Induced decondensation of heterochromatin in<i>Drosophila melanogaster</i>polytene chromosomes under condition of ectopic expression of the<i>Supressor of underreplication</i>gene

Колесникова, Т. Д.; Semeshin, V. F.; Andreyeva, Evgeniya N.; Zykov, I. A.; Kokoza, E. B.; Калашникова, Д. А.; Belyaeva, E. S.; Жимулев, И. Ф.

doi:10.4161/fly.5.3.16729

Cited by 9 publications

(6 citation statements)

References 36 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In the first model, PARP-1 modulates chromatin by directly (ADP-ribosyl)ating core histones and chromatin associated proteins, thereby promoting the dissociation of nucleosomes and the decondensation of chromatin [11]. A specific example supporting this model is puff formation in Drosophila polytene chromosomes, which presents PARP-1-dependent accumulation of PAR at decondensed, transcriptionally active loci [37, 38]. PARP-1 can also poly(ADP-ribosyl)ate DEK, another repressive chromatin-associated protein, and evict it from chromatin, consequently allowing access of the transcription machinery to the chromatin [39].…”

Section: Discussionmentioning

confidence: 99%

Poly(ADP-ribose) polymerase-1 modulates Nrf2-dependent transcription

Wang

et al. 2014

Free Radical Biology and Medicine

View full text Add to dashboard Cite

The basic leucine zipper (bZIP) transcription factor Nrf2 has emerged as a master regulator of intracellular redox homeostasis by controlling the expression of a battery of redox balancing antioxidants and phase II detoxification enzymes. Under oxidative stress conditions, Nrf2 is induced at the protein level through redox-sensitive modifications on critical cysteine residues in Keap1, a component of an E3 ubiquitin ligase complex that targets Nrf2 for proteasomal degradation. Poly(ADP-ribose) polymerase-1 (PARP-1) is historically known to function in DNA damage detection and repair; however, recently PARP-1 has been shown to play an important role in other biochemical activities, such as DNA methylation and imprinting, insulator activity, chromosome organization and transcriptional regulation. The exact role of PARP-1 in transcription modulation and the underlying mechanisms remain poorly defined. In this study, we report that PARP-1 forms complexes with the antioxidant response element (ARE) within the promoter region of Nrf2 target genes and upregulates the transcriptional activity of Nrf2. Interestingly, PARP-1 neither physically interacts with Nrf2 nor does it promote the expression of Nrf2. In addition, PARP-1 does not target Nrf2 for poly(ADP-ribosyl)ation. Instead, PARP-1 interacts directly with small Maf proteins and the ARE of Nrf2 target genes, which augments ARE-specific DNA-binding of Nrf2, and enhances the transcription of Nrf2 target genes. Collectively, these results suggest that PARP-1 serves as a transcriptional coactivator, upregulating the transcriptional activity of Nrf2 by enhancing the interaction among Nrf2, MafG and the ARE.

show abstract

Section: Discussionmentioning

confidence: 99%

Poly(ADP-ribose) polymerase-1 modulates Nrf2-dependent transcription

Wang

et al. 2014

Free Radical Biology and Medicine

View full text Add to dashboard Cite

show abstract

“…Immunostaining was performed as described [41], [52], [72]. For CHRIZ detection, primary rabbit polyclonal anti-CHRIZ antibody (1∶600 dilution) and secondary FITC-labeled goat anti-rabbit IgG-specific conjugates (Abcam, 1∶200) were used.…”

Section: Methodsmentioning

confidence: 99%

Genetic Organization of Interphase Chromosome Bands and Interbands in Drosophila melanogaster

et al. 2014

Self Cite

View full text Add to dashboard Cite

Drosophila melanogaster polytene chromosomes display specific banding pattern; the underlying genetic organization of this pattern has remained elusive for many years. In the present paper, we analyze 32 cytology-mapped polytene chromosome interbands. We estimated molecular locations of these interbands, described their molecular and genetic organization and demonstrate that polytene chromosome interbands contain the 5′ ends of housekeeping genes. As a rule, interbands display preferential “head-to-head” orientation of genes. They are enriched for “broad” class promoters characteristic of housekeeping genes and associate with open chromatin proteins and Origin Recognition Complex (ORC) components. In two regions, 10A and 100B, coding sequences of genes whose 5′-ends reside in interbands map to constantly loosely compacted, early-replicating, so-called “grey” bands. Comparison of expression patterns of genes mapping to late-replicating dense bands vs genes whose promoter regions map to interbands shows that the former are generally tissue-specific, whereas the latter are represented by ubiquitously active genes. Analysis of RNA-seq data (modENCODE-FlyBase) indicates that transcripts from interband-mapping genes are present in most tissues and cell lines studied, across most developmental stages and upon various treatment conditions. We developed a special algorithm to computationally process protein localization data generated by the modENCODE project and show that Drosophila genome has about 5700 sites that demonstrate all the features shared by the interbands cytologically mapped to date.

show abstract

“…Immunostaining was performed as described in [54]. Primary antibody dilutions used were as follows: mouse monoclonal anti-PCNA (PC10, Abcam, ab29) - 1∶500; guinea pig anti-DUP (kindly provided by Dr. Terry Orr-Weaver [55]) 1∶500.…”

Section: Methodsmentioning

confidence: 99%

Late Replication Domains in Polytene and Non-Polytene Cells of Drosophila melanogaster

et al. 2012

Self Cite

View full text Add to dashboard Cite

In D. melanogaster polytene chromosomes, intercalary heterochromatin (IH) appears as large dense bands scattered in euchromatin and comprises clusters of repressed genes. IH displays distinctly low gene density, indicative of their particular regulation. Genes embedded in IH replicate late in the S phase and become underreplicated. We asked whether localization and organization of these late-replicating domains is conserved in a distinct cell type. Using published comprehensive genome-wide chromatin annotation datasets (modENCODE and others), we compared IH organization in salivary gland cells and in a Kc cell line. We first established the borders of 60 IH regions on a molecular map, these regions containing underreplicated material and encompassing ∼12% of Drosophila genome. We showed that in Kc cells repressed chromatin constituted 97% of the sequences that corresponded to IH bands. This chromatin is depleted for ORC-2 binding and largely replicates late. Differences in replication timing between the cell types analyzed are local and affect only sub-regions but never whole IH bands. As a rule such differentially replicating sub-regions display open chromatin organization, which apparently results from cell-type specific gene expression of underlying genes. We conclude that repressed chromatin organization of IH is generally conserved in polytene and non-polytene cells. Yet, IH domains do not function as transcription- and replication-regulatory units, because differences in transcription and replication between cell types are not domain-wide, rather they are restricted to small “islands” embedded in these domains. IH regions can thus be defined as a special class of domains with low gene density, which have narrow temporal expression patterns, and so displaying relatively conserved organization.

show abstract

Induced decondensation of heterochromatin inDrosophila melanogasterpolytene chromosomes under condition of ectopic expression of theSupressor of underreplicationgene

Abstract: . Zhimulev (2011) Induced decondensation of heterochromatin in Drosophilamelanogaster polytene chromosomes under condition of ectopic expression of the Supressorofunderreplication gene, Fly, 5:3,[181][182][183][184][185][186][187][188][189][190]

Cited by 9 publications

References 36 publications

Poly(ADP-ribose) polymerase-1 modulates Nrf2-dependent transcription

Poly(ADP-ribose) polymerase-1 modulates Nrf2-dependent transcription

Genetic Organization of Interphase Chromosome Bands and Interbands in Drosophila melanogaster

Late Replication Domains in Polytene and Non-Polytene Cells of Drosophila melanogaster

Contact Info

Product

Resources

About