Int J Med Sci 2022; 19(1):1-12. doi:10.7150/ijms.65002 This issue

Research Paper

Expression profiling of lncRNAs and mRNAs in placental site trophoblastic tumor (PSTT) by microarray

Jianfeng Gan1,2, Zhixian Chen1,2, Xuan Feng1,2, Zhi Wei1,2, Sai Zhang1,2, Yan Du1,2, Congjian Xu1,2✉, Hongbo Zhao1,2✉

1. Shanghai Key Laboratory of Female Reproductive Endocrine Related Diseases, Obstetrics and Gynecology Hospital, Fudan University, Shanghai 200011, People's Republic of China.
2. Department of Obstetrics and Gynecology of Shanghai Medical School, Fudan University, Shanghai 200032, People's Republic of China.

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Citation:
Gan J, Chen Z, Feng X, Wei Z, Zhang S, Du Y, Xu C, Zhao H. Expression profiling of lncRNAs and mRNAs in placental site trophoblastic tumor (PSTT) by microarray. Int J Med Sci 2022; 19(1):1-12. doi:10.7150/ijms.65002. Available from https://www.medsci.org/v19p0001.htm

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Abstract

Graphic abstract

As a rare type of gestational trophoblastic disease, placental site trophoblastic tumor (PSTT) is originated from intermediate trophoblast cells. Long noncoding RNAs (lncRNAs) regulate numerous biological process. However, the role of lncRNAs in PSTT remains poorly understood. In the present study, expression levels of lncRNAs and mRNAs in four human PSTT tissues and four normal placental villi were investigated. The results of microarray were validated by the reverse transcription and quantitative real-time polymerase reaction (RT-qPCR) and immunohistochemistry analyses. Furthermore, GO and KEGG pathway analyses were performed to identify the underlying biological processes and signaling pathways of aberrantly expressed lncRNAs and mRNAs. We also conducted the coding-non-coding gene co-expression (CNC) network to explore the interaction of altered lncRNAs and mRNAs. In total, we identified 1247 up-regulated lncRNAs and 1013 down-regulated lncRNAs as well as 828 up-regulated mRNAs and 1393 down-regulated mRNAs in PSTT tissues compared to normal villi (fold change ≥ 2.0, p < 0.05). GO analysis showed that mitochondrion was the most significantly down-regulated GO term, and immune response was the most significantly up-regulated term. A CNC network profile based on six confirmed lncRNAs (NONHSAT114519, NR_103711, NONHSAT003875, NONHSAT136587, NONHSAT134431, NONHSAT102500) as well as 354 mRNAs was composed of 497 edges. GO and KEGG analyses indicated that interacted mRNAs were enriched in the signal-recognition particle (SRP)-dependent cotranslational protein targeting to membrane and Ribosome pathway. It contributes to expand the understanding of the aberrant lncRNAs and mRNAs profiles of PSTT, which may be helpful for the exploration of new diagnosis and treatment of PSTT.

Keywords: placental site trophoblastic tumor (PSTT), microarray analysis, lncRNA