Review
Biochemical Research Methods
Pei-Ru Chen, Peng-Fei Xia
Summary: Carbon dioxide plays a crucial role in mitigating global climate change and supporting life on Earth. Synthetic biology and metabolic engineering offer a promising approach to enhance CO2 fixation by combining the advantages of autotrophic and heterotrophic organisms. This article reviews the current progress in constructing synthetic CO2 fixation pathways, discusses the underlying design principles and challenges, and provides insights into the future of carbon recycling through engineered synthetic carbon fixation pathways.
CURRENT OPINION IN BIOTECHNOLOGY
(2024)
Article
Physics, Fluids & Plasmas
Alidivinas Prusokas, Michelle Hawkins, Conrad A. Nieduszynski, Renata Retkute
Summary: Cell plating, a common laboratory procedure in microbiology, involves spreading liquid suspension of cells on a surface for colony growth. The impact of parameters on colony growth has not been extensively studied, but investigating these parameters can help to better understand and control the outputs of microbiology techniques.
Article
Multidisciplinary Sciences
Jose Antonio Pereiro-Morejon, Jorge Fernandez-de-Cossio-Diaz, Roberto Mulet
Summary: The study of cellular metabolism is limited by the available experimental data. Maximum Entropy (ME) inference has been used to extract predictions from measurements in cellular metabolism. In chemostat cultures of E.coli, the growth rate and uptake rates of limiting nutrients are found to provide the most informative observations. This observation can be explained by the chemostat dynamics driving nutrient-limited cultures towards metabolically restricted states.
Article
Biotechnology & Applied Microbiology
Kyeong Rok Choi, Hye Eun Yu, Hoseong Lee, Sang Yup Lee
Summary: The fermentation process for high-level production of heme by the metabolically engineered Escherichia coli HAEM7 strain was optimized in this study. Various factors such as carbon sources, iron concentration, pH control, induction points, and iron content in the feeding solution were examined to improve heme production. Strategies of increasing cell density, regular iron supplementation, and supplying excess feeding solution were also developed. The optimized fermentation process resulted in a heme production of 1.03 g/L with a productivity of 21.5 mg/L/h. This research will expedite the establishment of industrial-scale production of heme.
BIOTECHNOLOGY AND BIOENGINEERING
(2022)
Article
Biotechnology & Applied Microbiology
Julia Carroll, Nicolas Van Oostende, Bess B. Ward
Summary: Accurate calculation of microbial growth rates is crucial for understanding the role of bacteria in marine carbon and nitrogen cycles. However, DNA sequencing-based methods are unable to accurately interpret bacterial growth rates despite their correlation with cell cycle.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Agriculture, Multidisciplinary
Qiang Guo, Ling-Jie Zheng, Xuan Luo, Xin-Quan Gao, Chen-Yang Liu, Li Deng, Li-Hai Fan, Hui-Dong Zheng
Summary: This study proposed a new method to efficiently produce D-allulose through fermentation in Escherichia coli using metabolic engineering techniques, achieving a high yield of D-allulose.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Review
Biochemical Research Methods
Martijn Diender, Ivette Parera Olm, Diana Z. Sousa
Summary: Synthetic microbial co-cultivation is an increasingly explored approach in biotechnology, which enhances the metabolic potential and process capabilities of microbes. The research findings suggest that co-cultivation can reduce undesired side reactions, promote microbial interactions, and open up new possibilities in areas like waste conversion.
CURRENT OPINION IN BIOTECHNOLOGY
(2021)
Article
Microbiology
Greta Gecse, Andre Vente, Mogens Kilstrup, Peter Becker, Ted Johanson
Summary: This study investigates the impact of industrial CO2 levels on an Escherichia coli-based fermentation process. The results demonstrate that elevated CO2 levels can significantly affect the performance of microbial cultures, particularly in carbon/nitrogen-limited processes.
Article
Multidisciplinary Sciences
Francois Bertaux, Sebastian Sosa-Carrillo, Viktoriia Gross, Achille Fraisse, Chetan Aditya, Mariela Furstenheim, Gregory Batt
Summary: Small-scale, low-cost bioreactors are gaining popularity in quantitative systems and synthetic biology. In this study, the authors present ReacSight, a strategy that enhances bioreactor arrays by connecting them with sensitive measurement devices using low-cost pipetting robots. They demonstrate the capabilities of ReacSight in yeast, including real-time optogenetic control of gene expression, exploration of nutrient scarcity effects on fitness and cellular stress, and dynamic control of a two-strain consortium's composition.
NATURE COMMUNICATIONS
(2022)
Article
Agricultural Engineering
Shunqing Xu, Bin Zhang, Wanhe Chen, Kai Ye, Jian Shen, Pengfu Liu, Jiequn Wu, Hong Wang, Xiaohe Chu
Summary: This article describes the development of a microbial cell factory in Escherichia coli that produces ectoine at high titers, aiming to develop efficient and environmentally friendly bio-based ectoine production technology. The research provides important achievements and potential for industrial applications.
BIORESOURCE TECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
Iram Shahzadi, Maryam A. Al-Ghamdi, Muhammad Shahid Nadeem, Muhammad Sajjad, Asif Ali, Jalaluddin Azam Khan, Imran Kazmi
Summary: The study successfully developed a predicted model using response surface methodology to optimize fermentation conditions for overproduction of recombinant endoglucanase in E. coli. The results showed that specific parameters such as media composition, temperature, pH, and agitation rate significantly influenced the enzyme yield and activity. The study also highlighted the importance of glucose and glycerol supplementation in enhancing the enzyme production.
SCIENTIFIC REPORTS
(2021)
Article
Agricultural Engineering
Ning An, Chong Xie, Shubin Zhou, Jia Wang, Xinxiao Sun, Yajun Yan, Xiaolin Shen, Qipeng Yuan
Summary: In this study, a novel growth-coupled strategy for the efficient production of (i-arbutin using engineered Escherichia coli and glycerol was developed. By coupling E4P formation with cell growth, high levels of (i-arbutin were achieved, with the highest production ever reported through microbial fermentation. This study has significant implications for large-scale production of (i-arbutin and other important aromatic compounds.
BIORESOURCE TECHNOLOGY
(2023)
Article
Biochemical Research Methods
Ian Leifer, Mishael Sanchez-Perez, Cecilia Ishida, Hernan A. Makse
Summary: The study investigated the possibility of predicting gene synchronization from network structure alone and found that gene fibers in real situations are consistent with idealized gene expression dynamics, indicating that network structure provides useful information about gene synchronization.
BMC BIOINFORMATICS
(2021)
Article
Agriculture, Multidisciplinary
Wen Li, Yingying Zhu, Li Wan, Cuie Guang, Wanmeng Mu
Summary: In this study, the de novo and salvage pathways for GDP-fucose synthesis were engineered and optimized in E. coli, leading to increased 2'-FL production. By fine-tuning the expression of related genes, along with the introduction of fucT2 gene, the final engineered strains produced 2.62 and 14.1 g/L of 2'-FL in shake-flask and fed-batch cultivations, respectively.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Article
Biotechnology & Applied Microbiology
Hai-De Wang, Jian-Zhong Xu, Wei-Guo Zhang
Summary: In this study, a high L-arginine (L-Arg) producing E. coli strain was obtained through metabolic engineering. The genes speC and speF were found to play important roles in L-Arg accumulation. Feedback inhibition of the L-Arg pathway in E. coli was successfully overcome by combining gene mutations/deletions. Additionally, the insertion of a gene cluster from Corynebacterium glutamicum enhanced the metabolic flux of the L-Arg pathway. The final strain achieved the highest reported level of L-Arg production by E. coli.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)