title: Influence of edaphic and management factors on the diversity and abundance of ammonia-oxidizing thaumarchaeota and bacteria in soils of bioenergy crop cultivars.
abstract: Ammonia-oxidizing thaumarcheota (AOA) and ammonia-oxidizing bacteria (AOB) differentially influence soil and atmospheric chemistry, but soil properties that control their distributions are poorly understood. In this study, the ammonia monooxygenase gene (amoA) was used to identify and quantify presumptive AOA and AOB and relate their distributions to soil properties in two experimental fields planted with different varieties of switchgrass (Panicum virgatum), a potential bioenergy feedstock. Differences in ammonia oxidizer diversity were associated primarily with soil properties of the two field sites, with pH displaying significant correlations with both AOA and AOB population structure. Percent nitrogen (%N), carbon to nitrogen ratios (C : N), and pH were also correlated with shifts nitrifier population structure. Nitrosotalea-like and Nitrosospira cluster II populations were more highly represented in acidic soils, whereas populations affiliated with Nitrososphaera and Nitrosospira cluster 3A.1 were relatively more abundant in alkaline soils. AOA were the dominant functional group in all plots based on quantitative polymerase chain reaction and high-throughput sequencing analyses. These data suggest that AOA contribute significantly to nitrification rates in carbon and nitrogen rich soils influenced by perennial grasses.
authors.affiliation: Civil and Environmental Engineering, University of Washington, Seattle, WA, 98195, USA.
authors.forename: Anthony D
authors.initials: AD
authors.lastname: Bertagnolli
authors.forename: Kelley A
authors.initials: KA
authors.lastname: Meinhardt
authors.forename: Manmeet
authors.initials: M
authors.lastname: Pannu
authors.forename: Sally
authors.initials: S
authors.lastname: Brown
authors.forename: Stuart
authors.initials: S
authors.lastname: Strand
authors.forename: Steven C
authors.initials: SC
authors.lastname: Fransen
authors.forename: David A
authors.initials: DA
authors.lastname: Stahl
mesh_terms: D000383:Agriculture / Q000379:methods*; D000641:Ammonia / Q000378:metabolism*; D001105:Archaea / Q000145:classification* / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D001419:Bacteria / Q000145:classification* / Q000235:genetics / Q000254:growth & development / Q000378:metabolism; D058448:Biota; D002244:Carbon / Q000032:analysis; D019641:DNA, Archaeal / Q000737:chemistry / Q000235:genetics; D004269:DNA, Bacterial / Q000737:chemistry / Q000235:genetics; D006863:Hydrogen-Ion Concentration; D008969:Molecular Sequence Data; D058465:Nitrification; D009584:Nitrogen / Q000032:analysis; D010084:Oxidation-Reduction; D010088:Oxidoreductases / Q000235:genetics; D008897:Panicum / Q000254:growth & development*; D017422:Sequence Analysis, DNA; D012987:Soil / Q000737:chemistry; D012988:Soil Microbiology
chemical_list: D019641:DNA, Archaeal; D004269:DNA, Bacterial; D012987:Soil; D002244:Carbon; D000641:Ammonia; D010088:Oxidoreductases; C045582:ammonia monooxygenase; D009584:Nitrogen