Designed bacteria based on natural pbr operons for detecting and detoxifying environmental lead: A mini-review DOI Creative Commons
Chang-ye Hui,

Bing-chan Ma,

Yongqiang Wang

et al.

Ecotoxicology and Environmental Safety, Journal Year: 2023, Volume and Issue: 267, P. 115662 - 115662

Published: Nov. 1, 2023

Lead (Pb), a naturally occurring element, is redistributed in the environment mainly due to anthropogenic activities. Pb pollution crucial public health problem worldwide its adverse effects. Environmental bacteria have evolved various protective mechanisms against high levels of Pb. The pbr operon, first identified Cupriavidus metallidurans CH34, encodes unique Pb(II) resistance mechanism involving transport, efflux, sequestration, biomineralization, and precipitation. Similar operons are gradually found diverse bacterial strains. This review focuses on pbr-encoded system. It summarizes whole-cell biosensors harboring artificially designed for biomonitoring with fluorescent, luminescent, colorimetric signal output. Optimization genetic circuits, employment pigment-based reporters, screening host cells promising improving sensitivity, selectivity, response range biosensors. Engineered displaying binding sequestration proteins, including PbrR derivatives, PbrR2 PbrD, adsorption involved. Although synthetic show great potential determining removing at nanomolar level environmental protection food safety, some challenges must be addressed meet demanding application requirements.

Language: Английский

Descriptive review on conversion of waste residues into valuable bionanocomposites for a circular bioeconomy DOI
Nagarjuna Prakash Dalbanjan,

Manjunath P. Eelager,

Karuna Korgaonkar

et al.

Nano-Structures & Nano-Objects, Journal Year: 2024, Volume and Issue: 39, P. 101265 - 101265

Published: Aug. 2, 2024

Language: Английский

Citations

33
Relieving metabolic burden to improve robustness and bioproduction by industrial microorganisms DOI Creative Commons
Jiwei Mao, Hongyu Zhang, Yu Chen

et al.

Biotechnology Advances, Journal Year: 2024, Volume and Issue: 74, P. 108401 - 108401

Published: June 27, 2024

Metabolic burden is defined by the influence of genetic manipulation and environmental perturbations on distribution cellular resources. The rewiring microbial metabolism for bio-based chemical production often leads to a metabolic burden, followed adverse physiological effects, such as impaired cell growth low product yields. Alleviating imposed undesirable changes has become an increasingly attractive approach constructing robust factories. In this review, we provide brief overview engineering, focusing specifically recent developments strategies diminishing while improving robustness yield. A variety examples are presented showcase promise engineering in facilitating design construction Finally, challenges limitations encountered discussed.

Language: Английский

Citations

23
Harnessing genetic engineering to drive economic bioproduct production in algae DOI Creative Commons
Abhishek Gupta, Kalisa Kang, Ruchi Pathania

et al.

Frontiers in Bioengineering and Biotechnology, Journal Year: 2024, Volume and Issue: 12

Published: Jan. 29, 2024

Our reliance on agriculture for sustenance, healthcare, and resources has been essential since the dawn of civilization. However, traditional agricultural practices are no longer adequate to meet demands a burgeoning population amidst climate-driven challenges. Microalgae emerge as beacon hope, offering sustainable renewable source food, animal feed, energy. Their rapid growth rates, adaptability non-arable land non-potable water, diverse bioproduct range, encompassing biofuels nutraceuticals, position them cornerstone future resource management. Furthermore, microalgae’s ability capture carbon aligns with environmental conservation goals. While microalgae offers significant benefits, obstacles in cost-effective biomass production persist, which curtails broader application. This review examines compared other host platforms, highlighting current innovative approaches aimed at overcoming existing barriers. These include range techniques, from gene editing, synthetic promoters, mutagenesis selective breeding metabolic engineering through transcription factors.

Language: Английский

Citations

20
Synthetic microbiology in sustainability applications DOI
Ethan Jones, John P. Marken, Pamela A. Silver

et al.

Nature Reviews Microbiology, Journal Year: 2024, Volume and Issue: 22(6), P. 345 - 359

Published: Jan. 22, 2024

Language: Английский

Citations

19
CIFR (Clone–Integrate–Flip-out–Repeat): a toolset for iterative genome and pathway engineering of Gram-negative bacteria DOI Creative Commons

Filippo Federici,

Francesco Luppino,

Clara Aguilar-Vilar

et al.

Metabolic Engineering, Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 1, 2025

Advanced genome engineering enables precise and customizable modifications of bacterial species, toolsets that exhibit broad-host compatibility are particularly valued owing to their portability. Tn5 transposon vectors have been widely used establish random integrations desired DNA sequences into genomes. However, the iteration procedure remains challenging because limited availability reusability selection markers. We addressed this challenge with CIFR, a mini-Tn5 integration system tailored for iterative engineering. The pCIFR incorporate attP attB sites flanking an antibiotic resistance marker select insertion. Subsequent removal determinants is facilitated by Bxb1 integrase paired user-friendly counter-selection marker, both encoded in auxiliary plasmids. CIFR delivers engineered strains harboring stable insertions free any cassette, allowing tool. was validated Pseudomonas putida, Escherichia coli, Cupriavidus necator, underscoring its portability across diverse industrially relevant hosts. toolbox calibrated through combinatorial chromoprotein genes P. generating displaying color palette. also introduced carotenoid biosynthesis pathway putida two-step process, showcasing potential tool balancing. broad utility expands toolkit metabolic engineering, construction complex phenotypes while opening new possibilities genetic manipulations.

Language: Английский

Citations

3
Metabolic engineering for sustainability and health DOI
Gi Bae Kim, So Young Choi, In Jin Cho

et al.

Trends in biotechnology, Journal Year: 2023, Volume and Issue: 41(3), P. 425 - 451

Published: Jan. 10, 2023

Language: Английский

Citations

39
Metabolic reprogramming and biosensor-assisted mutagenesis screening for high-level production of L-arginine in Escherichia coli DOI
Shuai Jiang, Ruirui Wang,

Wang De-hu

et al.

Metabolic Engineering, Journal Year: 2023, Volume and Issue: 76, P. 146 - 157

Published: Feb. 8, 2023

Language: Английский

Citations

30
Fungal strain improvement for efficient cellulase production and lignocellulosic biorefinery: Current status and future prospects DOI
Jie Yang,

Hou-Ru Yue,

Li-Ya Pan

et al.

Bioresource Technology, Journal Year: 2023, Volume and Issue: 385, P. 129449 - 129449

Published: July 4, 2023

Language: Английский

Citations

30
A structured evaluation of genome-scale constraint-based modeling tools for microbial consortia DOI Creative Commons
William T. Scott, Sara Benito-Vaquerizo, Johannes Zimmermann

et al.

PLoS Computational Biology, Journal Year: 2023, Volume and Issue: 19(8), P. e1011363 - e1011363

Published: Aug. 14, 2023

Harnessing the power of microbial consortia is integral to a diverse range sectors, from healthcare biotechnology environmental remediation. To fully realize this potential, it critical understand mechanisms behind interactions that structure and determine their functions. Constraint-based reconstruction analysis (COBRA) approaches, employing genome-scale metabolic models (GEMs), have emerged as state-of-the-art tool simulate behavior communities constituent genomes. In last decade, many tools been developed use COBRA approaches multi-species consortia, under either steady-state, dynamic, or spatiotemporally varying scenarios. Yet, these not systematically evaluated regarding software quality, most suitable application, predictive power. Hence, uncertain which users should apply system what are urgent directions developers take in future improve existing capacities. This study conducted systematic evaluation COBRA-based for using datasets two-member test cases. First, we performed qualitative assessment 24 published based on list FAIR (Findability, Accessibility, Interoperability, Reusability) features essential quality. Next, quantitatively tested predictions subset 14 against experimental data three different case studies: a) syngas fermentation by C. autoethanogenum kluyveri static tools, b) glucose/xylose with engineered E. coli S. cerevisiae dynamic c) Petri dish enterica incorporating spatiotemporal variation. Our results show performance levels best qualitatively assessed when examining categories tools. The differences mathematical formulation relation were also discussed. Ultimately, provide recommendations refining GEM modeling

Language: Английский

Citations

28
Microbial Cell Factories: Biodiversity, Pathway Construction, Robustness, and Industrial Applicability DOI Creative Commons
Rida Chaudhary, Ali Nawaz, Mireille Fouillaud

et al.

Microbiology Research, Journal Year: 2024, Volume and Issue: 15(1), P. 247 - 272

Published: Feb. 12, 2024

The microbial biosynthesis of proteins, primary metabolites, and chemicals is gaining extraordinary momentum presently viewed as an advancing approach in the industrial research sector. Increased threats to environment possibility declining petroleum assets have switched spotlight cell factories (MCFs). Aside from possessing various advantages over chemical synthesis, such less toxicity, cheaper methodologies, environmentally benign nature, microbes can be cultivated fermenters, resulting effective bioprocessing terms relevance. As overwhelming majority biodiversity microbial, this review first highlights industrially vital microorganisms. Then, paper delineates production pathways for generating valuable bioproducts via workhorses. Many host cells synthesize bio-compounds a part their natural mechanism; however, several techniques also been developed attain desired end product non-native with selected properties. biosynthetic categorized native-existing pathways, heterologous artificial de novo pathways. Systems metabolic engineering, which integrates engineering evolutionary synthetic biology, systems has further revolutionized field robust phenotypes. employment these strategies improves performance strain, eventually achieving high titer productivity rates bio-chemicals. Modern trends tools exploiting native designing non-native-created are briefly discussed paper. Finally, discusses use workhorses producing myriad materials chemicals, including carboxylic acids, amino plant products (PNPs), carotenoids, flavors, fragrances, unveiling efficacy utilizing species generate sustainable bio-based products.

Language: Английский

Citations

12