Article
Microbiology
Yingying Chen, Liguo Dong, Md Ashiqul Alam, Lakhansing Pardeshi, Zhengqiang Miao, Fang Wang, Kaeling Tan, Michael J. Hynes, Joan M. Kelly, Koon Ho Wong
Summary: This study investigated the regulatory role of the carbon catabolite repression (CCR) transcription factor CreA in Aspergillus nidulans, uncovering its functions in diverse physiological processes beyond carbon metabolism. The research provided mechanistic insights into CreA regulation and highlighted its role as a master regulator controlling multiple transcription factors in different regulatory networks. The discoveries have important implications for understanding CCR in related pathogenic and industrial species.
Article
Microbiology
Abhinav Nair, Saurabh Jyoti Sarma
Summary: Organisms use catabolite repression to adjust resource utilization to gain a competitive edge in unfavorable conditions, playing a crucial role in microbial survival. Studying genes and proteins linked to preferential uptake mechanisms can identify regulatory processes that promote microbial growth and survival.
MICROBIOLOGICAL RESEARCH
(2021)
Article
Microbiology
Elisabeth Sonnleitner, Flavia Bassani, Anastasia Cianciulli Sesso, Paul Brear, Branislav Lilic, Lovro Davidovski, Armin Resch, Ben F. Luisi, Isabella Moll, Udo Blasi
Summary: In the opportunistic human pathogen Pseudomonas aeruginosa (Pae), carbon catabolite repression (CCR) regulates the utilization of N and C sources, as well as impacting virulence, antibiotic resistance, and biofilm development. The study revealed that the regulatory RNA CrcZ can relieve CCR by acting as a decoy for the RNA chaperone Hfq. The protein PA1677 was identified as an antagonist of Crc, promoting the metabolism of non-preferred carbon sources.
FRONTIERS IN MICROBIOLOGY
(2023)
Review
Microbiology
Mizuki Tanaka, Katsuya Gomi
Summary: The filamentous fungus Aspergillus oryzae, also known as yellow koji mold, produces high levels of hydrolases such as amylolytic and proteolytic enzymes. The expression of hydrolase genes in A. oryzae is induced by certain substrates and regulated by carbon catabolite repression.
FRONTIERS IN MICROBIOLOGY
(2021)
Review
Biotechnology & Applied Microbiology
Joshua D. D. Kerkaert, Lori B. B. Huberman
Summary: Organisms need to accurately sense and respond to nutrients for survival. Fungi have evolved genetic networks to regulate metabolic pathways and distinguish between preferred and nonpreferred nutrients. Transcription factors and regulatory genes play important roles in this regulation.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Review
Biotechnology & Applied Microbiology
Anu Jose Mattam, Yogesh Babasaheb Chaudhari, Harshad Ravindra Velankar
Summary: The growing demand for biofuels has led to the search for alternative feedstock, and lignocellulosic biomass is a promising candidate. The conversion of lignocellulosic biomass to bioethanol involves a complex process with multiple unit operations. The expression of cellulases, which are necessary for saccharification, is controlled by transcription factors and sugar transporters, and genetic engineering efforts have been made to modulate their expression.
MICROBIAL CELL FACTORIES
(2022)
Article
Multidisciplinary Sciences
Jordan J. Aoyama, Medha Raina, Aoshu Zhong, Gisela Storz
Summary: The Spot 42 RNA is a well-characterized base-pairing small RNA in Escherichia coli, and it controls cell growth by blocking the expression of genes involved in the utilization of nonpreferred carbon sources. Additionally, it encodes a small protein called SpfP, which binds to CRP and affects its ability to activate specific genes, further regulating cell growth.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
S. Duboux, M. Golliard, J. A. Muller, G. Bergonzelli, C. J. Bolten, A. Mercenier, M. Kleerebezem
Summary: The serine protease inhibitor (serpin) protein plays a key role in bifidobacteria-host interaction by inhibiting intestinal serine proteases. Its production is tightly regulated by carbohydrates, with galactose and fructose increasing serpin production. This environmental modulation has important implications for probiotic manufacturing and the role of serpin in bifidobacteria colonization of the intestinal tract.
SCIENTIFIC REPORTS
(2021)
Article
Microbiology
Jinghui Liang, Adam Roberts, Richard van Kranenburg, Albert Bolhuis, David J. J. Leak
Summary: While carbon catabolite repression (CCR) has been extensively studied in some well-characterized organisms, this study focused on the thermophile Parageobacillus thermoglucosidasius DSM 2542 revealed a loosely controlled CCR during growth on pentose sugars under fermentative conditions. It was found that the expression of the pheB gene, encoding catechol 2, 3-dioxygenase, was under stringent CCR control, and bioinformatic analysis suggested that CCR in P. thermoglucosidasius DSM 2542 primarily regulates pentose metabolism through control of pentose transporter operon expression, potentially due to a lower affinity of CcpA-HPr (Ser46-P) or CcpA-Crh (Ser46P) complexes to the catabolite-responsive elements in these operons.
MICROBIOLOGICAL RESEARCH
(2022)
Article
Agriculture, Multidisciplinary
Zhanzhi Liu, Yifan Wang, Shuhan Liu, Xuehong Guo, Tianlong Zhao, Jing Wu, Sheng Chen
Summary: In this study, a promising variant of D-allulose 3-epimerase (DAEase) was generated through protein engineering, and the optimal conditions for expression were determined. This research provides a theoretical and technical basis for the efficient preparation of DAEase.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2022)
Article
Chemistry, Multidisciplinary
Yuhui Wang, Xiaohan Wang, Guozhen Ma, Lijie Xie, Dan Liu, Yanling Wang, Xinyu Zhao, Yingying Su, Andrei V. Perepelov, Peng Ding, Xiao Zhang, Bo Xu, Bin Liu, Di Huang
Summary: Urinary tract infection (UTI) caused by uropathogenic Escherichia coli (UPEC) is a common infectious disease, with the prevalent serogroup O4 showing high antibiotic resistance. This study developed an O-glycosylation Escherichia coli chassis to biosynthesize a polysaccharide-based glycoprotein for the development of vaccines against UPEC infection. By optimizing the expression of enzymes and fermentation conditions, a high-yield glycoprotein was produced, which effectively reduced bacterial burden in mice after vaccination.
Article
Microbiology
Linda Paetzold, Anne-Christine Brausch, Evelyn-Laura Bielefeld, Lisa Zimmer, Greg A. Somerville, Markus Bischoff, Rosmarie Gaupp
Summary: The carbon catabolite repression (CCR) is a mechanism used by pathogenic bacteria to link central metabolism with virulence factor synthesis. In Staphylococcus aureus, the regulatory functions of CcpA are well known, while the function of HPr in CCR and infectivity remains unclear. Mutations in ptsH altered bacterial physiology and decreased the ability of S. aureus to form a biofilm and cause infections in mice, showing that HPr affects central metabolism and virulence in S. aureus independently of CcpA regulation.
Article
Microbiology
Stephane Duboux, Solenn Pruvost, Christopher Joyce, Biljana Bogicevic, Jeroen Andre Muller, Annick Mercenier, Michiel Kleerebezem
Summary: Bifidobacteria can metabolize a variety of carbohydrates through their unique central carbon metabolism known as the bifid-shunt. The growth rate, transcriptional changes, and central carbon fluxes of Bifidobacterium longum NCC 2705 are affected by the carbon source used for growth, particularly glucose and galactose. Galactose-containing oligosaccharides in the human infant gut can influence the physiological characteristics of B. longum NCC 2705, such as cell size, sugar metabolism, and acid-stress resistance.
Article
Multidisciplinary Sciences
Chunghwan Ro, Michael Cashel, Llorenc Fernandez-Coll
Summary: This study investigates the regulatory mechanisms of cAMP-CRP system on the lac operon and reveals that ppGpp can modulate the expression of lacZ by regulating the acetylation of CRP, thus impacting the growth status of cells in glycerol-containing minimal media.
Article
Biotechnology & Applied Microbiology
Manish Pareek, Botond Hegedues, Zhihao Hou, Arpad Csernetics, Hongli Wu, Mate Viragh, Neha Sahu, Xiao-Bin Liu, Laszlo Nagy
Summary: Mushroom-forming fungi, particularly basidiomycetes, degrade plant materials efficiently with lignin-, cellulose-, hemicellulose-, and pectin-degrading enzymes. The transcription factor Cre1 plays a crucial role in regulating these enzymes through carbon catabolite repression (CCR), as demonstrated in Coprinopsis cinerea. Deletion of the cre1 gene resulted in significant deregulation of carbohydrate metabolism, PCWDEs, and other genes, highlighting its importance in regulating gene expression related to plant biomass degradation. The study expands our understanding of CCR in Basidiomycota and provides insights into genes involved in lignocellulosic biomass degradation.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Chunyun Qu, Lili Chen, Yang Li, Hongxin Fu, Jufang Wang
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2020)
Article
Agricultural Engineering
Chunyun Qu, Lili Chen, Hongxin Fu, Jufang Wang
BIORESOURCE TECHNOLOGY
(2020)
Article
Green & Sustainable Science & Technology
Chunyun Qu, Kaiqun Dai, Hongxin Fu, Jufang Wang
Summary: The study found that ArgR(1864) is a negative regulator for chaperonin synthesis in Thermoanaerobacterium aotearoense SCUT27. Knocking out argR(1864) resulted in a mutant with enhanced antioxidant capacity, better growth and metabolic product generation abilities, as well as advantages in ethanol production.
Article
Biotechnology & Applied Microbiology
Yiran Qu, Innocent Bekard, Ben Hunt, Jamie Black, Louis Fabri, Sally L. Gras, Sandra. E. Kentish
Summary: This study compares the performance of a nanofiber device and a resin column for antibody capture. The nanofiber device has a larger housing volume and lower binding capacity, but comparable eluate purity to the resin column. It shows high stability, can be used for multiple cycles, and maintains consistent eluate quality when scaled up. The use of a single nanofiber device can significantly reduce costs compared to a resin column, especially when the number of batches is limited.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Brandon Moore, Christos Georgakis, Chris Antoniou, Sarwat Khattak
Summary: Fed-batch cell culture processes are commonly used in biomanufacturing due to their simplicity and applicability in cGMP environments. However, the challenge lies in the changing physiochemical conditions within the bioreactor as the cell density changes. Traditional response surface models (RSMs) are commonly used for optimization but are limited by their use of time-invariant factors. Dynamic RSM (DRSM) models can predict the time-dependent impact of process inputs, allowing for optimization of process operations that change over time.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Lin Li, Yunfan Bai, Chuhua Qi, Yile Du, Xiaoxiao Ma, Yutong Li, Pingping Wu, Shuangli Chen, Sijing Zhang
Summary: A succinic anhydride-modified apple pomace (SAMAP) was synthesized to address environmental issues caused by the accumulation of apple pomace and effectively treat heavy metal ions. SAMAP exhibited high adsorption capacity for Cu(II) and Pb(II), suggesting its potential application in wastewater treatment.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Peter Satzer
Summary: Water for injection (WFI) production in the biopharmaceutical industry consumes excessive amounts of water and energy. Recycling buffers can potentially save up to 90% of resources, but achieving the full theoretical potential is impossible when a risk-aware design is used. Universal risk-based assessment is important for regulatory authorities to consider the implementation of such a strategy.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Gaoya Sun, Lingkai Jin, Guangxue Wang, Xiaoge Wang, Jin Huang
Summary: In this study, heterologous expression and homologous overexpression of ABC transporter proteins AatA and MdlB were found to improve butyric acid production in C. tyrobutyricum. The overexpression of these proteins upregulated the expression levels of key enzymes in the acetate synthesis pathway and promoted the synthesis and secretion of acetic acid. Additionally, the increase in ATPase activity facilitated sugar utilization, induced extracellular secretion of acetate, and shortened fermentation periods.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Taiki Okamura, Rina Aritomi, Takuya Matsumoto, Ryosuke Yamada, Hidehiko Hirakawa, Hiroyasu Ogino
Summary: In this study, proline was introduced to improve the stability of putidaredoxin reductase (PdR) in the Pseudomonas putida cytochrome P450 system. It was found that PdR_T221P had a longer half-life at high temperatures compared to wild-type PdR, but a shorter half-life in the presence of methanol. Molecular dynamics simulations supported these findings.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Yuying Hu, Xiaofan Wang, Shihao Zhang, Zimu Liu, Tengfang Hu, Xin Wang, Xiaoming Peng, Hongling Dai, Jing Wu, Fengping Hu
Summary: This study investigates the effect of iron-carbon micro-electrolysis (ICME) materials on high-solid anaerobic digestion (HSAD). The results show that ICME materials promote methane production in HSAD by increasing the attachment area of microorganisms and facilitating symbiotic metabolism of certain bacterial species. This study provides new insights into microbial mechanisms and enhances our understanding of ICME material enhancement in HSAD.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Jibao Liu, Yufeng Xu, Yuansong Wei
Summary: This study investigated the role of sludge rheology in anaerobic digestion (AD) and found that rheological properties increased with the increase of solid content, resulting in a negative effect on methane production. An extended ADM1 model revealed that enhanced sludge rheological properties increased mass diffusion resistance and reduced uptake rate of acetate.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Xiaoyan Liu, Zongze Chen, Dewen Kong, Xinying Zhang, Chuanhua Wang, Yongqi Wang
Summary: This study explored the role of intracellular and extracellular enzymes of Acinetobacter baumannii and Talaromyces sp. in the degradation of crude oil. The extracellular enzymes of Talaromyces sp. were more effective in degrading n-alkanes, while those of Acinetobacter baumannii had a better effect on aromatic hydrocarbons. The degradation enzyme systems of both bacteria and fungi complemented each other, improving the overall degradation ability.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Jing Dong, Lingli Xu, Yuxiang Liu, Li Ren, Ke Yuan
Summary: The utilization of biochar-immobilized microorganisms is an effective method for eliminating phenol from water. The high susceptibility of bacteria to environmental factors is a challenge for practical implementation. In this study, biochar was used to reduce microbial susceptibility and enhance phenol removal. The addition of biochar altered the dominant species of phenol-degrading bacteria and response surface analysis indicated the significant influence of biochar pyrolysis temperature and experimental temperature on phenol removal rate.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Zibin Pan, Mengying Liu, Zuliang Chen
Summary: This study successfully removed metalloids and heavy metals from acid mine drainage (AMD) using bio-synthesized Fe/Cu nanoparticles (Fe/Cu NPs). The Fe/Cu NPs showed high removal capacities and the presence of organic substances contributed to their stability.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Guangbing Liu, Han Zhang, Jincan Huang, Lu Zhang, Teng Zhang, Xuemin Yu, Weijing Liu, Chunkai Huang
Summary: This study investigated the effect of Fenton pre-treatment on the treatment efficiency of printing and dyeing wastewater (PDW) using two anaerobic/aerobic-membrane bioreactors (A/O-MBRs). The results showed that Fenton pre-treatment significantly improved the removal efficiency of COD and AOX in PDW, and reduced membrane fouling. The Shannon indices and metagenomics analysis indicated that the microbial diversity in anaerobic flocs was higher than that in aerobic flocs, and EC3.1.1.45 and pcaI were identified as key functional genes.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Lidia Borgosz, Duygu Dikicioglu
Summary: The Industrial Internet of Things (IIoT) is a system that connects devices and provides real-time insight into industrial processes. However, the complexity and regulatory requirements of the biomanufacturing sector make it challenging to implement IIoT. There is a need for universal solutions to overcome this challenge and advance the field of biomanufacturing.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Yajie Li, Weikang Kong, Yuyao Zhang, Huarui Zhou, Hongbo Liu, Salma Tabassum
Summary: In this study, the iron-carbon multi-micro electric field coupling anaerobic co-digestion technique was used to treat coal gasification wastewater (CGW). The experimental results showed that under optimal operating conditions, this technique can significantly reduce the toxicity of the wastewater and achieve high removal efficiencies. Additionally, the analysis of microbial communities revealed that the coupling system promotes direct interspecies electron transfer.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)
Article
Biotechnology & Applied Microbiology
Aparecido Nivaldo Modenes, Debora Gozzi Fernandes, Daniela Estelita Goes Trigueros, Matheus Guilherme Amador, Fernando Rodolfo Espinoza-Quinones, Taysa de Souza Braniz, Adilson Ricken Schuelter, Glacy Jaqueline da Silva, Lucimar Pereira Bonett
Summary: This study aimed to systematically remove organic pollutants from raw dairy wastewater with high concentrations of COD, TOC, and TN using Poterioochromonas malhamensis algae strains. The results showed that the biomass yield rate using FP-PBRs was 10% higher than tubular PBRs, and the organic pollution in wastewater was significantly reduced with a decrease of about 98% in COD, 95% in TN, and 92% in TOC.
BIOCHEMICAL ENGINEERING JOURNAL
(2024)