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The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers
Whole-genome sequence (WGS) data are commonly used to design diagnostic targets for the identification of bacterial pathogens. To do this effectively, genomics databases must be comprehensive to identify the strict core genome that is specific to the target pathogen. As additional genomes are analyz...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | Online Artículo Texto |
| Lenguaje: | English |
| Publicado: |
American Society for Microbiology
2016
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| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5030356/ https://www.ncbi.nlm.nih.gov/pubmed/27651357 http://dx.doi.org/10.1128/mBio.00846-16 |
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| author | Sahl, Jason W. Vazquez, Adam J. Hall, Carina M. Busch, Joseph D. Tuanyok, Apichai Mayo, Mark Schupp, James M. Lummis, Madeline Pearson, Talima Shippy, Kenzie Colman, Rebecca E. Allender, Christopher J. Theobald, Vanessa Sarovich, Derek S. Price, Erin P. Hutcheson, Alex Korlach, Jonas LiPuma, John J. Ladner, Jason Lovett, Sean Koroleva, Galina Palacios, Gustavo Limmathurotsakul, Direk Wuthiekanun, Vanaporn Wongsuwan, Gumphol Currie, Bart J. Keim, Paul Wagner, David M. |
| author_facet | Sahl, Jason W. Vazquez, Adam J. Hall, Carina M. Busch, Joseph D. Tuanyok, Apichai Mayo, Mark Schupp, James M. Lummis, Madeline Pearson, Talima Shippy, Kenzie Colman, Rebecca E. Allender, Christopher J. Theobald, Vanessa Sarovich, Derek S. Price, Erin P. Hutcheson, Alex Korlach, Jonas LiPuma, John J. Ladner, Jason Lovett, Sean Koroleva, Galina Palacios, Gustavo Limmathurotsakul, Direk Wuthiekanun, Vanaporn Wongsuwan, Gumphol Currie, Bart J. Keim, Paul Wagner, David M. |
| author_sort | Sahl, Jason W. |
| collection | PubMed |
| description | Whole-genome sequence (WGS) data are commonly used to design diagnostic targets for the identification of bacterial pathogens. To do this effectively, genomics databases must be comprehensive to identify the strict core genome that is specific to the target pathogen. As additional genomes are analyzed, the core genome size is reduced and there is erosion of the target-specific regions due to commonality with related species, potentially resulting in the identification of false positives and/or false negatives. |
| format | Online Article Text |
| id | pubmed-5030356 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2016 |
| publisher | American Society for Microbiology |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-50303562016-09-23 The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers Sahl, Jason W. Vazquez, Adam J. Hall, Carina M. Busch, Joseph D. Tuanyok, Apichai Mayo, Mark Schupp, James M. Lummis, Madeline Pearson, Talima Shippy, Kenzie Colman, Rebecca E. Allender, Christopher J. Theobald, Vanessa Sarovich, Derek S. Price, Erin P. Hutcheson, Alex Korlach, Jonas LiPuma, John J. Ladner, Jason Lovett, Sean Koroleva, Galina Palacios, Gustavo Limmathurotsakul, Direk Wuthiekanun, Vanaporn Wongsuwan, Gumphol Currie, Bart J. Keim, Paul Wagner, David M. mBio Research Article Whole-genome sequence (WGS) data are commonly used to design diagnostic targets for the identification of bacterial pathogens. To do this effectively, genomics databases must be comprehensive to identify the strict core genome that is specific to the target pathogen. As additional genomes are analyzed, the core genome size is reduced and there is erosion of the target-specific regions due to commonality with related species, potentially resulting in the identification of false positives and/or false negatives. American Society for Microbiology 2016-09-20 /pmc/articles/PMC5030356/ /pubmed/27651357 http://dx.doi.org/10.1128/mBio.00846-16 Text en Copyright © 2016 Sahl et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license (http://creativecommons.org/licenses/by/4.0/) . |
| spellingShingle | Research Article Sahl, Jason W. Vazquez, Adam J. Hall, Carina M. Busch, Joseph D. Tuanyok, Apichai Mayo, Mark Schupp, James M. Lummis, Madeline Pearson, Talima Shippy, Kenzie Colman, Rebecca E. Allender, Christopher J. Theobald, Vanessa Sarovich, Derek S. Price, Erin P. Hutcheson, Alex Korlach, Jonas LiPuma, John J. Ladner, Jason Lovett, Sean Koroleva, Galina Palacios, Gustavo Limmathurotsakul, Direk Wuthiekanun, Vanaporn Wongsuwan, Gumphol Currie, Bart J. Keim, Paul Wagner, David M. The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers |
| title | The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers |
| title_full | The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers |
| title_fullStr | The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers |
| title_full_unstemmed | The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers |
| title_short | The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers |
| title_sort | effects of signal erosion and core genome reduction on the identification of diagnostic markers |
| topic | Research Article |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5030356/ https://www.ncbi.nlm.nih.gov/pubmed/27651357 http://dx.doi.org/10.1128/mBio.00846-16 |
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