A proposal of the proteome before the last universal common ancestor (LUCA)

Farías, Sávio Torres de; Rêgo, Thaís Gaudencio do; José, Marco V.

doi:10.1017/s1473550415000464

Cited by 17 publications

(24 citation statements)

References 27 publications

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“…Assuming that the first mRNAs had been recruited from proto-tRNAs, it follows that TLSs were inside viral and cellular mRNAs [86]. Self-recognition between tRNA-like mRNAs and canonical cloverleaf tRNAs could stabilize these molecules and produce proto-proteins [87]. The first proteins potentially emerged from junctions of ancestral tRNAs, and among the modern proteins, the only polymerase which matched with tRNAs translated like a mRNA was the RNA-dependent RNA polymerase [87].…”

Section: Trnas At the Origin Of All The Nucleic Members Of The Rna/prmentioning

confidence: 99%

True Mitochondrial tRNA Punctuation and Initiation Using Overlapping Stop and Start Codons at Specific and Conserved Positions

Faure¹,

Barthélémy²

2018

Mitochondrial DNA - New Insights

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In all the taxa and genomic systems, numerous trn genes (specifying tRNA) exhibit at specific conserved positions nucleotide triplets corresponding to stop codons (TAG/TAA). Similarly, relatively high frequencies of start codons (ATG/ATA) occur in fungi/metazoan mitochondrial-trn genes. The last nucleotide of these triplets is the first involved in the 5′-Dor 5′-T-stem, respectively. Their frequencies are tRNA species dependent. The products of these genes which bear one or two types of these codons are called ss-tRNAs (for stop/start). Metazoan mt-genomes are generally very compact, and many same strand overlapping sequences may simultaneously code for tRNAs and mRNAs. However, this study suggests that overlaps are not a direct mechanism to substantially reduce genome size. For proteinencoding genes, occulting possible overlaps, there are only alternative start codons and/or truncated stop codons, but the first putative in-frame standard initiation codon or complete stop codon is in the upstream or downstream overlapping ss-trn sequences, respectively. Even if, to date, experimental data are missing, stress signals might regulate producing extended or not proteins. Finally, possible implications of tRNA/mRNA hybrid molecules in the "RNA world" to "RNA/protein world" transition will be discussed.

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Section: Trnas At the Origin Of All The Nucleic Members Of The Rna/prmentioning

confidence: 99%

True Mitochondrial tRNA Punctuation and Initiation Using Overlapping Stop and Start Codons at Specific and Conserved Positions

Faure¹,

Barthélémy²

2018

Mitochondrial DNA - New Insights

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“…E.g. the central enzyme in Glycolysis/gluconeogenesis, Triose Phosphate Isomerase may have been present in the proteome [48]. And the very fist step in polymerization of carbohydrates in the metabolism, the synthesis of D-fructose-1,6-bisphosphate from dihydroxyacetone phosphate and D-Glyceraldehyde-3-phosphate is controlled by a stereo specific enzyme, Aldolase [49].…”

Section: Discussionmentioning

confidence: 99%

A Prerequisite for Life

Toxværd

2019

Journal of Theoretical Biology

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The complex physicochemical structures and chemical reactions in living organism have some common features: (1) The life processes take place in the cytosol in the cells, which, from a physicochemical point of view is an emulsion of biomolecules in a dilute aqueous suspension. (2) All living systems are homochiral with respect to the units of amino acids and carbohydrates, but (some) proteins are chiral unstable in the cytosol. (3) And living organism are mortal. These three common features together give a prerequisite for the prebiotic self-assembly at the start of the Abiogenesis. Here we argue , that it all together indicates, that the prebiotic self-assembly of structures and reactions took place in a more saline environment, whereby the homochirality of proteins not only could be obtained, but also preserved. A more saline environment for the prebiotic self-assembly of organic molecules and establishment of biochemical reactions could have been the hydrothermal vents.

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“…The other approach was a reconstruction using sequences of the modern proteins chosen based on the ancestral proteome suggested by Farias et al (2016b) which were the following: glycerate kinase, triosephosphate isomerase, glucose 6-phosphate 1-dehydrogenase 2, glucose 6-phosphate isomerase, phosphoglycerate kinase, glycerol 3-phosphate dehydrogenase and transketolase.…”

Section: Top Down Approachmentioning

confidence: 99%

The structural proteome for the primordial glycolysis/gluconeogenesis

Ijb

José

et al. 2019

Preprint

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Comprehending the constitution of early biological metabolism is indispensable for the understanding of the origin and evolution of life on Earth. Here, we analyzed the structural proteome before the Last Universal Common Ancestor (LUCA) based in the reconstruction of the ancestral sequences and structure for proteins involved in glycolysis/gluconeogenesis. The results are compatible with the notion that the first portions of the proteins were the areas homologous to the present-day catalytic sites. Those "proto-proteins" had a simple function: binding to cofactors. Upon the accretion of new elements to the structure, the catalytic function could have emerged. Also, the first structural motifs might have been related to the emergence of the different proteins that work in modern organisms.

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A proposal of the proteome before the last universal common ancestor (LUCA)

Cited by 17 publications

References 27 publications

True Mitochondrial tRNA Punctuation and Initiation Using Overlapping Stop and Start Codons at Specific and Conserved Positions

True Mitochondrial tRNA Punctuation and Initiation Using Overlapping Stop and Start Codons at Specific and Conserved Positions

A Prerequisite for Life

The structural proteome for the primordial glycolysis/gluconeogenesis

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