mavii

CTCF expression in neural stem cells (NSCs) or neurons is essential for fly viability. To identify a biologically relevant tissue in which to study CTCF function in Drosophila, we used previously ...

The insulator protein CTCF is a highly conserved zinc finger protein that has been shown to play an essential role in regulation of chromatin organization and gene expression during development both, in Drosophila and mammals (Herold et al., 2012).

Here we used the CTCF attP(mCh) platform to introduce desired changes in the Drosophila CTCF gene and generated a series of transgenic lines expressing dCTCF with different variants of the N-terminal domain. Our findings revealed that the functionality of dCTCF is significantly affected by the deletion of the N-terminal DD. Additionally, we ...

To close this gap, we undertook the parallel mapping of genomic contacts, transcriptomes, and genomic binding landscapes of insulator-binding proteins in cultured cells custom-derived from Drosophila embryos homozygous for the loss-of-function mutations in CTCF or Cp190 genes. With this approach, we found hundreds of chromatin insulator elements.

In summary, we have provided evidence that the evolution of CTCF binding in Drosophila species is adaptive. Materials and Methods. Genomic Data Production. The sequenced strains of D. melanogaster, D. simulans, D. yakuba, and D. pseudoobscura were maintained at room temperature (18–20°C). Whole animal white prepupa (WPP) for both ChIP-seq ...

In Drosophila, several proteins that contain arrays of C2H2 zinc finger (C2H2) domains display architectural and insulator functions [9, 10].One architectural protein, CTCF, is conserved among most bilateral organisms and is the likely ancestor of all C2H2 proteins [[11], [12], [13]].CTCF contains a cluster of 11 C2H2 domains localized in the central part of the protein.

Here we examine the genome-wide binding of CTCF in four species of Drosophila separated by between ∼2.5 and 25 million years. CTCF is a highly conserved protein known to be associated with insulator sequences in the genomes of human and Drosophila. Although the binding preference for CTCF is highly conserved, we find that CTCF binding itself ...

In addition to CTCF, Drosophila has a number of other insulator proteins . Of the direct DNA binding factors, CTCF, BEAF-32, and Su(Hw) bind to the majority of domain boundaries along with the architectural cofactors CP190 or Mod(Mdg4) (4, 23–29).

Drosophila lacking CTCF complete development but misregulate the Hox gene Abdominal-B (Abd-B). (A) Top: view of the CTCF extended gene region (coordinates in dm6 indicated above the map) including flanking protein-coding genes, with coding (purple boxes) and noncoding exons (black boxes) and introns (dotted lines) indicated. Center: the CTCF KO locus, in which the CTCF open reading frame was ...

In Drosophila, CTCF (dCTCF) cooperates with other architectural proteins to establish long-range interactions and chromatin boundaries. CTCFs of various organisms contain an unstructured N-terminal dimerization domain (DD) and clusters comprising eleven zinc-finger domains of the C2H2 type. The Drosophila (dCTCF) and human (hCTCF) CTCFs share ...

We genetically ablate CTCF in Drosophila and examine impacts on genome folding and transcriptional regulation in the central nervous system. We find that CTCF is required to form a small fraction of all domain boundaries, while critically controlling expression patterns of certain genes and supporting nervous system function. We also find that ...

Results. To determine if CTCF plays a role in rDNA regulation in Drosophila, we first had to ascertain whether it could be detected in nucleoli of numerous different cell types, and moreover to determine if it is generally used to regulate rDNA.We observed strong immunofluorescence signal for CTCF in the nucleoli of differentiated salivary glands of third instar Drosophila larvae, showing that ...

The Drosophila CTCF binding motif was identified by examining the results of the ChIP-chip experiment performed using a Drosophila genome tiling array from NimbleGen. The NimbleGen analysis yielded a large number of potential CTCF binding sites (12,433 peaks). The sites were ranked by false discovery rate (FDR), and the genome sequences ...

Referred to CTCF, the CCCTC-binding factor is a zinc finger protein highly conserved from Drosophila to human, and is the only known insulator protein in vertebrates [1, 2].Initially discovered as a repressor of the chicken c-myc gene [], CTCF is reported to be involved in many cellular processes, including transcription activation and repression, chromosome insulation, X-chromosome ...

CTCF/cohesin loop extrusion is emerging as a key mechanism for the formation of TADs in mammals . In contrast, genome organization in Drosophila appears to depend primarily on the partitioning of chromatin state domains, whereas insulator proteins are not required for the establishment of TADs in early Drosophila embryos .

CTCF is the most thoroughly studied chromatin architectural protein and it is found in both Drosophila and mammals. CTCF preferentially binds to promoters and insulators and is thought to facilitate formation of chromatin loops. In a subset of sites, CTCF binding depends on the epigenetic status of …

Three electron microscopy datasets are combined to provide a complete connectomic description of the neural circuitry that makes up the neck connective in Drosophila, including the ...

CTCF is highly likely to be the ancestor of proteins that contain large clusters of C2H2 zinc finger domains, and its conservation is observed across most bilaterian organisms. In mammals, CTCF is the primary architectural protein involved in organizing chromosome topology and mediating enhancer–promoter interactions over long distances. In Drosophila, CTCF (dCTCF) cooperates with other ...

Taste is crucial for many innate and learned behaviors. In the fruit fly, Drosophila melanogaster, taste impacts processes including feeding, oviposition, locomotion, mating, and memory formation.These diverse roles may necessitate the apparent distributed nature of taste responses across different circuits in the fly brain, leading to complexity that has hindered attempts to deduce unifying ...

The Drosophila insulator proteins CTCF and CP190 link enhancer blocking to body patterning. EMBO J. 26, 4203–4214 (2007). [PMC free article] [Google Scholar] 47. Pai C. Y., Lei E. P., Ghosh D., Corces V. G., The centrosomal protein CP190 is a component of the gypsy chromatin insulator. Mol. Cell 16, 737–748 (2004). ...