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학술연구/단체지원/교육 등 연구자 활동을 지속하도록 DBpia가 지원하고 있어요.
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연구자들이 자신의 연구와 전문성을 널리 알리고, 새로운 협력의 기회를 만들 수 있는 네트워킹 공간이에요.
논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 발행연도
- 2020.1
- 수록면
- 883 - 892 (10page)
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Background The human gut microbiome contains millions of genes and many undetected bacteria species. Recovering bacterial genomes from large complex metagenomes remains highly challenging, and current binning methods show insufficient recall rates. Objective This study was performed to put forward a new metagenome binning method with promising recall rate and accuracy. Methods We found that more than 85% of the genes could be aligned to only one bacteria species by using strict BLAST parameters (identity > 90% and aligning length > 100 bp). This phenomenon was called “the gene uniqueness”, which indicated that the most bacterial genes could be exclusive to the species’ taxonomy. In our new metagenome binning method, we could cluster contigs based on gene similarity via a graph model. Any contig shared with same gene under Strict Blast parameters would be clustered into one bin. Results we obtained 1,131 bins and reconstructed the genomes of 12 unknown species for MetaHIT data Our method exhibited a more promising recall rate, faster running speed and lower time complexity than the current methods. Conclusions The present new metagenome binning method based on gene uniqueness had high recall rate and low error, which could be applied to assemble the bacterial genomes efficiently in complex metagenome.
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참고문헌 (22)
참고문헌 신청
Alneberg J / 2013 / CONCOCT: Clustering cONtigs on COverage and ComposiTion / Q Bio preprint
Bäckhed F / 2004 / The gut microbiota as an environmental factor that regulates fat storage / Proc Natl Acad Sci USA 101:15718~15723
Blancomíguez A / 2017 / MAHMI database : a comprehensive MetaHit-based resource for the study of the mechanism of action of the human microbiota / DATABASE-OXFORD 2017:22
Delzenne NM / 2011 / Targeting gut microbiota in obesity : effects of prebiotics and probiotics / Nat Rev Endocrinol 7:639
Fierer N / 2017 / Embracing the unknown : disentangling the complexities of the soil microbiome / Nat Rev Microbiol 15:579
Bäckhed F / 2004 / The gut microbiota as an environmental factor that regulates fat storage / Proc Natl Acad Sci USA 101:15718~15723
Blancomíguez A / 2017 / MAHMI database : a comprehensive MetaHit-based resource for the study of the mechanism of action of the human microbiota / DATABASE-OXFORD 2017:22
Delzenne NM / 2011 / Targeting gut microbiota in obesity : effects of prebiotics and probiotics / Nat Rev Endocrinol 7:639
Fierer N / 2017 / Embracing the unknown : disentangling the complexities of the soil microbiome / Nat Rev Microbiol 15:579
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