A. Les-lignes-nommées and I. Couverture, représentent la couverture des lectures d'ADN des ChIP-séq de Lsd1, en bleu, de Lsd2, en vert

L. Aguilar-arnal, F. Marsellach, and F. Azorín, The fission yeast homologue of CENP-B, Abp1, regulates directionality of mating-type switching, The EMBO Journal, vol.20, issue.7, pp.1029-1038, 2008.
DOI : 10.1038/emboj.2008.53

B. Arcangioli, A site- and strand-specific DNA break confers asymmetric switching potential in fission yeast, The EMBO Journal, vol.17, issue.15, pp.4503-4510, 1998.
DOI : 10.1093/emboj/17.15.4503

B. Arcangioli and R. De-lahondès, Fission yeast switches mating type by a replication-recombination coupled process, The EMBO Journal, vol.19, issue.6, pp.1389-1396, 2000.
DOI : 10.1093/emboj/19.6.1389
URL : http://emboj.embopress.org/content/embojnl/19/6/1389.full.pdf

B. Arcangioli and A. J. Klar, A novel switch-activating site (SAS1) and its cognate binding factor (SAP1) required for efficient mat1 switching in Schizosaccharomyces pombe, Embo J, vol.10, pp.3025-3032, 1991.

B. Arcangioli and G. Thon, Mating-Type Cassettes: Structure, Switching and Silencing, The Molecular Biology of Schizosaccharomyces Pombe, pp.129-147, 2004.
DOI : 10.1007/978-3-662-10360-9_9

B. Arcangioli, T. D. Copeland, and A. J. Klar, Sap1, a protein that binds to sequences required for mating-type switching, is essential for viability in Schizosaccharomyces pombe., Molecular and Cellular Biology, vol.14, issue.3, pp.2058-2065, 1994.
DOI : 10.1128/MCB.14.3.2058

D. W. Barnett, E. K. Garrison, A. R. Quinlan, M. P. Stroemberg, M. et al., BamTools: a C++ API and toolkit for analyzing and managing BAM files, Bioinformatics, vol.27, issue.12, pp.1691-1692, 2011.
DOI : 10.1093/bioinformatics/btr174
URL : https://academic.oup.com/bioinformatics/article-pdf/27/12/1691/709404/btr174.pdf

D. H. Beach, Cell type switching by DNA transposition in fission yeast, Nature, vol.256, issue.5936, pp.682-688, 1983.
DOI : 10.1128/MCB.2.2.106

D. Beach, P. Nurse, and R. Egel, Molecular rearrangement of mating-type genes in fission yeast, Nature, vol.98, issue.5858, pp.682-683, 1982.
DOI : 10.1101/SQB.1981.045.01.116

B. J. Brewer and W. L. Fangman, A replication fork barrier at the 3??? end of yeast ribosomal RNA genes, Cell, vol.55, issue.4, pp.637-643, 1988.
DOI : 10.1016/0092-8674(88)90222-X

J. Z. Dalgaard and A. J. Klar, swi1 and swi3 Perform Imprinting, Pausing, and Termination of DNA Replication in S. pombe, Cell, vol.102, issue.6, pp.745-751, 2000.
DOI : 10.1016/S0092-8674(00)00063-5

J. Z. Dalgaard and A. J. Klar, Does S. pombe exploit the intrinsic asymmetry of DNA synthesis to imprint daughter cells for mating-type switching? Trends Genet, pp.153-157, 2001.

R. De-lahondès, V. Ribes, and B. Arcangioli, Fission Yeast Sap1 Protein Is Essential for Chromosome Stability, Eukaryotic Cell, vol.2, issue.5, pp.910-921, 2003.
DOI : 10.1128/EC.2.5.910-921.2003

R. Egel, Two tightly linked silent cassettes in the mating-type region of Schizosaccharomyces pombe, Current Genetics, vol.24, issue.3, 1984.
DOI : 10.1007/BF00417816

R. Egel and B. Eie, Cell lineage asymmetry in Schizosaccharomyces pombe: unilateral transmission of a high-frequency state for mating-type switching in diploid pedigrees, Current Genetics, vol.4, issue.6, pp.429-433, 1987.
DOI : 10.1007/BF00434820

R. Egel and H. Gutz, Gene activation by copy transposition in mating-type switching of a homothallic fission yeast, Current Genetics, vol.283, issue.1, pp.5-12, 1981.
DOI : 10.1101/SQB.1958.023.01.020

O. Fleck, C. Rudolph, A. Albrecht, A. Lorentz, P. Schar et al., The mutator gene swi8 effects specific mutations in the mating-type region of Schizosaccharomyces pombe, Genetics, vol.138, pp.621-632, 1994.

M. Gordon, D. G. Holt, A. Panigrahi, B. T. Wilhelm, H. Erdjument-bromage et al., Genome-Wide Dynamics of SAPHIRE, an Essential Complex for Gene Activation and Chromatin Boundaries, Molecular and Cellular Biology, vol.27, issue.11, pp.4058-4069, 2007.
DOI : 10.1128/MCB.02044-06

S. I. Grewal, Transcriptional silencing in fission yeast, Journal of Cellular Physiology, vol.13, issue.3, pp.311-318, 2000.
DOI : 10.1091/mbc.3.7.819

M. Hakimi, D. A. Bochar, J. Chenoweth, W. S. Lane, G. Mandel et al., A core-BRAF35 complex containing histone deacetylase mediates repression of neuronal-specific genes, Proc. Natl. Acad. Sci, 2002.
DOI : 10.1101/gad.7.8.1521

A. M. Holmes, A. Kaykov, and B. Arcangioli, Molecular and Cellular Dissection of Mating-Type Switching Steps in Schizosaccharomyces pombe, Molecular and Cellular Biology, vol.25, issue.1, pp.303-311, 2005.
DOI : 10.1128/MCB.25.1.303-311.2005

A. M. Holmes, L. Roseaulin, C. Schurra, H. Waxin, S. Lambert et al., Lsd1 and Lsd2 Control Programmed Replication Fork Pauses and Imprinting in Fission Yeast, Cell Reports, vol.2, issue.6, pp.1513-1520, 2012.
DOI : 10.1016/j.celrep.2012.10.011
URL : https://doi.org/10.1016/j.celrep.2012.10.011

A. Kaykov and B. Arcangioli, A Programmed Strand-Specific and Modified Nick in S. pombe Constitutes a Novel Type of Chromosomal Imprint, Current Biology, vol.14, issue.21, pp.1924-1928, 2004.
DOI : 10.1016/j.cub.2004.10.026

A. Kaykov, A. M. Holmes, and B. Arcangioli, Formation, maintenance and consequences of the imprint at the mating-type locus in fission yeast, The EMBO Journal, vol.23, issue.4, pp.930-938, 2004.
DOI : 10.1038/sj.emboj.7600099

M. Kelly, J. Burke, M. Smith, A. Klar, and D. Beach, Four mating-type genes control sexual differentiation in the fission yeast, Embo J, vol.7, pp.1537-1547, 1988.

A. J. Klar, K. Ishikawa, M. , and S. , A Unique DNA Recombination Mechanism of the Mating/Celltype Switching of Fission Yeasts: a Review, Microbiol Spectr, vol.2, 2014.

G. Krings and D. Bastia, and Causes Polar Replication Fork Arrest, Journal of Biological Chemistry, vol.15, issue.47, pp.39135-39142, 2005.
DOI : 10.1038/nature01697

F. Lan, M. Zaratiegui, J. Villén, M. W. Vaughn, A. Verdel et al., S. pombe LSD1 Homologs Regulate Heterochromatin Propagation and Euchromatic Gene Transcription, Molecular Cell, vol.26, issue.1, pp.89-101, 2007.
DOI : 10.1016/j.molcel.2007.02.023
URL : https://hal.archives-ouvertes.fr/in2p3-00000365

S. G. Landt, G. K. Marinov, A. Kundaje, P. Kheradpour, F. Pauli et al., ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia, Genome Research, vol.22, issue.9, pp.1813-1831, 2012.
DOI : 10.1101/gr.136184.111

B. Langmead, C. Trapnell, M. Pop, and S. L. Salzberg, Ultrafast and memory-efficient alignment of short DNA sequences to the human genome, Genome Biology, vol.10, issue.3, p.25, 2009.
DOI : 10.1186/gb-2009-10-3-r25

F. Li, M. Huarte, M. Zaratiegui, M. W. Vaughn, Y. Shi et al., Lid2 Is Required for Coordinating H3K4 and H3K9 Methylation of Heterochromatin and Euchromatin, Cell, vol.135, issue.2, pp.272-283, 2008.
DOI : 10.1016/j.cell.2008.08.036

H. Li and R. Durbin, Fast and accurate short read alignment with Burrows-Wheeler transform, Bioinformatics, vol.25, issue.14, pp.1754-1760, 2009.
DOI : 10.1093/bioinformatics/btp324
URL : https://academic.oup.com/bioinformatics/article-pdf/25/14/1754/605544/btp324.pdf

S. Marguerat, A. Schmidt, S. Codlin, W. Chen, R. Aebersold et al., Quantitative Analysis of Fission Yeast Transcriptomes and Proteomes in Proliferating and Quiescent Cells, Cell, vol.151, issue.3, pp.671-683, 2012.
DOI : 10.1016/j.cell.2012.09.019

E. Matsuda, R. Sugioka-sugiyama, T. Mizuguchi, S. Mehta, B. Cui et al., A homolog of male sex-determining factor SRY cooperates with a transposon-derived CENP-B protein to control sex-specific directed recombination, Proceedings of the National Academy of Sciences, vol.297, issue.5590, pp.18754-18759, 2011.
DOI : 10.1126/science.1076466

K. Meier and A. Brehm, Chromatin regulation: How complex does it get?, Epigenetics, vol.21, issue.11, pp.1485-1495, 2014.
DOI : 10.1101/gad.1255204
URL : http://www.tandfonline.com/doi/pdf/10.4161/15592294.2014.971580?needAccess=true

E. Mejia-ramirez, A. Sanchez-gorostiaga, D. B. Krimer, J. B. Schvartzman, and P. Hernandez, The Mating Type Switch-Activating Protein Sap1 Is Required for Replication Fork Arrest at the rRNA Genes of Fission Yeast, Molecular and Cellular Biology, vol.25, issue.19, pp.8755-8761, 2005.
DOI : 10.1128/MCB.25.19.8755-8761.2005

E. Metzger, M. Wissmann, N. Yin, J. M. Müller, R. Schneider et al., LSD1 demethylates repressive histone marks to promote androgen-receptor-dependent transcription, Nature, vol.223, issue.7057, pp.436-439, 2005.
DOI : 10.1016/0022-2836(92)90716-W

H. Miyata and M. Miyata, Mode of conjugation in homothallic cells of Schizosaccharomyces pombe., The Journal of General and Applied Microbiology, vol.27, issue.5, 1981.
DOI : 10.2323/jgam.27.365

S. Moreno, A. Klar, and P. Nurse, [56] Molecular genetic analysis of fission yeast Schizosaccharomyces pombe, Molecular Biology of the Fission Yeast S. Pombe, pp.795-823, 1991.
DOI : 10.1016/0076-6879(91)94059-L

T. B. Nicholson, C. , and T. , LSD1 demethylates histone and non-histone proteins, Epigenetics, vol.4, issue.3, pp.129-132, 2009.
DOI : 10.4161/epi.4.3.8443
URL : http://www.tandfonline.com/doi/pdf/10.4161/epi.4.3.8443?needAccess=true

E. Nicolas, M. G. Lee, M. Hakimi, H. P. Cam, S. I. Grewal et al., Fission Yeast Homologs of Human Histone H3 Lysine 4 Demethylase Regulate a Common Set of Genes with Diverse Functions, Journal of Biological Chemistry, vol.14, issue.47, 2006.
DOI : 10.1016/j.bbrc.2004.07.163
URL : https://hal.archives-ouvertes.fr/hal-00171620

O. Nielsen and R. Egel, Mapping the double-strand breaks at the mating-type locus in fission yeast by genomic sequencing, Embo J, vol.8, pp.269-276, 1989.

E. Noguchi, C. Noguchi, W. H. Mcdonald, J. R. Yates, R. et al., Swi1 and Swi3 Are Components of a Replication Fork Protection Complex in Fission Yeast, Molecular and Cellular Biology, vol.24, issue.19, pp.8342-8355, 2004.
DOI : 10.1128/MCB.24.19.8342-8355.2004

K. Noma, A. , C. D. Grewal, and S. I. , Transitions in Distinct Histone H3 Methylation Patterns at the Heterochromatin Domain Boundaries, Science, vol.293, issue.5532, pp.1150-1155, 2001.
DOI : 10.1126/science.1064150

K. Noma, H. P. Cam, R. J. Maraia, and S. I. Grewal, A Role for TFIIIC Transcription Factor Complex in Genome Organization, Cell, vol.125, issue.5, pp.859-872, 2006.
DOI : 10.1016/j.cell.2006.04.028

M. Opel, D. Lando, C. Bonilla, S. C. Trewick, A. Boukaba et al., Genome-Wide Studies of Histone Demethylation Catalysed by the Fission Yeast Homologues of Mammalian LSD1, PLoS ONE, vol.83, issue.4, p.386, 2007.
DOI : 10.1371/journal.pone.0000386.s003

A. Pohl and M. Beato, bwtool: a tool for bigWig files, Bioinformatics, vol.30, issue.11, pp.1618-1619, 2014.
DOI : 10.1093/bioinformatics/btu056
URL : https://academic.oup.com/bioinformatics/article-pdf/30/11/1618/17141666/btu056.pdf

A. R. Quinlan and I. M. Hall, BEDTools: a flexible suite of utilities for comparing genomic features, Bioinformatics, vol.26, issue.6, pp.841-842, 2010.
DOI : 10.1093/bioinformatics/btq033

L. Roseaulin, Y. Yamada, Y. Tsutsui, P. Russell, H. Iwasaki et al., Mus81 is essential for sister chromatid recombination at broken replication forks, The EMBO Journal, vol.300, issue.9, pp.1378-1387, 2008.
DOI : 10.1128/MCB.19.10.7228
URL : http://embojnl.embopress.org/content/embojnl/27/9/1378.full.pdf

S. Sayrac, S. Vengrova, E. L. Godfrey, and D. , Identification of a Novel Type of Spacer Element Required for Imprinting in Fission Yeast, PLoS Genetics, vol.8, issue.3, 2011.
DOI : 10.1371/journal.pgen.1001328.g010

Y. Shi, F. Lan, C. Matson, P. Mulligan, J. R. Whetstine et al., Histone Demethylation Mediated by the Nuclear Amine Oxidase Homolog LSD1, Cell, vol.119, issue.7, pp.941-953, 2004.
DOI : 10.1016/j.cell.2004.12.012

G. Thon and J. Verhein-hansen, Four chromo-domain proteins of Schizosaccharomyces pombe differentially repress transcription at various chromosomal locations, Genetics, vol.155, pp.551-568, 2000.

G. Thon, P. Bjerling, C. M. Bünner, and J. Verhein-hansen, Expression-state boundaries in the matingtype region of fission yeast, Genetics, vol.161, pp.611-622, 2002.

S. Vengrova and J. Z. Dalgaard, RNase-sensitive DNA modification(s) initiates S. pombe mating-type switching, Genes & Development, vol.18, issue.7, pp.794-804, 2004.
DOI : 10.1101/gad.289404
URL : http://genesdev.cshlp.org/content/18/7/794.full.pdf

S. Vengrova and J. Z. Dalgaard, The wild-type Schizosaccharomyces pombe mat1 imprint consists of two ribonucleotides, EMBO reports, vol.9, issue.1, pp.59-65, 2006.
DOI : 10.1101/gad.289404

C. Yu, M. J. Bonaduce, and A. J. Klar, Going in the Right Direction: Mating-Type Switching of Schizosaccharomyces pombe Is Controlled by Judicious Expression of Two Different swi2 Transcripts, Genetics, vol.190, issue.3, pp.977-987, 2012.
DOI : 10.1534/genetics.111.137109

Y. Zhang, T. Liu, C. A. Meyer, J. Eeckhoute, D. S. Johnson et al., Model-based Analysis of ChIP-Seq (MACS), Genome Biology, vol.9, issue.9, 2008.
DOI : 10.1186/gb-2008-9-9-r137

. La-présence-de-mcyu, De plus, l'expression de la protéine Mc permet l'étalement du complexe Swi2-Swi5 jusqu'à mat2P Ces observations suggèrent qu'il y a un effet coopératif entre Abp1 et Mc. La présence des deux protéines est nécessaire pour leur recrutement respectif au niveau du gène swi2. De façon intéressante, il a été montré que généralement, p.1, 2008.

L. Aguilar-arnal, F. X. Marsellach, and F. Azorin, The fission yeast homologue of CENP-B, Abp1, regulates directionality of mating-type switching, The EMBO Journal, vol.20, issue.7, pp.1029-1038, 2008.
DOI : 10.1038/emboj.2008.53

J. S. Ahn, F. Osman, W. , and M. C. , Replication fork blockage by RTS1 at an ectopic site promotes recombination in fission yeast, The EMBO Journal, vol.426, issue.11, pp.2011-2023, 2005.
DOI : 10.1016/j.mrfmmm.2003.08.015

Y. Akamatsu, Y. Tsutsui, T. Morishita, M. S. Siddique, Y. Kurokawa et al., Fission yeast Swi5/Sfr1 and Rhp55/Rhp57 differentially regulate Rhp51-dependent recombination outcomes, The EMBO Journal, vol.426, issue.5, pp.1352-1362, 2007.
DOI : 10.1016/0168-9525(92)90235-V
URL : http://emboj.embopress.org/content/embojnl/26/5/1352.full.pdf

J. Alfredsson-timmins, F. Henningson, and P. Bjerling, The Clr4 methyltransferase determines the subnuclear localization of the mating-type region in fission yeast, Journal of Cell Science, vol.120, issue.11, pp.1935-1943, 2007.
DOI : 10.1242/jcs.03457

R. C. Allshire and K. Ekwall, Epigenetic Regulation of Chromatin States in Schizosaccharomyces pombe, Cold Spring Harb Perspect Biol, vol.7, 2015.

A. Alzu, R. Bermejo, M. Begnis, C. Lucca, D. Piccini et al., Senataxin Associates with Replication Forks to Protect Fork Integrity across RNA-Polymerase-II-Transcribed Genes, Cell, vol.151, issue.4, pp.835-846, 2012.
DOI : 10.1016/j.cell.2012.09.041

B. Arcangioli, A site- and strand-specific DNA break confers asymmetric switching potential in fission yeast, The EMBO Journal, vol.17, issue.15, pp.4503-4510, 1998.
DOI : 10.1093/emboj/17.15.4503

B. Arcangioli, DNA strands during mating-type switching in fission yeast, EMBO reports, vol.23, issue.2, pp.145-150, 2000.
DOI : 10.1007/BF00352020

B. Arcangioli and R. De-lahondes, Fission yeast switches mating type by a replication-recombination coupled process, The EMBO Journal, vol.19, issue.6, pp.1389-1396, 2000.
DOI : 10.1093/emboj/19.6.1389
URL : http://emboj.embopress.org/content/embojnl/19/6/1389.full.pdf

B. Arcangioli and B. Lescure, Identification of proteins involved in the regulation of yeast iso-1- cytochrome C expression by oxygen, EMBO J, vol.4, pp.2627-2633, 1985.

N. Ayoub, I. Goldshmidt, R. Lyakhovetsky, and A. Cohen, A fission yeast repression element cooperates with centromere-like sequences and defines a mat silent domain boundary, Genetics, vol.156, pp.983-994, 2000.

A. Azvolinsky, P. G. Giresi, J. D. Lieb, and V. A. Zakian, Highly Transcribed RNA Polymerase II Genes Are Impediments to Replication Fork Progression in Saccharomyces cerevisiae, Molecular Cell, vol.34, issue.6, pp.722-734, 2009.
DOI : 10.1016/j.molcel.2009.05.022

A. J. Bannister, P. Zegerman, J. F. Partridge, E. A. Miska, J. O. Thomas et al., Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain, Nature, vol.76, issue.6824, pp.120-124, 2001.
DOI : 10.1016/0092-8674(94)90180-5

M. Baum, C. , and L. , Fission Yeast Homologs of Human CENP-B Have Redundant Functions Affecting Cell Growth and Chromosome Segregation, Molecular and Cellular Biology, vol.20, issue.8, pp.2852-2864, 2000.
DOI : 10.1128/MCB.20.8.2852-2864.2000

D. Beach, Cell type switching by DNA transposition in fission yeast, Nature, vol.256, issue.5936, pp.682-688, 1983.
DOI : 10.1128/MCB.2.2.106

D. Beach, P. Nurse, and R. Egel, Molecular rearrangement of mating-type genes in fission yeast, Nature, vol.98, issue.5858, pp.682-683, 1982.
DOI : 10.1101/SQB.1981.045.01.116

D. H. Beach and A. J. Klar, Rearrangements of the transposable mating-type cassettes of fission yeast, 1984.

R. Bermejo, M. S. Lai, and M. Foiani, Preventing Replication Stress to Maintain Genome Stability: Resolving Conflicts between Replication and Transcription, Molecular Cell, vol.45, issue.6, pp.710-718, 2012.
DOI : 10.1016/j.molcel.2012.03.001
URL : https://doi.org/10.1016/j.molcel.2012.03.001

M. Berti and A. Vindigni, Replication stress: getting back on track, Nature Structural & Molecular Biology, vol.2, issue.2, pp.103-109, 2016.
DOI : 10.1126/science.1225437
URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5125612/pdf

A. Bird, Perceptions of epigenetics, Nature, vol.93, issue.7143, pp.396-398, 2007.
DOI : 10.1128/MCB.6.8.2944

C. E. Birse, B. A. Lee, K. Hansen, and N. J. Proudfoot, Transcriptional termination signals for RNA polymerase II in fission yeast, The EMBO Journal, vol.16, issue.12, pp.3633-3643, 1997.
DOI : 10.1093/emboj/16.12.3633

P. Bjerling, R. A. Silverstein, G. Thon, A. Caudy, S. Grewal et al., Functional Divergence between Histone Deacetylases in Fission Yeast by Distinct Cellular Localization and In Vivo Specificity, Molecular and Cellular Biology, vol.22, issue.7, pp.2170-2181, 2002.
DOI : 10.1128/MCB.22.7.2170-2181.2002

N. J. Bowen, I. K. Jordan, J. A. Epstein, V. Wood, L. et al., Retrotransposons and Their Recognition of pol II Promoters: A Comprehensive Survey of the Transposable Elements From the Complete Genome Sequence of Schizosaccharomyces pombe, Genome Research, vol.13, issue.9, 1984.
DOI : 10.1101/gr.1191603

B. J. Brewer, When polymerases collide: Replication and the transcriptional organization of the E. coli chromosome, Cell, vol.53, issue.5, pp.679-686, 1988.
DOI : 10.1016/0092-8674(88)90086-4

B. J. Brewer and W. L. Fangman, The localization of replication origins on ARS plasmids in S. cerevisiae, Cell, vol.51, issue.3, pp.463-471, 1987.
DOI : 10.1016/0092-8674(87)90642-8

B. J. Brewer and W. L. Fangman, A replication fork barrier at the 3??? end of yeast ribosomal RNA genes, Cell, vol.55, issue.4, pp.637-643, 1988.
DOI : 10.1016/0092-8674(88)90222-X

H. P. Cam, K. Noma, H. Ebina, H. L. Levin, and S. I. Grewal, Host genome surveillance for retrotransposons by transposon-derived proteins, Nature, vol.136, issue.7177, pp.431-436, 2008.
DOI : 10.1128/MCB.15.6.3310
URL : http://www.nature.com/nature/journal/v451/n7177/pdf/nature06499.pdf

H. P. Cam, T. Sugiyama, E. S. Chen, X. Chen, P. C. Fitzgerald et al., Comprehensive analysis of heterochromatin- and RNAi-mediated epigenetic control of the fission yeast genome, Nature Genetics, vol.15, issue.8, pp.809-819, 2005.
DOI : 10.1038/ng1602

S. E. Castel, J. Ren, S. Bhattacharjee, A. Y. Chang, M. Sanchez et al., Dicer Promotes Transcription Termination at Sites of Replication Stress to Maintain Genome Stability, Cell, vol.159, issue.3, pp.572-583, 2014.
DOI : 10.1016/j.cell.2014.09.031

G. M. Church, G. , and W. , The genomic sequencing technique, Prog Clin Biol Res, vol.177, pp.17-21, 1985.

D. N. Ciccone, H. Su, S. Hevi, F. Gay, H. Lei et al., KDM1B is a histone H3K4 demethylase required to establish maternal genomic imprints, Nature, vol.23, issue.7262, pp.415-418, 2009.
DOI : 10.1038/nature08315

J. P. Cooper, E. R. Nimmo, R. C. Allshire, and T. R. Cech, Regulation of telomere length and function by a Myb-domain protein in fission yeast, Nature, vol.385, issue.6618, pp.744-747, 1997.
DOI : 10.1038/385744a0

J. Z. Dalgaard and A. J. Klar, Orientation of DNA replication establishes mating-type switching pattern in S. pombe, Nature, vol.400, pp.181-184, 1999.

J. Z. Dalgaard and A. J. Klar, swi1 and swi3 Perform Imprinting, Pausing, and Termination of DNA Replication in S. pombe, Cell, vol.102, issue.6, pp.745-751, 2000.
DOI : 10.1016/S0092-8674(00)00063-5

J. Z. Dalgaard and A. J. Klar, A DNA replication-arrest site RTS1 regulates imprinting by determining the direction of replication at mat1 in S. pombe, Genes & Development, vol.15, issue.16, pp.2060-2068, 2001.
DOI : 10.1101/gad.200801

A. Daulny, E. Mejia-ramirez, O. Reina, J. Rosado-lugo, L. Aguilar-arnal et al., The fission yeast CENP-B protein Abp1 prevents pervasive transcription of repetitive DNA elements, Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, vol.1859, issue.10, pp.1314-1321, 2016.
DOI : 10.1016/j.bbagrm.2016.06.009

E. De-castro, I. Soriano, L. Marin, R. Serrano, L. Quintales et al., Nucleosomal organization of replication origins and meiotic recombination hotspots in fission yeast, The EMBO Journal, vol.140, issue.1, pp.124-137, 2012.
DOI : 10.1016/S1097-2765(02)00452-5

A. M. Deshpande and C. S. Newlon, DNA Replication Fork Pause Sites Dependent on Transcription, Science, vol.272, issue.5264, pp.1030-1033, 1996.
DOI : 10.1126/science.272.5264.1030

D. Dutta, K. Shatalin, V. Epshtein, M. E. Gottesman, and E. Nudler, Linking RNA Polymerase Backtracking to Genome Instability in E.??coli, Cell, vol.146, issue.4, pp.533-543, 2011.
DOI : 10.1016/j.cell.2011.07.034

A. Ebrahimi, M. Habibi-khorassani, F. B. Akher, A. Farrokhzadeh, and P. Karimi, Caffeine as base analogue of adenine or guanine: A theoretical study, Journal of Molecular Graphics and Modelling, vol.42, pp.81-91, 2013.
DOI : 10.1016/j.jmgm.2013.02.012

R. Egel, The pedigree pattern of mating-type switching in Schizosaccharomyces pombe, Current Genetics, vol.17, issue.3, pp.205-210, 1984.
DOI : 10.1007/BF00417817

R. Egel, Two tightly linked silent cassettes in the mating-type region of Schizosaccharomyces pombe, Current Genetics, vol.24, issue.3, 1984.
DOI : 10.1007/BF00417816

R. Egel, D. H. Beach, and A. J. Klar, Genes required for initiation and resolution steps of mating-type switching in fission yeast., Proceedings of the National Academy of Sciences, vol.81, issue.11, pp.3481-3485, 1984.
DOI : 10.1073/pnas.81.11.3481

J. C. Eissenberg and S. C. Elgin, The HP1 protein family: getting a grip on chromatin, Current Opinion in Genetics & Development, vol.10, issue.2, pp.204-210, 2000.
DOI : 10.1016/S0959-437X(00)00058-7

K. Ekwall, O. Nielsen, R. , and T. , Repression of a mating type cassette in the fission yeast by four DNA elements, Yeast, vol.2, issue.7, pp.745-755, 1991.
DOI : 10.1016/B978-0-12-514085-0.50017-8

K. Ekwall, E. R. Nimmo, J. P. Javerzat, B. Borgstrom, R. Egel et al., Mutations in the fission yeast silencing factors clr4+ and rik1+ disrupt the localisation of the chromo domain protein Swi6p and impair centromere function, J Cell Sci, vol.109, pp.2637-2648, 1996.

K. Ekwall, R. , and T. , Mutations in rik1, clr2, clr3 and clr4 genes asymmetrically derepress the silent mating-type loci in fission yeast, Genetics, vol.136, pp.53-64, 1994.

U. Engelke, L. Grabowski, H. Gutz, H. Heim, and H. Schmidt, Molecular characterization of h ? mutants of Schizosaccharomyces pombe, Current Genetics, vol.31, issue.7, 1987.
DOI : 10.1007/BF00419563

T. Eydmann, E. Sommariva, T. Inagawa, S. Mian, A. J. Klar et al., Rtf1-Mediated Eukaryotic Site-Specific Replication Termination, Genetics, vol.180, issue.1, pp.27-39, 2008.
DOI : 10.1534/genetics.108.089243
URL : http://www.genetics.org/content/genetics/180/1/27.full.pdf

D. Fachinetti, H. D. Folco, Y. Nechemia-arbely, L. P. Valente, K. Nguyen et al., A two-step mechanism for epigenetic specification of centromere identity and function, Nature Cell Biology, vol.116, issue.9, pp.1056-1066, 2013.
DOI : 10.1126/science.1150944

D. Fachinetti, J. S. Han, M. A. Mcmahon, P. Ly, A. Abdullah et al., DNA Sequence-Specific Binding of CENP-B Enhances the Fidelity of Human Centromere Function, Developmental Cell, vol.33, issue.3, pp.314-327, 2015.
DOI : 10.1016/j.devcel.2015.03.020

H. Funabiki, I. Hagan, S. Uzawa, and M. Yanagida, Cell cycle-dependent specific positioning and clustering of centromeres and telomeres in fission yeast, The Journal of Cell Biology, vol.121, issue.5, pp.961-976, 1993.
DOI : 10.1083/jcb.121.5.961

S. I. Grewal, Transcriptional silencing in fission yeast, Journal of Cellular Physiology, vol.13, issue.3, pp.311-318, 2000.
DOI : 10.1091/mbc.3.7.819

S. I. Grewal and S. C. Elgin, Heterochromatin: new possibilities for the inheritance of structure, Current Opinion in Genetics & Development, vol.12, issue.2, pp.178-187, 2002.
DOI : 10.1016/S0959-437X(02)00284-8

S. I. Grewal and A. J. Klar, Chromosomal Inheritance of Epigenetic States in Fission Yeast During Mitosis and Meiosis, Cell, vol.86, issue.1, pp.95-101, 1996.
DOI : 10.1016/S0092-8674(00)80080-X

S. I. Grewal and A. J. Klar, A recombinationally repressed region between mat2 and mat3 loci shares homology to centromeric repeats and regulates directionality of mating-type switching in fission yeast, Genetics, vol.146, pp.1221-1238, 1997.

I. M. Hall, G. D. Shankaranarayana, K. Noma, N. Ayoub, A. Cohen et al., Establishment and Maintenance of a Heterochromatin Domain, Science, vol.297, issue.5590, pp.2232-2237, 2002.
DOI : 10.1126/science.1076466

K. Hanada, M. Budzowska, S. L. Davies, E. Van-drunen, H. Onizawa et al., The structure-specific endonuclease Mus81 contributes to replication restart by generating double-strand DNA breaks, Nature Structural & Molecular Biology, vol.574, issue.11, pp.1096-1104, 2007.
DOI : 10.1128/MCB.24.13.5776-5787.2004

B. P. Hennig, K. Bendrin, Y. Zhou, and T. Fischer, Chd1 chromatin remodelers maintain nucleosome organization and repress cryptic transcription, EMBO reports, vol.3, issue.11, pp.997-1003, 2012.
DOI : 10.1038/nsmb.1741
URL : http://embor.embopress.org/content/embor/13/11/997.full.pdf

A. Hickey, C. Esnault, A. Majumdar, A. G. Chatterjee, J. R. Iben et al., Single-Nucleotide-Specific Targeting of the Tf1 Retrotransposon Promoted by the DNA-Binding Protein Sap1 of Schizosaccharomyces pombe, Genetics, vol.201, issue.3, pp.905-924, 2015.
DOI : 10.1534/genetics.115.181602

A. Holmes, L. Roseaulin, C. Schurra, H. Waxin, S. Lambert et al., Lsd1 and Lsd2 Control Programmed Replication Fork Pauses and Imprinting in Fission Yeast, Cell Reports, vol.2, issue.6, pp.1513-1520, 2012.
DOI : 10.1016/j.celrep.2012.10.011

J. T. Irelan, G. I. Gutkin, C. , and L. , Functional redundancies, distinct localizations and interactions among three fission yeast homologs of centromere protein-B, Genetics, vol.157, pp.1191-1203, 2001.

A. Irmisch, E. Ampatzidou, K. Mizuno, M. J. O-'connell, M. et al., Smc5/6 maintains stalled replication forks in a recombination-competent conformation, The EMBO Journal, vol.10, issue.2, pp.144-155, 2009.
DOI : 10.1091/mbc.10.9.2905

A. V. Ivanova, M. J. Bonaduce, S. V. Ivanov, and A. J. Klar, The chromo and SET domains of the Clr4 protein are essential for silencing in fission yeast, Nature Genetics, vol.215, issue.2, pp.192-195, 1998.
DOI : 10.1016/0378-1119(89)90358-2

O. Iwasaki, A. Tanaka, H. Tanizawa, S. I. Grewal, N. et al., Centromeric Localization of Dispersed Pol III Genes in Fission Yeast, Molecular Biology of the Cell, vol.21, issue.2, pp.254-265, 2010.
DOI : 10.1091/mbc.E09-09-0790

M. G. Izban and D. S. Luse, The RNA polymerase II ternary complex cleaves the nascent transcript in a 3'----5' direction in the presence of elongation factor SII., Genes & Development, vol.6, issue.7, pp.1342-1356, 1992.
DOI : 10.1101/gad.6.7.1342

V. Jackson, C. , and R. , A new method for the isolation of replicative chromatin: Selective deposition of histone on both new and old DNA, Cell, vol.23, issue.1, pp.121-134, 1981.
DOI : 10.1016/0092-8674(81)90277-4

V. Jackson, C. , and R. , Histone segregation of replicating chromatin, Biochemistry, vol.24, issue.24, pp.6930-6938, 1985.
DOI : 10.1021/bi00345a027

T. Jakociunas, D. Jordo, M. , A. Mebarek, M. Bunner et al., Subnuclear relocalization and silencing of a chromosomal region by an ectopic ribosomal DNA repeat, Proceedings of the National Academy of Sciences, vol.19, issue.11, pp.4465-4473, 2013.
DOI : 10.1093/bioinformatics/btg157

T. Jakociunas, L. R. Holm, J. Verhein-hansen, A. Trusina, and G. Thon, Two portable recombination enhancers direct donor choice in fission yeast heterochromatin, PLoS Genet, vol.9, 2013.

S. Jia, K. Noma, and S. I. Grewal, RNAi-Independent Heterochromatin Nucleation by the Stress-Activated ATF/CREB Family Proteins, Science, vol.304, issue.5679, pp.1971-1976, 2004.
DOI : 10.1126/science.1099035

S. Jia, T. Yamada, and S. I. Grewal, Heterochromatin Regulates Cell Type-Specific Long-Range Chromatin Interactions Essential for Directed Recombination, Cell, vol.119, issue.4, pp.469-480, 2004.
DOI : 10.1016/j.cell.2004.10.020

D. J. Katz, T. M. Edwards, V. Reinke, K. , and W. G. , A C. elegans LSD1 Demethylase Contributes to Germline Immortality by Reprogramming Epigenetic Memory, Cell, vol.137, issue.2, pp.308-320, 2009.
DOI : 10.1016/j.cell.2009.02.015
URL : https://hal.archives-ouvertes.fr/hal-01434907

M. Kelly, J. Burke, M. Smith, A. Klar, and D. Beach, Four mating-type genes control sexual differentiation in the fission yeast, EMBO J, vol.7, pp.1537-1547, 1988.

M. A. Kerenyi, Z. Shao, Y. J. Hsu, G. Guo, S. Luc et al., Author response, eLife, vol.9, p.633, 2013.
DOI : 10.7554/eLife.00633.024

H. S. Kim, E. S. Choi, J. A. Shin, Y. K. Jang, and S. D. Park, Regulation of Swi6/HP1-dependent Heterochromatin Assembly by Cooperation of Components of the Mitogen-activated Protein Kinase Pathway and a Histone Deacetylase Clr6, Journal of Biological Chemistry, vol.17, issue.41, pp.42850-42859, 2004.
DOI : 10.1101/gad.997702

A. J. Klar, Differentiated parental DNA strands confer developmental asymmetry on daughter cells in fission yeast, Nature, vol.326, issue.6112, pp.466-470, 1987.
DOI : 10.1038/326466a0

A. J. Klar, The developmental fate of fission yeast cells is determined by the pattern of inheritance of parental and grandparental DNA strands, Cell Differentiation and Development, vol.27, pp.1407-1415, 1990.
DOI : 10.1016/0922-3371(89)90387-0

A. J. Klar and M. J. Bonaduce, swi6, a gene required for mating-type switching, prohibits meiotic recombination in the mat2-mat3 "cold spot" of fission yeast, Genetics, vol.129, pp.1033-1042, 1991.

A. J. Klar, M. J. Bonaduce, C. , and R. , The mechanism of fission yeast mating type interconversion: seal/replicate/cleave model of replication across the double-stranded break site at mat1, Genetics, vol.127, pp.489-496, 1991.

A. J. Klar and L. M. Miglio, Initiation of meiotic recombination by double-strand DNA breaks in S. pombe, Cell, vol.46, issue.5, pp.725-731, 1986.
DOI : 10.1016/0092-8674(86)90348-X

R. Kostriken, J. N. Strathern, A. J. Klar, J. B. Hicks, and F. Heffron, A site-specific endonuclease essential for mating-type switching in Saccharomyces cerevisiae, Cell, vol.35, issue.1, pp.167-174, 1983.
DOI : 10.1016/0092-8674(83)90219-2

G. Krings and D. Bastia, and Causes Polar Replication Fork Arrest, Journal of Biological Chemistry, vol.15, issue.47, pp.39135-39142, 2005.
DOI : 10.1038/nature01697

G. Krings and D. Bastia, Molecular Architecture of a Eukaryotic DNA Replication Terminus-Terminator Protein Complex, Molecular and Cellular Biology, vol.26, issue.21, pp.8061-8074, 2006.
DOI : 10.1128/MCB.01102-06

M. Lachner, D. O-'carroll, S. Rea, K. Mechtler, and T. Jenuwein, Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins, Nature, vol.80, issue.6824, pp.116-120, 2001.
DOI : 10.1016/0092-8674(95)90512-X

B. Lalonde, B. Arcangioli, and L. Guarente, A single Saccharomyces cerevisiae upstream activation site (UAS1) has two distinct regions essential for its activity., Molecular and Cellular Biology, vol.6, issue.12, pp.4690-4696, 1986.
DOI : 10.1128/MCB.6.12.4690

F. Lan, M. Zaratiegui, J. Villen, M. W. Vaughn, A. Verdel et al., S. pombe LSD1 Homologs Regulate Heterochromatin Propagation and Euchromatic Gene Transcription, Molecular Cell, vol.26, issue.1, pp.89-101, 2007.
DOI : 10.1016/j.molcel.2007.02.023
URL : https://hal.archives-ouvertes.fr/in2p3-00000365

P. M. Lansdorp, Immortal Strands? Give Me a Break, Cell, vol.129, issue.7, pp.1244-1247, 2007.
DOI : 10.1016/j.cell.2007.06.017
URL : https://doi.org/10.1016/j.cell.2007.06.017

B. S. Lee, S. I. Grewal, and A. J. Klar, Biochemical Interactions between Proteins and mat1 cis-Acting Sequences Required for Imprinting in Fission Yeast, Molecular and Cellular Biology, vol.24, issue.22, pp.9813-9822, 2004.
DOI : 10.1128/MCB.24.22.9813-9822.2004

J. K. Lee, J. A. Huberman, and J. Hurwitz, Purification and characterization of a CENP-B homologue protein that binds to the centromeric K-type repeat DNA of Schizosaccharomyces pombe, Proceedings of the National Academy of Sciences of the United States of America, pp.8427-8432, 1997.
DOI : 10.1083/jcb.112.2.191

H. L. Levin, D. C. Weaver, and J. D. Boeke, Two related families of retrotransposons from Schizosaccharomyces pombe., Molecular and Cellular Biology, vol.10, issue.12, pp.6791-6798, 1990.
DOI : 10.1128/MCB.10.12.6791

A. Lorentz, L. Heim, and H. Schmidt, The switching gene swi6 affects recombination and gene expression in the mating-type region of Schizosaccharomyces pombe, MGG Molecular & General Genetics, vol.233, issue.3, pp.436-442, 1992.
DOI : 10.1007/BF00265441

A. Lorentz, K. Ostermann, O. Fleck, and H. Schmidt, Switching gene swi6, involved in repression of silent mating-type loci in fission yeast, encodes a homologue of chromatin-associated proteins from Drosophila and mammals, Gene, vol.143, issue.1, pp.139-143, 1994.
DOI : 10.1016/0378-1119(94)90619-X

D. R. Lorenz, I. V. Mikheyeva, P. Johansen, L. Meyer, A. Berg et al., CENP-B Cooperates with Set1 in Bidirectional Transcriptional Silencing and Genome Organization of Retrotransposons, Molecular and Cellular Biology, vol.32, issue.20, pp.4215-4225, 2012.
DOI : 10.1128/MCB.00395-12

J. Ma, K. K. Hwang, H. J. Worman, J. C. Courvalin, and J. C. Eissenberg, Expression and functional analysis of three isoforms of human heterochromatin-associated protein HP1 in Drosophila, Chromosoma, vol.109, issue.8, pp.536-544, 2001.
DOI : 10.1007/s004120000113

S. A. Macneill and P. A. Fantes, Genetic and physiological analysis of DNA replication in fission yeast, Methods Enzymol, vol.283, pp.440-459, 1997.
DOI : 10.1016/S0076-6879(97)83036-4

I. Magdalou, B. S. Lopez, P. Pasero, L. , and S. A. , The causes of replication stress and their consequences on genome stability and cell fate, Seminars in Cell & Developmental Biology, vol.30, pp.154-164, 2014.
DOI : 10.1016/j.semcdb.2014.04.035
URL : https://hal.archives-ouvertes.fr/hal-01070051

P. L. Mallet, M. Larochelle, and F. Bachand, Retroelements in Fission Yeast, Genetics, vol.205, issue.2, pp.621-632, 2017.
DOI : 10.1534/genetics.116.193870

R. Martienssen and D. Moazed, RNAi and Heterochromatin Assembly, Cold Spring Harbor Perspectives in Biology, vol.7, issue.8, 2015.
DOI : 10.1101/cshperspect.a019323
URL : http://cshperspectives.cshlp.org/content/7/8/a019323.full.pdf

K. Maundrell, A. Hutchison, and S. Shall, Sequence analysis of ARS elements in fission yeast, EMBO J, vol.7, pp.2203-2209, 1988.

P. Meister, A. Taddei, A. Ponti, G. Baldacci, and S. M. Gasser, Replication foci dynamics: replication patterns are modulated by S-phase checkpoint kinases in fission yeast, The EMBO Journal, vol.12, issue.5, pp.1315-1326, 2007.
DOI : 10.4161/cc.3.7.972

V. H. Meller, S. S. Joshi, and N. Deshpande, Modulation of Chromatin by Noncoding RNA, Annual Review of Genetics, vol.49, issue.1, pp.673-695, 2015.
DOI : 10.1146/annurev-genet-112414-055205

X. Meng and X. Zhao, Replication fork regression and its regulation, FEMS Yeast Research, vol.17, 2017.
DOI : 10.1093/femsyr/fow110

H. Merrikh, C. Machon, W. H. Grainger, A. D. Grossman, and P. Soultanas, Co-directional replication???transcription conflicts lead to replication restart, Nature, vol.38, issue.7335, pp.554-557, 2011.
DOI : 10.1093/nar/gkp1236
URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3059490/pdf

H. Michael, H. Schmidt, O. Fleck, H. Gutz, C. Liedtke et al., The mating-type region of Schizosaccharomyces pombe contains an essential gene encoding a protein homologous to human modulators of HIV transactivation, Gene, vol.145, issue.2, pp.205-210, 1994.
DOI : 10.1016/0378-1119(94)90006-X

E. V. Mirkin and S. M. Mirkin, Replication Fork Stalling at Natural Impediments, Microbiology and Molecular Biology Reviews, vol.71, issue.1, pp.13-35, 2007.
DOI : 10.1128/MMBR.00030-06
URL : http://mmbr.asm.org/content/71/1/13.full.pdf

J. M. Mitchison and J. Creanor, Further measurements of DNA synthesis and enzyme potential during cell cycle of fission yeast Schizosaccharomyces pombe, Experimental Cell Research, vol.69, issue.1, pp.244-247, 1971.
DOI : 10.1016/0014-4827(71)90337-5

H. Miyata and M. Miyata, Mode of conjugation in homothallic cells of Schizosaccharomyces pombe., The Journal of General and Applied Microbiology, vol.27, issue.5, 1981.
DOI : 10.2323/jgam.27.365

T. Mizuguchi, J. Barrowman, and S. I. Grewal, Chromosome domain architecture and dynamic organization of the fission yeast genome, FEBS Letters, vol.22, issue.20PartA, pp.2975-2986, 2015.
DOI : 10.1016/j.gde.2012.01.006

M. Molnar and N. Kleckner, Cells by Cre/loxP Site-Specific Recombination, Genetics, vol.178, issue.1, pp.99-112, 2008.
DOI : 10.1534/genetics.107.082826

N. Mosammaparast, H. Kim, B. Laurent, Y. Zhao, H. J. Lim et al., The histone demethylase LSD1/KDM1A promotes the DNA damage response, The Journal of Cell Biology, vol.49, issue.3, pp.457-470, 2013.
DOI : 10.1083/jcb.201302092.dv

H. Nakagawa, Fission yeast CENP-B homologs nucleate centromeric heterochromatin by promoting heterochromatin-specific histone tail modifications, Genes & Development, vol.16, issue.14, pp.1766-1778, 2002.
DOI : 10.1101/gad.997702
URL : http://genesdev.cshlp.org/content/16/14/1766.full.pdf

Y. Nakaseko, Y. Adachi, S. Funahashi, O. Niwa, and M. Yanagida, Chromosome walking shows a highly homologous repetitive sequence present in all the centromere regions of fission yeast, EMBO J, vol.5, pp.1011-1021, 1986.

J. Nakayama, A. J. Klar, and S. I. Grewal, A Chromodomain Protein, Swi6, Performs Imprinting Functions in Fission Yeast during Mitosis and Meiosis, Cell, vol.101, issue.3, pp.307-317, 2000.
DOI : 10.1016/S0092-8674(00)80840-5

J. Nakayama, J. C. Rice, B. D. Strahl, C. D. Allis, and S. I. Grewal, Role of Histone H3 Lysine 9 Methylation in Epigenetic Control of Heterochromatin Assembly, Science, vol.292, issue.5514, pp.110-113, 2001.
DOI : 10.1126/science.1060118

K. J. Neelsen and M. Lopes, Replication fork reversal in eukaryotes: from dead end to dynamic response, Nature Reviews Molecular Cell Biology, vol.1094, issue.4, 2015.
DOI : 10.1038/nrc3088

E. Nicolas, M. G. Lee, M. A. Hakimi, H. P. Cam, S. I. Grewal et al., Fission Yeast Homologs of Human Histone H3 Lysine 4 Demethylase Regulate a Common Set of Genes with Diverse Functions, Journal of Biological Chemistry, vol.14, issue.47, pp.35983-35988, 2006.
DOI : 10.1016/j.bbrc.2004.07.163
URL : https://hal.archives-ouvertes.fr/hal-00171620

O. Nielsen and R. Egel, Mapping the double-strand breaks at the mating-type locus in fission yeast by genomic sequencing, EMBO J, vol.8, pp.269-276, 1989.

I. Nikolov and A. Taddei, Linking replication stress with heterochromatin formation, Chromosoma, vol.27, issue.3, pp.523-533, 2016.
DOI : 10.1128/MCB.02019-06
URL : http://doi.org/10.1007/s00412-015-0545-6

E. R. Nimmo, G. Cranston, A. , and R. C. , Telomere-associated chromosome breakage in fission yeast results in variegated expression of adjacent genes, EMBO J, vol.13, pp.3801-3811, 1994.

C. Noguchi and E. Noguchi, Sap1 Promotes the Association of the Replication Fork Protection Complex With Chromatin and Is Involved in the Replication Checkpoint in Schizosaccharomyces pombe, Genetics, vol.175, issue.2, pp.553-566, 2007.
DOI : 10.1534/genetics.106.065334

E. Noguchi, C. Noguchi, L. L. Du, R. , and P. , Swi1 Prevents Replication Fork Collapse and Controls Checkpoint Kinase Cds1, Molecular and Cellular Biology, vol.23, issue.21, pp.7861-7874, 2003.
DOI : 10.1128/MCB.23.21.7861-7874.2003
URL : http://mcb.asm.org/content/23/21/7861.full.pdf

K. Noma, C. D. Allis, and S. I. Grewal, Transitions in Distinct Histone H3 Methylation Patterns at the Heterochromatin Domain Boundaries, Science, vol.293, issue.5532, pp.1150-1155, 2001.
DOI : 10.1126/science.1064150

K. Noma, H. P. Cam, R. J. Maraia, and S. I. Grewal, A Role for TFIIIC Transcription Factor Complex in Genome Organization, Cell, vol.125, issue.5, pp.859-872, 2006.
DOI : 10.1016/j.cell.2006.04.028

K. Noma, T. Sugiyama, H. Cam, A. Verdel, M. Zofall et al., RITS acts in cis to promote RNA interference???mediated transcriptional and post-transcriptional silencing, Nature Genetics, vol.293, issue.11, pp.1174-1180, 2004.
DOI : 10.1126/science.1064150
URL : https://hal.archives-ouvertes.fr/inserm-00332376

K. I. Noma, Transitions in Distinct Histone H3 Methylation Patterns at the Heterochromatin Domain Boundaries, Science, vol.293, issue.5532, pp.1150-1155, 2001.
DOI : 10.1126/science.1064150

A. C. Nottke, S. E. Beese-sims, L. F. Pantalena, V. Reinke, Y. Shi et al., SPR-5 is a histone H3K4 demethylase with a role in meiotic double-strand break repair, Proceedings of the National Academy of Sciences, vol.130, issue.8, pp.12805-12810, 2011.
DOI : 10.1242/dev.00363

T. G. Olsson, R. A. Silverstein, K. Ekwall, and P. Sunnerhagen, Transient inhibition of histone deacetylase activity overcomes silencing in the mating-type region in fission yeast, Current Genetics, vol.35, issue.2, pp.82-87, 1999.
DOI : 10.1007/s002940050436

K. Ostermann, A. Lorentz, and H. Schmidt, The fission yeast rad22 gene, having a function in matingtype switching and repair of DNA damages, encodes a protein homolog to Rad52 of Saccharomyces cerevisiae, Nucleic Acids Research, vol.21, issue.25, pp.5940-5944, 1993.
DOI : 10.1093/nar/21.25.5940

J. Persson, B. Steglich, A. Smialowska, M. Boyd, J. Bornholdt et al., Regulating retrotransposon activity through the use of alternative transcription start sites, EMBO reports, vol.17, issue.5, pp.753-768, 2016.
DOI : 10.15252/embr.201541866

D. Reines, Elongation factor-dependent transcript shortening by template-engaged RNA polymerase II, J Biol Chem, vol.267, pp.3795-3800, 1992.

D. Riley and H. Weintraub, Conservative segregation of parental histones during replication in the presence of cycloheximide, Proceedings of the National Academy of Sciences, vol.76, issue.1, pp.328-332, 1979.
DOI : 10.1073/pnas.76.1.328

T. Rudolph, M. Yonezawa, S. Lein, K. Heidrich, S. Kubicek et al., Heterochromatin Formation in Drosophila Is Initiated through Active Removal of H3K4 Methylation by the LSD1 Homolog SU(VAR)3-3, Molecular Cell, vol.26, issue.1, pp.103-115, 2007.
DOI : 10.1016/j.molcel.2007.02.025

G. Russev and R. Hancock, Assembly of new histones into nucleosomes and their distribution in replicating chromatin., Proceedings of the National Academy of Sciences, vol.79, issue.10, pp.3143-3147, 1982.
DOI : 10.1073/pnas.79.10.3143

N. Sabouri, K. R. Mcdonald, C. J. Webb, I. M. Cristea, and V. A. Zakian, DNA replication through hard-to-replicate sites, including both highly transcribed RNA Pol II and Pol III genes, requires the S. pombe Pfh1 helicase, Genes & Development, vol.26, issue.6, pp.581-593, 2012.
DOI : 10.1101/gad.184697.111

J. A. Sanchez, S. M. Kim, and J. A. Huberman, Ribosomal DNA Replication in the Fission Yeast,Schizosaccharomyces pombe, Experimental Cell Research, vol.238, issue.1, pp.220-230, 1998.
DOI : 10.1006/excr.1997.3835

S. Sayrac, S. Vengrova, E. L. Godfrey, and J. Z. Dalgaard, Identification of a Novel Type of Spacer Element Required for Imprinting in Fission Yeast, PLoS Genetics, vol.8, issue.3, pp.1001328-1001318, 2011.
DOI : 10.1371/journal.pgen.1001328.g010

H. Schmidt, P. Kapitza-fecke, E. R. Stephen, and H. Gutz, Some of the swi genes of Schizosaccharomyces pombe also have a function in the repair of radiation damage, Current Genetics, vol.11, issue.2, pp.89-94, 1989.
DOI : 10.1007/BF00393400

D. C. Schwartz and C. R. Cantor, Separation of yeast chromosome-sized DNAs by pulsed field gradient gel electrophoresis, Cell, vol.37, issue.1, pp.67-75, 1984.
DOI : 10.1016/0092-8674(84)90301-5

R. L. Seale, Studies on the mode of segregation of histone nu bodies during replication in HeLa cells, Cell, vol.9, issue.3, pp.423-429, 1976.
DOI : 10.1016/0092-8674(76)90087-8

M. M. Seidman, A. J. Levine, and H. Weintraub, The asymmetric segregation of parental nucleosomes during chromosome replication, Cell, vol.18, issue.2, pp.439-449, 1979.
DOI : 10.1016/0092-8674(79)90063-1

G. D. Shankaranarayana, M. R. Motamedi, D. Moazed, and S. I. Grewal, Sir2 Regulates Histone H3 Lysine 9 Methylation and Heterochromatin Assembly in Fission Yeast, Current Biology, vol.13, issue.14, pp.1240-1246, 2003.
DOI : 10.1016/S0960-9822(03)00489-5
URL : https://doi.org/10.1016/s0960-9822(03)00489-5

J. Singh and A. J. Klar, DNA polymerase-?? is essential for mating-type switching in fission yeast, Nature, vol.361, issue.6409, pp.271-273, 1993.
DOI : 10.1038/361271a0

U. Styrkarsdottir, R. Egel, and O. Nielsen, The smt-0 mutation which abolishes mating-type switching in fission yeast is a deletion, Current Genetics, vol.74, issue.2, pp.184-186, 1993.
DOI : 10.1007/BF00352020

J. Q. Svejstrup, The interface between transcription and mechanisms maintaining genome integrity, Trends in Biochemical Sciences, vol.35, issue.6, pp.333-338, 2010.
DOI : 10.1016/j.tibs.2010.02.001

J. Szabad, G. Reuter, and M. B. Schroder, The effects of two mutations connected with chromatin functions on female germ-line cells of Drosophila, MGG Molecular & General Genetics, vol.184, issue.1, pp.56-62, 1988.
DOI : 10.1007/BF00338393

R. K. Szilard, P. E. Jacques, L. Laramee, B. Cheng, S. Galicia et al., Systematic identification of fragile sites via genome-wide location analysis of ??-H2AX, Nature Structural & Molecular Biology, vol.35, issue.3, pp.299-305, 2010.
DOI : 10.1128/MCB.7.3.1198

J. W. Szostak and E. H. Blackburn, Cloning yeast telomeres on linear plasmid vectors, Cell, vol.29, issue.1, pp.245-255, 1982.
DOI : 10.1016/0092-8674(82)90109-X

A. Tanaka, H. Tanizawa, S. Sriswasdi, O. Iwasaki, A. G. Chatterjee et al., Epigenetic Regulation of Condensin-Mediated Genome Organization during the Cell Cycle and upon DNA Damage through Histone H3 Lysine 56 Acetylation, Molecular Cell, vol.48, issue.4, pp.532-546, 2012.
DOI : 10.1016/j.molcel.2012.09.011

G. Thon, K. P. Bjerling, and I. S. Nielsen, Localization and properties of a silencing element near the mat3- M mating-type cassette of Schizosaccharomyces pombe, Genetics, vol.151, pp.945-963, 1999.

G. Thon, P. Bjerling, C. M. Bunner, and J. Verhein-hansen, Expression-state boundaries in the matingtype region of fission yeast, Genetics, vol.161, pp.611-622, 2002.

G. Thon, A. Cohen, and A. J. Klar, Three additional linkage groups that repress transcription and meiotic recombination in the mating-type region of Schizosaccharomyces pombe, Genetics, vol.138, pp.29-38, 1994.

G. Thon and T. Friis, Epigenetic inheritance of transcriptional silencing and switching competence in fission yeast, Genetics, vol.145, pp.685-696, 1997.

G. Thon and A. J. Klar, The clr1 locus regulates the expression of the cryptic mating-type loci of fission yeast, Genetics, vol.131, pp.287-296, 1992.

G. Thon and A. J. Klar, Directionality of fission yeast mating-type interconversion is controlled by the location of the donor loci, Genetics, vol.134, pp.1045-1054, 1993.

G. Thon and J. Verhein-hansen, Four chromo-domain proteins of Schizosaccharomyces pombe differentially repress transcription at various chromosomal locations, Genetics, vol.155, pp.551-568, 2000.

A. Tsankov, Y. Yanagisawa, N. Rhind, A. Regev, R. et al., Evolutionary divergence of intrinsic and trans-regulated nucleosome positioning sequences reveals plastic rules for chromatin organization, Genome Research, vol.21, issue.11, pp.1851-1862, 2011.
DOI : 10.1101/gr.122267.111

C. T. Tuzon, B. Borgstrom, D. Weilguny, R. Egel, J. P. Cooper et al., The fission yeast heterochromatin protein Rik1 is required for telomere clustering during meiosis, The Journal of Cell Biology, vol.138, issue.6, pp.759-765, 2004.
DOI : 10.1007/978-3-662-10360-9_19

K. Umesono, Y. Hiraoka, T. Toda, and M. Yanagida, Visualization of chromosomes in mitotically arrested cells of the fission yeast Schizosaccharomyces pombe, Current Genetics, vol.52, issue.2, pp.123-128, 1983.
DOI : 10.1007/BF00365637

D. A. Vagin, F. K. Khasanov, and V. I. Bashkirov, The role of recombinational repair proteins in mating type switching in fission yeast cells, Russian Journal of Genetics, vol.42, issue.4, pp.487-493, 2006.
DOI : 10.1134/S1022795406040041

S. Vengrova and J. Z. Dalgaard, The wild-type Schizosaccharomyces pombe mat1 imprint consists of two ribonucleotides, EMBO reports, vol.9, issue.1, pp.59-65, 2006.
DOI : 10.1101/gad.289404

D. Wang and D. K. Hawley, Identification of a 3'-->5' exonuclease activity associated with human RNA polymerase II., Proceedings of the National Academy of Sciences, vol.90, issue.3, pp.843-847, 1993.
DOI : 10.1073/pnas.90.3.843

G. Wang, A. Ma, C. M. Chow, D. Horsley, N. R. Brown et al., Conservation of Heterochromatin Protein 1 Function, Molecular and Cellular Biology, vol.20, issue.18, pp.6970-6983, 2000.
DOI : 10.1128/MCB.20.18.6970-6983.2000

J. Wang, X. Tadeo, H. Hou, P. G. Tu, J. Thompson et al., Epe1 recruits BET family bromodomain protein Bdf2 to establish heterochromatin boundaries, Genes & Development, vol.27, issue.17, pp.1886-1902, 2013.
DOI : 10.1101/gad.221010.113
URL : http://genesdev.cshlp.org/content/27/17/1886.full.pdf

H. Weintraub, Cooperative alignment of nu bodies during chromosome replication in the presence of cycloheximide, Cell, vol.9, issue.3, pp.419-422, 1976.
DOI : 10.1016/0092-8674(76)90086-6

C. R. Wilkinson, R. Bartlett, P. Nurse, and A. P. Bird, encodes a DNA methyltransferase homologue, Nucleic Acids Research, vol.23, issue.2, pp.203-210, 1995.
DOI : 10.1093/nar/23.2.203
URL : https://academic.oup.com/nar/article-pdf/23/2/203/3717607/23-2-203.pdf

M. Willer, L. Hoffmann, U. Styrkarsdottir, R. Egel, J. Davey et al., Two-step activation of meiosis by the mat1 locus in Schizosaccharomyces pombe., Molecular and Cellular Biology, vol.15, issue.9, pp.4964-4970, 1995.
DOI : 10.1128/MCB.15.9.4964

V. Wood, R. Gwilliam, M. A. Rajandream, M. Lyne, R. Lyne et al., Erratum: The genome sequence of Schizosaccharomyces pombe, Nature, vol.10, issue.6874, pp.871-880, 2002.
DOI : 10.1006/scdb.1999.0333

J. Xie, M. Wooten, V. Tran, B. C. Chen, C. Pozmanter et al., Histone H3 Threonine Phosphorylation Regulates Asymmetric Histone Inheritance in the Drosophila Male Germline, Cell, vol.163, issue.4, pp.920-933, 2015.
DOI : 10.1016/j.cell.2015.10.002

J. Xie, M. Wooten, V. Tran, C. , and X. , Breaking Symmetry ??? Asymmetric Histone Inheritance in Stem Cells, Trends in Cell Biology, vol.27, issue.7, pp.527-540, 2017.
DOI : 10.1016/j.tcb.2017.02.001

S. Yennek and S. Tajbakhsh, DNA asymmetry and cell fate regulation in stem cells, Seminars in Cell & Developmental Biology, vol.24, issue.8-9, pp.627-642, 2013.
DOI : 10.1016/j.semcdb.2013.05.008

M. Zaratiegui, S. E. Castel, D. V. Irvine, A. Kloc, J. Ren et al., RNAi promotes heterochromatic silencing through replication-coupled release of RNA Pol II, Nature, vol.9, issue.7371, pp.135-138, 2011.
DOI : 10.1186/gb-2008-9-9-r137

M. Zaratiegui, M. W. Vaughn, D. V. Irvine, D. Goto, S. Watt et al., CENP-B preserves genome integrity at replication forks paused by retrotransposon LTR, Nature, vol.120, issue.7328, pp.112-115, 2011.
DOI : 10.1016/j.cell.2004.12.039
URL : https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3057531/pdf

K. Zhang, K. Mosch, W. Fischle, and S. I. Grewal, Roles of the Clr4 methyltransferase complex in nucleation, spreading and maintenance of heterochromatin, Nature Structural & Molecular Biology, vol.2, issue.4, pp.381-388, 2008.
DOI : 10.1038/nature04219

Y. Zhang, T. Liu, C. A. Meyer, J. Eeckhoute, D. S. Johnson et al., Model-based Analysis of ChIP-Seq (MACS), Genome Biology, vol.9, issue.9, 2008.
DOI : 10.1186/gb-2008-9-9-r137