Nov 10, 2018

Comparing DNA, RNA and protein levels for measuring microbial activity in nitrogen-amended soils

BioRxiv : the Preprint Server for Biology
Luis Humberto OrellanaKonstantinos T Konstantinidis

Abstract

Multi-omic techniques can offer a comprehensive overview of microbial communities at the gene, transcript and protein levels. However, to what extent these levels reflect in situ process rates is less clear, especially in highly complex habitats such as soils. Here we performed microcosm incubations using soil from a site with a history of agricultural management. Microcosms, amended with isotopically labelled ammonium and urea to simulate a fertilization event, showed nitrification (up to 4.1 ± 0.87 µg N-NO3-g-1dry soil d-1) and accumulation of N2O after 192 hours of incubation. Nitrification activity (NH4+→NH2OH→NO2-→NO3-) was accompanied by a 6-fold increase in relative expression of the 16S rRNA gene (RNA/DNA) between 10 and 192 hours of incubation for ammonia-oxidizing bacteria (AOB) Nitrosomonas and Nitrosospira . In contrast, ammonia-oxidizing archaea (AOA)and complete ammonia oxidizer (comammox) nitrifiers showed stable gene expression during incubations but were generally more abundant (DNA level) than their Betaproteobacteria AOB counterparts. A strong relationship between nitrification activity and (mostly) betaproteobacterial ammonia monooxygenase ( amoA ; NH4+→NH2OH) and nitrite oxidoreductase ( nxrA ; NO2-→NO3-) t...Continue Reading

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Mentioned in this Paper

Fertility
Microorganism
Nitrosospira
Genes
Ataxia, EARLY-ONSET, With Oculomotor Apraxia AND Hypoalbuminemia
Ammonia monooxygenase
DNA-like RNA
Archaea
Ammonium
Gene Expression

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