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Series GSE134250 Query DataSets for GSE134250
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
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.
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.
Contributor(s) Maksimov DA, Koryakov DE
Citation(s) 31491894
Submission date Jul 15, 2019
Last update date Sep 10, 2019
Contact name Daniil Maksimov
Organization name MCB NSC RAS
Lab Genomics lab
Street address Lavrentjeva ave., 8/2
City Novosibirsk
ZIP/Postal code 630090
Country Russia
Platforms (1)
GPL16479 Illumina MiSeq (Drosophila melanogaster)
Samples (14)
GSM3940456 Su(var)3-9_juv-Ovary_1
GSM3940457 Su(var)3-9_juv-Ovary_2
GSM3940458 Dam_juv-Ovary_1
BioProject PRJNA554572
SRA SRP214579

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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
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