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. 2019 Dec 27;9(1):20035.
doi: 10.1038/s41598-019-56566-w.

Transcriptome-wide analysis of the SCNT bovine abnormal placenta during mid- to late gestation

Guangqi Gao  1   2   3 , Shenyuan Wang  3 , Jiaqi Zhang  4 , Guanghua Su  1   2 , Zhong Zheng  1   2 , Chunling Bai  1   2 , Lei Yang  1   2 , Zhuying Wei  1   2 , Xiuying Wang  5 , Xiao Liu  3 , Ziru Guo  3 , Guangpeng Li  6   7 , Xiaohu Su  8   9 , Li Zhang  10   11   12
Affiliations

Transcriptome-wide analysis of the SCNT bovine abnormal placenta during mid- to late gestation

Guangqi Gao et al. Sci Rep. .

Abstract

The dysfunction of placenta is common in somatic cell nuclear transfer (SCNT) cloned cattle and would cause aberrant fetal development and even abortion, which occurred with highest rate at the mid- to late gestation. However, the mechanism of abnormal placentas was unclear. To analyze the transcriptome-wide characteristics of abnormal placentas in SCNT cloned cattle, the mRNA, lncRNA and miRNA of placental cotyledon tissue at day 180 after gestation were sequenced. A total of 19,055 mRNAs, 30,141 lncRNAs and 684 miRNAs were identified. Compared with control group, 362 mRNAs, 1,272 lncRNAs and nine miRNAs (six known and three novel miRNAs) were differentially expressed (fold change ≥ 2 and P-value < 0.05). The differentially expressed genes were functionally enriched in urea and ions transmembrane transport, which indicated that the maternal-fetal interactions were disturbed in impaired placentas. Furthermore, the competing endogenous RNAs (ceRNAs) networks were identified to illustrate their roles in abnormal placental morphology. The present research would be helpful to discover the mechanism of late gestational abnormality of SCNT cattle by provides important genomic information and insights.

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Conflict of interest statement

The authors declare no competing interests.

Figures

Figure 1
Figure 1
Clinical features of SCNT cattle during mid and late-pregnancy. (a) A case of SCNT fetus carried recipient cow with abnormally large abdominal circumference at 180 days of gestation. (b) A case of oversized SCNT bovine fetus. (c) The umbilical cord enlargement of the SCNT bovine fetus. (d) Placental hypertrophy and abnormal size of placental cotyledons.
Figure 2
Figure 2
Hierarchical clustering of mRNA, lncRNA and miRNA expression patterns compared between abnormal (AP) and normal placentas (NP). Expression values are represented in shades of red and blue, indicating expression above and below the mean expression value, respectively.
Figure 3
Figure 3
The functional enrichment of the differentially expressed genes between between abnormal (AP) and normal placentas (NP). (a) The KEGG pathway enrichment of the DEGs. (b) The GO enrichment of the DEGs. (c) Expression patterns of selected genes associated with urea and ions transmembrane transport. (d) Candidate genes validated by q-PCR. ***P < 0.001, ****P < 0.0001.
Figure 4
Figure 4
The interaction network between mRNAs and their target non-coding RNAs. (a) Overlap of up-regulated lncRNAs, up-regulated DEGs and down-regulated miRNAs in the abnormal placentas. (b) Overlap of down-regulated lncRNAs, down-regulated DEGsandup-regulated miRNAs in the abnormal placentas. (c) lncRNAs(in box) that potentially regulate most of the DEGs (in circle). Red indicates up- regulation, green indicates down- regulation. (d) miRNAs(in box) that potentially regulate most of the DEGs (in circle). Red indicates up- regulation, green indicates down- regulation. (e) The ceRNA interactions of bta-miR-1298-MSTRG.119672-TET1. (f) The ceRNA interactions of bta-miR-205-MSTRG.151572-CD320.
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