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Hybrid selection for sequencing pathogen genomes from clinical samples
We have adapted a solution hybrid selection protocol to enrich pathogen DNA in clinical samples dominated by human genetic material. Using mock mixtures of human and Plasmodium falciparum malaria parasite DNA as well as clinical samples from infected patients, we demonstrate an average of approximat...
| Autores principales: | , , , , , , , , , , , , , , , , |
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| Formato: | Online Artículo Texto |
| Lenguaje: | English |
| Publicado: |
BioMed Central
2011
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| Materias: | |
| Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245613/ https://www.ncbi.nlm.nih.gov/pubmed/21835008 http://dx.doi.org/10.1186/gb-2011-12-8-r73 |
| _version_ | 1782219885385875456 |
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| author | Melnikov, Alexandre Galinsky, Kevin Rogov, Peter Fennell, Timothy Van Tyne, Daria Russ, Carsten Daniels, Rachel Barnes, Kayla G Bochicchio, James Ndiaye, Daouda Sene, Papa D Wirth, Dyann F Nusbaum, Chad Volkman, Sarah K Birren, Bruce W Gnirke, Andreas Neafsey, Daniel E |
| author_facet | Melnikov, Alexandre Galinsky, Kevin Rogov, Peter Fennell, Timothy Van Tyne, Daria Russ, Carsten Daniels, Rachel Barnes, Kayla G Bochicchio, James Ndiaye, Daouda Sene, Papa D Wirth, Dyann F Nusbaum, Chad Volkman, Sarah K Birren, Bruce W Gnirke, Andreas Neafsey, Daniel E |
| author_sort | Melnikov, Alexandre |
| collection | PubMed |
| description | We have adapted a solution hybrid selection protocol to enrich pathogen DNA in clinical samples dominated by human genetic material. Using mock mixtures of human and Plasmodium falciparum malaria parasite DNA as well as clinical samples from infected patients, we demonstrate an average of approximately 40-fold enrichment of parasite DNA after hybrid selection. This approach will enable efficient genome sequencing of pathogens from clinical samples, as well as sequencing of endosymbiotic organisms such as Wolbachia that live inside diverse metazoan phyla. |
| format | Online Article Text |
| id | pubmed-3245613 |
| institution | National Center for Biotechnology Information |
| language | English |
| publishDate | 2011 |
| publisher | BioMed Central |
| record_format | MEDLINE/PubMed |
| spelling | pubmed-32456132011-12-24 Hybrid selection for sequencing pathogen genomes from clinical samples Melnikov, Alexandre Galinsky, Kevin Rogov, Peter Fennell, Timothy Van Tyne, Daria Russ, Carsten Daniels, Rachel Barnes, Kayla G Bochicchio, James Ndiaye, Daouda Sene, Papa D Wirth, Dyann F Nusbaum, Chad Volkman, Sarah K Birren, Bruce W Gnirke, Andreas Neafsey, Daniel E Genome Biol Method We have adapted a solution hybrid selection protocol to enrich pathogen DNA in clinical samples dominated by human genetic material. Using mock mixtures of human and Plasmodium falciparum malaria parasite DNA as well as clinical samples from infected patients, we demonstrate an average of approximately 40-fold enrichment of parasite DNA after hybrid selection. This approach will enable efficient genome sequencing of pathogens from clinical samples, as well as sequencing of endosymbiotic organisms such as Wolbachia that live inside diverse metazoan phyla. BioMed Central 2011 2011-08-11 /pmc/articles/PMC3245613/ /pubmed/21835008 http://dx.doi.org/10.1186/gb-2011-12-8-r73 Text en Copyright ©2011 Melnikov et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
| spellingShingle | Method Melnikov, Alexandre Galinsky, Kevin Rogov, Peter Fennell, Timothy Van Tyne, Daria Russ, Carsten Daniels, Rachel Barnes, Kayla G Bochicchio, James Ndiaye, Daouda Sene, Papa D Wirth, Dyann F Nusbaum, Chad Volkman, Sarah K Birren, Bruce W Gnirke, Andreas Neafsey, Daniel E Hybrid selection for sequencing pathogen genomes from clinical samples |
| title | Hybrid selection for sequencing pathogen genomes from clinical samples |
| title_full | Hybrid selection for sequencing pathogen genomes from clinical samples |
| title_fullStr | Hybrid selection for sequencing pathogen genomes from clinical samples |
| title_full_unstemmed | Hybrid selection for sequencing pathogen genomes from clinical samples |
| title_short | Hybrid selection for sequencing pathogen genomes from clinical samples |
| title_sort | hybrid selection for sequencing pathogen genomes from clinical samples |
| topic | Method |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3245613/ https://www.ncbi.nlm.nih.gov/pubmed/21835008 http://dx.doi.org/10.1186/gb-2011-12-8-r73 |
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