Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology
ncRNAs are key genes in many human diseases including cancer and viral infection, as well as providing critical functions in pathogenic organisms such as fungi, bacteria, viruses and protists. Until now the identification and characterization of ncRNAs associated with disease has been slow or inaccu...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2011-12-01
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| Series: | Frontiers in Genetics |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fgene.2011.00096/full |
| _version_ | 1818253432095506432 |
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| author | Lesley Joan Collins |
| author_facet | Lesley Joan Collins |
| author_sort | Lesley Joan Collins |
| collection | DOAJ |
| description | ncRNAs are key genes in many human diseases including cancer and viral infection, as well as providing critical functions in pathogenic organisms such as fungi, bacteria, viruses and protists. Until now the identification and characterization of ncRNAs associated with disease has been slow or inaccurate requiring many years of testing to understand complicated RNA and protein gene relationships. High-throughput sequencing now offers the opportunity to characterize miRNAs, siRNAs, snoRNAs and long ncRNAs on a genomic scale making it faster and easier to clarify how these ncRNAs contribute to the disease state. However, this technology is still relatively new, and ncRNA discovery is not an application of high priority for streamlined bioinformatics. Here we summarize background concepts and practical approaches for ncRNA analysis using high-throughput sequencing, and how it relates to understanding human disease. As a case study, we focus on the parasitic protists Giardia lamblia and Trichomonas vaginalis, where large evolutionary distance has meant difficulties in comparing ncRNAs with those from model eukaryotes. A combination of biological, computational and sequencing approaches has enabled easier classification of ncRNA classes such as snoRNAs, but has also aided the identification of novel classes. It is hoped that a higher level of understanding of ncRNA expression and interaction may aid in the development of less harsh treatment for protist-based diseases. |
| first_indexed | 2024-12-12T16:39:58Z |
| format | Article |
| id | doaj.art-296a21bd77ee4b8ea5a08f9d5603bd12 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-12-12T16:39:58Z |
| publishDate | 2011-12-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-296a21bd77ee4b8ea5a08f9d5603bd122022-12-22T00:18:35ZengFrontiers Media S.A.Frontiers in Genetics1664-80212011-12-01210.3389/fgene.2011.0009618491Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technologyLesley Joan Collins0Massey UniversityncRNAs are key genes in many human diseases including cancer and viral infection, as well as providing critical functions in pathogenic organisms such as fungi, bacteria, viruses and protists. Until now the identification and characterization of ncRNAs associated with disease has been slow or inaccurate requiring many years of testing to understand complicated RNA and protein gene relationships. High-throughput sequencing now offers the opportunity to characterize miRNAs, siRNAs, snoRNAs and long ncRNAs on a genomic scale making it faster and easier to clarify how these ncRNAs contribute to the disease state. However, this technology is still relatively new, and ncRNA discovery is not an application of high priority for streamlined bioinformatics. Here we summarize background concepts and practical approaches for ncRNA analysis using high-throughput sequencing, and how it relates to understanding human disease. As a case study, we focus on the parasitic protists Giardia lamblia and Trichomonas vaginalis, where large evolutionary distance has meant difficulties in comparing ncRNAs with those from model eukaryotes. A combination of biological, computational and sequencing approaches has enabled easier classification of ncRNA classes such as snoRNAs, but has also aided the identification of novel classes. It is hoped that a higher level of understanding of ncRNA expression and interaction may aid in the development of less harsh treatment for protist-based diseases.http://journal.frontiersin.org/Journal/10.3389/fgene.2011.00096/fullGiardiaTrichomonasmiRNAsiRNAncRNAhigh-throughput sequencing |
| spellingShingle | Lesley Joan Collins Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology Frontiers in Genetics Giardia Trichomonas miRNA siRNA ncRNA high-throughput sequencing |
| title | Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology |
| title_full | Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology |
| title_fullStr | Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology |
| title_full_unstemmed | Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology |
| title_short | Characterizing ncRNAs in human pathogenic protists using high-throughput sequencing technology |
| title_sort | characterizing ncrnas in human pathogenic protists using high throughput sequencing technology |
| topic | Giardia Trichomonas miRNA siRNA ncRNA high-throughput sequencing |
| url | http://journal.frontiersin.org/Journal/10.3389/fgene.2011.00096/full |
| work_keys_str_mv | AT lesleyjoancollins characterizingncrnasinhumanpathogenicprotistsusinghighthroughputsequencingtechnology |