Echinococcus granulosus
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA12620 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| Other | ||||
| APAU02.dat.gz | Other | |||
| APAU02.fasta.gz | Fasta.gz | |||
| APAU02.master.dat | Other | |||
| CBLN01.dat.gz | Other |
Items per page: 5 1 - 5 of 103 |
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Project description:The genome of the hydatid tapeworm Echinococcus granulosus
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Project description:MicroRNAs (miRNAs) are important post-transcriptional regulators which control growth and development in eukaryotic animals. The cestode Echinococcus granulosus has a complex life-cycle involving different development stages but the mechanisms underpinning this development, including the involvement of miRNAs, remain unknown. Using Illumina deep-sequencing technology, we sequenced at the genome-wide level three small RNA populations from the adult, protoscolex and cyst membrane of E. granulosus. A total of 94 miRNA candidates (coding 100 mature miRNAs and 30 miRNA*s) were predicted by a computational pipeline, of which 25 mature miRNAs and 2 miRNA*s were identified experimentally. Through comparison of expression profiles, we found 48 mature miRNAs and 17 miRNA*s expressed in different patterns in the three life stages examined and 31 of them were validated by real-time PCR. Most of the differentially expressed miRNAs exhibited obvious up-regulated expressions in the adult stage and down-regulation in the hydatid cyst. A total of 3,622 genes were predicted to be targets of 126 mature miRNAs and 50 miRNA*s. Further analysis of the differentially expressed miRNAs and their potential targets indicated that they may be involved in bi-directional development, nutrient metabolism and nervous system development in E. granulosus. This study has, for the first time, provided a comprehensive description of the different expression patterns of miRNAs in the three distinct life cycle stages of E. granulosus. Understanding the regulatory processes involving miRNAs in E. granulosus may help in the exploration of the mechanism of interaction between this parasitic worm and its definitive and intermediate hosts and provide new information to develop new intervention strategies for control of cystic echinococcosis. Examination of small RNA populations in 3 different life stages of Echinococcus granulosus
2015-01-16 | E-GEOD-54180 | biostudies-arrayexpress
Project description:MicroRNAs (miRNAs) are important post-transcriptional regulators which control growth and development in eukaryotic animals. The cestode Echinococcus granulosus has a complex life-cycle involving different development stages but the mechanisms underpinning this development, including the involvement of miRNAs, remain unknown. Using Illumina deep-sequencing technology, we sequenced at the genome-wide level three small RNA populations from the adult, protoscolex and cyst membrane of E. granulosus. A total of 94 miRNA candidates (coding 100 mature miRNAs and 30 miRNA*s) were predicted by a computational pipeline, of which 25 mature miRNAs and 2 miRNA*s were identified experimentally. Through comparison of expression profiles, we found 48 mature miRNAs and 17 miRNA*s expressed in different patterns in the three life stages examined and 31 of them were validated by real-time PCR. Most of the differentially expressed miRNAs exhibited obvious up-regulated expressions in the adult stage and down-regulation in the hydatid cyst. A total of 3,622 genes were predicted to be targets of 126 mature miRNAs and 50 miRNA*s. Further analysis of the differentially expressed miRNAs and their potential targets indicated that they may be involved in bi-directional development, nutrient metabolism and nervous system development in E. granulosus. This study has, for the first time, provided a comprehensive description of the different expression patterns of miRNAs in the three distinct life cycle stages of E. granulosus. Understanding the regulatory processes involving miRNAs in E. granulosus may help in the exploration of the mechanism of interaction between this parasitic worm and its definitive and intermediate hosts and provide new information to develop new intervention strategies for control of cystic echinococcosis.
2015-01-16 | GSE54180 | GEO
Project description:Echinococcus granulosus Raw sequence reads
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Project description:Echinococcus granulosus Raw sequence reads
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Project description:Echinococcus granulosus Raw sequence reads
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Project description:Echinococcus granulosus small RNA Transcriptome
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Project description:Echinococcus granulosus Transcriptome or Gene expression
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Project description:Echinococcus granulosus Transcriptome or Gene expression
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Project description:The cestodes Echinococcus granulosus and Echinococcus multilocularis, as the pathogens of cystic echinococcosis and alveolar echinococcosis respectively, can cause significant health problems to the host and considerable socio-economic losses as a consequence. Based on the genomic data regarding these two species available in public database recently, we carried out high-throughput mRNA and small RNA transcriptomic sequencing of them and generate enormous transcriptomic datasets. A total of 34,717,856 reads (79.79%) mapped to E. granulosus genome, and 38,882,179 reads (87.61%) mapped to E. multiloculari genome. A total of 24,550 (7,925 known and 16,625 novel transcripts) and 23,771 transcripts (8,432 known and 15,339 novel transcripts) were assembled for E. granulosus and E. multilocularis respectively, and the assembly yielded 11,330 genes (6,815 known and 4,515 novel genes) for E. granulosus and 10,101 genes (7,051 known and 3,050 novel genes) for E. multilocularis, compared with the reference genome data. Bioinformatic analysis identified 6,826 AS events from 3,774 E. granulosus genes (33.31%) and 6,644 AS events in 3,611 E. multilocularis genes (35.75%). A total of 76,674 distinct microRNAs of E. granulosus and 115,742 of E. multilocularis were also obtained from small RNA transcriptome sequencing reads. Of these, there were 20 microRNAs of E. granulosus and 22 microRNAs of E. multilocularis that belonged to 19 and 21 microRNA families common to other metazoan lineages separately. 76 and 90 novel microRNAs so far unique to E. granulosus and E. multilocularis were also identified respectively. This study represents an extensive mRNA and small RNA transcriptome dataset obtained from the deep sequencing of these two cestode species. The findings will facilitate a more fundamental understanding of cestode biology, evolution, the host-parasite interplay, and provide new insights into the pathophysiology of echinococcosis, contributing to the development of improved interventions for disease control.
2017-06-26 | GSE59173 | GEO