SetDB1 and Su(var)3-9 play non-overlapping roles in somatic cell chromosomes of Drosophila melanogaster

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SetDB1 and Su(var)3-9 play non-overlapping roles in somatic cell chromosomes of Drosophila melanogaster. / Kalashnikova, Darya A.; Maksimov, Daniil A.; Romanov, Stanislav E. et al.

In: Journal of Cell Science, Vol. 134, No. 2, jcs253096, 01.2021.

Research output: Contribution to journal › Article › peer-review

BibTeX

@article{5557f310bdb6478fbfdf8ba21e13caba,

title = "SetDB1 and Su(var)3-9 play non-overlapping roles in somatic cell chromosomes of Drosophila melanogaster",

abstract = "We explored functional roles of two H3K9-specific histone methyltransferases of Drosophila melanogaster, SetDB1 (also known as Eggless) and Su(var)3-9. Using the DamIDapproach,we generated the binding profile for SetDB1 in Drosophila salivary gland chromosomes, and matched it to the profile of Su(var)3-9. Unlike Su(var)3-9, SetDB1 turned out to be an euchromatic protein that is absent from repeated DNA compartments, and is largely restricted to transcription start sites (TSSs) and 5' untranslated regions (5'UTRs) of ubiquitously expressed genes. Significant SetDB1 association is also observed at binding sites for the insulator protein CP190. SetDB1 and H3K9 di- and tri-methylated (me2 and me3)-enriched sites tend to display poor overlap. At the same time, SetDB1 has a clear connection with the distribution of H3K27me3 mark. SetDB1 binds outside the domains possessing this modification, and about half of the borders of H3K27me3 domains are decorated by SetDB1 together with actively transcribed genes. On the basis of poor correlation between the distribution of SetDB1 and H3K9methylationmarks,we speculate that, in somatic cells, SetDB1may contribute to themethylation of a broader set of chromosomal proteins than just H3K9. In addition, SetDB1 can be expected to play a role in the establishment of chromatin functional domains.",

keywords = "CP190, Drosophila, H3K27 methylation, H3K9 methylation, SetDB1, Su(var)3-9, TAD",

author = "Kalashnikova, {Darya A.} and Maksimov, {Daniil A.} and Romanov, {Stanislav E.} and Laktionov, {Petr P.} and Koryakov, {Dmitry E.}",

note = "Funding Information: This research was supported by the grants from the Russian Foundation for Basic Research #19-04-00352 (D.A.K., D.A.M., and D.E.K.), #19-34-90108 (S.E.R.), #20-34-70141 (P.P.L.), Russian Program for Basic Research #0310-2019-0003 (D.E.K.) and 0310-2019-0005 (D.A.K., D.A.M., S.E.R. and P.P.L.), a grant from the Ministry of Education and Science of Russian Federation #14.Y26.31.0024 (D.A.K., D.A.M., S.E.R., and P.P.L.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. Publisher Copyright: {\textcopyright} 2021 Company of Biologists Ltd. All rights reserved. Copyright: Copyright 2021 Elsevier B.V., All rights reserved.",

year = "2021",

month = jan,

doi = "10.1242/jcs.253096",

language = "English",

volume = "134",

journal = "Journal of Cell Science",

issn = "0021-9533",

publisher = "Company of Biologists Ltd",

number = "2",

}

RIS

TY - JOUR

T1 - SetDB1 and Su(var)3-9 play non-overlapping roles in somatic cell chromosomes of Drosophila melanogaster

AU - Kalashnikova, Darya A.

AU - Maksimov, Daniil A.

AU - Romanov, Stanislav E.

AU - Laktionov, Petr P.

AU - Koryakov, Dmitry E.

N1 - Funding Information: This research was supported by the grants from the Russian Foundation for Basic Research #19-04-00352 (D.A.K., D.A.M., and D.E.K.), #19-34-90108 (S.E.R.), #20-34-70141 (P.P.L.), Russian Program for Basic Research #0310-2019-0003 (D.E.K.) and 0310-2019-0005 (D.A.K., D.A.M., S.E.R. and P.P.L.), a grant from the Ministry of Education and Science of Russian Federation #14.Y26.31.0024 (D.A.K., D.A.M., S.E.R., and P.P.L.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. Publisher Copyright: © 2021 Company of Biologists Ltd. All rights reserved. Copyright: Copyright 2021 Elsevier B.V., All rights reserved.

PY - 2021/1

Y1 - 2021/1

N2 - We explored functional roles of two H3K9-specific histone methyltransferases of Drosophila melanogaster, SetDB1 (also known as Eggless) and Su(var)3-9. Using the DamIDapproach,we generated the binding profile for SetDB1 in Drosophila salivary gland chromosomes, and matched it to the profile of Su(var)3-9. Unlike Su(var)3-9, SetDB1 turned out to be an euchromatic protein that is absent from repeated DNA compartments, and is largely restricted to transcription start sites (TSSs) and 5' untranslated regions (5'UTRs) of ubiquitously expressed genes. Significant SetDB1 association is also observed at binding sites for the insulator protein CP190. SetDB1 and H3K9 di- and tri-methylated (me2 and me3)-enriched sites tend to display poor overlap. At the same time, SetDB1 has a clear connection with the distribution of H3K27me3 mark. SetDB1 binds outside the domains possessing this modification, and about half of the borders of H3K27me3 domains are decorated by SetDB1 together with actively transcribed genes. On the basis of poor correlation between the distribution of SetDB1 and H3K9methylationmarks,we speculate that, in somatic cells, SetDB1may contribute to themethylation of a broader set of chromosomal proteins than just H3K9. In addition, SetDB1 can be expected to play a role in the establishment of chromatin functional domains.

AB - We explored functional roles of two H3K9-specific histone methyltransferases of Drosophila melanogaster, SetDB1 (also known as Eggless) and Su(var)3-9. Using the DamIDapproach,we generated the binding profile for SetDB1 in Drosophila salivary gland chromosomes, and matched it to the profile of Su(var)3-9. Unlike Su(var)3-9, SetDB1 turned out to be an euchromatic protein that is absent from repeated DNA compartments, and is largely restricted to transcription start sites (TSSs) and 5' untranslated regions (5'UTRs) of ubiquitously expressed genes. Significant SetDB1 association is also observed at binding sites for the insulator protein CP190. SetDB1 and H3K9 di- and tri-methylated (me2 and me3)-enriched sites tend to display poor overlap. At the same time, SetDB1 has a clear connection with the distribution of H3K27me3 mark. SetDB1 binds outside the domains possessing this modification, and about half of the borders of H3K27me3 domains are decorated by SetDB1 together with actively transcribed genes. On the basis of poor correlation between the distribution of SetDB1 and H3K9methylationmarks,we speculate that, in somatic cells, SetDB1may contribute to themethylation of a broader set of chromosomal proteins than just H3K9. In addition, SetDB1 can be expected to play a role in the establishment of chromatin functional domains.

KW - CP190

KW - Drosophila

KW - H3K27 methylation

KW - H3K9 methylation

KW - SetDB1

KW - Su(var)3-9

KW - TAD

UR - http://www.scopus.com/inward/record.url?scp=85100360514&partnerID=8YFLogxK

U2 - 10.1242/jcs.253096

DO - 10.1242/jcs.253096

M3 - Article

C2 - 33288549

AN - SCOPUS:85100360514

VL - 134

JO - Journal of Cell Science

JF - Journal of Cell Science

SN - 0021-9533

IS - 2

M1 - jcs253096

ER -

ID: 27708462