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Anyetei-Anum CS, Leatham-Jensen MP, Fox GC, Smith BR, Krajewski K, Strahl BD, Dowen JM, Matera AG, Duronio RJ, McKay DJ. Dual roles of histone H3 lysine-4 in antagonizing Polycomb group function and promoting target gene expression. bioRxiv. 2024 PMID: 38979215
Stutzman AV, Hill CA, Armstrong RL, Gohil R, Duronio RJ, Dowen JM, McKay DJ. Heterochromatic 3D genome organization is directed by HP1a- and H3K9-dependent and independent mechanisms. Mol Cell. 2024 PMID: 38795706.
Crain AT, Nevil M, Leatham-Jensen MP, Reeves KB, Matera AG, McKay DJ, Duronio RJ. Redesigning the Drosophila histone gene cluster: An improved genetic platform for spatiotemporal manipulation of histone function. Genetics. 2024 PMID: 39039029
Niederhuber MJ, Leatham-Jensen M, McKay DJ. The SWI/SNF nucleosome remodeler constrains enhancer activity during Drosophila wing development. Genetics. 2024 PMID: 37949841.
McPherson JE, Grossmann LC, Salzler HR, Armstrong RL, Kwon E, Matera AG, McKay DJ, Duronio RJ. Reduced histone gene copy number disrupts Drosophila Polycomb function. Genetics. 2023 PMID: 37279945.
Buchert EM, Fogarty EA, Uyehara CM, McKay DJ, Buttitta LA. A tissue dissociation method for ATAC-seq and CUT&RUN in Drosophila pupal tissues. Fly. 2023 PMID: 37211836
Salzler HR, Vandadi V, McMichael BD, Brown JC, Boerma SA, Leatham-Jensen MP, Adams KM, Meers MP, Simon JM, Duronio RJ, McKay DJ, Matera AG. Distinct roles for canonical and variant histone H3 lysine-36 in Polycomb silencing. Sci Adv. 2023 PMID: 36857457.
Uyehara CM, Leatham-Jensen M, McKay DJ. Opportunistic binding of EcR to open chromatin drives tissue-specific developmental responses. Proc Natl Acad Sci USA. 2022 PMID: 36161884.
Crain AT, Klusza S, Armstrong RL, Santa Rosa P, Temple BRS, Strahl BD, McKay DJ, Matera AG, Duronio RJ. Distinct developmental phenotypes result from mutation of Set8/KMT5A and histone H4 lysine 20 in Drosophila melanogaster. Genetics. 2022 PMID: 35404465
Harris RE, Stinchfield MJ, Nystrom SL, McKay DJ, Hariharan IK. Damage-responsive, maturity-silenced enhancers regulate multiple genes that direct regeneration in Drosophila. Elife. 2020 PMID: 32490812.
Nystrom SL, Niederhuber MJ, McKay DJ. Expression of E93 provides an instructive cue to control dynamic enhancer activity and chromatin accessibility during development. Development. 2020 PMID: 32094114.
Ma Y, McKay DJ, Buttitta L. Changes in chromatin accessibility ensure robust cell cycle exit in terminally differentiated cells. PLoS Biology. 2019 PMID: 31479438.
Uyehara CM, McKay DJ. Direct and widespread role for the nuclear receptor EcR in mediating the response to ecdysone in Drosophila. Proc Natl Acad Sci USA. 2019 PMID: 31019084.
McKay DJ, Stutzman AV, Dowen JM. Advancements in mapping 3D genome architecture. Methods. 2020 PMID: 31201934.
Poulton JS, McKay DJ, Peifer M. Centrosome Loss Triggers a Transcriptional Program To Counter Apoptosis-Induced Oxidative Stress. Genetics. 2019 PMID: 30867197.
Armstrong RL, Penke TJR, Chao SK, Gentile GM, Strahl BD, Matera AG, McKay DJ, Duronio RJ. H3K9 Promotes Under-Replication of Pericentromeric Heterochromatin in Drosophila Salivary Gland Polytene Chromosomes. Genes. 2019 PMID: 30700014
Leatham-Jensen M, Uyehara CM, Strahl BD, Matera AG, Duronio RJ, McKay DJ. Lysine 27 of replication-independent histone H3.3 is required for Polycomb target gene silencing but not for gene activation. PLoS Genetics. 2019 PMCID: PMC6370247.
McKay DJ. Using Formaldehyde-Assisted Isolation of Regulatory Elements (FAIRE) to Identify Functional Regulatory DNA in Insect Genomes. Methods in Molecular Biology. 2019 PMID: 30414113
Armstrong RL, Penke TJR, Strahl BD, Matera AG, McKay DJ, MacAlpine DM, Duronio RJ. Chromatin conformation and transcriptional activity are permissive regulators of DNA replication initiation in Drosophila. Genome Research. 2018 PMID: 30279224
Meers MP, Leatham-Jensen M, Penke TJR, McKay DJ, Duronio RJ, and Matera AG. An animal model for genetic analysis of multi-gene families: Cloning and transgenesis of large tandemly-repeated histone gene clusters. Methods in Molecular Biology. 2018; 1832. PMID: 30073535.
Lai YT, Deem KD, Borràs-Castells F, Sambrani N, Rudolf H, Suryamohan K, El-Sherif E, Halfon MS, McKay DJ, Tomoyasu Y. Enhancer identification and activity evaluation in the red flour beetle, Tribolium castaneum. Development. 2018; 145(7). PMID: 29540499.
Meers MP, Adelman K, Duronio RJ, Strahl BD, McKay DJ, Matera AG. Transcription start site profiling uncovers divergent transcription and enhancer-associated RNAs in Drosophila melanogaster. BMC genomics. 2018; 19(1):157. PMCID: PMC5822475
Penke TJR, McKay DJ, Strahl BD, Matera AG, Duronio RJ. Functional Redundancy of Variant and Canonical Histone H3 Lysine 9 Modification in Drosophila. Genetics. 2018; 208(1):229-244. PMCID: PMC5753860
Uyehara CM, Nystrom SL, Niederhuber MJ, Leatham-Jensen M, Ma Y, Buttitta LA, McKay DJ. Hormone-dependent control of developmental timing through regulation of chromatin accessibility. Genes & Development. 2017 May 1;31(9):862-875. PMCID: PMC5458754. Outlook by Carl Thummel.
Meers MP, Henriques T, Lavender CA, McKay DJ, Strahl BD, Duronio RJ, Adelman K, Matera AG. Histone gene replacement reveals a post-transcriptional role for H3K36 in maintaining metazoan transcriptome fidelity. Elife. 2017 Mar 27;6. pii: e23249. doi: 10.7554/eLife.23249. PMCID: PMC5404926.
Guo Y, Flegel K, Kumar J, McKay DJ, Buttitta LA. Ecdysone signaling induces two phases of cell cycle exit in Drosophila cells. Biology Open. 2016 Nov 15;5(11):1648-1661. doi: 10.1242/bio.017525. PMCID: PMC5155522.
Pearson JC*, McKay DJ*#, Lieb JD, and Crews ST#. Chromatin profiling of Drosophila CNS subpopulations identifies active transcriptional enhancers. Development. 2016 Oct 15;143(20):3723-3732. PMCID: PMC5087646.
Penke TJ, McKay DJ, Strahl BD, Matera AG, Duronio RJ. Direct interrogation of the role of H3K9 in metazoan heterochromatin function. Genes & Development. 2016; 30(16):1866-80. PMID: 27566777.
Tatomer DC, Terzo E, Curry KP, Salzler H, Sabath I, Zapotoczny G, McKay DJ, Dominski Z, Marzluff WF, Duronio RJ. Concentrating pre-mRNA processing factors in the histone locus body facilitates efficient histone mRNA biogenesis. The Journal of Cell Biology. 2016; 213(5):557-70. PMID: 27241916.
Schulz KN, Bondra ER, Moshe A, Villalta JE, Lieb JD, Kaplan T, McKay DJ, Harrison MM. Zelda is differentially required for chromatin accessibility, transcription factor binding, and gene expression in the early Drosophila embryo. Genome Research. 2015; 25(11):1715-26. PMID: 26335634.
McKay DJ, Klusza S, Penke TJR, Meers MP, Curry KP, McDaniel SL, Malek PY, Cooper SW, Tatomer DC, Lieb JD, Strahl BD, Duronio RJ, Matera AG. Interrogating the function of metazoan histones using engineered gene clusters. Developmental Cell. 2015; 32: 373-386. PMID 25669886.
McKay DJ, Lieb JD. A split personality for nucleosomes. Interrogating the function of metazoan histones using engineered gene clusters. Cell. 2014; 159: 1249-1251. PMID 25480289.
Agelopoulos M, McKay DJ, Mann RS. cgChIP: a cell type- and gene-specific method for chromatin analysis. Methods in Molecular Biology. 2014; 1196:291-306. PMID 25151171.
McKay DJ#, Lieb JD#. A common set of DNA regulatory elements shapes Drosophila appendages. Developmental Cell. 2013; 27: 306-318. PMID: 24229644. (highlighted in Nature Genetics)
Agelopoulos M, McKay DJ, Mann RS. Developmental regulation of chromatin conformation by Hox proteins in Drosophila. Cell Reports. 2012; 1: 350-359. PMCID: PMC3329935.
Roberts DM, Pronobis MI, Alexandre KM, Rogers GC, Poulton JS, Schneider DE, Jung KC, McKay DJ, Peifer M. Defining components of the beta-catenin destruction complex and exploring its regulation and mechanisms of action during development. PLoS One. 2012; 7: e31284. PMCID: PMC3281067.
Nolis IK*, McKay DJ*, Mantouvalou E, Lomvardas S, Merika M, Thanos D. Transcription factors mediate long-range enhancer-promoter interactions. Proc Natl Acad Sci USA. 2009; 106: 20222-20227. PMCID: PMC2779200.
McKay DJ*, Estella C*, Mann RS. The origins of the Drosophila leg revealed by the cis-regulatory architecture of the Distalless gene. Development 2009; 136: 61-71. PMCID: PMC2653810.
Estella C*, McKay DJ*, Mann RS. Molecular integration of wingless, decapentaplegic, and autoregulatory inputs into Distalless during Drosophila leg development. Developmental Cell 2008; 14: 86-96. PMCID: PMC2709787.
Noro B, Culi J, McKay DJ, Zhang W, Mann RS. Distinct functions of homeodomain-containing and homeodomain-less isoforms encoded by homothorax. Genes and Development 2006; 20: 1636-1650. PMCID: PMC1482483.
Gebelein B, McKay DJ, Mann RS. Direct integration of Hox and segmentation gene inputs during Drosophila development. Nature 2004; 431: 653-659. PMID 15470419.
