Articles

Genomic diversity and meiotic recombination among isolates of the biotech yeast Komagataella phaffii (Pichia pastoris)

Komagataella phaffii is a yeast widely used in the pharmaceutical and biotechnology industries, and is one of the two species that were previously called Pichia pastoris. However, almost all laboratory work on K....

Authors: Stephanie Braun-Galleani, Julie A. Dias, Aisling Y. Coughlan, Adam P. Ryan, Kevin P. Byrne and Kenneth H. Wolfe

Green pyomelanin-mediated synthesis of gold nanoparticles: modelling and design, physico-chemical and biological characteristics

Synthesis of nanoparticles (NPs) and their incorporation in materials are amongst the most studied topics in chemistry, physics and material science. Gold NPs have applications in medicine due to their antibac...

Authors: Imen Ben Tahar, Patrick Fickers, Andrzej Dziedzic, Dariusz Płoch, Bartosz Skóra and Małgorzata Kus-Liśkiewicz

Combined artificial high-silicate medium and LED illumination promote carotenoid accumulation in the marine diatom Phaeodactylum tricornutum

Diatoms, which can accumulate large amounts of carotenoids, are a major group of microalgae and the dominant primary producer in marine environments. Phaeodactylum tricornutum, a model diatom species, acquires li...

Authors: Zhiqian Yi, Yixi Su, Paulina Cherek, David R. Nelson, Jianping Lin, Ottar Rolfsson, Hua Wu, Kourosh Salehi-Ashtiani, Sigurdur Brynjolfsson and Weiqi Fu

Advances and opportunities in gene editing and gene regulation technology for Yarrowia lipolytica

Yarrowia lipolytica has emerged as a biomanufacturing platform for a variety of industrial applications. It has been demonstrated to be a robust cell factory for the production of renewable chemicals and enzymes ...

Authors: Vijaydev Ganesan, Michael Spagnuolo, Ayushi Agrawal, Spencer Smith, Difeng Gao and Mark Blenner

Fhl1p protein, a positive transcription factor in Pichia pastoris, enhances the expression of recombinant proteins

The methylotrophic yeast Pichia pastoris is well-known for the production of a broad spectrum of functional types of heterologous proteins including enzymes, antigens, engineered antibody fragments, and next gen ...

Authors: Xueyun Zheng, Yimin Zhang, Xinying Zhang, Cheng Li, Xiaoxiao Liu, Ying Lin and Shuli Liang

Phosphate regulator PhoP directly and indirectly controls transcription of the erythromycin biosynthesis genes in Saccharopolyspora erythraea

The choice of phosphate/nitrogen source and their concentrations have been shown to have great influences on antibiotic production. However, the underlying mechanisms responsible for this remain poorly underst...

Authors: Ya Xu, Di You, Li-li Yao, Xiaohe Chu and Bang-Ce Ye

Integration of a multi-step heterologous pathway in Saccharomyces cerevisiae for the production of abscisic acid

The sesquiterpenoid abscisic acid (ABA) is mostly known for regulating developmental processes and abiotic stress responses in higher plants. Recent studies show that ABA also exhibits a variety of pharmacolog...

Authors: Maximilian Otto, Paulo Gonçalves Teixeira, Maria Isabel Vizcaino, Florian David and Verena Siewers

Efficient Cas9-based genome editing of Rhodobacter sphaeroides for metabolic engineering

Rhodobacter sphaeroides is a metabolically versatile bacterium that serves as a model for analysis of photosynthesis, hydrogen production and terpene biosynthesis. The elimination of by-products formation, such a...

Authors: Ioannis Mougiakos, Enrico Orsi, Mohammad Rifqi Ghiffary, Wilbert Post, Alberto de Maria, Belén Adiego-Perez, Servé W. M. Kengen, Ruud A. Weusthuis and John van der Oost

Synthetic control devices for gene regulation in Penicillium chrysogenum

Orthogonal, synthetic control devices were developed for Penicillium chrysogenum, a model filamentous fungus and industrially relevant cell factory. In the synthetic transcription factor, the QF DNA-binding domai...

Authors: László Mózsik, Zsófia Büttel, Roel A. L. Bovenberg, Arnold J. M. Driessen and Yvonne Nygård

Substantially improving the enantioconvergence of PvEH1, a Phaseolus vulgaris epoxide hydrolase, towards m-chlorostyrene oxide by laboratory evolution

Epoxide hydrolase can regioselectively catalyze the oxirane ring-opening hydrolysis of rac-epoxides producing the corresponding chiral diols. In our laboratory, a gene named pveh1 encoding an EH from Phaseolus vu...

Authors: Xun-Cheng Zong, Chuang Li, Yao-Hui Xu, Die Hu, Bo-Chun Hu, Jia Zang and Min-Chen Wu

Growth of the facultative chemolithoautotroph Ralstonia eutropha on organic waste materials: growth characteristics, redox regulation and hydrogenase activity

The chemolithoautotrophic β-proteobacterium Ralstonia eutropha H16 (Cupriavidus necator) is one of the most studied model organisms for growth on H₂ and CO₂. R. eutropha H16 is also a biologically significant bac...

Authors: Anna Poladyan, Syuzanna Blbulyan, Mayramik Sahakyan, Oliver Lenz and Armen Trchounian

Laccases: structure, function, and potential application in water bioremediation

The global rise in urbanization and industrial activity has led to the production and incorporation of foreign contaminant molecules into ecosystems, distorting them and impacting human and animal health. Phys...

Authors: Leticia Arregui, Marcela Ayala, Ximena Gómez-Gil, Guadalupe Gutiérrez-Soto, Carlos Eduardo Hernández-Luna, Mayra Herrera de los Santos, Laura Levin, Arturo Rojo-Domínguez, Daniel Romero-Martínez, Mario C. N. Saparrat, Mauricio A. Trujillo-Roldán and Norma A. Valdez-Cruz

Engineering cytoplasmic acetyl-CoA synthesis decouples lipid production from nitrogen starvation in the oleaginous yeast Rhodosporidium azoricum

Oleaginous yeasts are able to accumulate very high levels of neutral lipids especially under condition of excess of carbon and nitrogen limitation (medium with high C/N ratio). This makes necessary the use of ...

Authors: Silvia Donzella, Daniela Cucchetti, Claudia Capusoni, Aurora Rizzi, Silvia Galafassi, Gambaro Chiara and Concetta Compagno

Restructured Lactococcus lactis strains with emergent properties constructed by a novel highly efficient screening system

After 2.83% genome reduction in Lactococcus lactis NZ9000, a good candidate host for proteins production was obtained in our previous work. However, the gene deletion process was time consuming and laborious. Her...

Authors: Fulu Liu, Yating Zhang, Wanjin Qiao, Duolong Zhu, Haijin Xu, Per Erik Joakim Saris and Mingqiang Qiao

Aliivibrio wodanis as a production host: development of genetic tools for expression of cold-active enzymes

Heterologous production of cold-adapted proteins currently represents one of the greatest bottlenecks in the ongoing bioprospecting efforts to find new enzymes from low-temperature environments, such as, the p...

Authors: Jenny Johansson Söderberg, Miriam Grgic, Erik Hjerde and Peik Haugen

Extracellular production of the engineered thermostable protease pernisine from Aeropyrum pernix K1 in Streptomyces rimosus

The thermostable serine protease pernisine originates from the hyperthermophilic Archaeaon Aeropyrum pernix and has valuable industrial applications. Due to its properties, A. pernix cannot be cultivated in stand...

Authors: Marko Šnajder, Andrés Felipe Carrillo Rincón, Vasilka Magdevska, Miha Bahun, Luka Kranjc, Maja Paš, Polona Juntes, Hrvoje Petković and Nataša Poklar Ulrih

High production of valencene in Saccharomyces cerevisiae through metabolic engineering

The biological synthesis of high value compounds in industry through metabolically engineered microorganism factories has received increasing attention in recent years. Valencene is a high value ingredient in ...

Authors: Hefeng Chen, Chaoyi Zhu, Muzi Zhu, Jinghui Xiong, Hao Ma, Min Zhuo and Shuang Li

5-Aminolevulinic acid fermentation using engineered Saccharomyces cerevisiae

5′-Aminolevulinic acid (ALA) is widely used in the pharmaceutical industry, healthcare, and food production, and is a substrate for the biosynthesis of heme, which is required for respiration and photosynthesi...

Authors: Kiyotaka Y. Hara, Masaru Saito, Hiroko Kato, Kana Morikawa, Hiroshi Kikukawa, Hironari Nomura, Takanori Fujimoto, Yoko Hirono-Hara, Shigeyuki Watanabe, Kengo Kanamaru and Akihiko Kondo

Redesigning the Aspergillus nidulans xylanase regulatory pathway to enhance cellulase production with xylose as the carbon and inducer source

Biomass contains cellulose (C6-sugars), hemicellulose (C5-sugars) and lignin. Biomass ranks amongst the most abundant hydrocarbon resources on earth. However, biomass is recalcitrant to enzymatic digestion by ...

Authors: Patrick Ballmann, Jorge Lightfoot, Michael Müller, Stephan Dröge and Rolf Prade

Investigation of the methylerythritol 4-phosphate pathway for microbial terpenoid production through metabolic control analysis

Terpenoids are of high interest as chemical building blocks and pharmaceuticals. In microbes, terpenoids can be synthesized via the methylerythritol phosphate (MEP) or mevalonate (MVA) pathways. Although the M...

Authors: Daniel Christoph Volke, Johann Rohwer, Rainer Fischer and Stefan Jennewein

Metabolic engineering and transcriptomic analysis of Saccharomyces cerevisiae producing p-coumaric acid from xylose

Aromatic amino acids and their derivatives are valuable chemicals and are precursors for different industrially compounds. p-Coumaric acid is the main building block for complex secondary metabolites in commercia...

Authors: Gheorghe M. Borja, Angelica Rodriguez, Kate Campbell, Irina Borodina, Yun Chen and Jens Nielsen

Generic estimator of biomass concentration for Escherichia coli and Saccharomyces cerevisiae fed-batch cultures based on cumulative oxygen consumption rate

The focus of this study is online estimation of biomass concentration in fed-batch cultures. It describes a bioengineering software solution, which is explored for Escherichia coli and Saccharomyces cerevisiae fe...

Authors: Renaldas Urniezius, Arnas Survyla, Dziugas Paulauskas, Vladas Algirdas Bumelis and Vytautas Galvanauskas

Redirecting photosynthetic electron flux in the cyanobacterium Synechocystis sp. PCC 6803 by the deletion of flavodiiron protein Flv3

Oxygen-evolving photoautotrophic organisms, like cyanobacteria, protect their photosynthetic machinery by a number of regulatory mechanisms, including alternative electron transfer pathways. Despite the import...

Authors: Kati Thiel, Pekka Patrikainen, Csaba Nagy, Duncan Fitzpatrick, Nicolas Pope, Eva-Mari Aro and Pauli Kallio

Isolation, identification, and potential probiotic characterization of isolated lactic acid bacteria and in vitro investigation of the cytotoxicity, antioxidant, and antidiabetic activities in fermented sausage

Probiotic bacteria can provide health benefits when delivered in functional foods. This study involved isolation of lactic acid bacteria (LAB) from traditionally dried and salted anchovy fish and characterizat...

Authors: Nadia S. AlKalbani, Mark S. Turner and Mutamed M. Ayyash

Specific growth rate governs AOX1 gene expression, affecting the production kinetics of Pichia pastoris (Komagataella phaffii) P_AOX1-driven recombinant producer strains with different target gene dosage

The P_AOX1-based expression system is the most widely used for producing recombinant proteins in the methylotrophic yeast Pichia pastoris (Komagataella phaffii). Despite relevant recent advances in regulation of t...

Authors: Javier Garrigós-Martínez, Miguel Angel Nieto-Taype, Arnau Gasset-Franch, José Luis Montesinos-Seguí, Xavier Garcia-Ortega and Francisco Valero

A metabolic reconstruction of Lactobacillus reuteri JCM 1112 and analysis of its potential as a cell factory

Lactobacillus reuteri is a heterofermentative Lactic Acid Bacterium (LAB) that is commonly used for food fermentations and probiotic purposes. Due to its robust properties, it is also increasingly considered for ...

Authors: Thordis Kristjansdottir, Elleke F. Bosma, Filipe Branco dos Santos, Emre Özdemir, Markus J. Herrgård, Lucas França, Bruno Ferreira, Alex T. Nielsen and Steinn Gudmundsson

Simultaneous and sequential based co-fermentations of Trichoderma asperellum GDFS1009 and Bacillus amyloliquefaciens 1841: a strategy to enhance the gene expression and metabolites to improve the bio-control and plant growth promoting activity

The consequence of simultaneous and sequential inoculation of T. asperellum and B. amyloliquefaciens cultures with respect to growth rate, differential expression of vital genes and metabolites were examined.

Authors: Valliappan Karuppiah, Murugappan Vallikkannu, Tingting Li and Jie Chen

High ectoine production by an engineered Halomonas hydrothermalis Y2 in a reduced salinity medium

As an attracted compatible solute, 1,4,5,6-tetrahydro-2-methyl-4-pyrimidinecarboxylic acid (ectoine) showed great potentials in various field. However, lower productivity and high saline medium seriously hinde...

Authors: Qi Zhao, Shannan Li, Peiwen Lv, Simian Sun, Cuiqing Ma, Ping Xu, Haijun Su and Chunyu Yang

Unravelling the diversity of glycoside hydrolase family 13 α-amylases from Lactobacillus plantarum WCFS1

α-Amylases specifically catalyse the hydrolysis of the internal α-1, 4-glucosidic linkages of starch. Glycoside hydrolase (GH) family 13 is the main α-amylase family in the carbohydrate-active database. Lactobaci...

Authors: Laura Plaza-Vinuesa, Oswaldo Hernandez-Hernandez, F. Javier Moreno, Blanca de las Rivas and Rosario Muñoz

Characterization of Xi-class mycothiol S-transferase from Corynebacterium glutamicum and its protective effects in oxidative stress

Oxidative stress caused by inevitable hostile conditions during fermentative process was the most serious threat to the survival of the well-known industrial microorganism Corynebacterium glutamicum. To survive,

Authors: Meiru Si, Chengchuan Che, Guanxi Li, Xiaona Li, Zhijin Gong, Jinfeng Liu, Ge Yang and Can Chen

Metrics and evaluation of scientific productivity: would it be useful to normalize the data taking in consideration the investments?

There has been in increasing interest in evaluating research production by means of “objective parameters” which should score the scientific impact of single articles and researchers’ career. In contrast, the ...

Authors: Ario de Marco

Characterization of a highly stable α-galactosidase from thermophilic Rasamsonia emersonii heterologously expressed in a modified Pichia pastoris expression system

Structurally stable α-galactosidases are of great interest for various biotechnological applications. More thermophilic α-galactosidases with high activity and structural stability have therefore to be mined a...

Authors: Jian-Lu An, Wei-Xin Zhang, Wei-Ping Wu, Guan-Jun Chen and Wei-Feng Liu

In silico-guided engineering of Pseudomonas putida towards growth under micro-oxic conditions

Pseudomonas putida is a metabolically versatile, genetically accessible, and stress-robust species with outstanding potential to be used as a workhorse for industrial applications. While industry recognises the i...

Authors: Linde F. C. Kampers, Ruben G. A. van Heck, Stefano Donati, Edoardo Saccenti, Rita J. M. Volkers, Peter J. Schaap, Maria Suarez-Diez, Pablo I. Nikel and Vitor A. P. Martins dos Santos

Biomass and lipid induction strategies in microalgae for biofuel production and other applications

The use of fossil fuels has been strongly related to critical problems currently affecting society, such as: global warming, global greenhouse effects and pollution. These problems have affected the homeostasi...

Authors: Hossein Alishah Aratboni, Nahid Rafiei, Raul Garcia-Granados, Abbas Alemzadeh and José Rubén Morones-Ramírez

Repression of mitochondrial metabolism for cytosolic pyruvate-derived chemical production in Saccharomyces cerevisiae

Saccharomyces cerevisiae is a suitable host for the industrial production of pyruvate-derived chemicals such as ethanol and 2,3-butanediol (23BD). For the improvement of the productivity of these chemicals, it is...

Authors: Keisuke Morita, Fumio Matsuda, Koji Okamoto, Jun Ishii, Akihiko Kondo and Hiroshi Shimizu

Heterologous overexpression of bacterial hemoglobin VHb improves erythritol biosynthesis by yeast Yarrowia lipolytica

Yarrowia lipolytica is an unconventional yeast with a huge industrial potential. Despite many advantages for biotechnological applications, it possesses enormous demand for oxygen, which is a bottleneck in large ...

Authors: Aleksandra M. Mirończuk, Katarzyna E. Kosiorowska, Anna Biegalska, Magdalena Rakicka-Pustułka, Mateusz Szczepańczyk and Adam Dobrowolski

Exploring novel herbicidin analogues by transcriptional regulator overexpression and MS/MS molecular networking

Herbicidin F has an undecose tricyclic furano-pyrano-pyran structure with post-decorations. It was detected from Streptomyces mobaraensis US-43 fermentation broth as a trace component by HPLC–MS analysis. As herb...

Authors: Yuanyuan Shi, Renjie Gu, Yihong Li, Xinwei Wang, Weicong Ren, Xingxing Li, Lifei Wang, Yunying Xie and Bin Hong

Exploiting xylan as sugar donor for the synthesis of an antiproliferative xyloside using an enzyme cascade

Currently, industrial societies are seeking for green alternatives to conventional chemical synthesis. This demand has merged with the efforts to convert lignocellulosic biomass into value-added products. In t...

Authors: Manuel Nieto-Domínguez, José Alberto Martínez-Fernández, Beatriz Fernández de Toro, Juan A. Méndez-Líter, Francisco Javier Cañada, Alicia Prieto, Laura I. de Eugenio and María Jesús Martínez

Designer bioemulsifiers based on combinations of different polysaccharides with the novel emulsifying esterase AXE from Bacillus subtilis CICC 20034

Bioemulsifiers are surface-active compounds, which exhibit advantages including low toxicity, higher biodegradability and biocompatibility over synthetic chemical surfactants. Despite their potential benefits,...

Authors: Weiyi Tao, Junzhang Lin, Weidong Wang, He Huang and Shuang Li

Optimization of Saccharomyces cerevisiae α-galactosidase production and application in the degradation of raffinose family oligosaccharides

α-Galactosidases are enzymes that act on galactosides present in many vegetables, mainly legumes and cereals, have growing importance with respect to our diet. For this reason, the use of their catalytic activ...

Authors: María-Efigenia Álvarez-Cao, María-Esperanza Cerdán, María-Isabel González-Siso and Manuel Becerra

Using a marine microalga as a chassis for polyethylene terephthalate (PET) degradation

The biological degradation of plastics is a promising method to counter the increasing pollution of our planet with artificial polymers and to develop eco-friendly recycling strategies. Polyethylene terephthal...

Authors: Daniel Moog, Johanna Schmitt, Jana Senger, Jan Zarzycki, Karl-Heinz Rexer, Uwe Linne, Tobias Erb and Uwe G. Maier

Metabolic perturbations in mutants of glucose transporters and their applications in metabolite production in Escherichia coli

Most microorganisms have evolved to maximize growth rate, with rapid consumption of carbon sources from the surroundings. However, fast growing phenotypes usually feature secretion of organic compounds. For ex...

Authors: Hwi-Min Jung, Dae-Kyun Im, Jae Hyung Lim, Gyoo Yeol Jung and Min-Kyu Oh

Construction of a novel MK-4 biosynthetic pathway in Pichia pastoris through heterologous expression of HsUBIAD1

With a variety of physiological and pharmacological functions, menaquinone is an essential prenylated product that can be endogenously converted from phylloquinone (VK₁) or menadione (VK₃) via the expression of H...

Authors: Xiaowen Sun, Hui Liu, Peng Wang, Li wang, Wenfeng Ni, Qiang Yang, Han Wang, Hengfang Tang, Genhai Zhao and Zhiming Zheng

Mevalonate production from ethanol by direct conversion through acetyl-CoA using recombinant Pseudomonas putida, a novel biocatalyst for terpenoid production

Bioethanol is one of the most representative eco-friendly fuels developed to replace the non-renewable fossil fuels and is the most successful commercially available bio-conversion technology till date. With t...

Authors: Jeongmo Yang, Ji Hee Son, Hyeonsoo Kim, Sukhyeong Cho, Jeong-geol Na, Young Joo Yeon and Jinwon Lee

Efficient expression vectors and host strain for the production of recombinant proteins by Yarrowia lipolytica in process conditions

The oleaginous yeast Yarrowia lipolytica is increasingly used as an alternative cell factory for the production of recombinant proteins. Recently, regulated promoters from genes EYK1 and EYD1, encoding an erythru...

Authors: Young-Kyoung Park, Marie Vandermies, Paul Soudier, Samuel Telek, Stéphane Thomas, Jean-Marc Nicaud and Patrick Fickers

In vivo immobilization of an organophosphorus hydrolyzing enzyme on bacterial polyhydroxyalkanoate nano-granules

Polyhydroxyalkanoate (PHA) are nano-granules naturally produced by bacteria. Two types of proteins, PHA synthase (PhaC) and phasins (PhaPs), are attached to the PHA surface by covalent and hydrophobic interact...

Authors: Ru Li, Jian Yang, Yunzhu Xiao and Lijuan Long

Optimal proteome allocation strategies for phototrophic growth in a light-limited chemostat

Authors: Marjan Faizi and Ralf Steuer

Biosynthesis of rhamnolipid by a Marinobacter species expands the paradigm of biosurfactant synthesis to a new genus of the marine microflora

In comparison to synthetically derived surfactants, biosurfactants produced from microbial culture are generally regarded by industry as being more sustainable and possess lower toxicity. One major class of bi...

Authors: Lakshmi Tripathi, Matthew S. Twigg, Aikaterini Zompra, Karina Salek, Victor U. Irorere, Tony Gutierrez, Georgios A. Spyroulias, Roger Marchant and Ibrahim M. Banat

Engineering Escherichia coli FAB system using synthetic plant genes for the production of long chain fatty acids

Sustainable production of microbial fatty acids derivatives has the potential to replace petroleum based equivalents in the chemical, cosmetic and pharmaceutical industry. Most fatty acid sources for productio...

Authors: Elias Kassab, Monika Fuchs, Martina Haack, Norbert Mehlmer and Thomas B. Brueck

Establishment and application of a CRISPR–Cas12a assisted genome-editing system in Zymomonas mobilis

Efficient and convenient genome-editing toolkits can expedite genomic research and strain improvement for desirable phenotypes. Zymomonas mobilis is a highly efficient ethanol-producing bacterium with a small gen...

Authors: Wei Shen, Jun Zhang, Binan Geng, Mengyue Qiu, Mimi Hu, Qing Yang, Weiwei Bao, Yubei Xiao, Yanli Zheng, Wenfang Peng, Guimin Zhang, Lixin Ma and Shihui Yang