# AURKB-driven dissolution of CIZ1–RNA assemblies from the inactive X chromosome in mitosis

**Authors:** Lewis Byrom, Gabrielle L Turvey, Adam A Dowle, Megan Thomas, Navin Shirodkar, Ben J Green, Maxwell Brown, Charlotte Ball, Kate E Chapman, Elena Guglielmi, William Dickson, Emma Noon, Sajad Sofi, Justin F-X Ainscough, Alfred A Antson, Dawn Coverley

PMC · DOI: 10.1093/nar/gkag018 · Nucleic Acids Research · 2026-02-02

## TL;DR

This study shows how CIZ1-RNA assemblies on the inactive X chromosome are regulated during cell division by Aurora Kinase B.

## Contribution

The study identifies a novel regulatory mechanism involving AURKB in dissolving CIZ1–RNA assemblies during mitosis.

## Key findings

- CIZ1 is released from the inactive X chromosome in prometaphase under Aurora Kinase B regulation.
- Phosphomimetic mutations in CIZ1 disrupt RNA interactions but not chromatin or nuclear matrix associations.
- CIZ1's C-terminal domain is crucial for RNA binding and regulated by AURKB phosphorylation.

## Abstract

Cip1-interacting zinc-finger protein 1 (CIZ1) interacts with Xist lncRNA to form large RNA–protein assemblies at the inactive X-chromosome (Xi) in female mammalian nuclei, plus smaller assemblies in both sexes. CIZ1 assemblies influence underlying chromatin, and their disruption alters the expression of autosomal and X-linked gene clusters. Here, we explore the regulated dissolution of CIZ1–Xi assemblies during mitosis and show that, like Xist, CIZ1 is released in prometaphase under the regulation of Aurora Kinase B (AURKB). The part of human/mouse CIZ1 comprising 179/181 C-terminal amino acids encodes a matrin-3 domain that facilitates dimerization to form a compact folded core with disordered C-terminal extensions. Mass spectrometry revealed 56 high-confidence interacting partners of the C-terminal fragment, predominantly chromatin, nuclear matrix, and RNA-binding proteins. Phosphomimetic mutation of three conserved AURKB sites in the C-terminal extensions released CIZ1 from its nuclear anchor points, but did not affect its interaction with chromatin or nuclear matrix proteins. In contrast, the same mutations, or deletion of the C-terminal extensions, abolished interaction with RNAs, including Xist. Together, the data suggest CIZ1 is a regulatable component of the protein–RNA assemblies that preserve epigenetic stability across the nucleus, and that AURKB drives their dissolution in mitosis via dissociation of CIZ1 from RNA.

Graphical Abstract

## Linked entities

- **Genes:** CIZ1 (CDKN1A interacting zinc finger protein 1) [NCBI Gene 25792], XIST (X inactive specific transcript) [NCBI Gene 7503], AURKB (aurora kinase B) [NCBI Gene 9212]
- **Proteins:** CIZ1 (CDKN1A interacting zinc finger protein 1), MATR3 (matrin 3)
- **Species:** Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** CLEC4D (C-type lectin domain family 4 member D) [NCBI Gene 338339] {aka CD368, CLEC-6, CLEC6, CLECSF8, Dectin-3, MCL}, HNRNPK (heterogeneous nuclear ribonucleoprotein K) [NCBI Gene 3190] {aka AUKS, CSBP, HNRPK, TUNP}, SLTM (SAFB like transcription modulator) [NCBI Gene 79811] {aka Met}, GNL3 (G protein nucleolar 3) [NCBI Gene 26354] {aka C77032, E2IG3, NNP47, NS, Nug1}, NUMA1 (nuclear mitotic apparatus protein 1) [NCBI Gene 4926] {aka NMP-22, NUMA}, SRSF2 (serine and arginine rich splicing factor 2) [NCBI Gene 6427] {aka PR264, SC-35, SC35, SFRS2, SFRS2A, SRp30b}, SAFB (scaffold attachment factor B) [NCBI Gene 6294] {aka HAP, HET, SAB-B1, SAF-B, SAF-B1, SAFB1}, SAFB2 (scaffold attachment factor B2) [NCBI Gene 9667], XIST (X inactive specific transcript) [NCBI Gene 7503] {aka DXS1089, DXS399E, LINC00001, NCRNA00001, SXI1, swd66}, Gapdh (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 14433] {aka Gapd}, Xist (inactive X specific transcripts) [NCBI Gene 213742] {aka A430022B11}, CIZ1 (CDKN1A interacting zinc finger protein 1) [NCBI Gene 25792] {aka LSFR1, NP94, ZNF356}, Ccdc86 (coiled-coil domain containing 86) [NCBI Gene 108673] {aka 4933411H20Rik, 6720480F16Rik, D19Ertd678e}, BAZ1B (bromodomain adjacent to zinc finger domain 1B) [NCBI Gene 9031] {aka WBSCR10, WBSCR9, WSTF}, H1f2 (H1.2 linker histone, cluster member) [NCBI Gene 50708] {aka 0610008C09Rik, H1-2, H1.2, H1c, H1var1, His1a}, RRP1B (ribosomal RNA processing 1B) [NCBI Gene 23076] {aka KIAA0179, NNP1L, Nnp1, PPP1R136, RRP1}, Safb (scaffold attachment factor B) [NCBI Gene 224903] {aka 3110021E02Rik, 5330423C17Rik, E130307D12, HAP, HET, SAF-B1}, Pld2 (phospholipase D2) [NCBI Gene 18806] {aka PLD1C}, AURKB (aurora kinase B) [NCBI Gene 9212] {aka AIK2, AIM-1, AIM1, ARK-2, ARK2, AurB}, Ciz1 (CDKN1A interacting zinc finger protein 1) [NCBI Gene 68379] {aka 0610038H21Rik, 2900056O04Rik, LSFR1, ZNF356}, Hnrnpu (heterogeneous nuclear ribonucleoprotein U) [NCBI Gene 51810] {aka Hnrpu, SAFA, Sp120, hnRNP U}, Aurkb (aurora kinase B) [NCBI Gene 20877] {aka AIM-1, AIRK2, Aik2, Aim1, Ark2, AurB}, Rpl11 (ribosomal protein L11) [NCBI Gene 67025] {aka 2010203J19Rik}, DHX9 (DExH-box helicase 9) [NCBI Gene 1660] {aka DDX9, LKP, MRD75, NDH2, NDHII, RHA}, Mmp7 (matrix metallopeptidase 7) [NCBI Gene 17393] {aka MAT, MMP-7}, HNRNPU (heterogeneous nuclear ribonucleoprotein U) [NCBI Gene 3192] {aka DEE54, EIEE54, GRIP120, HNRNPU-AS1, HNRPU, SAF-A}, Actb (actin, beta) [NCBI Gene 11461] {aka Actx, E430023M04Rik, beta-actin}, Matr3 (matrin 3) [NCBI Gene 17184] {aka 1110061A14Rik, 2810017I02Rik, D030046F20Rik, mKIAA0723}, SMARCA5 (SNF2 related chromatin remodeling ATPase 5) [NCBI Gene 8467] {aka ISWI, SNF2H, WCRF135, hISWI, hSNF2H}, Pld1 (phospholipase D1) [NCBI Gene 18805] {aka Pld1a, Pld1b, mPLD1}, Sltm (SAFB-like, transcription modulator) [NCBI Gene 66660] {aka 5730455C01Rik, 5730555F13Rik, 9130215G10Rik, Met}, MATR3 (matrin 3) [NCBI Gene 9782] {aka ALS21, MPD2, VCPDM}, H3c7 (H3 clustered histone 7) [NCBI Gene 260423] {aka H3.2-221, H3c13, H3c14, H3c15, H3c2, H3c3}, RSL1D1 (ribosomal L1 domain containing 1) [NCBI Gene 26156] {aka CSIG, Cic1, L12, PBK1, UTP30}, Ddx24 (DEAD box helicase 24) [NCBI Gene 27225] {aka 1700055J08Rik, 2510027P10Rik}
- **Diseases:** cancer (MESH:D009369), SEC-MALLS (MESH:D020795), mitotic deficiencies (MESH:C536987), spindle abnormalities (MESH:D002277), breast cancers (MESH:D001943), aneuploidy (MESH:D000782)
- **Chemicals:** glutamine (MESH:D005973), CutSmart (-), MgCl2 (MESH:D015636), barasertib (MESH:C520647), acetonitrile (MESH:C032159), TBS (MESH:D013725), Cy (MESH:D003545), Peptide (MESH:D010455), thymidine (MESH:D013936), Glycine (MESH:D005998), Zn (MESH:D015032), MOPS (MESH:C008550), nocodazole (MESH:D015739), potassium acetate (MESH:D019347), ampicillin (MESH:D000667), neomycin (MESH:D009355), lipids (MESH:D008055), trifluoroacetic acid (MESH:D014269), SDS (MESH:D012967), NaOH (MESH:D012972), nitrogen (MESH:D009584), formic acid (MESH:C030544), HCl (MESH:D006851), GlutaMAX (MESH:C054122), DAPI (MESH:C007293), Glucose (MESH:D005947), agarose (MESH:D012685), CO2 (MESH:D002245), PBS (MESH:D007854), DTT (MESH:D004229), CSPD (MESH:C071872), polyacrylamide (MESH:C016679), HEPES (MESH:D006531), NaCl (MESH:D012965), Tween20 (MESH:D011136), phosphate (MESH:D010710), Okadaic acid (MESH:D019319), Triton X-100 (MESH:D017830), IGEPAL CA-630 (MESH:C010615), tautomycin (MESH:C053079), PFA (MESH:C003043), Ponceau S stain (MESH:C032756), EDTA (MESH:D004492), Thr (MESH:D013912), nylon (MESH:D009757), glycerol (MESH:D005990), D-PBS (MESH:C012939), ATP (MESH:D000255), PAA (MESH:D010463), Coomassie Blue (MESH:C048139), sucrose (MESH:D013395), PIPES (MESH:C008916), EGTA (MESH:D004533)
- **Species:** Homo sapiens (human, species) [taxon 9606], Escherichia coli (E. coli, species) [taxon 562], Mus musculus (house mouse, species) [taxon 10090], Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932]
- **Cell lines:** NP_082688.1 — Homo sapiens (Human), Telomerase immortalized cell line (CVCL_A9SL), D3T3 — Homo sapiens (Human), Type 1 diabetes mellitus, Induced pluripotent stem cell (CVCL_A9M4), BL21 RP — Homo sapiens (Human), EBV-related Burkitt lymphoma, Cancer cell line (CVCL_M639), HeLa — Homo sapiens (Human), Human papillomavirus-related endocervical adenocarcinoma, Cancer cell line (CVCL_0030), C57BL/6 — Mus musculus (Mouse), Transformed cell line (CVCL_C0MU), DH5alpha — Drosophila hydei (Fruit fly), Spontaneously immortalized cell line (CVCL_Z531), C179 — Mus musculus (Mouse), Hybridoma (CVCL_C5N8)

## Full text

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## Figures

6 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12862363/full.md

## References

64 references — full list in the complete paper: https://tomesphere.com/paper/PMC12862363/full.md

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Source: https://tomesphere.com/paper/PMC12862363