Carbon content, carbon fixation yield and dissolved organic carbon release from diverse marine nitrifiers

Bayer, Barbara; McBeain, Kelsey A.; Carlson, Craig A.; Santoro, Alyson E.

doi:10.1002/lno.12252

Cited by 29 publications

(36 citation statements)

References 74 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This provides the following parameters for the yields, considering both the carbon assimilated into biomass and any excreted in dissolved form, and quotas: for AOA, a yield of 0.098 ± 0.021 mol C fixed per mol NH 3 oxidized and cell quota of 11.5 ± 2.0 fg C per cell and for NOB, a yield of 0.043 ± 0.004 mol C fixed per mol NO − 2 oxidized and a cell quota of 39.8 ± 11.2 fg C per cell. The yield for Nitrospina is higher than many previous studies because it was enhanced by growth in natural seawater and because the study accounted for the fact that C fixation lagged behind NO − 2 oxidation (Bayer et al, 2022). Differences in the loss rates between AOA and NOB populations in the ocean are not well known.…”

Section: Parameter Valuesmentioning

confidence: 77%

“…Equations are integrated forward in time until an equilibrium state is reached. Because the model resolves nitrogen-based biomass, we convert the biomass yields and elemental quotas using elemental ratio R NC from the measured C : N contents of AOA and NOB (Bayer et al, 2022;Table A1). To quantify model uncertainty, we randomly draw parameter values from ranges in yields, loss rate parameters, and cell quotas of the AOA and NOB functional types to construct an ensemble of 2000 equilibrium model solutions.…”

Section: Model Configurationsmentioning

confidence: 99%

“…In addition to the AOA and NOB populations, we resolve six phytoplankton populations, four zooplankton populations, two heterotrophic bacteria types, and multiple anaerobic heterotrophic (nitrate-reducing and denitrifying) and chemoautotrophic (anammox) metabolic functional types. The configuration is identical to that of Zakem et al (2018) except for (1) the incorporation of the recently measured biomass yields from Bayer et al (2022), which are higher than the previous model input values and so result in higher nitrifier biomass and C fixation rates; (2) the assumption of equal uptake kinetic parameters for AOA and NOB following the results of Zhang et al (2020), which increases the competitive ability of NOB against phytoplankton for DIN in the euphotic zone and so increases nitrite oxidation rates slightly there; and (3) the assumption that the metabolic rates of nitrifying microorganisms are sensitive to temperature using the same temperature sensitivity function as for the other microbial populations. This impacts the global estimates only slightly, well within our reported uncertainty range (in Zakem et al, 2018, nitrifier metabolic rates were not modified by temperature following the empirical results of Horak et al, 2013).…”

Section: Model Configurationsmentioning

confidence: 99%

“…The relative values and ranges are summarized in Table 1 (see Table A1 for absolute values and ranges). For the biomass yields and cell quotas, we use recently published measurements for AOA and NOB grown in environmentally relevant conditions: natural seawater at 15 • C and 1 µM substrate (Tables 1 and 2 in Bayer et al, 2022). Specifically, for AOA, we incorporate the average and standard deviation of the measured C fixation yields and carbon quo-…”

Section: Parameter Valuesmentioning

confidence: 99%

“…The role of NOB in the global carbon cycle in particular remains unclear. Currently, estimates of global carbon fixation by NOB range over an order of magnitude (Pachiadaki et al, 2017;Zhang et al, 2020;Bayer et al, 2022). Recent studies demonstrate that some types of NOB are metabolically diverse, with the ability to break down urea, oxidize compounds other than NO − 2 , and reduce NO − 3 in addition to O 2 (Koch et al, 2014(Koch et al, , 2015Füssel et al, 2017;Bayer et al, 2020), though the large-scale biogeochemical impacts of this versatility are also unclear.…”

Section: Introductionmentioning

confidence: 99%

See 4 more Smart Citations

Controls on the relative abundances and rates of nitrifying microorganisms in the ocean

et al. 2022

View full text Add to dashboard Cite

Abstract. Nitrification controls the oxidation state of bioavailable nitrogen. Distinct clades of chemoautotrophic microorganisms – predominantly ammonia-oxidizing archaea (AOA) and nitrite-oxidizing bacteria (NOB) – regulate the two steps of nitrification in the ocean, but explanations for their observed relative abundances and nitrification rates remain incomplete and their contributions to the global marine carbon cycle via carbon fixation remain unresolved. Using a mechanistic microbial ecosystem model with nitrifying functional types, we derive simple expressions for the controls on AOA and NOB in the deep, oxygenated open ocean. The relative biomass yields, loss rates, and cell quotas of AOA and NOB control their relative abundances, though we do not need to invoke a difference in loss rates to explain the observed relative abundances. The supply of ammonium, not the traits of AOA or NOB, controls the relatively equal ammonia and nitrite oxidation rates at steady state. The relative yields of AOA and NOB alone set their relative bulk carbon fixation rates in the water column. The quantitative relationships are consistent with multiple in situ datasets. In a complex global ecosystem model, nitrification emerges dynamically across diverse ocean environments, and ammonia and nitrite oxidation and their associated carbon fixation rates are decoupled due to physical transport and complex ecological interactions in some environments. Nevertheless, the simple expressions capture global patterns to first order. The model provides a mechanistic upper estimate on global chemoautotrophic carbon fixation of 0.2–0.5 Pg C yr−1, which is on the low end of the wide range of previous estimates. Modeled carbon fixation by AOA (0.2–0.3 Pg C yr−1) exceeds that of NOB (about 0.1 Pg C yr−1) because of the higher biomass yield of AOA. The simple expressions derived here can be used to quantify the biogeochemical impacts of additional metabolic pathways (i.e., mixotrophy) of nitrifying clades and to identify alternative metabolisms fueling carbon fixation in the deep ocean.

show abstract

Section: Parameter Valuesmentioning

confidence: 77%

Section: Model Configurationsmentioning

confidence: 99%

Section: Model Configurationsmentioning

confidence: 99%

Section: Parameter Valuesmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Controls on the relative abundances and rates of nitrifying microorganisms in the ocean

et al. 2022

View full text Add to dashboard Cite

show abstract

Significant dark inorganic carbon fixation in the euphotic zone of an oligotrophic sea

Reich,

Belkin,

Sisma‐Ventura

et al. 2024

Limnology & Oceanography

View full text Add to dashboard Cite

Estimates of primary productivity have traditionally disregarded dark inorganic carbon fixation by marine microorganisms. Currently, only limited data are available from different systems on this potentially ecologically important process. We present monthly dark inorganic carbon fixation and photosynthetic rates from the euphotic layer of the northern Gulf of Aqaba collected over a decade between 2010 and 2020. Averaged dark inorganic carbon fixation rates from surface to 100 m depth, ranged from 99 to 173 mg C m−2 d−1, which corresponds to ~ 43% of the annual primary productivity at this location. The lowest dark inorganic carbon fixation rates were found during winter, contributing ~ 7.5% of the integrated primary productivity. During the oligotrophic summer, dark inorganic carbon fixation comprised a larger fraction of the integrated primary productivity estimated as ~ 12%. In accordance, dark inorganic carbon fixation contributed ~ 6% to the particulate organic carbon flux during the winter and ~ 30% during summertime. Complimentary nutrient‐enrichment bioassays of seawater from 5 m show that dissolved organic nutrient enrichment (P and C based) significantly elevates dark inorganic carbon fixation, whereas addition of dissolved inorganic nutrients (, , or both) significantly increased photosynthesis but to a lesser extent dark inorganic carbon fixation. These results suggest that dark inorganic carbon fixation may be an important biochemical process throughout the euphotic zone of oligotrophic seas, and thus should be incorporated into oceanic carbon production estimates.

show abstract

Metabolic activities of marine ammonia‐oxidizing archaea orchestrated by quorum sensing

Pereira,

Qin,

Galand

et al. 2024

mLife

View full text Add to dashboard Cite

Ammonia‐oxidizing archaea (AOA) play crucial roles in marine carbon and nitrogen cycles by fixing inorganic carbon and performing the initial step of nitrification. Evaluation of carbon and nitrogen metabolism popularly relies on functional genes such as amoA and accA. Increasing studies suggest that quorum sensing (QS) mainly studied in biofilms for bacteria may serve as a universal communication and regulatory mechanism among prokaryotes; however, this has yet to be demonstrated in marine planktonic archaea. To bridge this knowledge gap, we employed a combination of metabolic activity markers (amoA, accA, and grs) to elucidate the regulation of AOA‐mediated nitrogen, carbon processes, and their interactions with the surrounding heterotrophic population. Through co‐transcription investigations linking metabolic markers to potential key QS genes, we discovered that QS molecules could regulate AOA's carbon, nitrogen, and lipid metabolisms under different conditions. Interestingly, specific AOA ecotypes showed a preference for employing distinct QS systems and a distinct QS circuit involving a typical population. Overall, our data demonstrate that QS orchestrates nitrogen and carbon metabolism, including the exchange of organic metabolites between AOA and surrounding heterotrophic bacteria, which has been previously overlooked in marine AOA research.

show abstract

Carbon content, carbon fixation yield and dissolved organic carbon release from diverse marine nitrifiers

Cited by 29 publications

References 74 publications

Controls on the relative abundances and rates of nitrifying microorganisms in the ocean

Controls on the relative abundances and rates of nitrifying microorganisms in the ocean

Significant dark inorganic carbon fixation in the euphotic zone of an oligotrophic sea

Metabolic activities of marine ammonia‐oxidizing archaea orchestrated by quorum sensing

Contact Info

Product

Resources

About