size Matters: Non-LTR Retrotransposable Elements and Ectopic Recombination in Drosophila, Molecular Biology and Evolution, vol.20, issue.6, pp.880-892, 2003. ,
DOI : 10.1093/molbev/msg102
Mechanisms of DNA double-strand break repair and their potential to induce chromosomal aberrations, Mutagenesis, vol.15, issue.4, pp.289-302, 2000. ,
DOI : 10.1093/mutage/15.4.289
Flanking duplications and deletions associated with P-induced male recombination in Drosophila, Genetics, vol.144, pp.1623-1638, 1996. ,
Detection of New Transposable Element Families in Drosophila melanogaster and Anopheles gambiae Genomes, Journal of Molecular Evolution, vol.57, issue.0, pp.50-59, 2003. ,
DOI : 10.1007/s00239-003-0007-2
Combined Evidence Annotation of Transposable Elements in Genome Sequences, PLoS Computational Biology, vol.16, issue.2, pp.166-175, 2005. ,
DOI : 1367-4803(2000)016[1040:MAPETR]2.0.CO;2
URL : https://hal.archives-ouvertes.fr/hal-00009013
Transposable element re-annotation of the Arabidopsis genome, 2008. ,
The sequencing of the rat genome, European Journal of Surgical Oncology, vol.30, issue.8, pp.905-906, 2004. ,
DOI : 10.1016/S0748-7983(04)00129-5
Tn5: A Molecular Window on Transposition, Biochemical and Biophysical Research Communications, vol.266, issue.3, pp.729-734, 1999. ,
DOI : 10.1006/bbrc.1999.1891
Histone Methyltransferases Direct Different Degrees of Methylation to Define Distinct Chromatin Domains, Molecular Cell, vol.12, issue.6, pp.1591-1598, 2003. ,
DOI : 10.1016/S1097-2765(03)00479-9
EMBOSS: The European Molecular Biology Open Software Suite, Trends in Genetics, vol.16, issue.6, pp.276-277, 2000. ,
DOI : 10.1016/S0168-9525(00)02024-2
Mini- and microsatellite expansions: the recombination connection, EMBO reports, vol.88, issue.2, pp.122-126, 2000. ,
DOI : 10.1093/embo-reports/kvd031
Double-strand break repair by interchromosomal recombination: suppression of chromosomal translocations, Genes & Development, vol.12, issue.24, pp.3831-3842, 1998. ,
DOI : 10.1101/gad.12.24.3831
DNA rearrangements associated with a transposable element in yeast, Cell, vol.21, issue.1, pp.239-249, 1980. ,
DOI : 10.1016/0092-8674(80)90131-2
The homologous chromosome is an effective template for the repair of mitotic DNA double-strand breaks in Drosophila, Genetics, vol.165, pp.1831-1842, 2003. ,
Abortive gap repair: underlying mechanism for Ds element formation., Molecular and Cellular Biology, vol.17, issue.11, pp.6294-6302, 1997. ,
DOI : 10.1128/MCB.17.11.6294
URL : http://www.ncbi.nlm.nih.gov/pmc/articles/PMC232480
A Brief History of Drosophila's Contributions to Genome Research, Science, vol.287, issue.5461, pp.2216-2218, 2000. ,
DOI : 10.1126/science.287.5461.2216
OPINIONSegmental duplications and the evolution of the primate genome, Nature Reviews Genetics, vol.3, issue.1, pp.65-72, 2002. ,
DOI : 10.1038/nrg705
Nested Retrotransposons in the Intergenic Regions of the Maize Genome, Science, vol.274, issue.5288, pp.765-768, 1996. ,
DOI : 10.1126/science.274.5288.765
The paleontology of intergene retrotransposons of maize, Nat Genet, vol.20, pp.43-45, 1998. ,
Shotgun sequence assembly and recent segmental duplications within the human genome, Nature, vol.428, issue.7011, pp.927-930, 2004. ,
DOI : 10.1126/science.1098918
Copies of a Stellate gene variant are located in the X heterochromatin of Drosophila melanogaster and are probably expressed, Genetics, vol.132, pp.1033-1037, 1992. ,
Evidence that mutation patterns vary among Drosophila transposable elements, Journal of Molecular Biology, vol.207, issue.4, pp.843-846, 1989. ,
DOI : 10.1016/0022-2836(89)90252-0
A Contiguous 66-kb Barley DNA Sequence Provides Evidence for Reversible Genome Expansion, Genome Research, vol.10, issue.7, pp.908-915, 2000. ,
DOI : 10.1101/gr.10.7.908
Genome architecture, rearrangements and genomic disorders, Trends in Genetics, vol.18, issue.2, pp.74-82, 2002. ,
DOI : 10.1016/S0168-9525(02)02592-1
Role of Saccharomyces cerevisiae Msh2 and Msh3 repair proteins in double-strand break-induced recombination, Proceedings of the National Academy of Sciences, vol.94, issue.17, pp.9214-9219, 1997. ,
DOI : 10.1073/pnas.94.17.9214
The fourth chromosome of Drosophila melanogaster: Interspersed euchromatic and heterochromatic domains, Proceedings of the National Academy of Sciences, vol.97, issue.10, pp.5340-5345, 2000. ,
DOI : 10.1073/pnas.090530797
Extensive 3???-overhanging, single-stranded DNA associated with the meiosis-specific double-strand breaks at the ARG4 recombination initiation site, Cell, vol.64, issue.6, pp.1155-1161, 1991. ,
DOI : 10.1016/0092-8674(91)90270-9
The double-strand-break repair model for recombination, Cell, vol.33, issue.1, pp.25-35, 1983. ,
DOI : 10.1016/0092-8674(83)90331-8
CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice, Nucleic Acids Research, vol.22, issue.22, pp.4673-4680, 1994. ,
DOI : 10.1093/nar/22.22.4673
Heterochromatic Stellate gene cluster in Drosophila melanogaster: structure and molecular evolution, Genetics, vol.146, pp.253-262, 1997. ,
The Sequence of the Human Genome, Science, vol.291, issue.5507, pp.1304-1351, 2001. ,
DOI : 10.1126/science.1058040
URL : https://hal.archives-ouvertes.fr/hal-00465088
Selfish DNA is maladaptive: evidence from the plant Red List, Trends in Genetics, vol.19, issue.11, pp.609-614, 2003. ,
DOI : 10.1016/j.tig.2003.09.010
Genome size and extinction risk in vertebrates, Proceedings of the Royal Society B: Biological Sciences, vol.271, issue.1549, pp.1701-1705, 2004. ,
DOI : 10.1098/rspb.2004.2776
The M26 hotspot of Schizosaccharomyces pombe stimulates meiotic ectopic recombination and chromosomal rearrangements, Genetics, vol.149, pp.1191-1204, 1998. ,
LTR retrotransposons in rice (Oryza sativa, L.): recent burst amplifications followed by rapid DNA loss, BMC Genomics, vol.8, issue.1, p.218, 2007. ,
DOI : 10.1186/1471-2164-8-218
Cloning and characterization of a dispersed, multicopy, X chromosome sequence in Drosophila melanogaster., Proceedings of the National Academy of Sciences, vol.84, issue.9, pp.2843-2847, 1987. ,
DOI : 10.1073/pnas.84.9.2843
Initial sequencing and comparative analysis of the mouse genome, Nature, vol.420, pp.520-562, 2002. ,
Human whole-genome shotgun sequencing, Genome Res, vol.7, pp.401-409, 1997. ,
Rapid Genome Divergence at Orthologous Low Molecular Weight Glutenin Loci of the A and Am Genomes of Wheat, THE PLANT CELL ONLINE, vol.15, issue.5, pp.1186-1197, 2003. ,
DOI : 10.1105/tpc.011023
A unified classification system for eukaryotic transposable elements, Nature Reviews Genetics, vol.8, issue.12, pp.973-982, 2007. ,
DOI : 10.1038/nrg2165
URL : https://hal.archives-ouvertes.fr/hal-00169819
Effects of recombination rate and gene density on transposable element distributions in Arabidopsis thaliana, Genome Res, vol.13, pp.1897-1903, 2003. ,
Transposition of the rice miniature inverted repeat transposable element mPing in Arabidopsis thaliana, Proceedings of the National Academy of Sciences, vol.104, issue.26, pp.10962-10967, 2007. ,
DOI : 10.1073/pnas.0702080104
PAML: a program package for phylogenetic analysis by maximum likelihood, Bioinformatics, vol.13, issue.5, pp.555-556, 1997. ,
DOI : 10.1093/bioinformatics/13.5.555
PAML 4: Phylogenetic Analysis by Maximum Likelihood, Molecular Biology and Evolution, vol.24, issue.8, pp.1586-1591, 2007. ,
DOI : 10.1093/molbev/msm088
URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.322.1650