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Identifying Potential Mechanisms Enabling Acidophily in the Ammonia-Oxidizing Archaeon "Candidatus Nitrosotalea devanaterra".

Lehtovirta-Morley LE, Sayavedra-Soto LA, Gallois N, Schouten S, Stein LY, Prosser JI, Nicol GW - Appl. Environ. Microbiol. (2016)

Bottom Line: Instead, the genome indicates that "Ca Nitrosotalea devanaterra" contains genes encoding both a predicted high-affinity substrate acquisition system and potential pH homeostasis mechanisms absent in neutrophilic AOA.Analysis of mRNA revealed that candidate genes encoding the proposed homeostasis mechanisms were all expressed during acidophilic growth, and lipid profiling by high-performance liquid chromatography-mass spectrometry (HPLC-MS) demonstrated that the membrane lipids of "Ca Nitrosotalea devanaterra" were not dominated by crenarchaeol, as found in neutrophilic AOA.This study for the first time describes a genome of an obligately acidophilic ammonia oxidizer and identifies potential mechanisms enabling this unique phenotype for future biochemical characterization.

View Article: PubMed Central - PubMed

Affiliation: Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, United Kingdom l.lehtovirta@abdn.ac.uk.

No MeSH data available.


Related in: MedlinePlus

Predicted mechanisms of cytoplasmic pH regulation in “Ca. Nitrosotalea devanaterra” based on the presence of putative functional genes in the genome. (1) Cation influx and proton efflux. kdp, potassium transporting P-type ATPase gene; mgtA, putative magnesium-transporting P-type ATPase gene; mntA, NRAMP-type divalent cation transporter (two copies) gene, Na+/solute transporter, Na+/hydrogen exchanger (two copies). (2) Proton consumption by metabolism: acetolactate decarboxylase, carbonic anhydrase. (3) Reduced permeability of the cell wall/cell membrane: cell surface glycosylation, GDGT-4-dominated membrane.
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Figure 1: Predicted mechanisms of cytoplasmic pH regulation in “Ca. Nitrosotalea devanaterra” based on the presence of putative functional genes in the genome. (1) Cation influx and proton efflux. kdp, potassium transporting P-type ATPase gene; mgtA, putative magnesium-transporting P-type ATPase gene; mntA, NRAMP-type divalent cation transporter (two copies) gene, Na+/solute transporter, Na+/hydrogen exchanger (two copies). (2) Proton consumption by metabolism: acetolactate decarboxylase, carbonic anhydrase. (3) Reduced permeability of the cell wall/cell membrane: cell surface glycosylation, GDGT-4-dominated membrane.

Mentions: Extreme acidophiles contain a large number of secondary transporters (22), but “Ca. Nitrosotalea devanaterra,” surprisingly, possesses a similar number of secondary transporters to the number possessed by other AOA (Table 1; see Table S5 in the supplemental material) and has proportionally more primary transporters than secondary transporters. The genome of “Ca. Nitrosotalea devanaterra” contains a variety of cation transporters, with predicted uptake of K+, Na+, and divalent cations (Fig. 1). Na+/solute symporter (NDEV_1297) is absent in other AOA and is one of the few genes consistently found across acidophilic archaeal genomes (see Table S4 in the supplemental material). “Ca. Nitrosotalea devanaterra” lacks the typical CPA2 family Na+/H+ exchangers of other AOA and has two CPA1 family Na+/H+ exchangers (NDEV_1447 and NDEV_1587), which share low identity (19.8%) (see Table S6 in the supplemental material). “Ca. Nitrosotalea devanaterra” has two NRAMP family transporters (NDEV_1085 and NDEV_1443) that are absent in other AOA and which may transport divalent cations, e.g., Mn2+, Fe2+, Zn2+, Cd2+, and Co2+.


Identifying Potential Mechanisms Enabling Acidophily in the Ammonia-Oxidizing Archaeon "Candidatus Nitrosotalea devanaterra".

Lehtovirta-Morley LE, Sayavedra-Soto LA, Gallois N, Schouten S, Stein LY, Prosser JI, Nicol GW - Appl. Environ. Microbiol. (2016)

Predicted mechanisms of cytoplasmic pH regulation in “Ca. Nitrosotalea devanaterra” based on the presence of putative functional genes in the genome. (1) Cation influx and proton efflux. kdp, potassium transporting P-type ATPase gene; mgtA, putative magnesium-transporting P-type ATPase gene; mntA, NRAMP-type divalent cation transporter (two copies) gene, Na+/solute transporter, Na+/hydrogen exchanger (two copies). (2) Proton consumption by metabolism: acetolactate decarboxylase, carbonic anhydrase. (3) Reduced permeability of the cell wall/cell membrane: cell surface glycosylation, GDGT-4-dominated membrane.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4836417&req=5

Figure 1: Predicted mechanisms of cytoplasmic pH regulation in “Ca. Nitrosotalea devanaterra” based on the presence of putative functional genes in the genome. (1) Cation influx and proton efflux. kdp, potassium transporting P-type ATPase gene; mgtA, putative magnesium-transporting P-type ATPase gene; mntA, NRAMP-type divalent cation transporter (two copies) gene, Na+/solute transporter, Na+/hydrogen exchanger (two copies). (2) Proton consumption by metabolism: acetolactate decarboxylase, carbonic anhydrase. (3) Reduced permeability of the cell wall/cell membrane: cell surface glycosylation, GDGT-4-dominated membrane.
Mentions: Extreme acidophiles contain a large number of secondary transporters (22), but “Ca. Nitrosotalea devanaterra,” surprisingly, possesses a similar number of secondary transporters to the number possessed by other AOA (Table 1; see Table S5 in the supplemental material) and has proportionally more primary transporters than secondary transporters. The genome of “Ca. Nitrosotalea devanaterra” contains a variety of cation transporters, with predicted uptake of K+, Na+, and divalent cations (Fig. 1). Na+/solute symporter (NDEV_1297) is absent in other AOA and is one of the few genes consistently found across acidophilic archaeal genomes (see Table S4 in the supplemental material). “Ca. Nitrosotalea devanaterra” lacks the typical CPA2 family Na+/H+ exchangers of other AOA and has two CPA1 family Na+/H+ exchangers (NDEV_1447 and NDEV_1587), which share low identity (19.8%) (see Table S6 in the supplemental material). “Ca. Nitrosotalea devanaterra” has two NRAMP family transporters (NDEV_1085 and NDEV_1443) that are absent in other AOA and which may transport divalent cations, e.g., Mn2+, Fe2+, Zn2+, Cd2+, and Co2+.

Bottom Line: Instead, the genome indicates that "Ca Nitrosotalea devanaterra" contains genes encoding both a predicted high-affinity substrate acquisition system and potential pH homeostasis mechanisms absent in neutrophilic AOA.Analysis of mRNA revealed that candidate genes encoding the proposed homeostasis mechanisms were all expressed during acidophilic growth, and lipid profiling by high-performance liquid chromatography-mass spectrometry (HPLC-MS) demonstrated that the membrane lipids of "Ca Nitrosotalea devanaterra" were not dominated by crenarchaeol, as found in neutrophilic AOA.This study for the first time describes a genome of an obligately acidophilic ammonia oxidizer and identifies potential mechanisms enabling this unique phenotype for future biochemical characterization.

View Article: PubMed Central - PubMed

Affiliation: Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen, United Kingdom l.lehtovirta@abdn.ac.uk.

No MeSH data available.


Related in: MedlinePlus