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On resolving ambiguities in microbial community analysis of partial nitritation anammox reactors

Orschler, Laura ; Agrawal, Shelesh ; Lackner, Susanne (2019)
On resolving ambiguities in microbial community analysis of partial nitritation anammox reactors.
In: Scientific Reports, 2019, 9
doi: 10.1038/s41598-019-42882-8
Artikel, Zweitveröffentlichung

Kurzbeschreibung (Abstract)

PCR-based methods have caused a surge for integration of eco-physiological approaches into research on partial nitritation anammox (PNA). However, a lack of rigorous standards for molecular analyses resulted in widespread data misinterpretation and consequently lack of consensus. Data consistency and accuracy strongly depend on the primer selection and data interpretation. An in-silico evaluation of 16S rRNA gene eubacterial primers used in PNA studies from the last ten years unraveled the difficulty of comparing ecological data from different studies due to a variation in the coverage of these primers. Our 16S amplicon sequencing approach, which includes parallel sequencing of six 16S rRNA hypervariable regions, showed that there is no perfect hypervariable region for PNA microbial communities. Using qPCR analysis, we emphasize the significance of primer choice for quantification and caution with data interpretation. We also provide a framework for PCR based analyses that will improve and assist to objectively interpret and compare such results.

Typ des Eintrags: Artikel
Erschienen: 2019
Autor(en): Orschler, Laura ; Agrawal, Shelesh ; Lackner, Susanne
Art des Eintrags: Zweitveröffentlichung
Titel: On resolving ambiguities in microbial community analysis of partial nitritation anammox reactors
Sprache: Englisch
Publikationsjahr: 2019
Publikationsdatum der Erstveröffentlichung: 2019
Verlag: Springer Nature
Titel der Zeitschrift, Zeitung oder Schriftenreihe: Scientific Reports
Jahrgang/Volume einer Zeitschrift: 9
DOI: 10.1038/s41598-019-42882-8
URL / URN: https://doi.org/10.1038/s41598-019-42882-8
Herkunft: Zweitveröffentlichung aus gefördertem Golden Open Access
Kurzbeschreibung (Abstract):

PCR-based methods have caused a surge for integration of eco-physiological approaches into research on partial nitritation anammox (PNA). However, a lack of rigorous standards for molecular analyses resulted in widespread data misinterpretation and consequently lack of consensus. Data consistency and accuracy strongly depend on the primer selection and data interpretation. An in-silico evaluation of 16S rRNA gene eubacterial primers used in PNA studies from the last ten years unraveled the difficulty of comparing ecological data from different studies due to a variation in the coverage of these primers. Our 16S amplicon sequencing approach, which includes parallel sequencing of six 16S rRNA hypervariable regions, showed that there is no perfect hypervariable region for PNA microbial communities. Using qPCR analysis, we emphasize the significance of primer choice for quantification and caution with data interpretation. We also provide a framework for PCR based analyses that will improve and assist to objectively interpret and compare such results.

URN: urn:nbn:de:tuda-tuprints-92280
Sachgruppe der Dewey Dezimalklassifikatin (DDC): 600 Technik, Medizin, angewandte Wissenschaften > 620 Ingenieurwissenschaften und Maschinenbau
Fachbereich(e)/-gebiet(e): 13 Fachbereich Bau- und Umweltingenieurwissenschaften
13 Fachbereich Bau- und Umweltingenieurwissenschaften > Institut IWAR - Wasser- und Abfalltechnik, Umwelt- und Raumplanung
Hinterlegungsdatum: 03 Nov 2019 20:56
Letzte Änderung: 03 Nov 2019 20:56
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