Transcripts of repetitive DNA elements signal to block phagocytosis of hematopoietic stem cells | Science

Submission history

Received: 26 November 2023

Accepted: 4 July 2024

Published in print: 13 September 2024

Acknowledgments

We gratefully thank the members of the Zon lab, the Harvard Stem Cell & Regenerative Biology (HSCRB) Department, Boston Children’s Hospital staff, the Harvard Bauer flow cytometry core, the Harvard Bauer sequencing core, the HCBI core, the HSCRB veterinarians and animal caretakers (I. Adatto, S. Freyer, and H. Nations), A. Noemi for providing the zfLTR5 plasmid, N. C. C. Elde for providing the isg15-GFP zebrafish and colleagues for critical reading of the manuscript and sharing reagents. We are also grateful to the Edward P. Evans Foundation and the Alex’s Lemonade Stand Fund for their support. Some figures were created with BioRender.com.

Funding: This work was supported by the National Institutes of Health (grant 5T32HL007574-40 to C.P.R.; grants P01HL131477, P01HL032262, U54DK110805, R24DK092760, R24OD017870, U01HL134812, and R01HL144780-01 to L.I.Z.; Director’s Early Independence Award DP5 OD029619 to A.S.N.; and National Heart Lung and Blood Institute Grant R01 HL167139 to A.S.N.); the Edward P. Evans Foundation (L.I.Z.); the Crazy 8 Initiative Award Program (L.I.Z.); Alex’s Lemonade Stand Fund (L.I.Z.); the Burroughs Wellcome Fund (Career Award for Medical Scientists to A.S.N.); and the Starr Cancer Consortium (A.S.N.). L.I.Z. is a Howard Hughes Medical Institute Investigator.

Author contributions: Bioinformatic analysis: S.Y., C.La., A.S.N., C.P.R.; Conceptualization: C.P.R., L.I.Z.; Funding acquisition: C.P.R., L.I.Z.; Methodology: C.P.R., J.M.C., C.M., J.W.K., C.A., C.Li.; Project administration: C.P.R.; Supervision: C.P.R., L.I.Z.; Visualization: C.P.R.; Writing – original draft: C.P.R.; Writing – review & editing: C.P.R., J.M.C., S.Y., C.M., J.W.K., C.La., A.S.N., C.A., C.Li., L.I.Z.

Competing interests: L.I.Z. is a founder and stockholder of Fate Therapeutics, CAMP4Therapeutics, and Scholar Rock. C.P.R. and L.I.Z. hold the patent: “Surface calr chemical inducers” (US Patent WO2023244470A1). The remaining authors declare no competing interests.

Data and materials availability: All data are available in the main text or the supplementary materials. There are no restrictions on sharing reagents used in the study. The RNAseq data were deposited at Sequence Read Archive (SRA) under the following submission numbers: SRR28470429, SRR28470426, SRR28470427, SRR28470424, SRR28470428, and SRR28470425 (PRJNA1092543).