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Transcriptome analysis of early human placenta and idiopathic recurrent pregnancy loss samples

ABSTRACT: The goal of this study was to test gene expression changes in developing human placenta, which are associated with idiopathic recurrent pregnancy losses (RPL). In particular, we focused on RPL placental tissues that show significant defect in villi organization. Placental samples (less that 15 weeks) were collected. 4 control placentae with normal villi structure and 4 RPL placentae with defective villi formation were collected and ensured tissue viability. Whole placental villi were used to prepare RNA using Qiagen RNeasy Mini Kit with on column DNase digestion. RNA-seq analysis were performed using a NovaSeq 6000 platform.

ORGANISM(S): Homo sapiens

PROVIDER: GSE306548 | GEO | 2026/06/15

REPOSITORIES: GEO

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			Action	DRS
		Other
	GSE306548_DESeq2Out_RPL_vs_Normal.csv.gz	Csv
	GSE306548_RPL_vs_CTRL_count_file.csv.gz	Csv

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Project description:Recurrent pregnancy loss (RPL), defined as two or more consecutive miscarriages, affects 1-5% of couples attempting to conceive and most frequently occurs between 6 and 8 weeks of gestation, coinciding with critical stages of placental development. Despite this temporal association, placental contributions to RPL pathogenesis remain poorly understood. We hypothesized that trophoblast lineage development, including extravillous trophoblast (EVT) and syncytiotrophoblast (STB) differentiation, are disrupted in RPL. To test this hypothesis, we established and functionally characterized human trophoblast stem (TS) cell lines derived from products of conception (POC) obtained from consented idiopathic RPL cases. Four TS cell lines were successfully derived from five POC samples, representing both normal and abnormal karyotypes. All established TS cell lines exhibited canonical stem-state trophoblast features, including epithelial morphology, ELF5 promoter hypomethylation, expression of TS‑associated microRNAs, and trophoblast marker expression. Despite this preserved identity, TS cell lines displayed marked heterogeneity in proliferation and differentiation capacity. TS cells derived from POC with abnormal karyotypes exhibited prolonged doubling times and impaired differentiation, while those from normal karyotypes more closely resembled cytotrophoblast-derived control TS cells. Although all TS cells formed morphologically comparable STB spheroids, functional deficits in human chorionic gonadotropin β secretion were observed in a cell-line specific manner. EVT differentiation capacity varied substantially across RPL-derived TS cell lines. Transcriptomic analyses revealed karyotype-associated transcriptional heterogeneity, with one TS cell line exhibiting enrichment of senescence- and stress-associated pathways linked to impaired proliferation and differentiation. Together, these findings demonstrate that patient-specific TS cell lines retain trophoblast identity yet exhibit meaningful functional heterogeneity that becomes evident upon differentiation underscoring the importance of functional validation in placental disease modeling. Overall, POC-derived TS cells are a powerful platform for investigating mechanisms underlying RPL.

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Transcriptome analysis of early human placenta and idiopathic recurrent pregnancy loss samples

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