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논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 저널정보
- 한국미생물생명공학회 Journal of Microbiology and Biotechnology Journal of Microbiology and Biotechnology 제26권 제1호
- 발행연도
- 2016.1
- 수록면
- 207 - 212 (6page)
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PacBio’s long-read sequencing technologies can be successfully used for a complete bacterial genome assembly using recently developed non-hybrid assemblers in the absence of secondgeneration, high-quality short reads. However, standardized procedures that take into account multiple pre-existing second-generation sequencing platforms are scarce. In addition to Illumina HiSeq and Ion Torrent PGM-based genome sequencing results derived from previous studies, we generated further sequencing data, including from the PacBio RS II platform, and applied various bioinformatics tools to obtain complete genome assemblies for five bacterial strains. Our approach revealed that the hierarchical genome assembly process (HGAP) non-hybrid assembler resulted in nearly complete assemblies at a moderate coverage of ~75x, but that different versions produced non-compatible results requiring post processing. The other two platforms further improved the PacBio assembly through scaffolding and a final error correction.
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참고문헌 (22)
참고문헌 신청
Bankevich A / 2012 / SPAdes a new genome assembly algorithm and its applications to single-cell sequencing / J. Comput. Biol 19:455~477
Barthelson R / 2011 / Plantagora: modeling whole genome sequencing and assembly of plant genomes / PLoS One 6:e28436
Boetzer M / 2012 / Toward almost closed genomes with GapFiller / Genome Biol 13:R56
Charneski CA / 2011 / Atypical at skew in Firmicute genomes results from selection and not from mutation / PLoS Genet 7:e1002283
Chin CS / 2013 / Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data / Nat. Methods 10:563~569
Barthelson R / 2011 / Plantagora: modeling whole genome sequencing and assembly of plant genomes / PLoS One 6:e28436
Boetzer M / 2012 / Toward almost closed genomes with GapFiller / Genome Biol 13:R56
Charneski CA / 2011 / Atypical at skew in Firmicute genomes results from selection and not from mutation / PLoS Genet 7:e1002283
Chin CS / 2013 / Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data / Nat. Methods 10:563~569
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