Skip to main content
SpringerLink
Log in

Mapping Genome-wide Binding Sites of Prox1 in Mouse Cochlea Using the CUT&RUN Approach

  • Letter to the Editor
  • Published:
Neuroscience Bulletin Aims and scope Submit manuscript

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

References

  1. Xiong H, Lai L, Ye YY, Zheng YQ. Glucose protects cochlear hair cells against oxidative stress and attenuates noise-induced hearing loss in mice. Neurosci Bull 2021, 37: 657–668.

    Article  CAS  Google Scholar 

  2. Atkinson PJ, Huarcaya Najarro E, Sayyid ZN, Cheng A. Sensory hair cell development and regeneration: Similarities and differences. Development 2015, 142: 1561–1571.

    Article  CAS  Google Scholar 

  3. Lee YS, Liu F, Segil N. A morphogenetic wave of p27Kip1 transcription directs cell cycle exit during organ of Corti development. Development 2006, 133: 2817–2826.

    Article  CAS  Google Scholar 

  4. Tateya T, Sakamoto S, Ishidate F, Hirashima T, Imayoshi I, Kageyama R. Three-dimensional live imaging of Atoh1 reveals the dynamics of hair cell induction and organization in the developing cochlea. Development 2019, 146: dev177881.

  5. Bermingham NA, Hassan BA, Price SD, Vollrath MA, Ben-Arie N, Eatock RA. Math1: an essential gene for the generation of inner ear hair cells. Science 1999, 284: 1837–1841.

    Article  CAS  Google Scholar 

  6. Jovanovic S, Milenkovic I. Purinergic modulation of activity in the developing auditory pathway. Neurosci Bull 2020, 36: 1285–1298.

    Article  Google Scholar 

  7. Bermingham-McDonogh O, Oesterle EC, Stone JS, Hume CR, Huynh HM, Hayashi T. Expression of Prox1 during mouse cochlear development. J Comp Neurol 2006, 496: 172–186.

    Article  CAS  Google Scholar 

  8. Fritzsch B, Dillard M, Lavado A, Harvey NL, Jahan I. Canal cristae growth and fiber extension to the outer hair cells of the mouse ear require Prox1 activity. PLoS One 2010, 5: e9377. https://doi.org/10.1371/journal.pone.0009377.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  9. Skene PJ, Henikoff S. An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites. Elife 2017, 6: e21856.

  10. Meers MP, Bryson TD, Henikoff JG, Henikoff S. Improved CUT&RUN chromatin profiling tools. Elife 2019, 8: e46314.

  11. Ohyama T, Groves AK. Generation of Pax2-Cre mice by modification of a Pax2 bacterial artificial chromosome. Genesis 2004, 38: 195–199.

    Article  CAS  Google Scholar 

  12. Dabdoub A, Puligilla C, Jones JM, Fritzsch B, Cheah KS, Pevny LH, et al. Sox2 signaling in prosensory domain specification and subsequent hair cell differentiation in the developing cochlea. Proc Natl Acad Sci U S A 2008, 105: 18396–18401.

    Article  CAS  Google Scholar 

  13. Kirjavainen A, Sulg M, Heyd F, Alitalo K, Ylä-Herttuala S, Möröy T, et al. Prox1 interacts with Atoh1 and Gfi1, and regulates cellular differentiation in the inner ear sensory epithelia. Dev Biol 2008, 322: 33–45.

    Article  CAS  Google Scholar 

  14. Montcouquiol M, Kelley MW. Development and patterning of the cochlea: From convergent extension to planar polarity. Cold Spring Harb Perspect Med 2020, 10: a033266.

  15. Lai SL, Doe CQ. Transient nuclear Prospero induces neural progenitor quiescence. Elife 2014, 3: e03363.

  16. Li J, Zhang T, Ramakrishnan A, Fritzsch B, Xu J, Wong EYM, et al. Dynamic changes in cis-regulatory occupancy by Six1 and its cooperative interactions with distinct cofactors drive lineage-specific gene expression programs during progressive differentiation of the auditory sensory epithelium. Nucleic Acids Res 2020, 48: 2880–2896.

    Article  CAS  Google Scholar 

  17. Kim SK, Selleri L, Lee JS, Zhang AY, Gu XY, Jacobs Y, et al. Pbx1 inactivation disrupts pancreas development and in Ipf1-deficient mice promotes diabetes mellitus. Nat Genet 2002, 30: 430–435.

    Article  CAS  Google Scholar 

Download references

Acknowledgements

We thank Dr. Qian Hu and the Optical Imaging Facility at the Institute of Neuroscience (ION) for support with image analysis, and the Embryology Department of the Animal Center at ION, Chinese Academy of Sciences, for in vitro fertilization. The Rosa26-LSL-Prox1/+ knock-in mouse was generated by Beijing Biocytogen Co., Ltd. We thank Dr. Steve Henikoff from the Fred Hutchinson Cancer Research Center for kindly providing pA-MNase. This research was supported by the State Key Laboratory of Molecular Developmental Biology (2019-MDB-KF-12), the National Key R&D Program of China (2017YFA0103901), the Strategic Priority Research Program of the Chinese Academy of Science (XDB32060100), the National Natural Science Foundation of China (81771012), a Shanghai Municipal Science and Technology Major Project (2018SHZDZX05), and the Innovative Research Team of High-Level Local Universities in Shanghai (SSMU-ZLCX20180601).

Author information

Author notes

  1. Zhengnan Luo and Jixiang Zhang have contributed equally to the work.

Authors and Affiliations

  1. Institute of Neuroscience, State Key Laboratory of Neuroscience, CAS Center for Excellence in Brain Science and Intelligence Technology, Chinese Academy of Sciences, Shanghai, 200031, China

    Zhengnan Luo & Zhiyong Liu

  2. University of Chinese Academy of Sciences, Beijing, 100049, China

    Zhengnan Luo, Jixiang Zhang, Falong Lu & Zhiyong Liu

  3. Shanghai Center for Brain Science and Brain-Inspired Intelligence Technology, Shanghai, 201210, China

    Zhiyong Liu

  4. State Key Laboratory of Molecular Developmental Biology, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China

    Jixiang Zhang, Lianyong Qiao & Falong Lu

Authors
  1. Zhengnan Luo
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Jixiang Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Lianyong Qiao
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Falong Lu
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Zhiyong Liu
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding authors

Correspondence to Falong Lu or Zhiyong Liu.

Supplementary Information

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Luo, Z., Zhang, J., Qiao, L. et al. Mapping Genome-wide Binding Sites of Prox1 in Mouse Cochlea Using the CUT&RUN Approach. Neurosci. Bull. 37, 1703–1707 (2021). https://doi.org/10.1007/s12264-021-00757-x

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s12264-021-00757-x

Search

Navigation