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Comprehensive analysis of mRNA N6-methyladenosine modification in Eimeria tenella unsporulated oocysts and sporulated oocysts

ABSTRACT: Comprehensive analysis of mRNA N6-methyladenosine modification in Eimeria tenella unsporulated oocysts and sporulated oocysts

PROVIDER: PRJNA913413 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR22796772_1.fastq.gz	Fastqsanger.gz
	SRR22796772_2.fastq.gz	Fastqsanger.gz
	SRR22796773_1.fastq.gz	Fastqsanger.gz
	SRR22796773_2.fastq.gz	Fastqsanger.gz
	SRR22796774_1.fastq.gz	Fastqsanger.gz

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Comprehensive analysis of mRNA N6-methyladenosine modification in Eimeria tenella unsporulated oocysts and sporulated oocysts

Project description:N6-methyladenosine (m6A) modification, one of the most abundant RNA modification forms, is associated with almost all the aspects of RNA metabolism. In the present study, we surveyed the transcriptome-wide prevalence of m6A in sporulated oocysts and unsporulated oocysts of E. tenella. Methylated RNA immunoprecipitation sequencing (MeRIP-seq) analysis showed that m6A modifications were most abundant in the coding sequence, followed by stop codon. There were 3903 hypermethylated and 3178 hypomethylated mRNAs in sporulated oocysts compared with unsporulated oocysts. Further joint analysis suggested that m6A modifications of the majority of genes were positively correlated with mRNA expression. The mRNA relative expression and m6A level of the selected genes were confirmed by quantitative reverse transcription PCR (RT-qPCR) and MeRIP-qPCR. GO and KEGG analysis indicated that differentially m6A methylated genes with significant differences in expression were closely related to processes such as regulation of gene expression, epigenetic, microtubule, autophagy-other and TOR signaling. Moreover, a total of 96 differentially expressed m6A genes without significant differences in expression showed significant differences at protein level. GO and pathway enrichment analysis of the 96 genes showed that RNA methylation may be involved in cell biosynthesis and metabolism of E. tenella.

2022-12-22 | GSE221214 | GEO

Transcriptome-wide mapping of internal mRNA N7-methylguanosine in sporulated and unsporulated oocysts of Eimeria tenella reveals stage-specific signatures

Project description:Growing evidence indicates that 7-methylguanosine (m7G) modification plays critical roles in epigenetic regulation. However, no data regarding m7G modification are currently available in Eimeria tenella, a highly virulent species causing coccidiosis in chickens. Thus, in the present study, we explored the distribution of internal mRNA m7G modification in sporulated and unsporulated oocysts of E. tenella as well as its biological functions during oocyst development. Our data showed that m7G peaks were detected throughout the whole mRNA body, and the coding DNA sequence (CDS) region displayed the most methylation modification. Compared with unsporulated oocysts, 7799 hypermethylated peaks and 1945 hypomethylated peaks were identified in sporulated oocysts. Further combined analysis of differentially methylated genes (DMGs) and differentially expressed genes (DEGs) showed that there was a positive correlation between m7G modification levels and gene transcript abundance. Unsurprisingly, the mRNA sequencing (RNA-seq) and methylated RNA immunoprecipitation sequencing (MeRIP-seq) data showed a good consistence with the results of the quantitative reverse transcription PCR (RT-qPCR) and MeRIP-qPCR, respectively. Gene Ontology (GO) and pathway enrichment analysis of DEGs with altered m7G-methylated peaks were involved in diverse biological functions and pathways, including DNA replication, RNA transport, spliceosome, autophagy-yeast, and cAMP signaling pathway. Altogether, our findings revealed the potential significance of internal m7G modification in E. tenella oocysts, providing some directions and clues for later in-depth research.

2024-06-23 | GSE269982 | GEO

Quantitative phosphoproteomic analysis of Eimeria tenella six stages (unsporulated oocysts (USO), partial sporulated 7 h oocysts (SO7h), sporulated oocysts (SO), sporozoites (S), second generation merozoite (M2) and gametocyte (G))

Project description:we performed a comprehensive, quantitative phosphoproteomic profile analysis of six stages of the E. tenella life cycle: unsporulated oocysts (USO), partial sporulated 7 h oocysts (SO7h), sporulated oocysts (SO), sporozoites (S), second generation merozoite (M2) and gametocyte (G). The results revealed significant changes in the abundance of phosphoproteins during E. tenella development. The findings shed light on the key roles of protein phosphorylation and dephosphorylation in the E. tenella life cycle.

2022-02-16 | PXD029545 | Pride

Comparative analysis of Gallus gallus cecal epithelia following Eimeria tenella infection

2012-12-10 | GSE39602 | GEO

Comprehensive analysis of mRNA 5-methylcytosine modification in Eimeria tenella oocysts

Project description:5-methylcytosine (m5C) is a type of RNA modifications reported to regulate diverse biological processes. However, the distribution and biological functions of m5C in E. tenella mRNAs remain largely unknown. Herein, we report transcriptome-wide profiling of mRNA m5C in E. tenella by applying m5C RNA immunoprecipitation followed by a deep-sequencing approach (m5C-RIP-seq). Our data showed that m5C peaks were distributed across the whole mRNA body. There were 2813 hypermethylated and 1850 hypomethylated m5C peaks in sporulated oocysts compared with unsporulated oocysts. Further joint analysis showed a positive correlation between m5C modification and gene expression levels. The mRNA sequencing and m5C-RIP-seq data were consistent with the results of the quantitative reverse transcription PCR (RT-qPCR) and m5C-RIP-qPCR, respectively. Gene ontology (GO) and pathway enrichment analysis predicated diverse biological functions and pathways, including microtubule motor activity, helicase activity, cGMP-PKG signaling pathway, aminoacyl-tRNA biosynthesis, glycolysis/gluconeogenesis and spliceosome. Meanwhile, stage-specific gene expression signatures of m5C-related enzymes were observed. Altogether, our findings revealed the transcriptional significance of m5C modification in E. tenella oocysts, providing clues for in-depth research.

2023-12-19 | GSE249232 | GEO

Comparative analysis of Gallus gallus cecal epithelia following Eimeria tenella infection

Project description:Relative expression levels of mRNAs in chicken cecal epithelia experimentally infected with Eimeria tenella were measured at 4.5 days post-infection. Two weeks old chickens were uninfected (negative control) or were orally inoculated with sporulated oocysts of Eimeria tenella. Cecal epithelia samples were collected from >12 birds in infected or uninfected group at 4.5 d following infections, in which samples from 4 birds were pooled together to form a total 3 biological replicates in each group. Parasite merozoites were also collected from four infected chickens at 5 d after infections. Uninfected control samples, merozoites and infection group samples were selected for RNA extraction and hybridization on Affymetrix microarrays. We used Affymetrix GeneChip chicken genome arrays to detail the chicken cecal epithelia gene expression in the control and E. tenella-infected birds. Infected, uninfected chicken cecal epithelia and merozoites were selected for RNA extraction and hybridization with Affymetrix microarrays. Our goal was to analyze global transcriptome changes in chicken cecal mucous membranes in response to E. tenella infection in vivo. We used infected (T1,T2,T3; three biological replicates) and uninfected (Neg1, Neg2, Neg3; three biological replicates) samples to identify genes that were differentially expressed. Meanwhile, RNA and probes were also prepared from parasite merozoites (Mzt) from infected samples (Mzt) and used as an additional control in microarray hybridization.

2012-12-10 | E-GEOD-39602 | biostudies-arrayexpress

Eimeria tenella isolate:tenella

Project description:Eimeria tenella isolate:tenella Genome sequencing

| PRJNA934194 | ENA

Comprehensive analysis of mRNA 5-methylcytosine modification in Eimeria tenella oocysts

Project description:Comprehensive analysis of mRNA 5-methylcytosine modification in Eimeria tenella oocysts

| PRJNA1048068 | ENA

Eimeria tenella

Project description:Eimeria tenella Genome sequencing

| PRJNA850893 | ENA

Dual RNA-seq transcriptome analysis of chicken caeca infected with Eimeria tenella

Project description:In order to elucidate the infection mechanisms of Eimeria tenella and the chicken immune response, chickens were infected with Eimeria tenella strain Hougton sporozoites. Samples were taken at 0, 1, 2, 3, 4 and 10 days post-infection and mRNA sequenced. A dual-RNA seq analysis was carried out, comparing the expression of infected chickens during each sampling time point with uninfected chickens and comparing E. tenella samples during the infection with a sample of pure sporozoites. The results show a variety of response signals in the chicken, both previously known and unknown, as well as a clear role for a variety of infection-related genes in E. tenella

2021-09-22 | GSE160169 | GEO

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