A metagenomic DNA sequencing assay that is robust against environmental DNA contamination
© 2022. The Author(s)..
Metagenomic DNA sequencing is a powerful tool to characterize microbial communities but is sensitive to environmental DNA contamination, in particular when applied to samples with low microbial biomass. Here, we present Sample-Intrinsic microbial DNA Found by Tagging and sequencing (SIFT-seq) a metagenomic sequencing assay that is robust against environmental DNA contamination introduced during sample preparation. The core idea of SIFT-seq is to tag the DNA in the sample prior to DNA isolation and library preparation with a label that can be recorded by DNA sequencing. Any contaminating DNA that is introduced in the sample after tagging can then be bioinformatically identified and removed. We applied SIFT-seq to screen for infections from microorganisms with low burden in blood and urine, to identify COVID-19 co-infection, to characterize the urinary microbiome, and to identify microbial DNA signatures of sepsis and inflammatory bowel disease in blood.
| Errataetall: | |
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| Medienart: |
E-Artikel |
| Erscheinungsjahr: |
2022 |
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| Erschienen: |
2022 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:13 |
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| Enthalten in: |
Nature communications - 13(2022), 1 vom: 21. Juli, Seite 4197 |
| Sprache: |
Englisch |
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| Beteiligte Personen: |
Mzava, Omary [VerfasserIn] |
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| Links: |
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| Themen: |
9007-49-2 |
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| Anmerkungen: |
Date Completed 25.07.2022 Date Revised 17.08.2022 published: Electronic UpdateOf: bioRxiv. 2021 Nov 23;:. - PMID 34845444 Citation Status MEDLINE |
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| doi: |
10.1038/s41467-022-31654-0 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| PPN (Katalog-ID): |
NLM343840839 |
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| 520 | |a Metagenomic DNA sequencing is a powerful tool to characterize microbial communities but is sensitive to environmental DNA contamination, in particular when applied to samples with low microbial biomass. Here, we present Sample-Intrinsic microbial DNA Found by Tagging and sequencing (SIFT-seq) a metagenomic sequencing assay that is robust against environmental DNA contamination introduced during sample preparation. The core idea of SIFT-seq is to tag the DNA in the sample prior to DNA isolation and library preparation with a label that can be recorded by DNA sequencing. Any contaminating DNA that is introduced in the sample after tagging can then be bioinformatically identified and removed. We applied SIFT-seq to screen for infections from microorganisms with low burden in blood and urine, to identify COVID-19 co-infection, to characterize the urinary microbiome, and to identify microbial DNA signatures of sepsis and inflammatory bowel disease in blood | ||
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| 700 | 1 | |a Chang, Adrienne |e verfasserin |4 aut | |
| 700 | 1 | |a Smalling, Sami |e verfasserin |4 aut | |
| 700 | 1 | |a Djomnang, Liz-Audrey Kounatse |e verfasserin |4 aut | |
| 700 | 1 | |a Lenz, Joan Sesing |e verfasserin |4 aut | |
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| 700 | 1 | |a De Vlaminck, Iwijn |e verfasserin |4 aut | |
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