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Protocol of Transcriptome Analysis of Decidual Placenta Cells

  • GENOMICS. TRANSCRIPTOMICS
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Abstract

The advent of high-throughput sequencing technologies has expanded our understanding of the biological significance of non-coding regions of the genome. In recent years, more and more studies have been devoted to studying the role of noncoding RNAs in the development of diseases, as well as their participation in various cellular processes. Until now, all transcriptome studies of native placental tissue with the description of the noncoding RNA region were carried out without isolating individual cell populations. This approach, due to the high cellular heterogeneity of the placental tissue, significantly complicates the ability to determine the molecular-biological functions of individual cells and their role in the molecular pathogenesis of reproductive disorders. In this work, we propose a technique for obtaining total RNA from single decidual cells of frozen placental tissue obtained by laser-capture microdissection technology for transcriptome sequencing, including a cluster of noncoding RNAs. This technique can be successfully used to study the full-genome expression profile of other placental cell populations. The high accuracy of results on the transcriptome profiling of decidual cells obtained using the developed technique was additionally confirmed by an integrative analysis with the results of a 10x Genomics experiment.

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Funding

This work was carried out with the financial support of the Russian Foundation for Basic Research (grant nos. 20-34-90128 and 18-29-13045).

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Authors and Affiliations

  1. Research Institute of Medical Genetics, Tomsk National Research Medical Center, 634050, Tomsk, Russia

    A. A. Babovskaya, E. A. Trifonova, V. N. Serebrova, M. G. Svarovskaya, A. A. Zarubin & V. A. Stepanov

  2. Siberian State Medical University, 634050, Tomsk, Russia

    E. A. Trifonova, M. G. Svarovskaya, O. V. Zhilyakova, T. V. Gabidulina & A. A. Poltanova

  3. Scientific Center for Family Health and Human Reproduction Problems, 664003, Irkutsk, Russia

    L. V. Rychkova

Authors
  1. A. A. Babovskaya
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  2. E. A. Trifonova
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  3. V. N. Serebrova
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  4. M. G. Svarovskaya
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  5. A. A. Zarubin
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  6. O. V. Zhilyakova
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  7. T. V. Gabidulina
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  8. A. A. Poltanova
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  9. L. V. Rychkova
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  10. V. A. Stepanov
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Corresponding author

Correspondence to A. A. Babovskaya.

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Conflict of interests. The authors declare they have no conflicts of interest.

This study was reviewed by the Biomedical Ethics Committee of the Research Institute of Medical Genetics of the Federal State Budgetary Scientific Institution “Tomsk National Research Medical Center” (registration number 136, registration date 11.11.2019). All procedures performed in this work are in accordance with the ethical standards of the institutional committee on research ethics and the 1964 Declaration of Helsinki and its subsequent amendments or comparable standards of ethics. Informed voluntary consent was obtained from each of the participants.

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Babovskaya, A.A., Trifonova, E.A., Serebrova, V.N. et al. Protocol of Transcriptome Analysis of Decidual Placenta Cells. Mol Biol 56, 276–282 (2022). https://doi.org/10.1134/S0026893322020030

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  • DOI: https://doi.org/10.1134/S0026893322020030

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