The DOI matches its Crossref record; 129 of the 135 references it cites were found in a registry or an index.
Origin and evolution of metabolic pathways
Abstract
The emergence and evolution of metabolic pathways represented a crucial step in molecular and cellular evolution. In fact, the exhaustion of the prebiotic supply of amino acids and other compounds that were likely present in the ancestral environment, imposed an important selective pressure, favoring those primordial heterotrophic cells which became capable of synthesizing those molecules. Thus, the emergence of metabolic pathways allowed primitive organisms to become increasingly less-dependent on exogenous sources of organic compounds. Comparative analyses of genes and genomes from organisms belonging to Archaea, Bacteria and Eukarya revealed that, during evolution, different forces and molecular mechanisms might have driven the shaping of genomes and the arisal of new metabolic abilities. Among these gene elongations, gene and operon duplications undoubtedly played a major role since they can lead to the (immediate) appearance of new genetic material that, in turn, might undergo evolutionary divergence giving rise to new genes coding for new metabolic abilities. Gene duplication has been invoked in the different schemes proposed to explain why and how the extant metabolic pathways have arisen and shaped. Both the analysis of completely sequenced genomes and directed evolution experiments strongly support one of them, i.e. the patchwork hypothesis, according to which metabolic pathways have been assembled through the recruitment of primitive enzymes that could react with a wide range of chemically related substrates. However, the analysis of the structure and organization of genes belonging to ancient metabolic pathways, such as histidine biosynthesis and nitrogen fixation, suggested that other different hypothesis, i.e. the retrograde hypothesis or the semi-enzymatic theory, may account for the arisal of some metabolic routes.
Overview
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
In the citing paper
“Being able to fine-tune the function of metabolic pathways like the TCA cycle—in particular, to toggle between catabolic and anabolic activity—set the stage for early unicellular life forms to evolve into multicellular organisms, which require coordination of metabolic activity beyond that dictated by local nutrient availability (29, 30).”
From Regulation and function of the mammalian tricarboxylic acid cycle (2023) · cites this paper as [29]
Citations
Cites
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
Altschul, S. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.17.3389 · Cited by 73,302
The Evolutionary Fate and Consequences of Duplicate Genes
Lynch, M., & Conery, J. S. (2000) · Science · doi:10.1126/science.290.5494.1151 · Cited by 4,988
Escherichia Coli and Salmonella: Typhimurium Cellular and Molecular Biology
Neidhardt, F. C., & Ingraham, J. L. (1987) · Medical Entomology and Zoology · Cited by 4,089
Escherichia coli and Salmonella typhimurium: Cellular and molecular biology
Lejeune, P. (1988) · Biochimie · doi:10.1016/0300-9084(88)90119-8 · Cited by 4,086
A Production of Amino Acids Under Possible Primitive Earth Conditions
Miller, S. L. (1953) · Science · doi:10.1126/science.117.3046.528 · Cited by 3,522
Fundamentals of molecular evolution
(1991) · Journal of Human Evolution · doi:10.1016/0047-2484(91)90069-8 · Cited by 1,669
The Probability of Duplicate Gene Preservation by Subfunctionalization
Lynch, M., & Force, A. G. (2000) · Genetics · doi:10.1093/genetics/154.1.459 · Cited by 1,559
Burris, R. H., & Roberts, G. P. (1993) · Annual Review of Nutrition · doi:10.1146/annurev.nu.13.070193.001533 · Cited by 1,464
Bryson, V., & Vogel, H. J. (1965) · Science · doi:10.1126/science.147.3653.68 · Cited by 1,343
ENZYME RECRUITMENT IN EVOLUTION OF NEW FUNCTION
Jensen, R. A. (1976) · Annual Review of Microbiology · doi:10.1146/annurev.mi.30.100176.002205 · Cited by 1,111
Cited by
Sorted by citations
Regulation and function of the mammalian tricarboxylic acid cycle
Arnold, P. K., & Finley, L. W. S. (2023) · Journal of Biological Chemistry · doi:10.1016/j.jbc.2022.102838 · Cited by 535
“Being able to finetune the function of metabolic pathways like the TCA cycle —in particular, to toggle between catabolic and anabolic activity—set the stage for early unicellular life forms to evolve into multicellular organisms, which require coordination of metabolic activity beyond that dictated by local nutrient a…”
BackgroundThe Rise of Chemodiversity in Plants
Weng, J., Philippe, R. N., & Noel, J. P. (2012) · Science · doi:10.1126/science.1217411 · Cited by 428
Origin and evolution of transporter substrate specificity within the NPF family
Jørgensen, M. E., Xu, D., Crocoll, C., Ernst, H. A., Ramírez, D., Motawia, M. S., Olsen, C. E., Mirza, O., Nour‐Eldin, H. H., & Halkier, B. A. (2017) · eLife · doi:10.7554/elife.19466 · Cited by 116
Xenogeneic Silencing and Its Impact on Bacterial Genomes
Singh, K., Milstein, J. N., & Navarre, W. W. (2016) · Annual Review of Microbiology · doi:10.1146/annurev-micro-102215-095301 · Cited by 95
Origin and evolution of operons and metabolic pathways
Fondi, M., Emiliani, G., & Fani, R. (2009) · Research in Microbiology · doi:10.1016/j.resmic.2009.05.001 · Cited by 83
Metadata
- Authors
- Fani, R., & Fondi, M.
- Affiliations
- University of Florence (IT)
- Corresponding author
- Fani, Renato
- Venue
- Physics of Life Reviews
- Publisher
- Elsevier BV
- Published
- 2009-03
- Volume
- 6
- Issue
- 1
- Pages
- 23-52
- ISSN
- 1571-0645 (ISSN-L)
- OpenAlex
- W1974232498
- Cited by
- 117
- References
- 135
- Citations by year
- 2026: 1 · 2025: 8 · 2024: 7 · 2023: 12 · 2022: 7 · 2021: 9 · 2020: 7 · 2019: 7 · 2018: 6 · 2017: 5 · 2016: 4 · 2015: 4 · 2014: 7 · 2013: 9 · 2012: 7
- FWCI
- 4.04
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Physics of Life Reviews (publishedVersion)
- PubMed (publishedVersion)
- Florence Research (University of Florence) (submittedVersion)
- Topics
- Physical Sciences › Physics and Astronomy › Astronomy and Astrophysics › Origins and Evolution of Life
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
- Keywords
- origin of metabolism, metabolic pathway evolution, gene duplication, histidine biosynthesis, nitrogen fixation, heterotrophy, genome evolution, archaea, bacteria, eukaryotes
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review
