...Anna Török; Martin J. G. Browne; Jordina C. Vilar; Indu Patwal; Timothy Q. DuBuc; Febrimarsa; Erwan Atcheson; Uri Frank; Sebastian G. Gornik; Andrew Flaus ABSTRACT Many animals achieve sperm chromatin compaction and stabilisation by replacing canonical histones with sperm nuclear basic proteins...

... tissues. CUT&RUN-LoV-U outperforms original CUT&RUN when targeting co-factors that do not bind the DNA, can profile all classes of chromatin regulators and is well suited for simultaneous processing of several samples. We believe that the application of our protocol will allow the detection...

...-coding RNA or MUNC) is transcribed from the enhancer regions of the myogenic master regulator MyoD ( Cichewicz et al., 2018 ; Tsai et al., 2018 ). DRR eRNA directs cohesin loading in trans to promote chromatin opening during myogenesis, implicating DRR eRNA as a regulator of muscle cell...

... dissected from C57/BL6 mice were flash-frozen and stored at −80°C for subsequent treatment. Retinae were thawed on ice and incubated with 1% formaldehyde in PBS at room temperature for 15 min. Fixation was stopped by the addition of 0.125 M glycine (final). Chromatin was isolated by the addition of lysis...

... genes repressed by Dlx1/2 , including Olig2 . Consequently, heterozygosity of Dlx1/2 and Rbbp4 leads to an increase in the production of OLIG2 + cells. These findings highlight the importance of the interplay between transcription factors and chromatin remodelers in regulating cell-fate decisions...

... during zygotic genome activation. ZGA Chromatin Reprogramming HDAC1/2 Preimplantation Embryo National Natural Science Foundation of China http://dx.doi.org/10.13039/501100001809 31672416 32072939 31941007 32072731 31872348 Zhejiang Provincial Natural Science...

... embryo serves as a sophisticated mechanism for maintaining a genome-wide network of gene regulatory elements in an inaccessible chromatin structure throughout the body. As development progresses, programmed demethylation in each cell type then provides the specificity for maintaining select elements...

... of daughter cells, such as a cone photoreceptor and a horizontal cell (HC). We used genome-wide assays of chromatin structure to compare the profiles of a restricted cone/HC RPC and those of other RPCs in chicks. These data nominated regions of regulatory activity, which were tested in tissue, leading...

... in the neural tube . Mol. Cell 7 , 1279 - 1291 . 10.1016/S1097-2765(01)00271-4 Buenrostro , J. D. , Wu , B. , Chang , H. Y. and Greenleaf , W. J. ( 2015 ). ATAC-seq: a method for assaying chromatin accessibility genome-wide . Curr. Protoc. Mol. Biol. 109 , 21.29.1...

...Jiji T. Kurup; Zhijun Han; Wenfei Jin; Benjamin L. Kidder ABSTRACT Heterochromatin, a densely packed chromatin state that is transcriptionally silent, is a critical regulator of gene expression. However, it is unclear how the repressive histone modification H4K20me3 or the histone methyltransferase...

... inaccessible chromatin drive patterning diversification. This article has an associated ‘ The people behind the papers ’ interview. * These authors contributed equally to this work ‡ Authors for correspondence ( mb5443@nyu.edu ; eom204@nyu.edu ) Handling Editor: James Briscoe...

... profiling of the dynamic transcriptomic and chromatin accessibility landscape during zebrafish fin regeneration identifies new regulatory elements that direct regeneration-responsive gene expression. Chromatin Enhancers Fin regeneration Genome-wide profiling Regeneration Zebrafish Adult...

...Jesse R. Raab; Deepthi Y. Tulasi; Kortney E. Wager; Jeremy M. Morowitz; Scott T. Magness; Adam D. Gracz ABSTRACT Intestinal stem cell (ISC) plasticity is thought to be regulated by broadly permissive chromatin shared between ISCs and their progeny. Here, we have used a Sox9 EGFP reporter to examine...

..., such as zebrafish, represents an attractive inroad towards regenerating the human heart. Using integrated high-throughput transcriptional and chromatin analyses, we have identified a strong association between H3K27me3 deposition and reduced sarcomere and cytoskeletal gene expression in proliferative cardiomyocytes...

...Meghan E. Costello; Lisa N. Petrella ABSTRACT Tissue-specific establishment of repressive chromatin through creation of compact chromatin domains during development is necessary to ensure proper gene expression and cell fate. Caenorhabditis elegans synMuv B proteins are important for the soma...

... of histone-sensitive genes are associated with specific chromatin features linked to increased histone turnover. These include enrichment of the pioneer transcription factor Zelda, and lack of SIN3A and associated histone deacetylases. Our findings uncover a crucial regulatory role for histone concentrations...

...Patric J. Ho; Sarah M. Lloyd; Xiaomin Bao ABSTRACT The BAF (SWI/SNF) chromatin remodeling complex plays a crucial role in modulating spatiotemporal gene expression during mammalian development. Although its remodeling activity was characterized in vitro decades ago, the complex actions of BAF...

...; Harmit S. Malik; José M. Martín-Durán; Catherine L. Peichel; Marilyn B. Renfree; Kinga Rutowicz; Peter Sarkies; Robert J. Schmitz; Ulrich Technau; Joseph W. Thornton; Tobias Warnecke; Kenneth H. Wolfe ABSTRACT Over the past few years, interest in chromatin and its evolution has grown. To further advance...

... that H3K9me3 is also deposited at certain loci in a tissue-specific manner and plays important roles in regulating cell identity. Notably, H3K9me3 can repress genes encoding silencing factors, pointing to a fundamental principle of repressive chromatin auto-regulation. Interestingly, recent studies have shown...

... intestinal maturation by mining chromatin accessibility data for transcription factor motifs. ATAC-seq accessible regions shift during tissue maturation, with CDX2 transcription factor motifs abundant at chromatin-accessible regions of the embryo. Hepatocyte nuclear factor 4 (HNF4) transcription factor...