Vitamin D receptor cistrome-transcriptome analyses establishes quantitatively distinct receptor genomic interactions in African American prostate cancer regulated by BAZ1A

Siddappa, M.; Hussain, S.; Wani, S. A.; Tang, H.; Jafari, H.; Gray, J. S.; Long, M. D.; Elhussin, I.; Karanam, B.; Wang, H.; Morgan, R.; Hardiman, G.; Adelani, I. B.; Rotimi, S.; Murphy, A. R.; Nonn, L.; Davis, M. B.; Kittles, R. A.; Hughes Halbert, C.; Sucheston-Campbell, L. E.; Yates, C.; Campbell, M. J.

doi:10.1101/2022.01.31.478573

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bioRxiv · 10.1101/2022.01.31.478573

Vitamin D receptor cistrome-transcriptome analyses establishes quantitatively distinct receptor genomic interactions in African American prostate cancer regulated by BAZ1A

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Abstract

BackgroundAfrican American (AA) prostate cancer (PCa) appears uniquely sensitive to 1,25(OH)2D3 signaling, compared to European American (EA) PCa, but the extent and impact of vitamin D receptor genomic functions remain poorly defined. ResultsA panel of EA and AA prostate epithelial cells (EA: HPr1-AR, LNCaP, AA: RC43N, RC43T, RC77N, RC77T) were analyzed with RIME to reveal the cell-specific composition of the VDR- complex. 1,25(OH)2D3-dependent ATAC-Seq revealed the greatest impact on nucleosome positioning in RC43N and RC43T, with gain of nucleosome-free at enhancer regions. VDR ChIP-Seq identified stronger and more frequent VDR binding in RC43N and RC43T that was enriched for a larger and distinct motif repertoire, than EA cells. VDR binding significantly overlapped with core circadian rhythm transcription factors in AA cell line models. RNA-Seq also revealed significantly stronger 1,25(OH)2D3 dependent VDR transcriptional responses enriched for circadian rhythm and inflammation networks in AA cells. Whilst RC43N was most responsive, RC43T displayed distorted responses. Significantly reduced BAZ1A/SMARCA5 in AA PCa samples was identified, and restored BAZ1A expression uniquely and significantly increased 1,25(OH)2D3-regulated VDR targets in AA cells. These VDR- dependent cistrome-annotated genes were also uniquely and most significantly identified in three cohorts of AA PCa patients. ConclusionThese data suggest VDR transcriptional control in the prostate is more potent and dynamic in AA men, and primed to govern inflammatory and circadian pathways. Reduced BAZ1A/SMARCA5 expression and/or reduced environmentally-regulated serum vitamin D3 levels suppress these actions. Therefore, the VDR axis lies at the cross-roads of biopsychosocial processes including stress responses, access to quality early detection and treatment, social determinants and that collectively contribute to PCa health disparities.

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Siddappa, M., Hussain, S., Wani, S. A., Tang, H., Jafari, H., Gray, J. S., Long, M. D., Elhussin, I., Karanam, B., Wang, H., Morgan, R., Hardiman, G., Adelani, I. B., Rotimi, S., Murphy, A. R., Nonn, L., Davis, M. B., Kittles, R. A., Hughes Halbert, C., Sucheston-Campbell, L. E., Yates, C., Campbell, M. J.. 2022-02-01. Vitamin D receptor cistrome-transcriptome analyses establishes quantitatively distinct receptor genomic interactions in African American prostate cancer regulated by BAZ1A. https://doi.org/10.1101/2022.01.31.478573

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