IDEAS home Printed from https://ideas.repec.org/a/caa/jnlcjs/v62y2017i2id29-2016-cjas.html
   My bibliography  Save this article

Repeats as global DNA methylation marker in bovine preimplantation embryos

Author

Listed:
  • Wenwen Li

    (Department of Nutrition, Genetics and Ethology, Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium)

  • Ann Van Soom

    (Department of Reproduction, Obstetrics and Herd Health, Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium)

  • Luc Peelman

    (Department of Nutrition, Genetics and Ethology, Faculty of Veterinary Medicine, Ghent University, Merelbeke, Belgium)

Abstract

DNA methylation undergoes dynamic changes and is a crucial part of the epigenetic regulation during mammalian early development. To determine the DNA methylation levels in bovine embryos, we applied a bisulfite sequencing based method aimed at repetitive sequences including three retrotransposons (L1_BT, BovB, and ERV1-1-I_BT) and Satellite I. A more accurate estimate of the global DNA methylation level compared to previous methods using only one repeat sequence, like Alu, could be made by calculation of the weighted arithmetic mean of multiple repetitive sequences, considering the copy number of each repetitive sequence. Satellite I and L1_BT showed significant methylation reduction at the blastocyst stage, while BovB and ERV1-1-I_BT showed no difference. The mean methylation level of the repetitive sequences during preimplantation development was the lowest at the blastocyst stage. No methylation difference was found between embryos cultured in 5% and 20% O2. Because mutations of CpGs negatively influence the calculation accuracy, we checked the mutation rate of the sequenced CpG sites. Satellite I and L1_BT showed a relatively low mutation rate (1.92 and 3.72% respectively) while that of ERV1-1-I_BT and BovB was higher (11.95 and 24% respectively). Therefore we suggest using a combination of repeats with low mutation rate, taking into account the proportion of each sequence, as a relatively quick marker for the global DNA methylation status of preimplantation stages and possibly also for other cell types.

Suggested Citation

  • Wenwen Li & Ann Van Soom & Luc Peelman, 2017. "Repeats as global DNA methylation marker in bovine preimplantation embryos," Czech Journal of Animal Science, Czech Academy of Agricultural Sciences, vol. 62(2), pages 43-50.
    • Handle: RePEc:caa:jnlcjs:v:62:y:2017:i:2:id:29-2016-cjas
    DOI: 10.17221/29/2016-CJAS
    as

    Download full text from publisher

    File URL: http://cjas.agriculturejournals.cz/doi/10.17221/29/2016-CJAS.html
    Download Restriction: free of charge
    File URL: http://cjas.agriculturejournals.cz/doi/10.17221/29/2016-CJAS.pdf
    Download Restriction: free of charge
    File URL: https://libkey.io/10.17221/29/2016-CJAS?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    As the access to this document is restricted, you may want to search for a different version of it.

    References listed on IDEAS

    as
    1. Zachary D. Smith & Michelle M. Chan & Tarjei S. Mikkelsen & Hongcang Gu & Andreas Gnirke & Aviv Regev & Alexander Meissner, 2012. "A unique regulatory phase of DNA methylation in the early mammalian embryo," Nature, Nature, vol. 484(7394), pages 339-344, April.
    2. Hongshan Guo & Ping Zhu & Liying Yan & Rong Li & Boqiang Hu & Ying Lian & Jie Yan & Xiulian Ren & Shengli Lin & Junsheng Li & Xiaohu Jin & Xiaodan Shi & Ping Liu & Xiaoye Wang & Wei Wang & Yuan Wei & , 2014. "The DNA methylation landscape of human early embryos," Nature, Nature, vol. 511(7511), pages 606-610, July.
    Full references (including those not matched with items on IDEAS)

    Most related items

    These are the items that most often cite the same works as this one and are cited by the same works as this one.
    1. Jiajun Tan & Yingfeng Li & Xiang Li & Xiaoxiao Zhu & Liping Liu & Hua Huang & Jiahua Wei & Hailing Wang & Yong Tian & Zhigao Wang & Zhuqiang Zhang & Bing Zhu, 2024. "Pramel15 facilitates zygotic nuclear DNMT1 degradation and DNA demethylation," Nature Communications, Nature, vol. 15(1), pages 1-17, December.
    2. Ariane Lismer & Sarah Kimmins, 2023. "Emerging evidence that the mammalian sperm epigenome serves as a template for embryo development," Nature Communications, Nature, vol. 14(1), pages 1-22, December.
    3. Rebecca Jean Ryznar & Lacie Phibbs & Lon J. Van Winkle, 2021. "Epigenetic Modifications at the Center of the Barker Hypothesis and Their Transgenerational Implications," IJERPH, MDPI, vol. 18(23), pages 1-12, December.
    4. Andrea Lauria & Guohua Meng & Valentina Proserpio & Stefania Rapelli & Mara Maldotti & Isabelle Laurence Polignano & Francesca Anselmi & Danny Incarnato & Anna Krepelova & Daniela Donna & Chiara Levra, 2023. "DNMT3B supports meso-endoderm differentiation from mouse embryonic stem cells," Nature Communications, Nature, vol. 14(1), pages 1-18, December.
    5. Allegra Angeloni & Skye Fissette & Deniz Kaya & Jillian M. Hammond & Hasindu Gamaarachchi & Ira W. Deveson & Robert J. Klose & Weiming Li & Xiaotian Zhang & Ozren Bogdanovic, 2024. "Extensive DNA methylome rearrangement during early lamprey embryogenesis," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
    6. Henry J. Leese & Paul J. McKeegan & Roger G. Sturmey, 2021. "Amino Acids and the Early Mammalian Embryo: Origin, Fate, Function and Life-Long Legacy," IJERPH, MDPI, vol. 18(18), pages 1-19, September.
    7. Denis Torre & Nancy J. Francoeur & Yael Kalma & Ilana Gross Carmel & Betsaida S. Melo & Gintaras Deikus & Kimaada Allette & Ron Flohr & Maya Fridrikh & Konstantinos Vlachos & Kent Madrid & Hardik Shah, 2023. "Isoform-resolved transcriptome of the human preimplantation embryo," Nature Communications, Nature, vol. 14(1), pages 1-23, December.
    8. Joseph L. Graves Jr., 2015. "Great Is Their Sin," The ANNALS of the American Academy of Political and Social Science, , vol. 661(1), pages 24-50, September.

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:caa:jnlcjs:v:62:y:2017:i:2:id:29-2016-cjas. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    If CitEc recognized a bibliographic reference but did not link an item in RePEc to it, you can help with this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Ivo Andrle (email available below). General contact details of provider: https://www.cazv.cz/en/home/ .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.