# Chromatin modifier HUSH co-operates with RNA decay factor NEXT to restrict transposable element expression

**Authors:** William Garland, Iris Müller, Mengjun Wu, Manfred Schmid, Katsutoshi Imamura, Leonor Rib, Albin Sandelin, Kristian Helin, Torben Heick Jensen

PMC · DOI: 10.1016/j.molcel.2022.03.004 · Molecular cell · 2022-09-01

## TL;DR

This study shows how two cellular complexes, NEXT and HUSH, work together to suppress harmful transposable element RNA in embryonic stem cells.

## Contribution

The paper reveals a physical and functional link between NEXT and HUSH complexes in controlling transposable element RNA.

## Key findings

- ZCCHC8 knockout increases transposable element RNA levels in embryonic stem cells.
- HUSH recruits NEXT to chromatin at transposable element loci bound by MPP8.
- NEXT and HUSH suppress different types of transposable element transcripts.

## Abstract

Transposable elements (TEs) are widespread genetic parasites known to be kept under tight transcriptional control. Here, we describe a functional connection between the mouse-orthologous “nuclear exosome targeting” (NEXT) and “human silencing hub” (HUSH) complexes, involved in nuclear RNA decay and the epigenetic silencing of TEs, respectively. Knocking out the NEXT component ZCCHC8 in embryonic stem cells results in elevated TE RNA levels. We identify a physical interaction between ZCCHC8 and the MPP8 protein of HUSH and establish that HUSH recruits NEXT to chromatin at MPP8-bound TE loci. However, while NEXT and HUSH both dampen TE RNA expression, their activities predominantly affect shorter non-polyadenylated and full-length polyadenylated transcripts, respectively. Indeed, our data suggest that the repressive action of HUSH promotes a condition favoring NEXT RNA decay activity. In this way, transcriptional and post-transcriptional machineries synergize to suppress the genotoxic potential of TE RNAs.

Garland et al. report a physical and functional connection between the NEXT complex, involved in RNA decay, and the HUSH complex, involved in chromatin regulation. Together, NEXT and HUSH cooperate to control transposable element (TE) RNA expression in embryonic stem cells, suppressing pA− and pA+ transcripts, respectively.

## Linked entities

- **Genes:** ZCCHC8 (zinc finger CCHC-type containing 8) [NCBI Gene 55596], MPHOSPH8 (M-phase phosphoprotein 8) [NCBI Gene 54737]
- **Proteins:** ZCCHC8 (zinc finger CCHC-type containing 8), MPHOSPH8 (M-phase phosphoprotein 8)
- **Species:** Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** ZFC3H1 (zinc finger C3H1-type containing) [NCBI Gene 196441] {aka CCDC131, CSRC2, PSRC2}, Erv4 (endogenous retroviral sequence 4 (with leucine tRNA primer)) [NCBI Gene 27282] {aka MuERV-L}, Fgf14 (fibroblast growth factor 14) [NCBI Gene 14169] {aka FGF-14, FHF-4, Fgf1b, Fhf4, Tg(tetO-MAPT*P301L)4510Kha, mFHF-4(1B)}, PABPN1 (poly(A) binding protein nuclear 1) [NCBI Gene 8106] {aka OPMD, PAB2, PABII, PABP-2, PABP2}, Pou5f1 (POU domain, class 5, transcription factor 1) [NCBI Gene 18999] {aka NF-A3, Oct-3, Oct-3/4, Oct-4, Oct3, Oct3/4}, Rnase1 (ribonuclease, RNase A family, 1 (pancreatic)) [NCBI Gene 19752] {aka Rib-1, Rib1}, MPHOSPH8 (M-phase phosphoprotein 8) [NCBI Gene 54737] {aka HSMPP8, TWA3, mpp8}, Ncoa1 (nuclear receptor coactivator 1) [NCBI Gene 17977] {aka KAT13A, NCoA-1, NRC-1, SRC-1, SRC-a, SRC1}, Map2k1 (mitogen-activated protein kinase kinase 1) [NCBI Gene 26395] {aka MAPKK1, MEKK1, Mek1, Prkmk1}, Sorcs2 (sortilin-related VPS10 domain containing receptor 2) [NCBI Gene 81840] {aka mKIAA1329}, Rplp0 (ribosomal protein lateral stalk subunit P0) [NCBI Gene 11837] {aka 36B4, Arbp, L10E}, Zcchc8 (zinc finger, CCHC domain containing 8) [NCBI Gene 70650] {aka 5730565F05Rik}, SETDB1 (SET domain bifurcated histone lysine methyltransferase 1) [NCBI Gene 9869] {aka ESET, H3-K9-HMTase4, KG1T, KMT1E, TDRD21}, CBX5 (chromobox 5) [NCBI Gene 23468] {aka HEL25, HP1, HP1A, HP1alpha}, TRIM28 (tripartite motif containing 28) [NCBI Gene 10155] {aka KAP1, PPP1R157, RNF96, TF1B, TIF1B, TIF1beta}, Snhg10 (small nucleolar RNA host gene 10) [NCBI Gene 69434] {aka 1700026B20Rik}, Rbm7 (RNA binding motif protein 7) [NCBI Gene 67010] {aka 1200007M24Rik, 1500011D06Rik}, DHX16 (DEAH-box helicase 16) [NCBI Gene 8449] {aka DBP2, DDX16, NMOAS, PRO2014, PRP8, PRPF2}, Abcb1a (ATP-binding cassette, sub-family B member 1A) [NCBI Gene 18671] {aka Abcb4, Evi32, Mdr1a, Mdr3, P-gp, Pgp}, Igh-V7183 (immunoglobulin heavy chain (V7183 family)) [NCBI Gene 16059] {aka B9-scFv, IgG, IgH, IgVH1(VSG), VH7183, VI24H}, Vcl (vinculin) [NCBI Gene 22330] {aka 9430097D22}, Exosc4 (exosome component 4) [NCBI Gene 109075] {aka 1110039I09Rik, 1500001N04Rik, Rrp41}, Zfc3h1 (zinc finger, C3H1-type containing) [NCBI Gene 216345] {aka Ccdc131, Psrc2}, MYC (MYC proto-oncogene, bHLH transcription factor) [NCBI Gene 4609] {aka MRTL, MYCC, bHLHe39, c-Myc}, NANOG (Nanog homeobox) [NCBI Gene 79923], TASOR (transcription activation suppressor) [NCBI Gene 23272] {aka C3orf63, FAM208A, RAP140, TASOR1, se89-1}, PPHLN1 (periphilin 1) [NCBI Gene 51535] {aka CR, HSPC206, HSPC232}, FAM120AOS (family with sequence similarity 120 member A opposite strand) [NCBI Gene 158293] {aka C9orf10OS}, Lif (leukemia inhibitory factor) [NCBI Gene 16878], RBM7 (RNA binding motif protein 7) [NCBI Gene 10179], ZCCHC8 (zinc finger CCHC-type containing 8) [NCBI Gene 55596] {aka PFBMFT5}, MTREX (Mtr4 exosome RNA helicase) [NCBI Gene 23517] {aka Dob1, KIAA0052, Mtr4, SKIV2L2, fSAP118}, Gapdh (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 14433] {aka Gapd}, Actb (actin, beta) [NCBI Gene 11461] {aka Actx, E430023M04Rik, beta-actin}
- **Diseases:** TE (MESH:C565217), HUSH (MESH:D001734)
- **Species:** Escherichia coli (E. coli, species) [taxon 562], Murine endogenous retrovirus (species) [taxon 35275], Homo sapiens (human, species) [taxon 9606], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Mus musculus (house mouse, species) [taxon 10090], Drosophila melanogaster (fruit fly, species) [taxon 7227], Schizosaccharomyces pombe (fission yeast, species) [taxon 4896]
- **Mutations:** E5520S
- **Cell lines:** S2 — Drosophila melanogaster (Fruit fly), Spontaneously immortalized cell line (CVCL_Z232), E14TG2a — Mus musculus (Mouse), Embryonic stem cell (CVCL_9108), mES — Homo sapiens (Human), Pleural malignant mesothelioma, Cancer cell line (CVCL_H665), HeLa — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_0030), MTR4-3F — Homo sapiens (Human), Chronic myelogenous leukemia, BCR-ABL1 positive, Cancer cell line (CVCL_SZ36), ES — Homo sapiens (Human), Embryonic stem cell (CVCL_C769)

## Full text

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## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC9433625/full.md

## References

97 references — full list in the complete paper: https://tomesphere.com/paper/PMC9433625/full.md

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Source: https://tomesphere.com/paper/PMC9433625