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High-throughput miRNA-sequencing of the human placenta: expression throughout gestation

View ORCID ProfileTania L Gonzalez, View ORCID ProfileLaura E Eisman, Nikhil V Joshi, Amy E Flowers, Di Wu, Yizhou Wang, Chintda Santiskulvong, Jie Tang, Rae A Buttle, Erica Sauro, Ekaterina L Clark, Rosemarie DiPentino, Caroline A Jefferies, Jessica L Chan, Yayu Lin, View ORCID ProfileYazhen Zhu, View ORCID ProfileYalda Afshar, View ORCID ProfileHsian-Rong Tseng, Kent Taylor, John Williams III, View ORCID ProfileMargareta D Pisarska
doi: https://doi.org/10.1101/2021.02.04.429392
Tania L Gonzalez
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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  • ORCID record for Tania L Gonzalez
Laura E Eisman
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Nikhil V Joshi
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
2David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
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Amy E Flowers
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Di Wu
3Genomics Core, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Yizhou Wang
3Genomics Core, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Chintda Santiskulvong
4CS Cancer Applied Genomics Shared Resource, CS Cancer, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Jie Tang
5Department of Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Rae A Buttle
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Erica Sauro
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Ekaterina L Clark
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Rosemarie DiPentino
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Caroline A Jefferies
6Division of Rheumatology, Department of Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Jessica L Chan
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
2David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
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Yayu Lin
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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Yazhen Zhu
7California NanoSystems Institute, Crump Institute for Molecular Imaging, Department of Molecular and Medical Pharmacology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
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Yalda Afshar
2David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
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Hsian-Rong Tseng
7California NanoSystems Institute, Crump Institute for Molecular Imaging, Department of Molecular and Medical Pharmacology, University of California, Los Angeles, Los Angeles, CA 90095, USA.
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Kent Taylor
2David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
8The Institute for Translational Genomics and Population Sciences, Department of Pediatrics, The Lundquist Institute for Biomedical Innovation at Harbor-UCLA Medical Center, Torrance, CA 90502, USA.
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John Williams III
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
2David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
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Margareta D Pisarska
1Department of Obstetrics and Gynecology, Center for Reproductive Medicine, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
2David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, 90095, USA.
5Department of Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, CA 90048, USA.
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  • For correspondence: Margareta.Pisarska@cshs.org
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Abstract

Background Altered placenta miRNA abundance may impact the maternal-fetal interface and pregnancy outcomes. Understanding miRNA changes across gestation is essential before miRNAs can be used as biomarkers or prognostic indicators during pregnancy.

Materials & Methods Using next-generation sequencing, we characterize the normative human placenta miRNA transcriptome in first (N=113) and third trimester (N=47).

Results There are 801 miRNAs expressed in both first and third trimester, including 182 with similar expression across gestation (P≥0.05) and 182 significantly different (FDR<0.05). Of placenta-specific miRNA clusters, C14MC is more upregulated in first trimester and C19MC is more highly expressed overall.

Conclusion This work provides a rich atlas of healthy pregnancies to direct functional studies investigating the epigenetic differences in first and third trimester placentae.

Lay Abstract The human body produces microRNAs which affect the expression of genes and proteins. This study uses next generation sequencing to identify the microRNA profile of first and third trimester human placentae using a large cohort (N=113 first, N=47 third trimester). All pregnancies resulted in healthy babies. We identify microRNAs with significantly different expression between first and third trimester, as well as stably expressed microRNAs. This work provides a baseline for future studies which may use microRNAs to monitor maternal-fetal health throughout pregnancy.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • Disclosure of Interest This work was supported by the National Institute of Health grants: R01 HD091773, R01 HD074368, T32 DK007770 and U01 EB026421. The funding agency was not involved in the design, analysis, or interpretation of the data reported. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Institutes of Health.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.
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Posted February 04, 2021.
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High-throughput miRNA-sequencing of the human placenta: expression throughout gestation
Tania L Gonzalez, Laura E Eisman, Nikhil V Joshi, Amy E Flowers, Di Wu, Yizhou Wang, Chintda Santiskulvong, Jie Tang, Rae A Buttle, Erica Sauro, Ekaterina L Clark, Rosemarie DiPentino, Caroline A Jefferies, Jessica L Chan, Yayu Lin, Yazhen Zhu, Yalda Afshar, Hsian-Rong Tseng, Kent Taylor, John Williams III, Margareta D Pisarska
bioRxiv 2021.02.04.429392; doi: https://doi.org/10.1101/2021.02.04.429392
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High-throughput miRNA-sequencing of the human placenta: expression throughout gestation
Tania L Gonzalez, Laura E Eisman, Nikhil V Joshi, Amy E Flowers, Di Wu, Yizhou Wang, Chintda Santiskulvong, Jie Tang, Rae A Buttle, Erica Sauro, Ekaterina L Clark, Rosemarie DiPentino, Caroline A Jefferies, Jessica L Chan, Yayu Lin, Yazhen Zhu, Yalda Afshar, Hsian-Rong Tseng, Kent Taylor, John Williams III, Margareta D Pisarska
bioRxiv 2021.02.04.429392; doi: https://doi.org/10.1101/2021.02.04.429392

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