Turning the Screw: Engineering Extreme pH Resistance in <i>Escherichia coli</i> through Combinatorial Synthetic Operons

Siqueira, Guilherme Marcelino Viana de; Silva‐Rocha, Rafael; Guazzaroni, María‐Eugenia

doi:10.1021/acssynbio.0c00089

Cited by 14 publications

(16 citation statements)

References 57 publications

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“…Similarly, Guazzaroni's group at the FFCLRP-USP has been developing novel experimental approaches for mining building blocks by applying concepts in the interface of SynBio and metagenomics (Westmann et al, 2018;Amarelle et al, 2019;Nora et al, 2022). Also, SynBio approaches were used to engineer enhanced acidic resistance in Escherichia coli by characterizing a collection of unique synthetic circuits (de Siqueira et al, 2020). The latter study was emphasized in the "Research Highlights-Synthetic Biology" section of Nature Chemical Biology (Deane, 2020).…”

Section: Synbio In Academic/research Institutionsmentioning

confidence: 99%

“…SynBio research groups had been established in these countries, mainly at the University of Buenos Aires, Pontificia Universidad Católica de Chile, and the University of São Paulo (Amores et al, 2015;Amarelle et al, 2019;Monteiro et al, 2020), respectively. Research teams from these institutions have published numerous articles developing new tools and methods for SynBio (Barone et al, 2017;Amarelle et al, 2019;de Siqueira et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

“…As a direct consequence of such learnings, several Argentinean teams have participated in iGEM competitions. In 2013, the Buenos Aires iGEM team built an arsenic biosensor using Biobricks available in iGEM kits (Barone et al, 2017;Amarelle et al, 2019;de Siqueira et al, 2020). Subsequently, several Argentinian groups were involved in the Latin-American iGEM version or TECNOx 18,19,20 .…”

Section: Introductionmentioning

confidence: 99%

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Current landscape and future directions of synthetic biology in South America

Gomez-Hinostroza

Gurdo²,

Vargas³

et al. 2023

Front. Bioeng. Biotechnol.

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Synthetic biology (SynBio) is a rapidly advancing multidisciplinary field in which South American countries such as Chile, Argentina, and Brazil have made notable contributions and have established leadership positions in the region. In recent years, efforts have strengthened SynBio in the rest of the countries, and although progress is significant, growth has not matched that of the aforementioned countries. Initiatives such as iGEM and TECNOx have introduced students and researchers from various countries to the foundations of SynBio. Several factors have hindered progress in the field, including scarce funding from both public and private sources for synthetic biology projects, an underdeveloped biotech industry, and a lack of policies to promote bio-innovation. However, open science initiatives such as the DIY movement and OSHW have helped to alleviate some of these challenges. Similarly, the abundance of natural resources and biodiversity make South America an attractive location to invest in and develop SynBio projects.

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Section: Synbio In Academic/research Institutionsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Current landscape and future directions of synthetic biology in South America

Gomez-Hinostroza

Gurdo²,

Vargas³

et al. 2023

Front. Bioeng. Biotechnol.

Self Cite

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“…Estudos metagenômicos anteriores mostraram a presença do gene clpP em ambientes de condição ácida (L. Chen et al, 2015;Guazzaroni et al, 2013), o qual manifestou conferir resistência a acidez ao ser expressado no hospedeiro E.coli, demonstrando, portanto, uma associação na proteção contra o estresse ácido (de Siqueira et al, 2020;Guazzaroni et al, 2013). Exemplos adicionais em outros microrganismos como Bifidobacterium longum e…”

Section: Discussionunclassified

“…O valor dessa razão foi ajustado e multiplicado por 100 para determinar o valor percentual. Assim, um valor de 0 representa 0% do custo de aptidão(de Siqueira et al, 2020)…”

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Identificação e caracterização funcional de genes de origem metagenômica associados à resistência ao estresse em bactérias

Juarez¹

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Industrial biotechnology has developed rapidly as a platform for producing goods beneficial to society attributable to the use of cell factories, with the use of renewable resources with minimum impact to the environment as one of its major advantages. Industrial bioproducts are less competitive than chemically produced goods due to the shortcomings of conventional microbial or enzymatic bioprocesses; therefore, improved technologies for strain engineering and optimization will be needed. The genetic potential of bacteria living in severe settings, such as those with high salinity, low pH, and other factors, is exploited using metagenomic techniques. Building strong, efficient microbes can benefit from understanding the molecular mechanisms they employ to survive under these conditions. In order to build synthetic gene circuits that can increase bacterial resistance to various stress situations, we addressed the identification of new genes in metagenomic databases using an in silico approach. We recovered information from harsh environment metagenomes to identify genes encoding chaperones and other proteins (such as proteases, nucleic-acid-binding proteins, etc.) that provide resistance to stress conditions. The most relevant sequences were chosen using Hidden Markov Model (HMM) profiles, which were then categorized based on their protein sequence identity and literature review. Ten protein sequences including the DNA-binding protein HU, the ATP-dependent protease ClpP, and the chaperone protein DnaJ were selected and functionally characterized in Escherichia coli under six stress conditions: high temperature, acidity, oxidative stress, osmotic stress, UV radiation and p-coumaric acid.Further characterization allowed us to identify five proteins that responded under at least two stress conditions compared with control cultures. These findings demonstrated that metagenomic techniques and bioinformatic tools can prospect novel genes that could potentially increase bacteria's resilience to stressful situations.

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Strategies to improve the stress resistance of Escherichia coli in industrial biotechnology

Tao

Wang

et al. 2022

Biofuels Bioprod Bioref

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The use of industrial Escherichia coli strains for the production of bio‐based chemicals offers a promising and sustainable solution to a growing scarcity of non‐renewable resources and contributes to the protection of the environment. However, many limitations, such as inhibition from toxic substrates, hyperosmosis, toxic by‐products, and other adverse fermentation conditions, prevent strains from attaining a stable cell growth rate, efficient metabolic flux, and satisfactory productivity. There has thus been much effort to obtain E. coli strains that exhibit robust growth and productivity with enhanced tolerance of extreme operating conditions. In this review, we gained insights into recent studies in improving tolerance of E. coli and summarized four kinds of engineering methods: modifying regulation factors, regulating membrane structure, optimizing biosynthetic pathways, and applying adaptive evolution. The combination of different engineering strategies therefore provided a broader platform for robustness of industrial E. coli, making further steps to achieving more advantageous biosynthesis. © 2022 Society of Chemical Industry and John Wiley & Sons, Ltd

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Turning the Screw: Engineering Extreme pH Resistance in Escherichia coli through Combinatorial Synthetic Operons

Cited by 14 publications

References 57 publications

Current landscape and future directions of synthetic biology in South America

Current landscape and future directions of synthetic biology in South America

Identificação e caracterização funcional de genes de origem metagenômica associados à resistência ao estresse em bactérias

Strategies to improve the stress resistance of Escherichia coli in industrial biotechnology

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