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Genome-wide replication dynamics quantification reveals stress-induced delayed/under-replication as a hallmark of CFSs

ABSTRACT: Genome-wide replication dynamics quantification reveals stress-induced delayed/under-replication as a hallmark of CFSs

PROVIDER: PRJNA556196 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR12248686_1.fastq.gz	Fastqsanger.gz
	SRR12248686_2.fastq.gz	Fastqsanger.gz
	SRR12248687_1.fastq.gz	Fastqsanger.gz
	SRR12248687_2.fastq.gz	Fastqsanger.gz
	SRR12248688_1.fastq.gz	Fastqsanger.gz

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Project description:Objective: This study aimed to identify the transcriptome profiles from periodontal tissues of replanted teeth and evaluate the functional differences of transcriptomes between immediate replantation and delayed replantation in a rat teeth avulsion animal model. Background: In dental avulsion, the prognosis of replanted teeth is hardly favorable in delayed replantation. After tooth replantation, complex inflammatory responses occur to return homeostasis in periodontal tissue. Various types of cytokines are produced in inflammatory microenvironment and these cytokines determine the periodontal tissue responses. Methods: Maxillary first molars of Sprague–Dawley rats were extracted and exposed to dry environment, then replanted. The animals were divided into two groups according to extra–oral time: immediate replantation group (dry for 5 min) and delayed replantation (dry for 60 min). Either 3 or 7 days after replantation, the animals were sacrificed. The palatal gingival tissues were harvested for mRNA–sequencing. Hallmark gene set enrichment analysis were performed to predict the function of transcriptomes. Normalized enrichment score (NES) was generated to determine the functional differences between the groups. Results: Hallmark gene sets enriched in delayed replantation at 3 days were oxidative phosphorylation (NES=2.82, q < 0.001) and TNF–α signaling via NF–κB pathway (NES= 1.52, q=0.034). At 7 days, TNF–α signaling via NF–κB pathway (NES=–1.82, q=0.002), angiogenesis (NES=–1.66, q =0.01), and TGF–β signaling pathway (NES=–1.46, q=0.051) were negatively highlighted in delayed replantation compared to immediate replantation. Conclusions: Transcriptome profiles were significantly different between immediate replantation and delayed replantation. The responses of periodontal tissues were associated with TNF–α signaling via NF–κB pathway. However, the enrichment score of this pathway were changed with time–dependent manner between immediate replantation and delayed replantation.

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Genome-wide replication dynamics quantification reveals stress-induced delayed/under-replication as a hallmark of CFSs

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