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| Status |
Public on Jul 16, 2019 |
| Title |
Binding of SU(VAR)3-9 partially depends on SETDB1 in the chromosomes of Drosophila melanogaster |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Histone modifications are a class of epigenetic marks with prominent roles in gene regulation in eukaryotes. One such mark, predominantly inactivation-related, is methylation of histone H3 lysine 9 (H3K9). In the present study, we decipher the interplay between two evolutionary conserved Drosophila H3K9-specific histone methyltransferases, SU(VAR)3-9 and SETDB1. We asked whether SETDB1 is required for targeting of SU(VAR)3-9. Using DamID-seq, we obtained SU(VAR)3-9 binding profiles for the chromosomes from larval salivary glands and germline cells from adult females, and compared profiles between the wild type and SETDB1-mutant backgrounds. Our analyses indicate that the vast majority of single-copy genes in euchromatin are targeted by SU(VAR)3-9 only in the presence of SETDB1, whereas repeated sequences in heterochromatin is largely SETDB1-independent. Interestingly, piRNA clusters 42AB and 38C behave differently in terms of SU(VAR)3-9 binding in somatic and germline cells. Namely, SU(VAR)3-9 binding to these piRNA clusters is independent of SETDB1 in somatic cells, whereas it is SETDB1-dependent in the germline. In addition, we compared SU(VAR)3-9 profiles in female germline cells at different developmental stages (whole juvenile ovaries and mature nurse cells). It turned out that SU(VAR)3-9 binding is influenced both by the presence of SETDB1, as well as by the differentiation stage.
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| Overall design |
Examination of Su(var)3-9 protein binding on chromosomes of juvenile ovaries in presence or absence of SET-DB1 mutation using DamID technique.
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| Contributor(s) |
Maksimov DA, Koryakov DE |
| Citation(s) |
31491894 |
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| Submission date |
Jul 15, 2019 |
| Last update date |
Sep 10, 2019 |
| Contact name |
Daniil Maksimov |
| E-mail(s) |
vift@mail.ru
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| Organization name |
MCB NSC RAS
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| Lab |
Genomics lab
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| Street address |
Lavrentjeva ave., 8/2
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| City |
Novosibirsk |
| ZIP/Postal code |
630090 |
| Country |
Russia |
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| Platforms (1) |
| GPL16479 |
Illumina MiSeq (Drosophila melanogaster) |
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| Samples (14)
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| Relations |
| BioProject |
PRJNA554572 |
| SRA |
SRP214579 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE134250_Su_var_3-9_Juv_ovaries_at_FDR_0.05_probability_track.wig.gz |
1.6 Mb |
(ftp)(http) |
WIG |
| GSE134250_Su_var_3-9_SetDB1-KO_Females_SG_at_FDR_0.05_probability_track.wig.gz |
1.3 Mb |
(ftp)(http) |
WIG |
| GSE134250_Su_var_3-9_ovaries_SetDB-KO_at_FDR_0.05_probability_track.wig.gz |
1.5 Mb |
(ftp)(http) |
WIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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