Bacterial nitrous oxide respiration: electron transport chains and copper transfer reactions

Hein, Sascha; Simon, Jörg

doi:10.1016/bs.ampbs.2019.07.001

Cited by 33 publications

(52 citation statements)

References 107 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…1. The NAR/NIR ratios were similar in the two soils [15,45]. For each of these genes, the read abundance was similar in the two soils ( Fig.…”

Section: Dnramentioning

confidence: 76%

“…It is important to note, though, that since little is known about the protein function and phylogenetic characterization of these proteins the datasets used in this analysis are likely incomplete. Genes encoding NosR, which is involved in electron transfer to NosZ clade I [46] and NosL, a Cu chaperone that delivers Cu + to the NosZ apo-protein of both clades [45], are of particular interest since the presence and transcription of these genes may hold a clue to has also been suggested to be involved maturation of the CuZ site [45,86,87]. Taken together, gene reads for all the accessory nos genes analyzed in this study were detected in both soils, which was not unexpected.…”

Section: Discussionmentioning

confidence: 99%

“…To do so, we investigated to what extent the two nosZ clades were found in the MGs and MTs of two soils of differing pH; if nosZ gene transcripts originated from a few populations or represented diverse denitrifying bacteria; and if genes other than nosZ in the nos operon were transcribed in acidic soil. For the latter, we included nosR, which encodes NosR suggested to be involved in electron delivery to NosZ in organisms with nosZ cladeI; nosL, which encodes a chaperone delivering Cu to the NosZ apo-protein (both nosZ clades); and the ORF nosDFY (both nosZ clades) encoding NosD, suggested to be involved in NosZ maturation, and the ABC-transporter NosFY [44][45][46].…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N₂O emissions and nitrite accumulation in soil

Frostegård

Vick

Lim

et al. 2020

Preprint

View full text Add to dashboard Cite

Denitrifier community phenotypes often result in transient accumulation of denitrification (NO3−→NO2−→NO→N2O→N2) intermediates. Consequently, anoxic spells drive NO-, N2O- and possibly HONO-emissions to the atmosphere, affecting both climate and tropospheric chemistry. Soil pH is a key controller of intermediate levels, and while there is a clear negative correlation between pH and emission of N2O, NO2− concentrations instead increase with pH. These divergent trends are probably a combination of direct effects of pH on the expression/activity of denitrification enzymes, and an indirect effect via altered community composition. This was studied by analyzing metagenomics/transcriptomics and phenomics of two soil denitrifier communities, one of pH 3.8 (Soil3.8) and the other 6.8 (Soil6.8). Soil3.8 had severely delayed N2O reduction despite early transcription of nosZ, encoding N2O reductase, by diverse denitrifiers, and of several nosZ accessory genes. This lends support to a post-transcriptional, pH-dependent mechanism acting on the NosZ apo-protein or on enzymes involved in its maturation. Metagenome/metatranscriptome reads of nosZ were almost exclusively clade I in Soil3.8 while clade II dominated in Soil6.8. Reads of genes and transcripts for NO2−-reductase were dominated by nirK over nirS in both soils, while qPCR-based determinations showed the opposite, demonstrating that standard primer pairs only capture a fraction of the nirK community. The -omics results suggested that low NO2− concentrations in acidic soils, often ascribed to abiotic degradation, are primarily due to enzymatic activity. The NO reductase gene qnor was strongly expressed in Soil3.8, suggesting an important role in controlling NO. Production of HONO, for which some studies claim higher, others lower, emissions from NO2− accumulating soil, was estimated to be ten times higher from Soil3.8 than from Soil6.8. The study extends our understanding of denitrification-driven gas emissions and the diversity of bacteria involved and demonstrates that gene and transcript quantifications cannot always reliably predict community phenotypes.

show abstract

“…1. The NAR/NIR ratios were similar in the two soils [15,45]. For each of these genes, the read abundance was similar in the two soils ( Fig.…”

Section: Dnramentioning

confidence: 76%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N₂O emissions and nitrite accumulation in soil

Frostegård

Vick

Lim

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…Nitrous oxide reductase (NosZ) catalyzes the two-electron reduction of N 2 O to N 2 [ 335 , 336 , 337 ]. NosZ is a periplasmic protein exported to the periplasm via the TAT-pathway [ 29 ].…”

Section: Periplasmic Copper Chaperones and Their Targetsmentioning

confidence: 99%

“…The Cu A center resembles the Cu A site of Cox and contains two Cu ions that are bridged by two conserved cysteine residues and further coordinated by methionine, histidine and tryptophan ligands. The Cu Z center contains four Cu atoms coordinated by seven conserved histidine residues and by one or two thiols, depending on the presence or absence of O 2 , respectively [ 335 ].…”

Section: Periplasmic Copper Chaperones and Their Targetsmentioning

confidence: 99%

Cu Homeostasis in Bacteria: The Ins and Outs

et al. 2020

View full text Add to dashboard Cite

Copper (Cu) is an essential trace element for all living organisms and used as cofactor in key enzymes of important biological processes, such as aerobic respiration or superoxide dismutation. However, due to its toxicity, cells have developed elaborate mechanisms for Cu homeostasis, which balance Cu supply for cuproprotein biogenesis with the need to remove excess Cu. This review summarizes our current knowledge on bacterial Cu homeostasis with a focus on Gram-negative bacteria and describes the multiple strategies that bacteria use for uptake, storage and export of Cu. We furthermore describe general mechanistic principles that aid the bacterial response to toxic Cu concentrations and illustrate dedicated Cu relay systems that facilitate Cu delivery for cuproenzyme biogenesis. Progress in understanding how bacteria avoid Cu poisoning while maintaining a certain Cu quota for cell proliferation is of particular importance for microbial pathogens because Cu is utilized by the host immune system for attenuating pathogen survival in host cells.

show abstract

Mitigation of Laughing Gas Emissions by Nitrous Oxide Respiring Microorganisms

Simon

2020

Enzymes for Solving Humankind's Problems

View full text Add to dashboard Cite

Bacterial nitrous oxide respiration: electron transport chains and copper transfer reactions

Cited by 33 publications

References 107 publications

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N₂O emissions and nitrite accumulation in soil

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N₂O emissions and nitrite accumulation in soil

Cu Homeostasis in Bacteria: The Ins and Outs

Mitigation of Laughing Gas Emissions by Nitrous Oxide Respiring Microorganisms

Contact Info

Product

Resources

About

Bacterial nitrous oxide respiration: electron transport chains and copper transfer reactions

Cited by 33 publications

References 107 publications

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N2O emissions and nitrite accumulation in soil

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N2O emissions and nitrite accumulation in soil

Cu Homeostasis in Bacteria: The Ins and Outs

Mitigation of Laughing Gas Emissions by Nitrous Oxide Respiring Microorganisms

Contact Info

Product

Resources

About

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N₂O emissions and nitrite accumulation in soil

Linking meta-omics to the kinetics of denitrification intermediates reveals pH-dependent causes of N₂O emissions and nitrite accumulation in soil