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The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes

The current theoretical proposals of minimal genomes have not attempted to outline the essential machinery for proper translation in cells. Here, we present a proposal of a minimal translation machinery based on (1) a comparative analysis of bacterial genomes of insects’ endosymbionts using a machin...

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Autores principales: Garzón, María José, Reyes-Prieto, Mariana, Gil, Rosario
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9035817/
https://www.ncbi.nlm.nih.gov/pubmed/35479634
http://dx.doi.org/10.3389/fmicb.2022.858983
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author Garzón, María José
Reyes-Prieto, Mariana
Gil, Rosario
author_facet Garzón, María José
Reyes-Prieto, Mariana
Gil, Rosario
author_sort Garzón, María José
collection PubMed
description The current theoretical proposals of minimal genomes have not attempted to outline the essential machinery for proper translation in cells. Here, we present a proposal of a minimal translation machinery based on (1) a comparative analysis of bacterial genomes of insects’ endosymbionts using a machine learning classification algorithm, (2) the empiric genomic information obtained from Mycoplasma mycoides JCVI-syn3.0 the first minimal bacterial genome obtained by design and synthesis, and (3) a detailed functional analysis of the candidate genes based on essentiality according to the DEG database (Escherichia coli and Bacillus subtilis) and the literature. This proposed minimal translational machinery is composed by 142 genes which must be present in any synthetic prokaryotic cell designed for biotechnological purposes, 76.8% of which are shared with JCVI-syn3.0. Eight additional genes were manually included in the proposal for a proper and efficient translation.
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spelling pubmed-90358172022-04-26 The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes Garzón, María José Reyes-Prieto, Mariana Gil, Rosario Front Microbiol Microbiology The current theoretical proposals of minimal genomes have not attempted to outline the essential machinery for proper translation in cells. Here, we present a proposal of a minimal translation machinery based on (1) a comparative analysis of bacterial genomes of insects’ endosymbionts using a machine learning classification algorithm, (2) the empiric genomic information obtained from Mycoplasma mycoides JCVI-syn3.0 the first minimal bacterial genome obtained by design and synthesis, and (3) a detailed functional analysis of the candidate genes based on essentiality according to the DEG database (Escherichia coli and Bacillus subtilis) and the literature. This proposed minimal translational machinery is composed by 142 genes which must be present in any synthetic prokaryotic cell designed for biotechnological purposes, 76.8% of which are shared with JCVI-syn3.0. Eight additional genes were manually included in the proposal for a proper and efficient translation. Frontiers Media S.A. 2022-04-11 /pmc/articles/PMC9035817/ /pubmed/35479634 http://dx.doi.org/10.3389/fmicb.2022.858983 Text en Copyright © 2022 Garzón, Reyes-Prieto and Gil. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Microbiology
Garzón, María José
Reyes-Prieto, Mariana
Gil, Rosario
The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes
title The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes
title_full The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes
title_fullStr The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes
title_full_unstemmed The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes
title_short The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes
title_sort minimal translation machinery: what we can learn from naturally and experimentally reduced genomes
topic Microbiology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9035817/
https://www.ncbi.nlm.nih.gov/pubmed/35479634
http://dx.doi.org/10.3389/fmicb.2022.858983
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