Meta-analysis reveals ammonia-oxidizing bacteria respond more strongly to nitrogen addition than ammonia-oxidizing archaea

Carey, Chelsea J.; Dove, Nicholas C.; Beman, J. Michael; Hart, Stephen C.; Aronson, Emma L.

doi:10.1016/j.soilbio.2016.05.014

Cited by 198 publications

(93 citation statements)

References 87 publications

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“…Our results indicate that genetic variation in the foliar chemistry of a foundation tree species may be an important factor influencing this niche differentiation. Our results contrast with a recent meta-analysis showing that amoA gene abundance of AOB was more responsive to N additions than that of AOA, and that increased nitrification potential with N addition was only correlated with AOB (Carey et al 2016). A potential caveat to this conclusion is that qPCR cannot distinguish between live, dead, or dormant (inactive) DNA.…”

Section: Contrasting Differences In Aoa and Aob Responsescontrasting

confidence: 99%

“…The linear decline in potential nitrification rates mirrored the linear decline of AOA abundance with increasing foliar CT concentrations across the Populus hybridization gradient but there was no trend in AOB abundance, suggesting AOA played a dominant role in nitrification in these forest ecosystems. However, our study system differs from most of the studies included in the Carey et al (2016) metaanalysis in two fundamental ways. However, several studies have demonstrated that amoA gene abundance derived from qPCR varies in response to factors that also affect nitrification rates (Carey et al 2016).…”

Section: Contrasting Differences In Aoa and Aob Responsesmentioning

confidence: 99%

“…A potential caveat to this conclusion is that qPCR cannot distinguish between live, dead, or dormant (inactive) DNA. First, changes in NH 3 /NH 4 + availability in Carey et al (2016) were primarily from high rates of inorganic N addition, but were driven by declines in N derived from decaying organic matter induced by variation in foliar CT concentrations across the Populus hybridization gradient. Our results contrast with a recent meta-analysis showing that amoA gene abundance of AOB was more responsive to N additions than that of AOA, and that increased nitrification potential with N addition was only correlated with AOB (Carey et al 2016).…”

Section: Contrasting Differences In Aoa and Aob Responsesmentioning

confidence: 99%

“…This knowledge gap exists in part because, within the last decade, evidence has accumulated for a previously unknown, large, and nearly ubiquitous group of soil ammonia oxidizers in the domain Archaea (Francis et al 2005, Nicol and. More recent studies indicate that ammonia-oxidizing archaea (AOA) in the Thaumarchaeota outnumber ammonia-oxidizing bacteria (AOB) in most soils (Leininger et al 2006, Adair andSchwartz 2008), and that AOA may dominate over AOB in controlling nitrification rates in terrestrial ecosystems with low-to-moderate N availability (Carey et al 2016, Hink et al 2018). More recent studies indicate that ammonia-oxidizing archaea (AOA) in the Thaumarchaeota outnumber ammonia-oxidizing bacteria (AOB) in most soils (Leininger et al 2006, Adair andSchwartz 2008), and that AOA may dominate over AOB in controlling nitrification rates in terrestrial ecosystems with low-to-moderate N availability (Carey et al 2016, Hink et al 2018).…”

Section: Introductionmentioning

confidence: 99%

“…evidence suggest that AOA are more responsive to N derived from organic matter mineralization than to inorganic N additions(Levi cnik-H€ offerle et al 2012, Lu et al 2015, Carey et al 2016. evidence suggest that AOA are more responsive to N derived from organic matter mineralization than to inorganic N additions(Levi cnik-H€ offerle et al 2012, Lu et al 2015, Carey et al 2016.…”

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confidence: 97%

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Genetic variation in tree leaf chemistry predicts the abundance and activity of autotrophic soil microorganisms

et al. 2019

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Genetic variation in the chemistry of plant leaves can have ecosystem-level consequences.Here, we address the hypothesis that genetic variation in foliar condensed tannins along a Populus hybridization gradient influences soil ammonia oxidizers, a group of autotrophic microorganisms that perform the first step of nitrification and are not dependent on carbon derived from plant photosynthesis. Evidence that genetically based plant traits influence the abundance and activity of autotrophic soil microbes would greatly expand the concept of extended plant phenotypes. We found that increasing foliar condensed tannin concentration reduced rates of soil nitrification potential by~75%, reduced the abundance of ammonia-oxidizing archaea by~66%, but had no effect on ammonia-oxidizing bacteria. Other indices that often drive nitrification rates, including soil total nitrogen, foliar nitrogen, and soil pH, were not significant predictors of either the activity or the abundance of ammonia oxidizers, suggesting genetic variation in foliar condensed tannins may be the dominant regulating factor. These results demonstrate the condensed tannin phenotypes of two different tree species and their naturally occurring hybrids have extended effects on a key ecosystem process and provide evidence for indirect genetic linkages among autotrophs across at least two domains of life.

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Section: Contrasting Differences In Aoa and Aob Responsescontrasting

confidence: 99%

Section: Contrasting Differences In Aoa and Aob Responsesmentioning

confidence: 99%

Section: Contrasting Differences In Aoa and Aob Responsesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

mentioning

confidence: 97%

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Genetic variation in tree leaf chemistry predicts the abundance and activity of autotrophic soil microorganisms

et al. 2019

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High‐severity wildfire leads to multi‐decadal impacts on soil biogeochemistry in mixed‐conifer forests

Dove

Safford

Bohlman

et al. 2020

Ecological Applications

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During the past century, systematic wildfire suppression has decreased fire frequency and increased fire severity in the western United States of America. While this has resulted in large ecological changes aboveground such as altered tree species composition and increased forest density, little is known about the long-term, belowground implications of altered, ecologically novel, fire regimes, especially on soil biological processes. To better understand the long-term implications of ecologically novel, high-severity fire, we used a 44-yr highseverity fire chronosequence in the Sierra Nevada where forests were historically adapted to frequent, low-severity fire, but were fire suppressed for at least 70 yr. High-severity fire in the Sierra Nevada resulted in a long-term (44 +yr) decrease (>50%, P < 0.05) in soil extracellular enzyme activities, basal microbial respiration (56-72%, P < 0.05), and organic carbon (>50%, P < 0.05) in the upper 5 cm compared to sites that had not been burned for at least 115 yr. However, nitrogen (N) processes were only affected in the most recent fire site (4 yr post-fire). Net nitrification increased by over 600% in the most recent fire site (P < 0.001), but returned to similar levels as the unburned control in the 13-yr site. Contrary to previous studies, we did not find a consistent effect of plant cover type on soil biogeochemical processes in mid-successional (10-50 yr) forest soils. Rather, the 44-yr reduction in soil organic carbon (C) quantity correlated positively with dampened C cycling processes. Our results show the drastic and long-term implication of ecologically novel, high-severity fire on soil biogeochemistry and underscore the need for long-term fire ecological experiments.

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Linking microbial co‐occurrences to soil ecological processes across a woodland‐grassland ecotone

Banerjee

Thrall

Bissett

et al. 2018

Ecology and Evolution

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Ecotones between distinct ecosystems have been the focus of many studies as they offer valuable insights into key drivers of community structure and ecological processes that underpin function. While previous studies have examined a wide range of above‐ground parameters in ecotones, soil microbial communities have received little attention. Here we investigated spatial patterns, composition, and co‐occurrences of archaea, bacteria, and fungi, and their relationships with soil ecological processes across a woodland‐grassland ecotone. Geostatistical kriging and network analysis revealed that the community structure and spatial patterns of soil microbiota varied considerably between three habitat components across the ecotone. Woodland samples had significantly higher diversity of archaea while the grassland samples had significantly higher diversity of bacteria. Microbial co‐occurrences reflected differences in soil properties and ecological processes. While microbial networks were dominated by bacterial nodes, different ecological processes were linked to specific microbial guilds. For example, soil phosphorus and phosphatase activity formed the largest clusters in their respective networks, and two lignolytic enzymes formed joined clusters. Bacterial ammonia oxidizers were dominant over archaeal oxidizers and showed a significant association (p < 0.001) with potential nitrification (PNR), with the PNR subnetwork being dominated by Betaproteobacteria. The top ten keystone taxa comprised six bacterial and four fungal OTUs, with Random Forest Analysis revealing soil carbon and nitrogen as the determinants of the abundance of keystone taxa. Our results highlight the importance of assessing interkingdom associations in soil microbial networks. Overall, this study shows how ecotones can be used as a model to delineate microbial structural patterns and ecological processes across adjoining land‐uses within a landscape.

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Meta-analysis reveals ammonia-oxidizing bacteria respond more strongly to nitrogen addition than ammonia-oxidizing archaea

Cited by 198 publications

References 87 publications

Genetic variation in tree leaf chemistry predicts the abundance and activity of autotrophic soil microorganisms

Genetic variation in tree leaf chemistry predicts the abundance and activity of autotrophic soil microorganisms

High‐severity wildfire leads to multi‐decadal impacts on soil biogeochemistry in mixed‐conifer forests

Linking microbial co‐occurrences to soil ecological processes across a woodland‐grassland ecotone

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