Article
Food Science & Technology
Sandra Bolanos-Nunez, Jorge A. Santiago-Urbina, Jean-Pierre Guyot, Gloria Diaz-Ruiz, Carmen Wacher
Summary: This study investigated the microbial ecology of Pozol, a Mexican beverage, and found that interactions between different bacteria in mixed cultures can affect fermentation parameters. Compared to pure cultures, co-fermentation of two strains can increase lactic acid production and growth rate.
Article
Biochemistry & Molecular Biology
Neal N. Hengge, Sam J. B. Mallinson, Patthra Pason, Vladimir V. Lunin, Markus Alahuhta, Daehwan Chung, Michael E. Himmel, Janet Westpheling, Yannick J. Bomble
Summary: Microbial conversion of biomass depends on complex enzyme systems. Some thermophilic bacteria have high cellulolytic activity. GuxA, a multi-modular and multi-functional enzyme from Acidothermus cellulolyticus, exhibits synergism with other enzymes and has potential for biomass conversion. The study of GuxA provides insights into its activity mechanism and substrate specificity.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Monika Tolgo, Silvia Huttner, Peter Rugbjerg, Nguyen Thanh Thuy, Vu Nguyen Thanh, Johan Larsbrink, Lisbeth Olsson
Summary: The study sequenced and analyzed the genome and transcriptome of the thermophilic Ascomycete Thielavia terrestris strain LPH172, revealing a rich arsenal of CAZymes and auxiliary activity (AA) domains. Upregulation of different encoding genes on different substrates suggests a complex and nuanced degradation strategy employed by the fungus.
BIOTECHNOLOGY FOR BIOFUELS
(2021)
Article
Chemistry, Physical
Mohammad Reza Erfanimoghadam, Ahmad Homaei
Summary: The study aimed to isolate and identify symbiotic alpha-amylase enzyme-producing bacteria from the intestine of Silago Sihama and Rasterliger Canagorta fish living in Qeshm Island, Hormozgan. The bacteria were isolated using nutrient agar culture medium and screened for alpha-amylase production. The highest enzyme activity was found in four strains of Bacillus, which were identified and registered in the NCBI gene database. The alpha-amylase enzymes isolated from these bacteria have potential applications in various industries.
Article
Biotechnology & Applied Microbiology
Marta Semkiv, Justyna Ruchala, Aksynia Y. Tsaruk, Anastasiya Z. Zazulya, Roksolana V. Vasylyshyn, Olena Dmytruk, MingXing Zuo, Yingqian Kang, Kostyantyn Dmytruk, Andriy A. Sibirny
Summary: This study highlights the important roles of hexose sensor Hxs1 and transcription factor Azf1 in xylose and glucose alcoholic fermentation in the native xylose-fermenting yeast O. polymorpha. Overexpression of these genes can significantly increase ethanol production during fermentation.
MICROBIAL CELL FACTORIES
(2022)
Article
Biochemistry & Molecular Biology
Mohd Saeed, Akbar Mohammad, Pardeep Singh, Basant Lal, Muath Suliman, Mohammad Y. Alshahrani, Minaxi Sharma
Summary: Solid waste management and waste valorization are important global concerns. In this study, coconut waste was utilized to produce biochar as a catalyst for fungal enzyme production in solid-state fermentation. The biochar was prepared via a calcination process and characterized using various techniques. The maximum enzyme production of 92 IU/gds BGL was achieved using a concentration of 2.5 mg biochar-catalyst at 40 degrees C in 72 hours.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Chemistry, Applied
Fangfang Zhao, Yang Li, Caiming Li, Xiaofeng Ban, Zhengbiao Gu, Zhaofeng Li
Summary: Starch is vital to the quality of gluten-free bread (GFB), with the addition of exo-amylases and debranching enzymes significantly improving the structure and texture of fresh GFB. Different types of amylolytic enzymes have varying impacts on the crumb firming rate, retrogradation enthalpy, and relative crystallinity of the bread.
CARBOHYDRATE POLYMERS
(2022)
Article
Agricultural Engineering
Man Zhao, Wenting Zhou, Yanan Wang, Jian Wang, Junlu Zhang, Zhiwei Gong
Summary: This study developed a novel strategy for lipid production from low-cost substrates by combining simultaneous saccharification and fermentation (SSF) of corn stover with consolidated bioprocessing (CBP) of cassava starch using Lipomyces starkeyi. The study found that the combination strategy achieved higher lipid production at relatively low enzyme dosage and the prepared lipids were suitable for biodiesel production.
BIORESOURCE TECHNOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Shuai Zhao, Ming-Zhu Tan, Rui-Xian Wang, Fa-Ting Ye, Yuan-Peng Chen, Xue-Mei Luo, Jia-Xun Feng
Summary: This study successfully combined genetic engineering and random mutagenesis to enhance the production of RSDE in P. oxalicum. The engineered strain GXUR001 showed a significantly increased RSDE yield and efficient degradation of raw starch. It has great potential for enzyme preparation and further genetic engineering.
MICROBIAL CELL FACTORIES
(2022)
Review
Biotechnology & Applied Microbiology
Ticiane Carvalho Farias, Haroldo Yukio Kawaguti, Maria Gabriela Bello Koblitz
Summary: Starch is commonly used in processed foods and industrial products, but often needs modification using enzymes for specific properties and increased value. Bacillus species are known for their superior production of amylases through biotechnological processes, supporting large-scale fermentations on low-cost substrates.
BIOCATALYSIS AND AGRICULTURAL BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Dongbang Yao, Xudong Han, Huanhuan Gao, Bin Wang, Zemin Fang, He Li, Wei Fang, Yazhong Xiao
Summary: In this study, the extracellular production level of Pontibacillus sp. ZY raw starch-degrading a-amylase (AmyZ1) in B. subtilis was enhanced by expression regulatory element modification and fermentation optimization. The resulting recombinant strain WBZ-VY-B-R1 showed the highest reported production level for recombinant RSDA production.
MICROBIAL CELL FACTORIES
(2023)
Article
Engineering, Multidisciplinary
Anu Anupma, Jyoti Prakash Tamang
Summary: This study screened strains of mycelial moulds isolated from different amylolytic starter cultures in Northeast India and found that some of these strains have high activity enzymes such as amylase, cellulase, and protease.
JOURNAL OF SCIENTIFIC & INDUSTRIAL RESEARCH
(2022)
Article
Biotechnology & Applied Microbiology
Priya Sengupta, Ramya Mohan, Ian Wheeldon, David Kisailus, Charles E. Wyman, Charles M. Cai
Summary: Simultaneous saccharification and fermentation (SSF) is effective for minimizing sugar inhibition during high solids fermentation. In this study, the thermotolerant yeast strain Kluyveromyces marxianus variant CBS 6556 was used in a high solids SSF configuration to evaluate its capabilities and limitations compared to Saccharomyces cerevisiae D5A. CBS 6556 demonstrated similar tolerance to high gravity sugar solutions, higher growth rates at higher temperatures, and higher early stage ethanol productivity. However, its membrane was more sensitive to higher ethanol concentrations, resulting in earlier fermentation arrest compared to D5A.
BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS
(2022)
Article
Agriculture, Dairy & Animal Science
Xiaofeng Zhu, Lvyang Wang, Zhen Zhang, Liren Ding, Suqin Hang
Summary: The increased production of rapeseed meal has led to a focus on improving its utilization in agricultural biotechnology. In vitro studies showed that a combination of fiber-degrading enzymes and lactobacilli fermentation enhanced the nutritional value and utilization of fiber and protein in rapeseed meal. The findings indicated that rapeseed meal treated with this combination had higher digestibility, lower gas production, and improved utilization of carbohydrates and protein.
ANIMAL FEED SCIENCE AND TECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
He Li, Dongbang Yao, Jingru Ying, Xudong Han, Xuecheng Zhang, Xiuju Fang, Zemin Fang, Yazhong Xiao
Summary: A strategy combining signal peptide optimization and translation efficiency improvement was used to enhance the extracellular production of raw starch-degrading alpha-amylase AmyZ1 from Pontibacillus sp. ZY in Bacillus subtilis. The resulting recombinant strain BZYACO6 achieved the highest reported level of recombinant raw starch-degrading alpha-amylase production. This study also provides a strategic reference for enhancing the extracellular production of other recombinant proteins in Bacillus subtilis.
BIOCHEMICAL ENGINEERING JOURNAL
(2022)
Article
Cell Biology
Krzysztof Berezka, Marta Semkiv, Mariia Borbuliak, Johanna Blomqvist, Tomas Linder, Justyna Ruchala, Kostyantyn Dmytruk, Volkmar Passoth, Andriy Sibirny
Summary: The study aimed to isolate insertional mutants of S. stipitis with altered ethanol production and found that in one of the best fermenting strains, insertion occurred within a gene homologous to the yeast gene HEM25.
CELL BIOLOGY INTERNATIONAL
(2021)
Article
Cell Biology
Olena Dmytruk, Nina Bulbotka, Anastasya Zazulya, Marta Semkiv, Kostyantyn Dmytruk, Andriy Sibirny
Summary: Enzymes involved in methanol metabolism of methylotrophic yeasts are localized in peroxisomes and cytosol, with a decrease in activity observed after shifting cells from methanol to glucose medium. The mechanism of cytosolic enzyme inactivation remains unknown, with studies showing protein degradation as a cause in some strains. Autophagy pathway is found to play a role in degradation of certain enzymes in glucose medium, suggesting a complex regulatory mechanism in methanol metabolism.
CELL BIOLOGY INTERNATIONAL
(2021)
Article
Biochemistry & Molecular Biology
Andriy O. Tsyrulnyk, Yuliia A. Andreieva, Justyna Ruchala, Lyubov R. Fayura, Kostyantyn Dmytruk, Daria Fedorovych, Andriy A. Sibirny
Article
Biochemistry & Molecular Biology
Dmytro Bratiichuk, Olena Kurylenko, Roksolana Vasylyshyn, MingXing Zuo, Yingqian Kang, Kostyantyn Dmytruk, Andriy Sibirny
Article
Genetics & Heredity
A. Yu Kvasko, S. Isayenkov, K. Dmytruk, A. A. Sibirny, Ya B. Blume, A. Yemets
CYTOLOGY AND GENETICS
(2020)
Review
Microbiology
Justyna Ruchala, Andriy A. Sibirny
Summary: The paper discusses the distribution of pentose sugars in nature, as well as the metabolism and conversion processes of D-xylose and L-arabinose. It provides a detailed exploration of pentose metabolism and bioconversion in non-conventional yeasts, and compares pentose metabolism in recombinant strains. The article also reviews genome studies of natural xylose-metabolizing yeasts and the metabolism of other pentoses.
FEMS MICROBIOLOGY REVIEWS
(2021)
Article
Microbiology
Ljubov Dzanaeva, Barbara Kruk, Justyna Ruchala, Andriy Sibirny, Kostyantyn Dmytruk
Summary: Lignocellulosic biomass is a sustainable platform for fuel ethanol production, with xylose being the second most abundant sugar in hydrolysates. Engineered Saccharomyces cerevisiae strains can ferment xylose, but the yield and productivities are lower compared to glucose fermentation. A study on transcription factors Znf1, Sip4, Adr1, Tup1, and Hap4 showed that Hap4 has a positive impact on xylose growth and fermentation, with the hap4 Delta mutant displaying increased ethanol production.
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Justyna Ruchala, Yuliia A. Andreieva, Andriy O. Tsyrulnyk, Svitlana M. Sobchuk, Alicja Najdecka, Liu Wen, Yingqian Kang, Olena Dmytruk, Kostyantyn Dmytruk, Dariya Fedorovych, Andriy A. Sibirny
Summary: The study showed that engineered strains of Candida famata can produce high levels of riboflavin using whey as a substrate. Through genetic modifications and optimization of cultivation conditions, riboflavin production on whey was significantly increased, providing potential for producing high-value products from waste in the dairy industry.
MICROBIAL CELL FACTORIES
(2022)
Article
Biotechnology & Applied Microbiology
Marta Semkiv, Justyna Ruchala, Aksynia Y. Tsaruk, Anastasiya Z. Zazulya, Roksolana V. Vasylyshyn, Olena Dmytruk, MingXing Zuo, Yingqian Kang, Kostyantyn Dmytruk, Andriy A. Sibirny
Summary: This study highlights the important roles of hexose sensor Hxs1 and transcription factor Azf1 in xylose and glucose alcoholic fermentation in the native xylose-fermenting yeast O. polymorpha. Overexpression of these genes can significantly increase ethanol production during fermentation.
MICROBIAL CELL FACTORIES
(2022)
Article
Chemistry, Analytical
Kseniia Berketa, Olga Saiapina, Lyubov Fayura, Andriy Sibirny, Sergei Dzyadevych, Oleksandr Soldatkin
Summary: A novel arginine-sensitive conductometric biosensor based on a recombinant arginine deiminase (ADI) produced in E. coli was developed for the detection of L-arginine. The biosensor exhibited high selectivity and stability, making it suitable for quantification of arginine in dietary supplements.
SENSORS AND ACTUATORS B-CHEMICAL
(2022)
Article
Biochemical Research Methods
Yuriy Kit, Marina Starykovych, Nazar Manko, Andrii Orfin, Tamila Alexanyan, Lydmyla Bozhko, Tetiana Turchyna, Oleg Kit, Roopesh Krishnankutty, Anjana Anand, Andrey Sibirny, Serhiy Souchelnytskyi, Rostyslav Stoika
Summary: Similar immune responses were observed in Covid-19 and autoimmune patients. A truncated form of unconventional Myosin 1C (48/Myo1C) was detected in the blood serum of autoimmune disease patients and severely ill Covid-19 patients, and its levels were increased by dexamethasone treatment. The 48/Myo1C protein suppressed the viability of activated lymphocytes and potentially interacted with components of the complement and coagulation systems.
JOURNAL OF IMMUNOLOGICAL METHODS
(2023)
Article
Biochemistry & Molecular Biology
Anastasiya Z. Z. Zazulya, Marta V. V. Semkiv, Maxim Stec, Zuzanna Cyske, Lidia Gaffke, Karolina Pierzynowska, Grzegorz Wegrzyn, Andriy A. A. Sibirny
Summary: The methylotrophic yeast Komagataella phaffii is an effective producer of recombinant proteins. The degradation of cytosolic recombinant proteins in this yeast is believed to occur partially through the autophagic pathway. A study was conducted to identify the factors influencing this degradation process, using a system for selecting strains with impaired autophagy. It was found that the gene ACG1, encoding beta-1,6-N-acetylglucosaminyltransferase, plays a role in autophagy of cytosolic and peroxisomal proteins.
Article
Biochemistry & Molecular Biology
Dariya V. Fedorovych, Andriy O. Tsyrulnyk, Justyna Ruchala, Svitlana M. Sobchuk, Kostyantyn V. Dmytruk, Lyubov R. Fayura, Andriy A. Sibirny
Summary: This study successfully achieved higher production of FMN coenzyme in lactose and cheese whey by genetic modification of yeast genes. The best recombinant strain achieved an accumulation of 540 mg/L FMN in cheese whey, providing a new approach for the industrial production of enzyme-catalyzed reactions.
Article
Biotechnology & Applied Microbiology
Yana Petrovska, Oleksii Lyzak, Justyna Ruchala, Kostyantyn Dmytruk, Andriy Sibirny
Summary: Riboflavin, a water-soluble vitamin, plays a vital role in energy metabolism. Candida famata yeast has the potential to be a promising producer of riboflavin, and the overexpression of certain structural genes can significantly increase riboflavin production.
FERMENTATION-BASEL
(2022)
Article
Biotechnology & Applied Microbiology
Olena Kurylenko, Justyna Ruchala, Barbara Kruk, Roksolana Vasylyshyn, Justyna Szczepaniak, Kostyantyn Dmytruk, Andriy Sibirny
Summary: This study characterizes the role of transcriptional factors in the natural xylose-fermenting yeast O. polymorpha, finding that the deletion of MIG1 and MIG2 genes reduces ethanol production, while the deletion of HAP4-A and TUP1 genes increases ethanol production. Thus, HAP4-A and TUP1 are involved in repression of xylose metabolism and fermentation in yeast O. polymorpha, offering a potential strategy to improve ethanol production from pentose sugars.
FEMS YEAST RESEARCH
(2021)
Article
Biotechnology & Applied Microbiology
Nicolas Huber, Edgar Alberto Alcala-Orozco, Thomas Rexer, Udo Reichl, Steffen Klamt
Summary: Cell-free production systems are commonly used for synthesizing industrial chemicals and biopharmaceuticals. This study presents a model-based optimization framework for cell-free enzyme cascades, taking into account parameter uncertainties. The approach was exemplified using the synthesis of GDP-fucose, resulting in significant improvements in the process.
METABOLIC ENGINEERING
(2024)