HP1a, Su(var)3-9, SETDB1 and POF stimulate or repress gene expression depending on genomic position, gene length and expression pattern in drosophila melanogaster
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Heterochromatin protein 1a (HP1a) is a chromatin-associated protein important for the formation and maintenance of heterochromatin. In Drosophila, the two histone methyltransferases SETDB1 and Su(var)3-9 mediate H3K9 methylation marks that initiates the establishment and spreading of HP1a-enriched chromatin. Although HP1a is generally regarded as a factor that represses gene transcription, several reports have linked HP1a binding to active genes, and in some cases, it has been shown to stimulate transcriptional activity. To clarify the function of HP1a in transcription regulation and its association with Su(var)3-9, SETDB1 and the chromosome 4-specific protein POF, we conducted genome-wide expression studies and combined the results with available binding data in Drosophila melanogaster. The results suggest that HP1a, SETDB1 and Su(var)3-9 repress genes on chromosome 4, where non-ubiquitously expressed genes are preferentially targeted, and stimulate genes in pericentromeric regions. Further, we showed that on chromosome 4, Su(var)3-9, SETDB1 and HP1a target the same genes. In addition, we found that transposons are repressed by HP1a and Su(var)3-9 and that the binding level and expression effects of HP1a are affected by gene length. Our results indicate that genes have adapted to be properly expressed in their local chromatin environment.
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Germline knockdown of Su(var)3-9 leads to much more severe oogenesis defects than Egg depletion but also induces a 2-3-fold upregulation of R1 and R2 elements.
“GKD of another HMT, Su(var)3–9 known to be involved in the formation of constitutive heterochromatin and the spreading of the H3K9me3 mark (84–86) led to much more severe defects of oogenesis than Egg depletion but also induced a 2–3-fold upregulation of R1 and R2 elements (Figure 2A).”
From Impaired function of rDNA transcription initiation machinery leads to derepression of ribosomal genes with insertions of R2 retrotransposon (2022) · cites this paper as [86]
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Bioconductor: open software development for computational biology and bioinformatics
Gentleman, R., Carey, V., Bates, D., Bolstad, B., Dettling, M., Dudoit, S., Ellis, B., Gautier, L., Ge, Y., Gentry, J., et al. (2004) · Genome Biology · doi:10.1186/gb-2004-5-10-r80 · Cited by 13,133 · see citing works
Selective recognition of methylated lysine 9 on histone H3 by the HP1 chromo domain
Bannister, A. J., Zegerman, P., Partridge, J. F., Miska, E. A., Thomas, J. O., Allshire, R. C., & Kouzarides, T. (2001) · Nature · doi:10.1038/35065138 · Cited by 2,903 · see citing works
Methylation of histone H3 lysine 9 creates a binding site for HP1 proteins
Lachner, M., O'Carroll, D., Rea, S., Mechtler, K., & Jenuwein, T. (2001) · Nature · doi:10.1038/35065132 · Cited by 2,868 · see citing works
Role of Histone H3 Lysine 9 Methylation in Epigenetic Control of Heterochromatin Assembly
Nakayama, J.-I., Rice, J. C., Strahl, B. D., Allis, C. D., & Grewal, S. I. S. (2001) · Science · doi:10.1126/science.1060118 · Cited by 1,739 · see citing works
Czermin, B., Melfi, R., McCabe, D., Seitz, V., Imhof, A., & Pirrotta, V. (2002) · Cell · doi:10.1016/s0092-8674(02)00975-3 · Cited by 1,536 · see citing works
The developmental transcriptome of Drosophila melanogaster
Graveley, B. R., Brooks, A. N., Carlson, J. W., Duff, M. O., Landolin, J. M., Yang, L. C., Artieri, C. G., van Baren, M. J., Boley, N. P., Booth, B. W., et al. (2010) · Nature · doi:10.1038/nature09715 · Cited by 1,487 · see citing works
Using FlyAtlas to identify better Drosophila melanogaster models of human disease
Chintapalli, V. R., Wang, J., & Dow, J. A. T. (2007) · Nature Genetics · doi:10.1038/ng2049 · Cited by 1,479 · see citing works
Systematic Protein Location Mapping Reveals Five Principal Chromatin Types in Drosophila Cells
Filion, G. J. P., van Bemmel, J. G., Braunschweig, U., Talhout, W., Kind, J., Ward, L. D., Brugman, W., de Castro, I. J., Kerkhoven, R. M., Bussemaker, H. J., et al. (2010) · Cell · doi:10.1016/j.cell.2010.09.009 · Cited by 963 · see citing works
Epigenetic Codes for Heterochromatin Formation and Silencing
Richards, E. J., & Elgin, S. C. R. (2002) · Cell · doi:10.1016/s0092-8674(02)00644-x · Cited by 872 · see citing works
Comprehensive analysis of the chromatin landscape in Drosophila melanogaster
Kharchenko, P. V., Alekseyenko, A. A., Schwartz, Y. B., Minoda, A., Riddle, N. C., Ernst, J., Sabo, P. J., Larschan, E., Gorchakov, A. A., Gu, T., et al. (2010) · Nature · doi:10.1038/nature09725 · Cited by 853 · see citing works
Structure of HP1 Chromodomain Bound to a Lysine 9-Methylated Histone H3 Tail
Jacobs, S. A., & Khorasanizadeh, S. (2002) · Science · doi:10.1126/science.1069473 · Cited by 834 · see citing works
Schotta, G., Ebert, A., Krauss, V., Fischer, A., Hoffmann, J., Rea, S., Jenuwein, T., Dorn, R., & Reuter, G. (2002) · The EMBO Journal · doi:10.1093/emboj/21.5.1121 · Cited by 714 · see citing works
Vakoc, C. R., Mandat, S. A., Olenchock, B. A., & Blobel, G. A. (2005) · Molecular Cell · doi:10.1016/j.molcel.2005.06.011 · Cited by 698 · see citing works
Maison, C., Bailly, D., Peters, A. H. F. M., Quivy, J., Roche, D. M. J., Taddei, A., Lachner, M., Jenuwein, T., & Almouzni, G. (2002) · Nature Genetics · doi:10.1038/ng843 · Cited by 651 · see citing works
Eissenberg, J. C., James, T. C., Foster-Hartnett, D. M., Hartnett, T., Ngan, V, & Elgin, S. C. (1990) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.87.24.9923 · Cited by 588 · see citing works
Tschiersch, B., Hofmann, A., Krauss, V., Dorn, R., Korge, G., & Reuter, G. (1994) · The EMBO Journal · doi:10.1002/j.1460-2075.1994.tb06693.x · Cited by 567 · see citing works
Klattenhoff, C., Xi, H. S., Li, C., Lee, S., Xu, J. L., Khurana, J. S., Zhang, F., Schultz, N., Koppetsch, B. S., Nowosielska, A., et al. (2009) · Cell · doi:10.1016/j.cell.2009.07.014 · Cited by 461 · see citing works
Specificity of the HP1 chromo domain for the methylated N‐terminus of histone H3
Jacobs, S. A., Taverna, S. D., Zhang, Y., Briggs, S. D., Li, J., Eissenberg, J. C., Allis, C. D., & Khorasanizadeh, S. (2001) · The EMBO Journal · doi:10.1093/emboj/20.18.5232 · Cited by 418 · see citing works
Heterochromatin: new possibilities for the inheritance of structure
Grewal, S. I. S., & Elgin, S. C. R. (2002) · Current Opinion in Genetics & Development · doi:10.1016/s0959-437x(02)00284-8 · Cited by 408 · see citing works
James, T. C., Eissenberg, J. C., Craig, C., Dietrich, Hobson, A., & Elgin, S. C. R. (1989) · PubMed · Cited by 407 · see citing works
Eissenberg, J. C., Morris, G. D., Reuter, G., & Hartnett, T. (1992) · Genetics · doi:10.1093/genetics/131.2.345 · Cited by 315 · see citing works
Su(var) genes regulate the balance between euchromatin and heterochromatin in DrosophilaPreprint
Ebert, A., Schotta, G., Lein, S., Kubicek, S., Krauß, V., Jenuwein, T., & Reuter, G. (2004) · Genes & Development · doi:10.1101/gad.323004 · Cited by 277 · see citing works
Riddle, N. C., Minoda, A., Kharchenko, P. V., Alekseyenko, A. A., Schwartz, Y. B., Tolstorukov, M. Y., Gorchakov, A. A., Jaffe, J. D., Kennedy, C., Linder-Basso, D., et al. (2010) · Genome Research · doi:10.1101/gr.110098.110 · Cited by 268 · see citing works
Cowieson, N. P., Partridge, J. F., Allshire, R. C., & McLaughlin, P. J. (2000) · Current Biology · doi:10.1016/s0960-9822(00)00467-x · Cited by 255 · see citing works
The chromo shadow domain, a second chromo domain in heterochromatin-binding protein 1, HP1
Assland, R., & stewart, F. (1995) · Nucleic Acids Research · doi:10.1093/nar/23.16.3168 · Cited by 245 · see citing works
Heterochromatin protein 1 (HP1) is associated with induced gene expression in Drosophila euchromatin
Piacentini, L., Fanti, L., Berloco, M. F., Perrini, B., & Pimpinelli, S. (2003) · The Journal of Cell Biology · doi:10.1083/jcb.200303012 · Cited by 212 · see citing works
Wakimoto, B. T., & Hearn, M. G. (1990) · Genetics · doi:10.1093/genetics/125.1.141 · Cited by 210 · see citing works
Lu, B. Y., Emtage, P. C. R., Duyf, B., Hilliker, A. J., & Eissenberg, J. C. (2000) · Genetics · doi:10.1093/genetics/155.2.699 · Cited by 187 · see citing works
Swaminathan, J., Baxter, E. M., & Corces, V. G. (2005) · Genes & Development · doi:10.1101/gad.1259105 · Cited by 180 · see citing works
Greil, F., van der Kraan, I., Delrow, J. J., Smothers, J. F., de Wit, E., Bussemaker, H. J., DRIEL, R. V., Henikoff, S., & van Steensel, B. (2003) · Genes & Development · doi:10.1101/gad.281503 · Cited by 167 · see citing works
Piacentini, L., Fanti, L., Negri, R., Vescovo, V. D., Fatica, A., Fabio Altieri, F., & Pimpinelli, S. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000670 · Cited by 144 · see citing works
Kwon, S. H., & Workman, J. L. (2011) · BioEssays · doi:10.1002/bies.201000138 · Cited by 138 · see citing works
Multiple Roles for Heterochromatin Protein 1 Genes in Drosophila
Vermaak, D., & Malik, H. S. (2009) · Annual Review of Genetics · doi:10.1146/annurev-genet-102108-134802 · Cited by 138 · see citing works
High-Resolution Mapping Reveals Links of HP1 with Active and Inactive Chromatin Components
de Wit, E., Greil, F., & van Steensel, B. (2007) · PLoS Genetics · doi:10.1371/journal.pgen.0030038 · Cited by 131 · see citing works
Genes which suppress position-effect variegation in Drosophila melanogaster are clustered
Sinclair, D. A. R., Mottus, R. C., & Grigliatti, T. A. (1983) · Molecular and General Genetics MGG · doi:10.1007/bf00334834 · Cited by 127 · see citing works
Oxymoron no more: the expanding world of heterochromatic genes
Yasuhara, J. C., & Wakimoto, B. T. (2006) · Trends in Genetics · doi:10.1016/j.tig.2006.04.008 · Cited by 126 · see citing works
Role of Drosophila HP1 in euchromatic gene expression
Cryderman, D. E., Grade, S. K., Li, Y., Fanti, L., Pimpinelli, S., & Wallrath, L. L. (2005) · Developmental Dynamics · doi:10.1002/dvdy.20310 · Cited by 115 · see citing works
Drosophila SETDB1 Is Required for Chromosome 4 Silencing
Seum, C., Reo, E., Peng, H.-Z., Rauscher, F., Spierer, P., & Bontron, S. (2007) · PLoS Genetics · doi:10.1371/journal.pgen.0030076 · Cited by 114 · see citing works
Fanti, L., Berloco, M. F., Piacentini, L., & Pimpinelli, S. (2003) · Genetica · doi:10.1023/a:1022971407290 · Cited by 111 · see citing works
Histone methylation is required for oogenesis inDrosophila
Clough, E., Moon, W., Wang, S., Smith, K. M., & Hazelrigg, T. I. (2006) · Development · doi:10.1242/dev.02698 · Cited by 108 · see citing works
Genome-wide HP1 binding in Drosophila : Developmental plasticity and genomic targeting signalsPreprint
de Wit, E., Greil, F., & van Steensel, B. (2005) · Genome Research · doi:10.1101/gr.3198905 · Cited by 106 · see citing works
Heterochromatin protein 1 binds transgene arrays
Fanti, L., Dorer, D. R., Berloco, M. F., Henikoff, S., & Pimpinelli, S. (1998) · Chromosoma · doi:10.1007/s004120050310 · Cited by 93 · see citing works
Buffering of Segmental and Chromosomal Aneuploidies in Drosophila melanogaster
Stenberg, P., Lundberg, L. E., Johansson, A., Rydén, P., Svensson, M. J., & Larsson, J. (2009) · PLoS Genetics · doi:10.1371/journal.pgen.1000465 · Cited by 91 · see citing works
Self-citationHearn, M. G., Hedrick, A., Grigliatti, T. A., & Wakimoto, B. T. (1991) · Genetics · doi:10.1093/genetics/128.4.785 · Cited by 87 · see citing works
Brower-Toland, B., Riddle, N. C., Jiang, H., Huisinga, K. L., & Elgin, S. C. R. (2009) · Genetics · doi:10.1534/genetics.108.100271 · Cited by 86 · see citing works
Heterochromatin protein 1 (HP1) modulates replication timing of the Drosophila genomePreprint
Schwaiger, M., Kohler, H., Oakeley, E. J., Stadler, M. B., & Schübeler, D. (2010) · Genome Research · doi:10.1101/gr.101790.109 · Cited by 85 · see citing works
Epigenetic regulation of the Drosophila chromosome 4 by the histone H3K9 methyltransferase dSETDB1
Tzeng, T., Lee, C., Chan, L.-W., & Shen, C. (2007) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0705534104 · Cited by 83 · see citing works
Liu, L., Ni, J., Shi, Y., Oakeley, E. J., & Sun, F.-L. (2005) · Nature Genetics · doi:10.1038/ng1662 · Cited by 80 · see citing works
Painting of fourth, a chromosome-specific protein in Drosophila
Larsson, J., Chen, J. D., Rasheva, V. I., Rasmuson-Lestander, Å., & Pirrotta, V. (2001) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.111581298 · Cited by 80 · see citing works
Self-citationHP1 modulates the transcription of cell-cycle regulators in Drosophila melanogaster
Lucia, F. D., Ni, J., Vaillant, C., & Sun, F.-L. (2005) · Nucleic Acids Research · doi:10.1093/nar/gki584 · Cited by 80 · see citing works
Dosage compensation, the origin and the afterlife of sex chromosomes
Larsson, J., & Meller, V. H. (2006) · Chromosome Research · doi:10.1007/s10577-006-1064-3 · Cited by 72 · see citing works
Self-citationPainting of fourth and chromosome‐wide regulation of the 4th chromosome in Drosophila melanogaster
Johansson, A., Stenberg, P., Bernhardsson, C., & Larsson, J. (2007) · The EMBO Journal · doi:10.1038/sj.emboj.7601604 · Cited by 70 · see citing works
Self-citationTransposon Silencing by piRNAs
Halić, M., & Moazed, D. (2009) · Cell · doi:10.1016/j.cell.2009.08.030 · Cited by 69 · see citing works
Riddle, N. C., & Elgin, S. C. R. (2006) · Chromosome Research · doi:10.1007/s10577-006-1061-6 · Cited by 66 · see citing works
Yin, H., Sweeney, S., Raha, D., Snyder, M. P., & Lin, H. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1002380 · Cited by 62 · see citing works
Chapter 1 Cellular Mechanism for Targeting Heterochromatin Formation in Drosophila
Eissenberg, J. C., & Reuter, G. (2009) · International review of cytology · doi:10.1016/s1937-6448(08)01801-7 · Cited by 58 · see citing works
Riddle, N. C., Jung, Y. L., Gu, T., Alekseyenko, A. A., Asker, D., Gui, H., Kharchenko, P. V., Minoda, A., Plachetka, A., Schwartz, Y. B., et al. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002954 · Cited by 58 · see citing works
POF and HP1 Bind Expressed Exons, Suggesting a Balancing Mechanism for Gene Regulation
Johansson, A., Stenberg, P., Pettersson, F. H., & Larsson, J. (2007) · PLoS Genetics · doi:10.1371/journal.pgen.0030209 · Cited by 58 · see citing works
Self-citationBuffering and the evolution of chromosome-wide gene regulation
Stenberg, P., & Larsson, J. (2011) · Chromosoma · doi:10.1007/s00412-011-0319-8 · Cited by 57 · see citing works
Self-citationPainting of fourth in genus Drosophila suggests autosome-specific gene regulation
Larsson, J., Svensson, M. J., Stenberg, P., & Makitalo, M. (2004) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.0400978101 · Cited by 55 · see citing works
Self-citationHP1a Recruitment to Promoters Is Independent of H3K9 Methylation in Drosophila melanogaster
Figueiredo, M. L. A., Philip, P., Stenberg, P., & Larsson, J. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1003061 · Cited by 55 · see citing works
Self-citationClegg, N. J., Honda, B. M., Whitehead, I. P., Grigliatti, T. A., Wakimoto, B. T., Brock, H. W., Lloyd, V. K., & Sinclair, D. A. R. (1998) · Genome · doi:10.1139/g98-041 · Cited by 48 · see citing works
Schulze, S. R., Sinclair, D. A. R., Fitzpatrick, K. A., & Honda, B. M. (2005) · Genetics · doi:10.1534/genetics.103.023341 · Cited by 44 · see citing works
Eissenberg, J. C., & Hartnett, T. (1993) · Molecular and General Genetics MGG · doi:10.1007/bf00280383 · Cited by 43 · see citing works
Riddle, N. C., Shaffer, C. D., & Elgin, S. C. R. (2009) · Biochemistry and Cell Biology · doi:10.1139/o08-119 · Cited by 43 · see citing works
Buffering and proteolysis are induced by segmental monosomy in Drosophila melanogaster
Lundberg, L. E., Figueiredo, M. L. A., Stenberg, P., & Larsson, J. (2012) · Nucleic Acids Research · doi:10.1093/nar/gks245 · Cited by 35 · see citing works
Self-citationJohansson, A., Stenberg, P., Allgardsson, A., & Larsson, J. (2012) · Molecular and Cellular Biology · doi:10.1128/mcb.06622-11 · Cited by 32 · see citing works
Self-citationElevated levels of expression associated with regions of theDrosophilagenome that lack crossing over
Haddrill, P. R., Waldron, F. M., & Charlesworth, B. (2008) · Biology Letters · doi:10.1098/rsbl.2008.0376 · Cited by 18 · see citing works
Heterochromatin protein 1a is required for an open chromatin structure
Cryderman, D. E., Vitalini, M. W., & Wallrath, L. L. (2011) · Transcription · doi:10.4161/trns.2.2.14687 · Cited by 16 · see citing works
Flagged first, then by citations
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Research works printed but not linked: 1
- [21]Riddle NC Shaffer CD Elgin SC A lot about a little dot - lessons learned from Drosophila melanogaster chromosome 4 Biochem. Cell Biol. 2009 87 229 241 19234537 PMC2950803
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Öst, A., Lempradl, A., Casas, E., Weigert, M., Tiko, T., Deniz, M., Pantano, L., Boenisch, U., Itskov, P. M., Stoeckius, M., et al. (2014) · Cell · doi:10.1016/j.cell.2014.11.005 · Cited by 406 · see citing works
Dutta, A., Choudhary, P., Caruana, J. C., & Raina, R. (2017) · The Plant Journal · doi:10.1111/tpj.13623 · Cited by 124 · see citing works
SETDB1 accelerates tumourigenesis by regulating the WNT signalling pathway
Sun, Q., Ding, L., Xiao, J.-F., Chien, W., Lim, S. L., Hattori, N., Goodglick, L., Chia, D., Mah, V. H., Alavi, M., et al. (2014) · The Journal of Pathology · doi:10.1002/path.4482 · Cited by 81 · see citing works
Direct interrogation of the role of H3K9 in metazoan heterochromatin function
Penke, T. J. R., McKay, D. J., Strahl, B. D., Matera, A. G., & Duronio, R. J. (2016) · Genes & Development · doi:10.1101/gad.286278.116 · Cited by 74 · see citing works
Shao, Y., Song, X., Jiang, W., Chen, Y., Ning, Z., Gu, W., & Jiang, J. (2018) · Molecular Therapy · doi:10.1016/j.ymthe.2018.11.005 · Cited by 72 · see citing works
The composition and organization of Drosophila heterochromatin are heterogeneous and dynamic
Swenson, J. M., Colmenares, S. U., Strom, A. R., Costes, S. V., & Karpen, G. H. (2016) · eLife · doi:10.7554/elife.16096 · Cited by 65 · see citing works
Clough, E., Tedeschi, T. R., & Hazelrigg, T. I. (2014) · Developmental Biology · doi:10.1016/j.ydbio.2014.01.014 · Cited by 53 · see citing works
The Drosophila Dot Chromosome: Where Genes Flourish Amidst Repeats
Riddle, N. C., & Elgin, S. C. R. (2018) · Genetics · doi:10.1534/genetics.118.301146 · Cited by 44 · see citing works
p53 Down-regulates SETDB1 gene expression during paclitaxel induced-cell death
Noh, H.-J., Kim, K.-A., & Kim, K. (2014) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2014.02.053 · Cited by 38 · see citing works
Epigenetic mechanism of SETDB1 in brain: implications for neuropsychiatric disorders
Zhu, Y.-Y., Sun, D., Jakovcevski, M., & Jiang, Y. (2020) · Translational Psychiatry · doi:10.1038/s41398-020-0797-7 · Cited by 29 · see citing works
Jankovics, F., Bence, M., Sinka, R., Faragó, A., Bodai, L., Pettkó‐Szandtner, A., Ibrahim, K., Takács, Z., Szarka-Kovács, A. B., & Erdélyi, M. (2018) · Development · doi:10.1242/dev.170639 · Cited by 34 · see citing works
Meisel, R. P., Delclós, P. J., & Wexler, J. R. (2019) · BMC Biology · doi:10.1186/s12915-019-0721-x · Cited by 27 · see citing works
Caizzi, R., Moschetti, R., Piacentini, L., Fanti, L., Marsano, R. M., & Dimitri, P. (2016) · PLoS Genetics · doi:10.1371/journal.pgen.1006212 · Cited by 22 · see citing works
Luo, H., Wu, X., Zhu, X., Yi, X., Du, D., & Jiang, D. (2023) · Epigenetics & Chromatin · doi:10.1186/s13072-023-00519-1 · Cited by 21 · see citing works
Stutzman, A. V., Hill, C. A., Armstrong, R. L., Gohil, R., Duronio, R. J., Dowen, J. M., & McKay, D. J. (2024) · Molecular Cell · doi:10.1016/j.molcel.2024.05.002 · Cited by 23 · see citing works
Kang, I., Choi, Y., Jung, S., Lim, J. Y., Lee, D., Gupta, S., Moon, W., & Shin, C. (2018) · Scientific Reports · doi:10.1038/s41598-018-25483-9 · Cited by 16 · see citing works
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Schoelz, J. M., Feng, J. X., & Riddle, N. C. (2021) · Genetics · doi:10.1093/genetics/iyab108 · Cited by 14 · see citing works
Lindehell, H., Glotov, A., Dorafshan, E., Schwartz, Y. B., & Larsson, J. (2021) · Science Advances · doi:10.1126/sciadv.abh4390 · Cited by 15 · see citing works
Self-citationFefelova, E. A., Pleshakova, I. M., Mikhaleva, E. A., Pirogov, S. A., Poltorachenko, V. A., Abramov, Y. A., Romashin, D. D., Shatskikh, A. S., Blokh, R. S., Gvozdev, V. A., et al. (2022) · Nucleic Acids Research · doi:10.1093/nar/gkab1276 · Cited by 15 · see citing works
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Brueckner, L., van Arensbergen, J., Akhtar, W., Pagie, L., & van Steensel, B. (2016) · Epigenetics & Chromatin · doi:10.1186/s13072-016-0096-y · Cited by 13 · see citing works
Lundberg, L. E., Kim, M. H., Johansson, A., Faucillion, M.-L., Josupeit, R., & Larsson, J. (2013) · G3 Genes Genomes Genetics · doi:10.1534/g3.113.006866 · Cited by 12 · see citing works
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Bloskie, T., & Storey, K. B. (2022) · FEBS Letters · doi:10.1002/1873-3468.14440 · Cited by 11 · see citing works
Sidorenko, D. S., Sidorenko, I. A., Zykova, T. Y., Goncharov, F. P., Larsson, J., & Zhimulev, I. F. (2019) · Chromosoma · doi:10.1007/s00412-019-00703-x · Cited by 9 · see citing works
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Kalashnikova, D. A., Maksimov, D. A., Romanov, S. E., Laktionov, P. P., & Koryakov, D. E. (2020) · Journal of Cell Science · doi:10.1242/jcs.253096 · Cited by 8 · see citing works
SETDB1 deletion causes DNA demethylation and upregulation of multiple zinc-finger genes
Kang, Y.-K., Eom, J., Min, B., & Park, J. (2024) · Molecular Biology Reports · doi:10.1007/s11033-024-09703-2 · Cited by 7 · see citing works
Rezvykh, A. P., Funikov, S. Y., Protsenko, L. A., Kulikova, D. A., Zelentsova, E. S., Chuvakova, L. N., Blumenstiel, J. P., & Evgen’ev, M. B. (2021) · Genes · doi:10.3390/genes12020175 · Cited by 8 · see citing works
Ilyin, A. A., Stolyarenko, A. D., Zenkin, N., & Klenov, M. S. (2021) · International Journal of Molecular Sciences · doi:10.3390/ijms222413430 · Cited by 7 · see citing works
Funikov, S. Y., Rezvykh, A. P., Kulikova, D. A., Zelentsova, E. S., Protsenko, L. A., Chuvakova, L. N., Tyukmaeva, V. I., Arkhipova, I. R., & Evgen’ev, M. B. (2020) · Scientific Reports · doi:10.1038/s41598-020-68879-2 · Cited by 7 · see citing works
Yang, H., Sui, L., Cai, C., Chu, H., & Diao, Y. (2024) · Journal of Ovarian Research · doi:10.1186/s13048-024-01358-8 · Cited by 6 · see citing works
Ekhteraei‐Tousi, S., Lewerentz, J., & Larsson, J. (2020) · Cells · doi:10.3390/cells9020323 · Cited by 6 · see citing works
Self-citationIlyin, A. A., Stolyarenko, A. D., Klenov, M. S., & Shevelyov, Y. Y. (2020) · Chromosoma · doi:10.1007/s00412-020-00738-5 · Cited by 6 · see citing works
Phosphorylation-Dependent Targeting of Tetrahymena HP1 to Condensed Chromatin
Yale, K., Tackett, A. J., Neuman, M. K., Bulley, E., Chait, B. T., & Wiley, E. A. (2016) · mSphere · doi:10.1128/msphere.00142-16 · Cited by 4 · see citing works
SETDB1 modulates the differentiation of both the crystal cells and the lamellocytes in Drosophila
Paddibhatla, I., Gautam, D. K., & Mishra, R. K. (2019) · Developmental Biology · doi:10.1016/j.ydbio.2019.08.008 · Cited by 4 · see citing works
Multiple Roles of dXNP and dADD1—Drosophila Orthologs of ATRX Chromatin Remodeler
Melnikova, L. S., & Golovnin, A. K. (2023) · International Journal of Molecular Sciences · doi:10.3390/ijms242216486 · Cited by 3 · see citing works
Diversity and functional specialization of H3K9‐specific histone methyltransferases
Koryakov, D. E. (2023) · BioEssays · doi:10.1002/bies.202300163 · Cited by 1 · see citing works
Fedoseyeva, V. B., & Alexandrov, A. A. (2013) · Journal of Biomolecular Structure and Dynamics · doi:10.1080/07391102.2013.844081 · Cited by 1 · see citing works
Johansson, A., & Larsson, J. (2014) · Genomics Data · doi:10.1016/j.gdata.2014.04.007 · Cited by 1 · see citing works
Self-citationEpigenetics and targeting mechanisms in Drosophila melanogaster
Figueiredo, M. L. A. (2015) · KTH Publication Database DiVA (KTH Royal Institute of Technology) · Cited by 1 · see citing works
Funikov, S. Y., Rezvykh, A. P., Kulikova, D. A., Zelentsova, E. S., Chuvakova, L. N., Tyukmaeva, V. I., Arkhipova, I. R., & Evgen’ev, M. B. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/802371 · Cited by 1 · see citing works
Koya, S. K. (2014) · Human Biology
Jankovics, F., Bence, M., Sinka, R., Faragó, A., Bodai, L., Pettkó‐Szandtner, A., Ibrahim, K., Takács, Z., Szarka-Kovács, A. B., & Erdélyi, M. (2018) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/383265
Histone methyltransferase NSD modulates gene silencing mechanisms on Drosophila chromosome 4
Ko, D., Nam, K., Kang, B., Song, B., Kim, J., Cho, K. S., & Lee, I. (2024) · Biochemical and Biophysical Research Communications · doi:10.1016/j.bbrc.2024.150863
Molecular mechanisms of chromatin structure changes at position effect variegation
Shestakova, E. A., Solodovnikov, А. А., & Lavrov, S. A. (2025) · Molecular Genetics Microbiology and Virology (Russian) · doi:10.17116/molgen20254304221
Molecular Mechanisms of Chromatin Structure Changes at Position Effect Variegation
Анатольевна, Ш. Е., Solodovnikov, А. А., & Lavrov, S. A. (2025) · Molecular Genetics Microbiology and Virology · doi:10.3103/s0891416825700284
- Authors
- Lundberg, L. E., Stenberg, P., & Larsson, J.
- Affiliations
- Umeå University (SE)
- Corresponding author
- Larsson, Jan
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2013-03-09
- Volume
- 41
- Issue
- 8
- Pages
- 4481-4494
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- PMC
- PMC3632140
- OpenAlex
- W2155910660
- Cited by
- 47
- References
- 70
- Citations by year
- 2025: 2 · 2024: 5 · 2023: 3 · 2022: 1 · 2021: 6 · 2020: 5 · 2019: 5 · 2018: 5 · 2017: 1 · 2016: 5 · 2015: 1 · 2014: 6 · 2013: 2
- FWCI
- 2.09
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Nucleic Acids Research (publishedVersion, cc-by-nc)
- Europe PMC (PubMed Central) (publishedVersion, cc-by-nc)
- PubMed Central (publishedVersion, cc-by-nc)
- PubMed (publishedVersion)
- DiVA at Umeå University (Umeå University) (submittedVersion, other-oa)
- Funders
- Swedish Cancer Foundation
- Vetenskapsrådet
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Chromatin Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Epigenetics and DNA Methylation
- Life Sciences › Agricultural and Biological Sciences › Plant Science › Chromosomal and Genetic Variations
- Keywords
- HP1α, Su(var)3-9, SETDB1, POF, heterochromatin, H3K9 methylation, transcriptional repression, transcriptional activation, chromosome 4, pericentromeric heterochromatin, transposon silencing, gene length, gene expression regulation, Drosophila melanogaster
- MeSH terms
- Chromobox Protein Homolog 5, Animals, Centromere, Chromosomal Proteins, Non-Histone, DNA Transposable Elements, Drosophila melanogaster, Gene Expression Regulation, Histone-Lysine N-Methyltransferase, Repressor Proteins, Transcriptional Activation, Drosophila Proteins, Genome, Insect, Chromosomes, Insect
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