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Giardia lamblia miRNAs as a new diagnostic tool for human giardiasis

ABSTRACT: Giardia lamblia miRNAs as a new diagnostic tool for human giardiasis

PROVIDER: PRJNA477279 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR7405360.fastq.gz	Fastqsanger.gz
	SRR7405361.fastq.gz	Fastqsanger.gz
	SRR7405362.fastq.gz	Fastqsanger.gz
	SRR7405363.fastq.gz	Fastqsanger.gz
	SRR7405364.fastq.gz	Fastqsanger.gz

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Giardia lamblia miRNAs as a new diagnostic tool for human giardiasis

Project description:Giardia lamblia is one of most common agents causing persistent abdominal symptoms in developed and developing countries. There are several diagnostic methods for Giardia infection, but none are optimal. In this study our aim was to find a new method based on Giardia microRNA (miRNA) that would contribute to the currently available diagnostic methods of giardiasis. Profiling Giardia small RNAs by deep sequencing revealed that the previously reported putative miR5 and miR6 are expressed in several G. lamblia isolates. These miRNAs were later tested by PCR in duodenal biopsies from 8 patients with positive pathology for giardiasis, while gastric biopsies served as matched negative controls. Additionally, these miRNAs were evaluated in stool samples of patients with proven giardiasis. All 8 duodenal samples of patients with histologically proven G. lamblia infection were positive for Giardia miR5 with a mean Ct of 23.7. These results were superior to Ct levels of G. lamblia DNA, which were 26.3 (p=0.004). The miR6 results were close to negative. All 10 gastric biopsies were negative for miR5. Stool studies showed 90% specificity but only 50% sensitivity in diagnosing giardiasis using miR6. The results of miR5 in stool were even less accurate. In conclusion, miR5 testing for Giardia infection in duodenal biopsies, may be a breakthrough method for diagnosis of giardiasis. It seems to be superior to G. lamblia DNA in duodenal biopsies. It would be important to investigate the contribution of routine Giardia miRNA testing in duodenal biopsies and duodenal aspirates from patients with persistent abdominal symptoms.

2019-05-09 | GSE116101 | GEO

Giardia lamblia WB: 5'5npac control vs. pPPax2

Project description:Transcriptional profiling of Giardia lamblia WB comparing control 5'5npac cells with pPPax2 cells. Two-condition experiment 5'5npac cells with pPPax2 cells.

2012-12-01 | E-GEOD-30875 | biostudies-arrayexpress

Giardia lamblia WB: 5'5npac control vs pPTopoII

Project description:Transcriptional profiling of Giardia lamblia WB comparing control 5'5npac cells with pPTopoII cells. Two-condition experiment 5'5npac cells with pPTopoII cells.

2013-06-30 | E-GEOD-39665 | biostudies-arrayexpress

Giardia lamblia WB: 5'5npac control vs pPTopoII

Project description:Transcriptional profiling of Giardia lamblia WB comparing control 5'5npac cells with pPTopoII cells.

2013-06-30 | GSE39665 | GEO

Giardia lamblia WB: 5'5npac control vs. pPPax2

Project description:Transcriptional profiling of Giardia lamblia WB comparing control 5'5npac cells with pPPax2 cells.

2012-12-01 | GSE30875 | GEO

Giardia lamblia WB: 5'5npac control vs pPTop3b

Project description:Transcriptional profiling of Giardia lamblia WB comparing control 5'5npac cells with pPTop3b cells.

2020-03-23 | GSE109912 | GEO

Giardia lamblia P15

Project description:Giardia lamblia P15 genome sequencing

| PRJNA39315 | ENA

Giardia lamblia WB: 5'5npac control vs pPMBF1

Project description:Transcriptional profiling of Giardia lamblia WB comparing control 5'5npac cells with pPMBF1 cells. Multiprotein bridging factor 1 (MBF1) gene family proteins are involved in cell growth and differentiation in various organisms. We asked whether Giardia MBF1-like protein can induce various endogenous genes. We used epitope-tagged system to overexpress Giardia MBF1 by constructing and transfecting pPMBF1, a plasmid for expressing MBF1, to trophozoites. The control cell line is 5'5npac cell line, which expressed only the puromycin selection marker. To understand the effect of MBF1 overexpression on transcription profiles, we performed microarray analysis for pPMBF1 and 5'5npac cell lines.

2021-02-10 | GSE162220 | GEO

Defining Giardia lamblia cleavage sites

Project description:Defining Giardia lamblia cleavage sites

| PRJNA713373 | ENA

Giardia lamblia miRNAs as a new diagnostic tool for human giardiasis.

Project description:BackgroundGiardia lamblia is a very common cause of gastrointestinal symptoms worldwide. There are several methods for the diagnosis of Giardia infection, however none are ideal. We aim to find a new, microRNA-based method that will improve the currently available diagnostic methods for giardiasis.MethodsDeep-sequence profiling of Giardia small-RNA revealed that miR5 and miR6 are highly expressed in Giardia. These miRNAs were tested by qRT-PCR in duodenal biopsies of patients with giardiasis who were positive by microscopic pathological evaluation. The gastric biopsies of the same patients served as negative control tissues. Additionally, these miRNAs were evaluated in stool samples of patients with proven giardiasis.ResultsAll histologically proven duodenal biopsies of patients with Giardia infection were positive for Giardia miR5, with a mean threshold cycle (Ct) of 23.7, as well as for Giardia DNA qPCR (16S-like gene, mean Ct 26.3). Gastric biopsies which were tested as a control all were negative. Stool evaluation of miR6 in patients with giardiasis showed 90% specificity but only 66% sensitivity, and a lower accuracy rate was obtained with miR5.ConclusionGiardia miR5 testing in duodenal biopsies may be a new method for the diagnosis of giardiasis. It seems to be more sensitive when compared with testing for Giardia DNA by qPCR in duodenal biopsies. It will be important to investigate the contribution of routine Giardia miRNA testing in duodenal biopsies from patients with persistent abdominal symptoms.

| S-EPMC6597124 | biostudies-literature

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