ArticleThe Journal of biological chemistry2009
D-xylose degradation pathway in the halophilic archaeon Haloferax volcanii.
Article in The Journal of biological chemistry, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
42 citing papers in PubMed, 108 citations in OpenAlex.
- Exploring archaeal resources for biomass-derived pentose utilization: pathways, extremozymes, and bioprocessing applications.World journal of microbiology & biotechnology · 2026Review
- Article
- Review
- An unusual glycerol-3-phosphate dehydrogenase in Sulfolobus acidocaldarius elucidates the diversity of glycerol metabolism across Archaea.Communications biology · 2025Article
- Optimization of trans-4-hydroxyproline synthesis pathway by rearrangement center carbon metabolism in Escherichia coli.Microbial cell factories · 2023Article
- Engineering ofEngineering microbiology · 2023Review
- Discovery of a novel transcriptional regulator of sugar catabolism in archaea.Molecular microbiology · 2023Article
- A sweet new set of inducible and constitutive promoters inFrontiers in microbiology · 2023Article
- Structure and function of aldopentose catabolism enzymes involved in oxidative non-phosphorylative pathways.Biotechnology for biofuels and bioproducts · 2022Review
- Xylo-Oligosaccharide Utilization by EngineeredFrontiers in bioengineering and biotechnology · 2022Review
- Understanding D-xylonic acid accumulation: a cornerstone for better metabolic engineering approaches.Applied microbiology and biotechnology · 2021Review
- Open Issues for Protein Function Assignment inGenes · 2021Article
- Glucose Metabolism and Acetate Switch in Archaea: the Enzymes in Haloferax volcanii.Journal of bacteriology · 2021Article
- Halophilic archaea and their potential to generate renewable fuels and chemicals.Biotechnology and bioengineering · 2021Review
- Pentose degradation in archaea: Halorhabdus species degrade D-xylose, L-arabinose and D-ribose via bacterial-type pathways.Extremophiles : life under extreme conditions · 2020Article
- d-Ribose Catabolism in Archaea: Discovery of a Novel Oxidative Pathway inJournal of bacteriology · 2020Article
- Engineering microbial pathways for production of bio-based chemicals from lignocellulosic sugars: current status and perspectives.Biotechnology for biofuels · 2020Review
- Biochemical routes for uptake and conversion of xylose by microorganisms.Biotechnology for biofuels · 2020Review
- Alone at last! - Heterologous expression of a single gene is sufficient for establishing the five-step Weimberg pathway inMetabolic engineering communications · 2019Article
- Unusual Phosphoenolpyruvate (PEP) Synthetase-Like Protein Crucial to Enhancement of Polyhydroxyalkanoate Accumulation in Haloferax mediterranei Revealed by Dissection of PEP-Pyruvate Interconversion Mechanism.Applied and environmental microbiology · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The pathway of D-xylose degradation in archaea is unknown. In a previous study we identified in Haloarcula marismortui the first enzyme of xylose degradation, an inducible xylose dehydrogenase (Johnsen, U., and Schönheit, P. (2004) J. Bacteriol. 186, 6198-6207). Here we report a comprehensive study of the complete D-xylose degradation pathway in the halophilic archaeon Haloferax volcanii. The analyses include the following: (i) identification of the degradation pathway in vivo following (13)C-labeling patterns of proteinogenic amino acids after growth on [(13)C]xylose; (ii) identification of xylose-induced genes by DNA microarray experiments; (iii) characterization of enzymes; and (iv) construction of in-frame deletion mutants and their functional analyses in growth experiments. Together, the data indicate that D-xylose is oxidized exclusively to the tricarboxylic acid cycle intermediate alpha-ketoglutarate, involving D-xylose dehydrogenase (HVO_B0028), a novel xylonate dehydratase (HVO_B0038A), 2-keto-3-deoxyxylonate dehydratase (HVO_B0027), and alpha-ketoglutarate semialdehyde dehydrogenase (HVO_B0039). The functional involvement of these enzymes in xylose degradation was proven by growth studies of the corresponding in-frame deletion mutants, which all lost the ability to grow on d-xylose, but growth on glucose was not significantly affected. This is the first report of an archaeal D-xylose degradation pathway that differs from the classical D-xylose pathway in most bacteria involving the formation of xylulose 5-phosphate as an intermediate. However, the pathway shows similarities to proposed oxidative pentose degradation pathways to alpha-ketoglutarate in few bacteria, e.g. Azospirillum brasilense and Caulobacter crescentus, and in the archaeon Sulfolobus solfataricus.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.