Article
Chemistry, Multidisciplinary
Hyun Gyu Lim, Thomas Eng, Deepanwita Banerjee, Geovanni Alarcon, Andrew K. Lau, Mee-Rye Park, Blake A. Simmons, Bernhard O. Palsson, Steven W. Singer, Aindrila Mukhopadhyay, Adam M. Feist
Summary: The study utilized Adaptive Laboratory Evolution (ALE) to optimize engineered Pseudomonas putida KT2440 strains with heterologous gene expression for improved utilization of xylose and galactose. Through whole-genome sequencing, transcriptomic analysis, and growth screens, key genes were identified to play significant roles in xylose and galactose growth conditions. The evolved strains successfully produced indigoidine from xylose and galactose, showing potential for broad applications in biomass-utilizing bioprocesses.
ACS SUSTAINABLE CHEMISTRY & ENGINEERING
(2021)
Article
Agricultural Engineering
Shunli Zhang, Cuiluan Ma, Qi Li, Qing Li, Yu-Cai He
Summary: This study confirmed the feasibility of converting D-fructose to BHMF through one-pot chemoenzymatic conversion, achieving high yields. Pseudomonas Putida S12 was shown to efficiently catalyze the transformation of D-fructose-valorized 5-HMF into BHMF in a benign reaction system.
BIORESOURCE TECHNOLOGY
(2022)
Article
Environmental Sciences
Kaiyue Huo, Siqi Wang, Wanwan Zhao, Hongfu Guo, Weini Xiong, Ruihua Liu, Chao Yang
Summary: In this study, the first engineered DCA-mineralizing strain KTU-P8DCA was constructed by enhancing pathway expression with a strong promoter P8 in the biosafety strain Pseudomonas putida KT2440. Strain KTU-P8DCA exhibited superior tolerance to high concentrations of DCA and showed excellent genetic stability in continuous passage culture. This research has significant implications for the bioremediation of sites heavily contaminated with DCA.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Agriculture, Multidisciplinary
Leonie Benninghaus, Tatjana Walter, Melanie Mindt, Joe Max Risse, Volker F. Wendisch
Summary: This study demonstrates the production of L-theanine using metabolic engineering techniques with Pseudomonas putida KT2440 from various carbon sources, showcasing the efficiency of the process utilizing heterologous enzymes. Fed-batch bioreactor cultures yielded significant titers of L-theanine, proving the feasibility of the approach for commercial production.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2021)
Article
Engineering, Environmental
Kaiyue Huo, Yujie Liu, Rui Huang, Yiting Zhang, Honglu Liu, You Che, Chao Yang
Summary: A novel promoter engineering-based strategy was developed to create efficient PNP-mineralizing bacteria by introducing a complete PNP biodegradation pathway from Pseudomonas sp. strain WBC-3 into the genome of a biosafety and soil-dwelling bacterium Pseudomonas putida KT2440. Five strong promoters were identified from P. putida KT2440 and independently inserted into the genome to create a mutant strain with the highest PNP degradation rate and strong tolerance against high concentrations of PNP, demonstrating complete and efficient PNP mineralization. This strategy opens new avenues for creating efficient degraders for bioremediation.
JOURNAL OF HAZARDOUS MATERIALS
(2022)
Article
Biotechnology & Applied Microbiology
Thomas Eng, Deepanwita Banerjee, Andrew K. Lau, Emily Bowden, Robin A. Herbert, Jessica Trinh, Jan-Philip Prahl, Adam Deutschbauer, Deepti Tanjore, Aindrila Mukhopadhyay
Summary: Pseudomonas putida KT2440, manipulated through disrupting a majority of non-essential genes, showed improved fitness in stirred-tank bioreactor, resulting in enhanced production of indigoidine from para-coumarate, indicating its potential as a promising biomanufacturing host for the conversion of renewable carbon streams.
METABOLIC ENGINEERING
(2021)
Article
Food Science & Technology
Yuvaraj Ravikumar, Lakshmi Narayanan Ponpandian, Guoyan Zhang, Junhua Yun, Xianghui Qi
Summary: D-tagatose is a rare sugar with low caloric value and high sweetness, which has gained interest for its beneficial effects on human health. Research on biological methods using L-arabinose isomerase to convert D-galactose to D-tagatose is increasing in order to find cheaper and eco-friendly ways to produce this valuable sugar at an industrial scale. Further studies are needed to explore enzyme engineering methods and improve the efficiency of D-tagatose production for human welfare.
TRENDS IN FOOD SCIENCE & TECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Lihong Li, Rongzhen Zhang, Yan Xu, Wenchi Zhang
Summary: l-Threonine aldolases (TAs) mutants with improved conversion and C-beta stereoselectivity were obtained through directed evolution and high-throughput screening. The A9V/Y13K/Y312R mutant showed a 72% conversion and 86% diastereoselectivity, which were 2.3-fold and 5.1-fold improvements compared to the wild-type, respectively. Molecular dynamics simulations revealed that the mutant formed additional hydrogen bonds, water bridge force, hydrophobic interactions, and pi-cation interactions to reshape the substrate-binding pocket, leading to higher conversion and C-beta stereoselectivity. This study provides a useful strategy for engineering TAs and contributes to their industrial application.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Paul A. Adamczyk, Samuel T. Coradetti, John M. Gladden
Summary: R. toruloides is a highly tolerant oleaginous yeast with diverse metabolic capacities. This study presents a refined and extended model of R. toruloides pentose metabolism based on genetic and metabolite data. The identified enzymes responsible for pathway flux provide a better understanding of the complexity of microbial pentose metabolism.
MICROBIAL CELL FACTORIES
(2023)
Article
Biotechnology & Applied Microbiology
Ana Karen Malan, Thalita Tuleski, Ana Ines Catalan, Emanuel Maltempi de Souza, Silvia Batista
Summary: Herbaspirillum seropedicae is a beta-proteobacterium capable of utilizing d-xylose as a carbon source. Through RNA-seq analysis and targeted mutant studies, it was found that H. seropedicae Z69 utilizes non-phosphorylative pathways to catabolize d-xylose, involving co-expression of two routes: the Weimberg pathway and a novel pathway that synthesizes pyruvate and glycolate. This novel pathway appears to play a significant role in d-xylose metabolism.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Agricultural Engineering
Jin Li, Bang-Ce Ye
Summary: In this study, a method for biosynthesis of protocatechuic acid (PCA) in Pseudomonas putida KT2440 was developed with high yield. By using constitutive promoters and metabolic engineering strategies, the engineered strain achieved the highest reported titer of PCA from glucose. Further bioprocess engineering efforts led to significant improvements in PCA production, demonstrating the potential for metabolically engineered microbial cell factories.
BIORESOURCE TECHNOLOGY
(2021)
Article
Multidisciplinary Sciences
Alexandra Stoll, Ricardo Salvatierra-Martinez, Maximo Gonzalez, Jonathan Cisternas, Angela Rodriguez, Antonio Vega-Galvez, Jaime Bravo
Summary: Incorporating beneficial microorganisms into agriculture crop management has become common practice in recent decades. Through experiments on different application strategies, it has been shown that early application of microbial inoculants during crop phenological stages like nurseries can significantly improve plant survival rate and productivity. Timing of PGPR inoculants application plays a crucial role in sustainable agriculture and product development.
SCIENTIFIC REPORTS
(2021)
Article
Biotechnology & Applied Microbiology
Dalimil Bujdos, Barbora Popelarova, Daniel C. Volke, Pablo I. Nikel, Nikolaus Sonnenschein, Pavel Dvorak
Summary: This study investigates the basis for the co-utilization of sugars in Pseudomonas putida KT2440 bacteria and proposes a novel genetic engineering strategy to enhance the growth and production of valuable compounds from glucose and cellobiose.
METABOLIC ENGINEERING
(2023)
Article
Food Science & Technology
Korrie Pol, Monica Mars
Summary: This study investigated the effects of L-arabinose and D-xylose added to a fruit-based drink and muffin on glucose homeostasis, finding that they can potentially lower post-ingestive glycaemic and insulinaemic responses. However, the effectiveness of L-arabinose may depend on the food matrix, and further testing in other foods and populations, such as pre-diabetics, is necessary.
FOOD & NUTRITION RESEARCH
(2021)
Article
Biotechnology & Applied Microbiology
Yinzhuang Zhu, Mingmei Ai, Xiaoqiang Jia
Summary: Through the design and construction of an artificial microbial consortium, this study successfully enhanced the production of mcl-PHA. A xylose-utilizing E. coli and a mcl-PHA-producing P. putida worked synergistically to achieve efficient accumulation of mcl-PHA.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
J. Kuepper, H. J. Ruijssenaars, L. M. Blank, J. H. de Winde, N. Wierckx
JOURNAL OF BIOTECHNOLOGY
(2015)
Article
Biotechnology & Applied Microbiology
Rohola Hosseini, Jannis Kuepper, Sebastian Koebbing, Lars M. Blank, Nick Wierckx, Johannes H. de Winde
MICROBIAL BIOTECHNOLOGY
(2017)
Review
Biotechnology & Applied Microbiology
Hadiastri Kusumawardhani, Rohola Hosseini, Johannes H. de Winde
TRENDS IN BIOTECHNOLOGY
(2018)
Editorial Material
Biochemical Research Methods
Yin Li, Johannes H. de Winde
BIOTECHNOLOGY JOURNAL
(2013)
Editorial Material
Biochemical Research Methods
Eric Toone, Han de Winde
CURRENT OPINION IN BIOTECHNOLOGY
(2013)
Letter
Biochemistry & Molecular Biology
Steven M. Flipse, Johannes H. De Winde, Patricia Osseweijer, Maarten C. A. van der Sanden
Editorial Material
Biochemistry & Molecular Biology
Steven M. Flipse, Maarten C. A. van der Sanden, Maud Radstake, Johannes H. De Winde, Patricia Osseweijer
Article
Biochemistry & Molecular Biology
Jean-Paul Meijnen, Johannes H. de Winde, Harald J. Ruijssenaars
JOURNAL OF BIOLOGICAL CHEMISTRY
(2012)
Article
Biochemical Research Methods
Luaine Bandounas, Martijn Pinkse, Johannes H. de Winde, Harald J. Ruijssenaars
Article
Biochemical Research Methods
Suzanne Verhoef, Nisi Gao, Harald J. Ruijssenaars, Johannes H. de Winde
Article
Multidisciplinary Sciences
Rita J. M. Volkers, L. Basten Snoek, Harald J. Ruijssenaars, Johannes H. de Winde
Article
Biotechnology & Applied Microbiology
Hadiastri Kusumawardhani, David van Dijk, Rohola Hosseini, Johannes H. de Winde
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2020)
Article
Biotechnology & Applied Microbiology
Hadiastri Kusumawardhani, Benjamin Furtwangler, Matthijs Blommestijn, Adele Kaltenyte, Jaap van der Poel, Jan Kolk, Rohola Hosseini, Johannes H. de Winde
Summary: This study successfully restored solvent tolerance in plasmid-cured P. putida S12 using adaptive laboratory evolution, revealing the strain's innate solvent tolerance and identifying genetic mutations that contribute to enhanced tolerance. Through constitutive expression of a solvent extrusion pump and high metabolic flexibility, the restored solvent tolerance trait in the strain lacking its megaplasmid was achieved.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Marjolein E. Crooijmans, Tijn O. Delzenne, Tim Hensen, Mina Darehei, Johannes H. de Winde, G. Paul H. van Heusden
Summary: The expression of low or high affinity phosphate transporters in yeast cells is dependent on phosphate availability, with specific genes such as RRP6 and BMH1 playing a role in regulating the expression of the regulator Spl2. Deletion of certain genes can result in changes in expression levels of specific regulators, leading to variations in gene expression among cells.
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS
(2021)
Review
Microbiology
Jo-Anne Verschoor, Hadiastri Kusumawardhani, Arthur F. J. Ram, Johannes H. de Winde
Summary: Current plastic waste management methods have limitations and novel routes for degradation and upcycling need to be developed. Enzymatic degradation and conversion of plastics offer a promising approach for sustainable recycling, but the discovery and optimization of new enzymes face challenges.
FRONTIERS IN MICROBIOLOGY
(2022)