RNA-seq showed suppressed immune-related profile rescue pregnancy in an abotion mouse model

Purpose:We hypothesize that there were some beneficial effects in survive fetal and protected fetal from demise in placenta. Here we use RNA-seq to characterize the transcriptome changes of placenta tissue and pay more attention to immune-related genes. Methods: Female CBA/J mice were randomly allocated into two groups , abortion-prone group(A) and normal pregnance group(N), which mated with DBA/2J and BALB/c respectively. Male and female mice were mated 2∶1 at 18:00 and checked for vaginal plugs at 8:00 next day. Females with vaginal plugs were segregated and defined day 0.5 of gestation.Mice were killed by neck dislocation on day 13.5 of gestation and placentas were excised and immediately snap-frozen in liquid nitrogen before being stored at −80°C for subsequent analysis. Placental mRNA profiles were generated by deep sequencing using Illumina seq 2500. The sequence reads that passed quality filters were analyzed at the transcript isoform level with TopHat followed by Cufflinks. qRT–PCR validation was performed using TaqMan and SYBR Green assays. Results: we mapped about 55 million sequence reads per sample to the mouse genome (build mm8) and 23995 transcripts with TopHat workflow. 523 genes were differentially expressed at a significance level of P-value < 0.005 and a fold-change ≥ 2 with two group both FPKM ≤1.5 ignored. We found 24 genes contribute to suppressing immune system and 6 are against it. Conclusions: Our study represents the first detailed analysis of transcriptomes in placenta in the abotion model and immunosuppression can rescue pregnancy loss. 6 samples