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https://hdl.handle.net/10316/111946
Título: | A primer-independent DNA polymerase-based method for competent whole-genome amplification of intermediate to high GC sequences | Autor: | Ordóñez, Carlos D. Mayoral-Campos, Carmen Egas, Conceição Redrejo-Rodríguez, Modesto |
Data: | Set-2023 | Editora: | Oxford University Press | Projeto: | MCIN / AEI / 10.13039 / 501100011033 and ERDF A way of making Europe [PGC2018-09723-A-I00 and PID2021- 123403NB-I00 to M.R.R.]; C. Egas’ laboratory was funded by the European Union´s Horizon 2020 Research and Innovation Pr ogram [685474]; METAFLUIDICS pr oject; C.D .O . and C.M.C. were holder of Fellowships from the Spanish Ministry of Uni v ersity [FPU16 / 02665] and Span- ish Ministry of Science and Innovation [PRE2019-087304], respecti v ely. | Título da revista, periódico, livro ou evento: | NAR Genomics and Bioinformatics | Volume: | 5 | Número: | 3 | Resumo: | Multiple displacement amplification (MDA) has proven to be a useful technique for obtaining large amounts of DNA from tiny samples in genomics and metagenomics. However, MDA has limitations, such as amplification artifacts and biases that can interfere with subsequent quantitative analysis. To overcome these challenges, alternative methods and engineered DNA polymerase variants have been developed. Here, we present new MDA protocols based on the primer-independent DNA polymerase (piPolB), a replicative-like DNA polymerase endowed with DNA priming and proofreading capacities. These new methods were tested on a genomes mixture containing diverse sequences with high-GC content, followed by deep sequencing. Protocols relying on piPolB as a single enzyme cannot achieve competent amplification due to its limited processivity and the presence of ab initio DNA synthesis. However, an alternative method called piMDA, which combines piPolB with Φ29 DNA polymerase, allows proficient and faithful amplification of the genomes. In addition, the prior denaturation step commonly performed in MDA protocols is dispensable, resulting in a more straightforward protocol. In summary, piMDA outperforms commercial methods in the amplification of genomes and metagenomes containing high GC sequences and exhibits similar profiling, error rate and variant determination as the non-amplified samples. | URI: | https://hdl.handle.net/10316/111946 | ISSN: | 2631-9268 | DOI: | 10.1093/nargab/lqad073 | Direitos: | openAccess |
Aparece nas coleções: | I&D CNC - Artigos em Revistas Internacionais |
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A primer-independent DNA polymerase-based method for competent whole-genome amplification of intermediate to high GC sequences.pdf | 2.81 MB | Adobe PDF | Ver/Abrir |
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