# BRCA1 binds TERRA RNA and suppresses R-Loop-based telomeric DNA damage

**Authors:** Jekaterina Vohhodina, Liana J. Goehring, Ben Liu, Qing Kong, Vladimir V. Botchkarev Jr., Mai Huynh, Zhiqi Liu, Fieda O. Abderazzaq, Allison P. Clark, Scott B. Ficarro, Jarrod A. Marto, Elodie Hatchi, David M. Livingston

PMC · DOI: 10.1038/s41467-021-23716-6 · Nature Communications · 2021-06-10

## TL;DR

BRCA1 helps prevent DNA damage at telomeres by binding to TERRA RNA and resolving R-loops, which is important for maintaining genome stability.

## Contribution

The novel finding is that BRCA1 directly binds TERRA RNA at telomeres in a cell cycle- and R-loop-dependent manner to suppress telomeric DNA damage.

## Key findings

- BRCA1 binds TERRA RNA and telomere-specific shelterin proteins in an R-loop- and cell cycle-dependent manner.
- BRCA1 represses TERRA transcription and prevents TERRA R-loop-associated damage, likely through interaction with SETX and XRN2.
- BRCA1 depletion or mutations in its TERRA-binding region lead to increased TERRA R-loops and telomeric abnormalities.

## Abstract

R-loop structures act as modulators of physiological processes such as transcription termination, gene regulation, and DNA repair. However, they can cause transcription-replication conflicts and give rise to genomic instability, particularly at telomeres, which are prone to forming DNA secondary structures. Here, we demonstrate that BRCA1 binds TERRA RNA, directly and physically via its N-terminal nuclear localization sequence, as well as telomere-specific shelterin proteins in an R-loop-, and a cell cycle-dependent manner. R-loop-driven BRCA1 binding to CpG-rich TERRA promoters represses TERRA transcription, prevents TERRA R-loop-associated damage, and promotes its repair, likely in association with SETX and XRN2. BRCA1 depletion upregulates TERRA expression, leading to overly abundant TERRA R-loops, telomeric replication stress, and signs of telomeric aberrancy. Moreover, BRCA1 mutations within the TERRA-binding region lead to an excess of TERRA-associated R-loops and telomeric abnormalities. Thus, normal BRCA1/TERRA binding suppresses telomere-centered genome instability.

BRCA1-mediated resolution of R-loops has previously been described. Here the authors reveal a functional association of BRCA1 with TERRA RNA at telomeres, which develops in an R-loop-, and a cell cycle-dependent manner.

## Linked entities

- **Genes:** BRCA1 (BRCA1 DNA repair associated) [NCBI Gene 672], SETX (senataxin) [NCBI Gene 23064], XRN2 (5'-3' exoribonuclease 2) [NCBI Gene 22803]
- **Proteins:** BRCA1 (BRCA1 DNA repair associated), SETX (senataxin), XRN2 (5'-3' exoribonuclease 2)

## Full-text entities

- **Genes:** Terf1 (telomeric repeat binding factor 1) [NCBI Gene 21749] {aka Pin2, Trbf1, Trf1}, SNRNP70 (small nuclear ribonucleoprotein U1 subunit 70) [NCBI Gene 6625] {aka RNPU1Z, RPU1, SNRP70, Snp1, U1-70K, U170K}, DNMT1 (DNA methyltransferase 1) [NCBI Gene 1786] {aka ADCADN, AIM, CXXC9, DNMT, HSN1E, MCMT}, XRN2 (5'-3' exoribonuclease 2) [NCBI Gene 22803], TERF1 (telomeric repeat binding factor 1) [NCBI Gene 7013] {aka PIN2, TRBF1, TRF, TRF1, hTRF1-AS, t-TRF1}, TERF2 (telomeric repeat binding factor 2) [NCBI Gene 7014] {aka TRBF2, TRF2}, Rnaseh1 (ribonuclease H1) [NCBI Gene 19819], HNRNPUL1 (heterogeneous nuclear ribonucleoprotein U like 1) [NCBI Gene 11100] {aka E1B-AP5, E1BAP5, HNRPUL1}, RBBP8 (RB binding protein 8, endonuclease) [NCBI Gene 5932] {aka COM1, CTIP, JAWAD, JWDS, RIM, SAE2}, DNMT3B (DNA methyltransferase 3 beta) [NCBI Gene 1789] {aka FSHD4, ICF, ICF1, M.HsaIIIB}, MFSD2A (MFSD2 lysolipid transporter A, lysophospholipid) [NCBI Gene 84879] {aka HsMFSD2A, MCPH15, MFSD2, NEDMISBA, NLS1, SLC59A1}, TP53BP1 (tumor protein p53 binding protein 1) [NCBI Gene 7158] {aka 53BP1, TDRD30, p202, p53BP1}, RNASEH1 (ribonuclease H1) [NCBI Gene 246243] {aka H1RNA, PEOB2, RNH1}, RNASE1 (ribonuclease A family member 1, pancreatic) [NCBI Gene 6035] {aka RAC1, RIB1, RNS1}, DICER1 (dicer 1, ribonuclease III) [NCBI Gene 23405] {aka DCR1, Dicer, Dicer1e, GLOW, HERNA, K12H4.8-LIKE}, MDC1 (mediator of DNA damage checkpoint 1) [NCBI Gene 9656] {aka NFBD1}, PML (PML nuclear body scaffold) [NCBI Gene 5371] {aka MYL, PP8675, RNF71, TRIM19}, ESR1 (estrogen receptor 1) [NCBI Gene 2099] {aka ER, ESR, ESRA, ESTRR, Era, NR3A1}, Brca1 (breast cancer 1, early onset) [NCBI Gene 12189], BRCA1 (BRCA1 DNA repair associated) [NCBI Gene 672] {aka BRCAI, BRCC1, BROVCA1, FANCS, IRIS, PNCA4}, POT1 (protection of telomeres 1) [NCBI Gene 25913] {aka CMM10, CRMCC3, GLM9, HPOT1, PFBMFT8, TPDS3}, Dmrt2 (doublesex and mab-3 related transcription factor 2) [NCBI Gene 226049] {aka Terra}, SETX (senataxin) [NCBI Gene 23064] {aka ALS4, AOA2, SCAN2, SCAR1, STEX, Sen1}, FUS (FUS RNA binding protein) [NCBI Gene 2521] {aka ALS6, ETM4, FUS1, HNRNPP2, POMP75, TLS}, HNRNPD (heterogeneous nuclear ribonucleoprotein D) [NCBI Gene 3184] {aka AUF1, AUF1A, HNRPD, P37, hnRNPD0}, HNRNPAB (heterogeneous nuclear ribonucleoprotein A/B) [NCBI Gene 3182] {aka ABBP1, HNRPAB}, Terf2 (telomeric repeat binding factor 2) [NCBI Gene 21750] {aka TRF2}, TERF2IP (TERF2 interacting protein) [NCBI Gene 54386] {aka DRIP5, RAP1}, NEWENTRY (Record to support submission of GeneRIFs for a gene not in Gene (human).) [NCBI Gene 192343], TINF2 (TERF1 interacting nuclear factor 2) [NCBI Gene 26277] {aka DKCA3, DKCA5, TIN2}, TPP1 (tripeptidyl peptidase 1) [NCBI Gene 1200] {aka CLN2, GIG1, LPIC, SCAR7, TPP-1}
- **Diseases:** ALT (MESH:C536589), tumorigenesis (MESH:D063646), telomere dysfunction (MESH:C536801), DRIP (MESH:D012327), Cancer (MESH:D009369), facial abnormalities (ICF) syndrome (MESH:C537362), centromeric instability (OMIM:242860), lung adenocarcinoma (MESH:D000077192), immunodeficiency (MESH:D007153)
- **Species:** Escherichia coli (E. coli, species) [taxon 562], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Homo sapiens (human, species) [taxon 9606], Hungerfordia sp. T (species) [taxon 563708]
- **Mutations:** c. 1518 G>T, R506S
- **Cell lines:** HME — Homo sapiens (Human), Transformed cell line (CVCL_Y905), T98G — Homo sapiens (Human), Glioblastoma, Cancer cell line (CVCL_0556), HeLa — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_0030), U2OS — Homo sapiens (Human), Osteosarcoma, Cancer cell line (CVCL_0042)

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC8192922/full.md

## References

64 references — full list in the complete paper: https://tomesphere.com/paper/PMC8192922/full.md

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Source: https://tomesphere.com/paper/PMC8192922