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Pyrococcus furiosus

Pyrococcus furiosus is a hyperthermophilic, strictly anaerobic archaeon classified within the genus Pyrococcus and the order Thermococcales, renowned for its optimal growth at temperatures between 90 and 100°C in extreme marine environments such as geothermal sediments near hydrothermal vents.^[1] First isolated in 1986 from geothermally heated marine sediments at Porto Levante on Vulcano Island, Italy, this heterotrophic organism ferments carbohydrates like starch to produce acetate, carbon dioxide, and hydrogen as primary metabolic end products.^[2] Its remarkable thermophily is supported by a novel glycolytic pathway featuring ADP-dependent kinases and ferredoxin-dependent enzymes, including unique tungsten-containing ones, enabling survival in conditions lethal to most life forms.^[2] Notable for its rapid motility—earning it the name meaning "rushing fireball" due to a doubling time of approximately 37 minutes at 100°C—P. furiosus has become a model organism for studying archaeal biology and extremophile adaptations.^[2] The organism's genome, fully sequenced in 2001, reveals a compact 1.9 Mb structure with genes encoding thermostable proteins that have revolutionized biotechnology.^[3] Key among these is the Pfu DNA polymerase, derived from P. furiosus, which offers superior fidelity and thermostability for polymerase chain reaction (PCR) applications compared to earlier enzymes like Taq polymerase.^[2] Beyond PCR, its enzymes facilitate industrial biocatalysis, biofuel production, and carbon fixation strategies, underscoring P. furiosus as a cornerstone in synthetic biology and environmental microbiology.^[3]

Classification and Discovery

Taxonomy

Pyrococcus furiosus is classified within the domain Archaea, phylum Methanobacteriota, class Thermococci, order Thermococcales, family Thermococcaceae, genus Pyrococcus, and species furiosus.^[4] This placement reflects its phylogenetic position among hyperthermophilic archaea, based on 16S rRNA gene sequencing and genomic analyses that align it closely with other marine thermophiles in the Thermococcales order.^[4]^[5] Morphologically, P. furiosus consists of spherical to irregular cocci measuring 0.8 to 2.5 μm in diameter, with a glycoprotein surface layer (S-layer) providing structural integrity under extreme conditions.^[1] The cells are motile, exhibiting rapid swimming via a tuft of polar flagella (archaella), which enable high-speed motility at temperatures near 100°C.^[1]^[6] The species name derives from the Greek "pyro" (fire) and "kokkos" (berry or ball), combined with the Latin "furiosus" (raging or furious), alluding to its hyperthermophilic habitat and vigorous motility resembling a "rushing fireball."^[7] This etymology was assigned in its original description to highlight its extreme adaptations.^[1] Compared to related species, P. furiosus is distinguished by its optimal growth temperature of 100°C (range 70–103°C), higher than Pyrococcus horikoshii (98°C, range 88–104°C) and Thermococcus litoralis (88°C, range 55–98°C).^[1]^[8] Genomically, its 1.91 Mb genome encodes unique adaptations for peptide and carbohydrate fermentation, differing from P. horikoshii's 1.74 Mb genome in gene content for sulfur metabolism and from T. litoralis in overall GC content (40.8% vs. 43%).^[8]^[9] Physiologically, it prefers complex substrates like maltodextrins and peptides over simple sugars, contrasting with broader monosaccharide utilization in T. litoralis.^[10]

History

Pyrococcus furiosus was first isolated in 1986 from geothermally heated marine sediments at Porto di Levante on Vulcano Island, Italy, by Gerhard Fiala and Karl O. Stetter at the University of Regensburg.^[1] The organism, a strictly anaerobic heterotrophic archaeon, was characterized as growing optimally at 100°C with a doubling time of 37 minutes on complex peptide mixtures such as peptone, as well as on carbohydrates like starch and maltose, producing H₂ and CO₂; growth was inhibited by H₂ unless elemental sulfur (S⁰) was provided, leading to H₂S formation.^[1] This discovery highlighted a novel genus within the hyperthermophilic archaea, expanding understanding of life in extreme environments.^[1] Key milestones in the study of P. furiosus include the complete genome sequencing in 2001, which revealed a single circular chromosome of 1,908,256 base pairs containing 2,065 predicted protein-coding genes and a G+C content of 40.8 mol%.^[11] The sequencing effort, led by Frank T. Robb and colleagues, provided insights into its physiology and enzymology, identifying genes for thermostable enzymes and metabolic pathways adapted to high temperatures.^[11] In the 2010s, development of genetic tools advanced research significantly; a shuttle vector-based transformation system was established in 2010, enabling plasmid replication and gene expression in P. furiosus and Escherichia coli, while natural competence for DNA uptake was demonstrated in 2011, facilitating targeted gene disruptions and metabolic engineering.^[12]^[13] A 30-year retrospective in 2017 by Servé W.M. Kengen emphasized the organism's contributions to discovering thermostable enzymes, such as those used in PCR, and its role as a model hyperthermophile. Recent advances post-2020 have focused on enhancing genetic tractability and understanding stress responses. In 2023, a genome-scale metabolic model was developed, integrating 623 genes and 727 reactions to optimize bio-based production pathways like ethanol from carbohydrates.^[14] By 2025, cryo-EM studies revealed oxygen-induced tubular nanocompartments in P. furiosus, providing structural insights into its surprisingly robust detoxification mechanisms despite being an obligate anaerobe.^[15] These developments, including engineering for 1-propanol production via heterologous pathways, underscore P. furiosus as a platform for high-temperature biotechnology.^[16]

Biology

Habitat and Physiology

Pyrococcus furiosus is a hyperthermophilic archaeon primarily inhabiting marine hydrothermal vents, including those near Vulcano, Italy, as well as associated sediments and hot springs environments. These extreme niches are characterized by temperatures ranging from 80°C to 105°C, depths up to several thousand meters in deeper oceanic systems for related strains, pH levels between 5.5 and 8.5, and elevated salinity of 2–5% NaCl, reflecting the organism's adaptation to geothermally active, anaerobic seafloor conditions.^[17]^[18]^[19] The organism exhibits optimal growth at 100°C under strictly anaerobic conditions, with a remarkably rapid doubling time of approximately 37 minutes, enabling prolific proliferation in nutrient-rich, high-temperature settings. It utilizes peptides, maltose, and starch as primary carbon sources, supporting its heterotrophic lifestyle in these subsurface ecosystems. Growth is supported in media mimicking seawater salinity, with no requirement for hydrostatic pressure beyond atmospheric levels for the type strain, though related piezophilic variants thrive at elevated pressures up to 52 MPa.^[2]^[18]^[19] Physiological adaptations of P. furiosus to hyperthermal environments include the production of heat-stable proteins that maintain functionality at temperatures exceeding 100°C and specialized membrane lipids, such as caldarchaeol-based tetraethers with cyclopentane rings, which enhance membrane rigidity and permeability barriers against thermal denaturation. These archaeal lipids contribute to stability up to the organism's maximum growth temperature of 103°C, supporting cellular integrity under extreme heat.^[20]^[1] As a strict anaerobe, P. furiosus is highly sensitive to oxygen, yet recent studies have revealed an adaptive response involving oxygen-induced tubular nanocompartments formed by rubrerythrin tetramers, which encapsulate virus-like particles to sequester iron and mitigate oxidative stress through peroxidase activity and reactive oxygen species neutralization.^[21] In terms of cell structure and motility, P. furiosus cells are irregular cocci, approximately 1–2 μm in diameter, enveloped by a Gram-negative-like S-layer composed of glycoproteins that provides structural support without peptidoglycan. The organism lacks sporulation capabilities, relying instead on robust vegetative survival strategies. Motility is achieved via archaella, archaeal flagella-like appendages assembled from glycosylated pilin proteins, enabling swimming in liquid media and surface adhesion, with up to several dozen per cell for enhanced navigation in viscous, high-temperature habitats.^[22]^[23]

Metabolism

Pyrococcus furiosus is an anaerobic heterotroph that primarily ferments peptides and secondarily carbohydrates, such as maltose, which are broken down via extracellular amylases, to generate energy.^[24] The main end products of this fermentation process are acetate, alanine, CO₂, and H₂.^[25] Peptides serve as the preferred carbon and energy source, with growth occurring on complex proteins like casein or oligopeptides as the sole nutrient, highlighting the organism's adaptation to nutrient-limited hydrothermal environments.^[26] The central metabolic pathways include a modified Embden-Meyerhof-Parnas (EMP) glycolysis adapted for hyperthermophily, featuring ADP-dependent glucokinase and phosphofructokinase that produce AMP instead of ADP, along with a non-phosphorylating glyceraldehyde-3-phosphate dehydrogenase.^[27] Peptide degradation occurs through extracellular proteases that hydrolyze proteins into peptides and amino acids for uptake and intracellular catabolism.^[28] Additionally, the non-oxidative pentose phosphate pathway facilitates the interconversion of pentose phosphates, supporting nucleotide synthesis and redox balancing without oxidative decarboxylation.^[29] Energy is conserved primarily through substrate-level phosphorylation, yielding a net of 2 ATP per glucose via pyruvate kinase in the EMP pathway and ADP-forming acetyl-CoA synthetase during acetate production.^[30] Redox balance is maintained by ferredoxin-dependent enzymes, such as pyruvate:ferredoxin oxidoreductase, which transfer electrons to membrane-bound hydrogenases for H₂ evolution.^[31] Hydrogen production, however, inhibits growth by accumulating and thermodynamically hindering upstream reactions unless vented from the system.^[32] A recent genome-scale metabolic model (iGEM_Pfu), encompassing over 700 reactions, has elucidated these processes, demonstrating precise energy and redox balancing during fermentation.^[33]

Genomics

Genome Characteristics

The genome of Pyrococcus furiosus consists of a single circular chromosome measuring 1,908,256 base pairs in length, with a GC content of 40.8 mol%. This sequence was completed in 2001 by researchers at The Institute for Genomic Research (now part of the J. Craig Venter Institute), providing foundational insights into the molecular basis of hyperthermophily in archaea.^[34] The genome encodes approximately 2,116 protein-coding genes and 41 RNA genes, including 24 transfer RNAs, five ribosomal RNAs, and 12 other stable RNAs. Roughly 85% of the protein-coding genes are assigned predicted functions through homology to known proteins, reflecting a compact and efficient genetic architecture with high coding density—over 90% of the genome is occupied by genes and minimal intergenic regions. Key features include a functional CRISPR-Cas system, comprising multiple type I subtypes (I-A, I-G) and a type III-B system, which defends against invading nucleic acids from mobile genetic elements like viruses and plasmids.^[34]^[34]^[35] Mobile elements, such as insertion sequences and transposons, are present and contribute to genome plasticity by promoting rearrangements, duplications, and potential horizontal gene transfer events. In comparative analyses with other Thermococcales, such as Pyrococcus horikoshii and Thermococcus kodakarensis, the P. furiosus genome shows strong conservation in core metabolic and housekeeping genes but distinctive expansions in hyperthermophile-specific adaptations, including multiple copies of chaperone-encoding genes like those for the thermosome (group II chaperonin), which stabilize proteins under extreme thermal stress.^[18]^[34]

Metabolic Modeling and Genetic Engineering

Metabolic modeling of Pyrococcus furiosus has advanced significantly with the development of genome-scale reconstructions that integrate genomic, biochemical, and physiological data to predict cellular fluxes. In 2025, the core model iGEM_Pfu was constructed, encompassing over 500 reactions reconstructed from 623 genes, 727 reactions, and 865 metabolites, enabling flux balance analysis (FBA) to simulate carbon, energy, and redox metabolism under hyperthermophilic conditions.^[17] This model builds on earlier efforts, such as a 2023 reconstruction focused on ethanol production pathways, by incorporating updated enzymatic constraints and thermodynamic feasibility to optimize bio-based fuel yields.^[14] Such models have been pivotal in identifying metabolic bottlenecks, for instance, in balancing NADH/NADPH ratios during anaerobic fermentation, providing a framework for rational strain design without exhaustive wet-lab trials.^[17] Genetic engineering tools for P. furiosus have evolved since the 2010s, leveraging its natural competence for DNA uptake to facilitate markerless deletions and plasmid-based expression. Shuttle vectors, such as pYS2 derived from archaeal plasmids fused with E. coli vectors, enable heterologous gene expression and were first demonstrated in 2010 for regulated protein production at 100°C.^[12] Uracil auxotrophy, achieved via deletion of the pyrF gene (PF1114), serves as a selectable marker in the COM1 strain, allowing efficient prototrophic selection with transformation frequencies exceeding 10^3 transformants per μg DNA.^[36] This strain, developed in 2011 through targeted deletions enhancing recombinogenic properties, remains the foundation for 2025 engineering efforts, including multi-locus integrations.^[37] In the 2020s, adaptations of endogenous CRISPR-Cas systems (types I-A, I-B, and III-B) have emerged for precise genome editing, building on the organism's seven CRISPR loci to silence plasmids or target invaders in a PAM-dependent manner, though full Cas9 orthogonality remains under development.^[38] These tools have enabled targeted engineering applications, such as gene knockouts to enhance hydrogen production by redirecting electrons from formate via an 18-gene cluster insertion, yielding up to 1.5 mol H2 per mol formate at 90°C.^[39] Synthetic pathways for biofuels, including alcohol dehydrogenases for ethanol and aldehyde-alcohol cascades for 1-propanol, have been introduced using COM1, with FBA-guided designs achieving titers of 10-20 mM in batch cultures.^[14] Proteomics studies have further informed engineering by mapping oxygen stress responses, revealing upregulation of rubrerythrin (PF1283) and superoxide reductase within 30 minutes of exposure, guiding knockouts to improve aerotolerance for industrial scalability.^[15] Challenges in engineering P. furiosus include ensuring thermostability of expression tools, as many vectors require optimization for half-lives beyond 98°C, and initial low transformation efficiencies in wild-type strains, which COM1 overcomes via natural competence rather than electroporation.^[36] Despite these hurdles, the integration of metabolic models with genetic tractability has positioned P. furiosus as a leading hyperthermophilic chassis for sustainable bioprocessing.^[17]

Enzymes

Thermostable DNA Polymerases

The thermostable DNA polymerase from Pyrococcus furiosus, commonly known as Pfu polymerase, belongs to family B and consists of a single polypeptide chain of 775 amino acids with a molecular weight of approximately 90 kDa.^[40] It was first isolated and characterized as a high-fidelity enzyme suitable for primer extension reactions, demonstrating superior accuracy compared to earlier polymerases like Taq.^[41] Pfu polymerase exhibits exceptional thermostability, with a half-life exceeding 2 hours at 95°C, enabling its use in high-temperature applications without significant loss of activity.^[42] Its high fidelity, with an error rate of approximately 1.3 × 10^{-6} mutations per base pair per duplication, arises from intrinsic 3'–5' exonuclease proofreading activity that removes misincorporated nucleotides during synthesis. This enzyme lacks 5'–3' exonuclease activity, distinguishing it from family A polymerases like Taq. The three-dimensional structure of Pfu polymerase, determined at 2.6 Å resolution (PDB entry 2JGU), reveals a hand-like architecture typical of family B polymerases, comprising palm, fingers, thumb, and N-terminal domains.^[43] Thermostability is conferred by structural motifs such as extensive ion pairs and hydrogen bonds that stabilize the protein at high temperatures, as observed in comparisons with mesophilic counterparts.^[44] Although the core catalytic subunit is monomeric, in cellular contexts it forms complexes with accessory proteins like the sliding clamp PCNA to enhance function, though commercial preparations primarily use the isolated subunit. Mechanistically, Pfu polymerase catalyzes 5'–3' nucleotide addition with a processivity of up to 20 kb, allowing amplification of long DNA fragments without frequent dissociation.^[45] Its extension rate is approximately 500–1000 nucleotides per minute at 72°C under optimal conditions, balancing speed with accuracy during proofreading.^[46] Variants such as Vent and Deep Vent polymerases, derived from related thermophilic archaea (Thermococcus litoralis and Thermococcus sp. strain 9°N-4, respectively), share family B characteristics but exhibit inferior proofreading compared to Pfu, resulting in higher error rates.^[45] Pfu's properties make it a cornerstone for high-fidelity PCR applications.^[41]

Redox and Dehydrogenase Enzymes

Pyrococcus furiosus harbors several redox-active enzymes critical for its anaerobic fermentation metabolism, particularly alcohol dehydrogenases and oxidoreductases that maintain redox balance under hyperthermophilic conditions. The Zn-dependent alcohol dehydrogenase II (ADH II), also known as AdhB, is an oxygen-sensitive enzyme containing both iron and zinc cofactors, forming a homohexameric structure with subunits of approximately 48 kDa.^[47] This enzyme catalyzes the reversible reduction of acetaldehyde to ethanol using NADPH as the electron donor, facilitating the disposal of excess reducing equivalents generated during peptide and carbohydrate fermentation.^[47] Its activity is optimal above 95°C, with remarkable thermostability evidenced by a half-life of 7 hours at 95°C under anaerobic conditions, enabling function near the organism's growth optimum of 100°C.^[47] Structural features of ADH II contribute to its hyperthermostability, including unique motifs such as proline-rich loops that enhance rigidity and prevent unfolding at extreme temperatures, a common adaptation in archaeal enzymes from P. furiosus.^[48] Although no high-resolution crystal structure of ADH II has been reported, homology modeling and biochemical analyses reveal conserved NAD(P)H and metal-binding sites essential for catalysis, with the zinc ion coordinating the substrate and iron supporting oxygen sensitivity.^[49] In fermentation, ADH II plays a key role in redox balancing by converting potentially toxic aldehydes to less harmful alcohols, integrating with broader pathways for acetate, CO₂, and H₂ production.^[47] Among the oxidoreductases, ferredoxin-dependent hydrogenases, notably the membrane-bound hydrogenase (MBH) complex, are central to H₂ evolution in P. furiosus. This 14-subunit complex couples the oxidation of reduced ferredoxin—produced from central metabolic reactions—to proton reduction, generating H₂ while translocating sodium ions to conserve energy via an electrochemical gradient.^[50] The MBH operates optimally at temperatures exceeding 90°C and exhibits high thermostability, with the enzyme remaining functional after prolonged exposure to 100°C under anaerobic conditions, supporting the organism's respiratory-like metabolism in the absence of sulfur.^[51] Its ferredoxin dependency ensures efficient electron transfer for redox homeostasis during growth on peptides and carbohydrates. Aldehyde ferredoxin oxidoreductase (AOR), a tungsten-containing enzyme, further exemplifies the redox machinery by catalyzing the non-phosphorylating oxidation of aldehydes derived from peptide catabolism to their corresponding carboxylic acids, using ferredoxin as the electron acceptor.^[52] This homodimeric protein, with subunits around 68 kDa, features a unique [4Fe-4S] cluster and tungsten-pterin cofactor, enabling reversible aldehyde oxidation at hyperthermophilic temperatures up to 100°C without ATP investment.^[53] AOR's activity is crucial for redox balancing in fermentation, oxidizing aldehydes to prevent accumulation of toxic intermediates while generating reduced ferredoxin for downstream processes like H₂ production via the MBH complex.^[54] The crystal structure of a related formaldehyde ferredoxin oxidoreductase at 1.85 Å resolution highlights conserved thermophilic elements, such as ion-pair networks, that stabilize the active site under extreme heat.^[55]

Applications

Molecular Biology Techniques

Pfu DNA polymerase, derived from Pyrococcus furiosus, is a cornerstone enzyme in high-fidelity polymerase chain reaction (PCR) due to its 3'→5' exonuclease proofreading activity, which significantly reduces error rates compared to non-proofreading polymerases like Taq.^[56] This fidelity, with an error rate approximately 10-fold lower than Taq (around 1.3 × 10^{-6} mutations per base pair per cycle), makes Pfu ideal for applications requiring accurate DNA amplification, such as cloning and site-directed mutagenesis, where minimizing sequence alterations is critical.^[56]^[45] In PCR protocols using Pfu, the standard reaction buffer is 1× cloned Pfu buffer (20 mM Tris-HCl at pH 8.8, 10 mM KCl, 10 mM (NH₄)₂SO₄, 2 mM MgSO₄, 0.1% Triton X-100, 100 μg/ml BSA), with typical cycling conditions of 95°C for 2 minutes initial denaturation, followed by 25–30 cycles of 95°C for 30 seconds denaturation, 55–72°C for 30 seconds annealing (depending on primers), and 72°C for 1 minute per kilobase extension, ending with a 72°C hold for 5–10 minutes.^[57] These conditions enable robust amplification of fragments up to 10 kb or longer, supporting long PCR for complex genomic regions that are challenging with lower-fidelity enzymes.^[45] Pfu's thermostability, optimal at 72–75°C extension, further enhances efficiency in such extended amplifications.^[56] Beyond standard PCR, Pfu facilitates site-directed mutagenesis through its proofreading capability, allowing precise introduction of mutations via overlapping primer extension without introducing extraneous errors, a method widely adopted since the early 1990s.^[56] In next-generation sequencing (NGS) library preparation, Pfu-based polymerases minimize amplification biases and errors, ensuring high-quality libraries for accurate variant calling and de novo assembly.^[58] Similarly, in synthetic biology, Pfu supports error-free assembly of multi-fragment constructs, such as in Gibson assembly or Golden Gate cloning, where sequence integrity is paramount for functional gene synthesis.^[59] Recent advancements include engineered variants of Pfu DNA polymerase rationally modified to exhibit reverse transcriptase activity, enabling one-step RT-PCR for rapid, high-fidelity amplification of RNA targets directly from cDNA synthesis to PCR in a single tube, as demonstrated in 2025 studies optimizing for thermostable, low-error RNA detection.^[60] Additionally, Pfu DNA ligase from P. furiosus, active at 70–80°C, complements these techniques in RT-PCR workflows by sealing nicks in cDNA or amplicons for downstream cloning or circularization, enhancing overall protocol efficiency in molecular diagnostics.^[61] These components collectively position P. furiosus-derived tools as essential for precise, lab-scale nucleic acid manipulation.

Industrial Biotechnology

Pyrococcus furiosus has been engineered for the production of biofuels, leveraging its hyperthermophilic nature to enable high-temperature fermentation processes that reduce contamination risks and improve energy efficiency. Its hydrogenases, particularly the soluble NADP-dependent hydrogenase I (SHI), have been overexpressed and purified for in vitro hydrogen production, achieving up to 12 mol H₂ per mol glucose—three times the yield of typical biological fermentation—through synthetic enzymatic pathways.^[62] This enzyme exhibits remarkable thermostability, with a half-life of 14 hours at 90°C, and relative oxygen tolerance compared to other [NiFe]-hydrogenases, making it suitable for biofuel applications such as NADPH regeneration and hydrogen evolution from carbohydrates like starch.^[62] Metabolic engineering efforts have also enabled ethanol production by introducing bifunctional alcohol dehydrogenases from Thermoanaerobacter species into aldehyde ferredoxin oxidoreductase-deficient strains, yielding up to 4.2 mM ethanol (61% of theoretical maximum) from glucose at 65°C.^[63] In 2025, further engineering introduced Thermoanaerobacter genes for 1-propanol synthesis via temperature shifts (75°C to 95°C), producing up to 1 mM from maltodextrin, highlighting potential extensions to butanol via keto-acid pathways.^[17] Beyond biofuels, P. furiosus serves as a platform for industrial chemical synthesis, particularly through pathways producing 3-hydroxypropionic acid (3-HP), a precursor to 1,3-propanediol used in polymers and detergents. Engineered strains expressing genes from the 3-HP/4-hydroxybutyrate cycle of Metallosphaera sedula convert CO₂ and H₂ into 3-HP at 72°C, achieving titers of 0.6 mM (60 mg/L) in whole-cell cultures over 40 hours, with continuous production demonstrated in stirred systems.^[64] This hyperthermophilic approach facilitates carbon fixation into value-added chemicals, potentially reducing reliance on petrochemical routes for diol production. Additionally, studies on amino acid pathways, including a thermostable aminoacylase that hydrolyzes N-acyl-L-amino acids, support industrial resolution of racemic mixtures for D-amino acid production, though applications remain exploratory.^[65] Thermostable enzymes from P. furiosus, such as α-amylase, find applications in industrial processing where high temperatures are advantageous. The recombinant α-amylase, optimally active at approximately 100°C and pH 5.6 with over 80% relative activity across pH 4.5–7.0, is used in starch liquefaction for biofuel and food industries, hydrolyzing α-1,4-glycosidic bonds to produce glucose oligomers.^[66] Co-expression with chaperones like prefoldins in hosts such as Bacillus subtilis enhances soluble yields, addressing inclusion body formation and enabling scalable production for detergents and textile processing. While specific thermostable proteases from P. furiosus are less documented, its extremozymes broadly contribute to food processing by improving starch saccharification efficiency.^[66] In agricultural biotechnology, components from P. furiosus enhance plant stress tolerance. Expression of its superoxide reductase (SOR) in Arabidopsis thaliana produces a functional enzyme that mitigates oxidative damage, conferring improved tolerance to heat (up to 37°C), high light, and paraquat stress without affecting growth under normal conditions.^[67] This demonstrates the potential of P. furiosus oxidative protectors—analogous to chaperone-like roles in protein stability—for engineering heat-resilient crops, though broader chaperone applications (e.g., small heat shock proteins) are primarily validated in microbial hosts.^[68] Challenges in industrial scale-up include achieving high expression levels and adapting to aerobic conditions, addressed through recombinant systems in Escherichia coli and B. subtilis for enzymes like α-amylase and hydrogenase. Oxygen-tolerant variants of the [NiFe]-hydrogenase, characterized electrochemically, retain activity under low O₂ exposure, supporting aerobic bioprocessing. Recent 2025 advances in oxygen-induced nanocompartment structures further enable variant engineering for robust industrial strains.^[21]

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Optimizing Strategies for Bio-Based Ethanol Production Using ...
Jun 8, 2023 · A genome-scale metabolic model, encompassing a total of 623 genes, 727 reactions, and 865 metabolites, was developed for Pyrococcus furiosus, an archaeon that ...
[33]
https://pmc.ncbi.nlm.nih.gov/articles/PMC10304669/
[34]
Three CRISPR-Cas immune effector complexes coexist in ... - NIH
Pyrococcus furiosus (Pfu), a hyperthermophilic archaeon, has three CRISPR-Cas systems: two Type I systems, Csa (Type I-A) and Cst (Type I-G), and a relatively ...
[35]
Natural Competence in the Hyperthermophilic Archaeon Pyrococcus ...
The two simvastatin-resistant transformants contained plasmids integrated into the P. furiosus chromosome at three different locations, as determined by PCR ...
[36]
Genome Sequencing of a Genetically Tractable - Pyrococcus furiosus
The model archaeon Pyrococcus furiosus grows optimally near 100°C on carbohydrates and peptides. Its genome sequence (NCBI) was determined 12 years ago.Missing: depth | Show results with:depth
[37]
Hyper-stimulation of Pyrococcus furiosus CRISPR DNA uptake by a ...
Our results indicate that Pyrococcus furiosus naturally encountered the conjugative pT33.3 plasmid or a related mobile genetic element in the past and responds ...
[38]
Engineering Hydrogen Gas Production from Formate in a ... - NIH
Results: The hyperthermophile Pyrococcus furiosus was engineered to convert formate to H2. Conclusion: An 18-gene cluster can be inserted into the P. furiosus ...
[39]
pol - DNA polymerase - Pyrococcus furiosus (strain ATCC ... - UniProt
Jun 7, 2004 · Amino acids. 775 (go to sequence). Protein existence. Evidence at protein level. Annotation score. 4/5. Entry · Variant viewer · Genomic ...
[40]
High-fidelity amplification using a thermostable DNA polymerase ...
Our results indicate that PCR performed with the DNA polymerase purified from P. furiosus yields amplification products containing less than 10% of the number ...
[41]
Pfu DNA Polymerase - Promega Corporation
With a low error rate, Pfu DNA Polymerase is optimally used for high-fidelity PCR and synthesis. Our product has been used in a wide variety of applications— ...
[42]
Crystal structure of Pfu, the high fidelity DNA polymerase from ...
We have determined a 2.6 Å resolution crystal structure of Pfu DNA polymerase, the most commonly used high fidelity PCR enzyme, from Pyrococcus furiosus.
[43]
The Mechanistic Architecture of the Thermostable Pyrococcus ...
Here, we demonstrate that the thermostable Family B DNA polymerase from Pyrococcus furiosus (Pfu Pol) contains sensitive determinants of both dNTP binding and ...
[44]
PCR Fidelity of Pfu DNA Polymerase and Other Thermostable DNA ...
In a preliminary analysis of exonuclease activity, UlTma was found to exhibit significantly lower levels of 3′→5′ exonuclease activity than Pfu, Deep Vent and ...
[45]
An Unusual Oxygen-Sensitive, Iron- and Zinc-Containing Alcohol ...
Pyrococcus furiosus is a hyperthermophilic archaeon that grows optimally at 100°C by the fermentation of peptides and carbohydrates to produce acetate, CO2, ...
[46]
Alcohol dehydrogenases from thermophilic and hyperthermophilic ...
ADHs from thermophiles are of interest for industrial alcohol and enzyme production because these microbes are uniquely suited for direct biomass fermentation ...
[47]
Laboratory evolution of Pyrococcus furiosus alcohol dehydrogenase ...
Laboratory evolution of Pyrococcus furiosus alcohol dehydrogenase to improve ... half-life values of 150 h at 80°C, 22.5 h at 90°C and 25 min at 100°C ...
[48]
Intact Functional Fourteen-subunit Respiratory Membrane-bound ...
This is the first report on the properties of a solubilized form of an intact respiratory MBH complex that is proposed to evolve H 2 and pump Na + ions.
[49]
Purification and Characterization of a Membrane-Bound ...
Proposed operon encoding the MB hydrogenase complex ofP. furiosus. The horizontal arrows near Mbh 11 and Mbh 12 indicate positions of the N-terminal amino acid ...
[50]
The novel tungsten-iron-sulfur protein of the ... - PubMed
We show here that RTP is an inactive form of an aldehyde ferredoxin oxidoreductase (AOR). The active enzyme was obtained by rapid purification under anaerobic ...Missing: catabolism | Show results with:catabolism
[51]
Aldehyde ferredoxin oxidoreductase from the hyperthermophilic ...
Aldehyde ferredoxin oxidoreductase from the hyperthermophilic archaebacterium Pyrococcus furiosus contains a tungsten oxo-thiolate center. Click to copy article ...
[52]
The novel tungsten-iron-sulfur protein of the hyperthermophilic ...
Aug 5, 2025 · In this paper, we show that RTP of P. furiosus is an almost totally inactive form of an aldehyde oxidoreductase (AOR), which catalyzes the ...Missing: catabolism | Show results with:catabolism
[53]
Formaldehyde ferredoxin oxidoreductase from Pyrococcus furiosus
Feb 26, 1999 · Formaldehyde ferredoxin oxidoreductase from Pyrococcus furiosus: the 1.85 A resolution crystal structure and its mechanistic implications.Missing: catabolism | Show results with:catabolism
[54]
High-fidelity amplification using a thermostable DNA polymerase ...
Dec 1, 1991 · Our results indicate that PCR performed with the DNA polymerase purified from P. furiosus yields amplification products containing less than 10% of the number ...
[55]
https://pubmed.ncbi.nlm.nih.gov/10024458/
[56]
High-Fidelity Pfu Polymerase | Meridian Bioscience
High-Fidelity Pfu is a thermostable high fidelity DNA polymerase enzyme, isolated from Pyrococcus furiosus. The Pfu polymerase enzyme replicates DNA in the ...
[57]
Engineering polymerases for applications in synthetic biology
Jul 27, 2020 · DNA polymerases play a central role in biology by transferring genetic information from one generation to the next during cell division.Natural Polymerases · Fundamentals Of Dna... · Visualizing Dna Synthesis...<|control11|><|separator|>
[58]
Engineering a Thermostable Reverse Transcriptase for RT-PCR ...
For this purpose, we selected the high-fidelity Pyrococcus furiosus (Pfu) DNA polymerase as engineering scaffold. The selection of amino acid residues for ...
[59]
https://www.cambridge.org/core/journals/quarterly-reviews-of-biophysics/article/engineering-polymerases-for-applications-in-synthetic-biology/FDF145DA6B27A2736A45BF5B52694123
[60]
Production and Application of a Soluble Hydrogenase from ... - NIH
This organism utilizes carbohydrates as a carbon source for growth and generates acetate, carbon dioxide, and hydrogen gas as end products. P.<|separator|>
[61]
Ethanol production by the hyperthermophilic archaeon Pyrococcus ...
Feb 14, 2017 · Pyrococcus furiosus is capable of growth at temperatures as low as 70°C, almost 30°C below its optimal growth temperature (Weinberg et al., 2005) ...
[62]
Exploiting microbial hyperthermophilicity to produce an ... - PNAS
The hyperthermophilic archaeon Pyrococcus furiosus is an obligate heterotroph that grows optimally (Topt) at 100°C by fermenting sugars to hydrogen, carbon ...
[63]
Characterization of an Aminoacylase from the Hyperthermophilic ...
The N-terminal amino acid sequence of the purified aminoacylase was used to identify, in the P. furiosus genome database, a gene that encodes 383 amino acids.
[64]
Enhanced Production of Soluble Pyrococcus furiosus α-Amylase in ...
In industrial starch processing, α-amylases are used in the liquefaction step to hydrolyze starch into glucose oligomers. The ideal temperature and pH for this ...
[65]
Expression of Pyrococcus furiosus Superoxide Reductase in ...
Aug 14, 2009 · furiosus SOR is produced in Arabidopsis as a functional enzyme. SOR-Expressing Arabidopsis Seeds and Seedlings Have Increased Heat Stability.<|separator|>
[66]
Regulation and Mechanism of Action of the Small Heat Shock ...
The small heat shock protein (sHSP) from the hyperthermophile Pyrococcus furiosus was specifically induced at the level of transcription by heat shock at 105°C.
[67]
The [NiFe]-Hydrogenase of Pyrococcus furiosus Exhibits a New ...
We report the first direct electrochemical characterization of the impact of oxygen on the hydrogen oxidation activity of an oxygen-tolerant, group 3, ...