ArticleTrends in genetics : TIG2013
From essential to persistent genes: a functional approach to constructing synthetic life.
Article in Trends in genetics : TIG, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 papers.
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Who cites it
51 citing papers in PubMed.
- Differentially used codons among essential genes in bacteria identified by machine learning-based analysis.Molecular genetics and genomics : MGG · 2024Article
- Genome engineering on size reduction and complexity simplification: A review.Journal of advanced research · 2024Review
- Cofitness network connectivity determines a fuzzy essential zone in open bacterial pangenome.mLife · 2024Article
- Architecture, Function, Regulation, and Evolution of α-Glucans Metabolic Enzymes in Prokaryotes.Chemical reviews · 2024Review
- Recent advances in genome-scale engineering inEngineering microbiology · 2024Review
- Gene presence/absence variation iniScience · 2023Article
- Reconstruction of the last bacterial common ancestor from 183 pangenomes reveals a versatile ancient core genome.Genome biology · 2023Article
- Biological Catalysis and Information Storage Have Relied onBiomolecules · 2023Review
- Evolution of giant pandoravirus revealed by CRISPR/Cas9.Nature communications · 2023Article
- Ribosomal RNA operons define a central functional compartment in the Streptomyces chromosome.Nucleic acids research · 2022Article
- Comparative Genomics and Pan-Genome Driven Prediction of a Reduced Genome ofMicroorganisms · 2022Article
- The Minimal Translation Machinery: What We Can Learn From Naturally and Experimentally Reduced Genomes.Frontiers in microbiology · 2022Article
- Dynamics of the compartmentalized Streptomyces chromosome during metabolic differentiation.Nature communications · 2021Article
- Three overlooked key functional classes for building up minimal synthetic cells.Synthetic biology (Oxford, England) · 2021Article
- The Metabolic Building Blocks of a Minimal Cell.Biology · 2020Article
- A Computational Framework Based on Ensemble Deep Neural Networks for Essential Genes Identification.International journal of molecular sciences · 2020Article
- Ancestral state reconstruction of metabolic pathways across pangenome ensembles.Microbial genomics · 2020Article
- PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graph.PLoS computational biology · 2020Article
- Genome-driven cell engineering review:Essays in biochemistry · 2019Review
- Deciphering global gene expression and regulation strategy in Escherichia coli during carbon limitation.Microbial biotechnology · 2019Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
A central undertaking in synthetic biology (SB) is the quest for the 'minimal genome'. However, 'minimal sets' of essential genes are strongly context-dependent and, in all prokaryotic genomes sequenced to date, not a single protein-coding gene is entirely conserved. Furthermore, a lack of consensus in the field as to what attributes make a gene truly essential adds another aspect of variation. Thus, a universal minimal genome remains elusive. Here, as an alternative to defining a minimal genome, we propose that the concept of gene persistence can be used to classify genes needed for robust long-term survival. Persistent genes, although not ubiquitous, are conserved in a majority of genomes, tend to be expressed at high levels, and are frequently located on the leading DNA strand. These criteria impose constraints on genome organization, and these are important considerations for engineering cells and for creating cellular life-like forms in SB.
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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.