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Comparative transcriptome profiling approach to glean virulence and immunomodulation-related genes of Fasciola hepatica

Overview of attention for article published in BMC Genomics, May 2015
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8 tweeters

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12 Dimensions

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Title
Comparative transcriptome profiling approach to glean virulence and immunomodulation-related genes of Fasciola hepatica
Published in
BMC Genomics, May 2015
DOI 10.1186/s12864-015-1539-8
Pubmed ID
Authors

Orçun Haçarız, Mete Akgün, Pınar Kavak, Bayram Yüksel, Mahmut Şamil Sağıroğlu

Abstract

Fasciola hepatica causes chronic liver disease, fasciolosis, leading to significant losses in the livestock economy and concerns for human health in many countries. The identification of F. hepatica genes involved in the parasite's virulence through modulation of host immune system is utmost important to comprehend evasion mechanisms of the parasite and develop more effective strategies against fasciolosis. In this study, to identify the parasite's putative virulence genes which are associated with host immunomodulation, we explored whole transcriptome of an adult F. hepatica using current transcriptome profiling approaches integrated with detailed in silico analyses. In brief, the comparison of the parasite transcripts with the specialised public databases containing sequence data of non-parasitic organisms (Dugesiidae species and Caenorhabditis elegans) or of numerous pathogens and investigation of the sequences in terms of nucleotide evolution (directional selection) and cytokine signaling relation were conducted. NGS of the whole transcriptome resulted in 19,534,766 sequence reads, yielding a total of 40,260 transcripts (N50 = 522 bp). A number of the parasite transcripts (n = 1,671) were predicted to be virulence-related on the basis of the exclusive homology with the pathogen-associated data, positive selection or relationship with cytokine signaling. Of these, a group of the virulence-related genes (n = 62), not previously described, were found likely to be associated with immunomodulation based on in silico functional categorisation, showing significant sequence similarities with various immune receptors (i.e. MHC I class, TGF-β receptor, toll/interleukin-1 receptor, T-cell receptor, TNF receptor, and IL-18 receptor accessory protein), cytokines (i.e. TGF-β, interleukin-4/interleukin-13 and TNF-α), cluster of differentiations (e.g. CD48 and CD147) or molecules associated with other immunomodulatory mechanisms (such as regulation of macrophage activation). Some of the genes (n = 5) appeared to be under positive selection (Ka/Ks > 1), imitating proteins associated with cytokine signaling (through sequence homologies with thrombospondin type 1, toll/interleukin-1 receptor, TGF-β receptor and CD147). With a comparative transcriptome profiling approach, we have identified a number of potential immunomodulator genes of F. hepatica (n = 62), which are firstly described here, could be employed for the development of better strategies (including RNAi) in the battle against both zoonotically and economically important disease, fasciolosis.

Twitter Demographics

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Mendeley readers

The data shown below were compiled from readership statistics for 53 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Netherlands 1 2%
Uruguay 1 2%
Peru 1 2%
Unknown 50 94%

Demographic breakdown

Readers by professional status Count As %
Researcher 12 23%
Student > Ph. D. Student 11 21%
Professor > Associate Professor 6 11%
Student > Master 4 8%
Professor 4 8%
Other 9 17%
Unknown 7 13%
Readers by discipline Count As %
Agricultural and Biological Sciences 17 32%
Biochemistry, Genetics and Molecular Biology 8 15%
Veterinary Science and Veterinary Medicine 4 8%
Immunology and Microbiology 4 8%
Engineering 3 6%
Other 5 9%
Unknown 12 23%

Attention Score in Context

This research output has an Altmetric Attention Score of 2. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 29 January 2016.
All research outputs
#6,682,549
of 12,378,406 outputs
Outputs from BMC Genomics
#3,352
of 7,251 outputs
Outputs of similar age
#92,194
of 229,990 outputs
Outputs of similar age from BMC Genomics
#124
of 218 outputs
Altmetric has tracked 12,378,406 research outputs across all sources so far. This one is in the 44th percentile – i.e., 44% of other outputs scored the same or lower than it.
So far Altmetric has tracked 7,251 research outputs from this source. They receive a mean Attention Score of 4.3. This one has gotten more attention than average, scoring higher than 50% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 229,990 tracked outputs that were published within six weeks on either side of this one in any source. This one has gotten more attention than average, scoring higher than 58% of its contemporaries.
We're also able to compare this research output to 218 others from the same source and published within six weeks on either side of this one. This one is in the 37th percentile – i.e., 37% of its contemporaries scored the same or lower than it.