Review
Food Science & Technology
Ravichandra Hospet, Devarajan Thangadurai, Natalia Cruz-Martins, Jeyabalan Sangeetha, Konerira Aiyappa Anu Appaiah, Zaira Zaman Chowdhury, Namita Bedi, Kasem Soytong, Abdel Rahman Mohammad Al Tawahaj, Shoukat Jabeen, Misbah Mubeen Tallur
Summary: Strain improvement technology plays a crucial role in enhancing the quality of industrial strains. The genome shuffling technique, which involves inducing mutation and recursive protoplast fusion, ensures specific phenotype improvement and does not require gene sequence data.
CRITICAL REVIEWS IN FOOD SCIENCE AND NUTRITION
(2023)
Article
Biotechnology & Applied Microbiology
Fatema M. Abd Allah, Asmaa M. Elhosiny, Hala F. Mohamed, Ayman A. Farrag, Magda A. Elmeleigy
Summary: In this study, lactic acid bacteria (LAB) isolated from milk were evaluated for their antibacterial properties. Genome shuffling was utilized to enhance the antimicrobial activity of these LAB isolates. Results showed that 31 strains out of the 61 isolates exhibited antibacterial activity against tested pathogens, with Lactobacillus plantarum CIP 103151 and Lactobacillus plantarum JCM 1149 demonstrating the highest antimicrobial activity. By applying the genome shuffling approach, the inhibitory zones against Staphylococcus aureus, Salmonella typhimurium, Pseudomonas aeruginosa, and Escherichia coli were significantly increased. Random Amplified Polymorphic DNA analysis revealed clear differences in DNA banding patterns between the wild strain of L. plantarum CIP 103151 and the selected shuffled strains.
WORLD JOURNAL OF MICROBIOLOGY & BIOTECHNOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Sanjeev K. Ganesh, C. Subathra Devi
Summary: The advancement in pharmaceutical research has led to the discovery and development of new combinatorial life-saving drugs, such as rapamycin and its derivatives. Rapamycin has been gaining attention for its activity against cytokine storm in COVID-19 patients. It has multiple potential applications as an anti-fungal drug, immunosuppressant, anti-cancer, anti-viral, and anti-aging agent. There is a growing demand for effective rapamycin derivatives and further studies are needed to explore its molecular mechanisms and improvement in production.
MOLECULAR BIOLOGY REPORTS
(2023)
Article
Biotechnology & Applied Microbiology
Yang Song, Zixuan Zhang, Xiangli Zhang, Jiayi Yao, Xiaoping Yu, Xuping Shentu
Summary: In this study, the production of toyocamycin in Streptomyces diastatochromogenes 1628 was enhanced through three rounds of genome shuffling screening. The optimization of nutrition condition in medium resulted in the highest production of toyocamycin. The mechanism for the improvement of shuffled strains was investigated, revealing the role of transcriptional level, product resistance, and ATP-binding pathway-specific regulator.
FERMENTATION-BASEL
(2022)
Article
Microbiology
Jiaqi Xie, Yinghao Yu, Junjiang You, Zhiwei Ye, Fenglong Zhou, Na Wang, Jingru Zhong, Liqiong Guo, Junfang Lin
Summary: This study successfully generated seven novel fusion strains of Ganoderma spp. with enhanced Ergothioneine (EGT) yields. The fusion strain RS7 showed a significant increase in mycelial EGT production, surpassing the parental strains FQ16 and FQ23 by 34.23% and 39.10%, respectively. Genomic analysis of the RS7 strain revealed mutations in the gene associated with EGT metabolism, leading to a redirection of substrate towards the EGT synthesis pathway and a boost in EGT production. These findings provide valuable guidance for commercial-scale production of EGT and selective breeding of Ganoderma spp. strains.
Article
Plant Sciences
Lidan Cao, Yan Gao, Jinlan Yu, Shuqi Niu, Jiarui Zeng, Qingqing Yao, Xiang Wang, Zhigang Bu, Ting Xu, Xuanming Liu, Yonghua Zhu
Summary: The endophytic actinobacteria OsiSh-2 can enhance the resilience of host plants against iron deficiency stress by modulating iron acquisition and translocation, ultimately leading to improved plant fitness.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Article
Microbiology
Tianyan Yun, Tao Jing, Xiaoping Zang, Dengbo Zhou, Kai Li, Yankun Zhao, Wei Wang, Jianghui Xie
Summary: Fusarium wilt of bananas caused by the soil-borne fungus Fusarium oxysporum f. sp. cubense tropical race 4 (Foc TR4) is severely impacting the sustainable development of the banana industry. Streptomyces hygroscopicus subsp. hygroscopicus 5-4, a strain with strong antifungal activity, was found to damage the cell membrane of Foc TR4, inhibiting its mycelial growth. Hygromycin B was identified as a potential key antimicrobial metabolite. These findings make Streptomyces hygroscopicus subsp. hygroscopicus 5-4 a promising candidate for controlling Fusarium wilt of bananas and provide a scientific basis for the practical application of hygromycin B as a biological control agent.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Liting Ye, Ruifang Ye, Fengxian Hu, Guozhu Wang
Summary: FK506, an immunosuppressive polyketide produced by Streptomyces tsukubaensis, showed significantly increased production levels through atmospheric and room temperature plasma mutagenesis and genome shuffling techniques. The addition of exogenous DMSO further enhanced FK506 production. The newly isolated strain R3-C4 exhibited altered morphology and gene expression profiles compared to the wild-type strain, potentially leading to improved FK506 biosynthesis.
BIOTECHNOLOGY LETTERS
(2021)
Article
Microbiology
Yongjuan Liu, Kaifang Wang, Long Pan, Xusheng Chen
Summary: In this study, a better ε-PL producing strain was generated through genome shuffling on strains obtained by ribosome engineering. The mutant strain SG-86 produced 144.7% more ε-PL than the parent strain M-Z18. Illumina sequencing was used to map the genomic changes leading to the improved phenotype, revealing a smaller genome size, metabolic pathway changes, and gene deletions in the mutant strain. This study is of great significance for improving fermentation performance and providing theoretical guidance for metabolic engineering of ε-PL producing strains.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Yan Gao, Qing Ning, Yuanzhu Yang, Ying Liu, Shuqi Niu, Xiaochun Hu, Huairong Pan, Zhigang Bu, Ning Chen, Jinyou Guo, Jinlan Yu, Lidan Cao, Peng Qin, Junjie Xing, Bin Liu, Xuanming Liu, Yonghua Zhu
Summary: The endophytic actinomycetes Streptomyces hygroscopicus OsiSh-2 has been found to enhance resistance to rice blast while maintaining high yield in 4-year field trials. OsiSh-2 induces defense priming in rice and controls the expression of defense-related proteins, balancing defense and growth to optimize plant performance.
Article
Biotechnology & Applied Microbiology
Chang Liu, Zhiwei Zhang, Keisuke Fukaya, Naoya Oku, Enjuro Harunari, Daisuke Urabe, Yasuhiro Igarashi
Summary: Two classes of new polyketides, allopteridic acids A-C (1-3) and allokutzmicin (4), were isolated from an actinomycete of the genus Allokutzneria culture. The structures of 1-4 were determined through NMR and MS analysis. Compounds 1-3 have a similar carbon skeleton to pteridic acids but have distinct monocyclic core structures. Compound 4 is a linear polyketide with a unique guanidino-terminus and an epoxide modification. Compounds 1-3 significantly promoted lettuce seed root elongation at concentrations of 1 to 10 μM, while compound 4 inhibited seed growth. Compound 4 showed weak antimicrobial activity against Candida albicans with a minimum inhibitory concentration (MIC) of 25 μg mL(-1).
JOURNAL OF ANTIBIOTICS
(2023)
Article
Biotechnology & Applied Microbiology
Nourah Hassan Alzahrani, Alaa Ahmed Mohamed El-Bondkly, Mervat Morsy Abbas Ahmed El-Gendy, Ahmed Mohamed El-Bondkly
Summary: Genetic manipulation and engineered culture medium were used to increase undecylprodigiosin production, while solid-state fermentation was applied to reduce production costs. The recombinant strain ALAA-R20 showed significantly higher yields than its parental strains ESRAA-10 and ESRAA-31, and exhibited strong antimicrobial and anti-cancer activities.
JOURNAL OF APPLIED GENETICS
(2021)
Article
Multidisciplinary Sciences
Manon Mani Vellingiri, Parimala Gnana Soundari Arockiam Jeyasundar, Brindha Priyadarisini Venkatesan, Wen-chao Liu, Balamuralikrishnan Balasubramanian
Summary: This study focused on developing a statistical approach to optimize the cultivation conditions for maximum CPSM yield from Streptomyces hygroscopicus AVS7, which showed antimicrobial properties. The results indicated a cost-effective method for producing CPSM with potential medicinal and industrial applications.
ARABIAN JOURNAL FOR SCIENCE AND ENGINEERING
(2021)
Article
Biotechnology & Applied Microbiology
Wenyan He, Wenfang Wang, Jiaxiang Ma, Guosong Zheng, Andrei A. Zimin, Weihong Jiang, Jinzhong Tian, Yinhua Lu
Summary: RapH was found to co-ordinately regulate the biosynthesis of rapamycin and elaiophylin, and a 16-nt signature DNA sequence essential for RapH regulation was defined.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Microbiology
Chen Xue, Jiaxin Zheng, Guangli Wang, Liang Feng, Feng Li
Summary: A functional strain BD2 with improved degradation efficiency of chlorothalonil (CTN) and carbendazim (MBC) was obtained through protoplast fusion, and the genetic relationship between BD2 and its parental strains was confirmed by SEM, RAPD, and 16S rRNA gene sequences analysis. BD2 showed better degradation rates of CTN and MBC compared to its parental strains, indicating its potential for bioremediation of CTN and MBC contaminated sites.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Ling Liu, Jian Pan, Zilong Wang, Xiaohui Yan, Dong Yang, Xiangcheng Zhu, Ben Shen, Yanwen Duan, Yong Huang
JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY
(2018)
Article
Plant Sciences
Jian-Jun Chen, Mostafa E. Rateb, Melissa S. Love, Zhengren Xu, Dong Yang, Xiangcheng Zhu, Yong Huang, Li-Xing Zhao, Yi Jiang, Yanwen Duan, Case W. McNamara, Ben Shen
JOURNAL OF NATURAL PRODUCTS
(2018)
Article
Biochemistry & Molecular Biology
Zhengren Xu, Shi-Ming Fang, Malina A. Bakowski, Mostafa E. Rateb, Dong Yang, Xiangcheng Zhu, Yong Huang, Li-Xing Zhao, Yi Jiang, Yanwen Duan, Mitchell V. Hull, Case W. McNamara, Ben Shen
ACS CHEMICAL BIOLOGY
(2019)
Article
Chemistry, Medicinal
Ajeeth Adhikari, Christiana N. Teijaro, Xiaohui Yan, Chin-Yuan Chang, Chun Gui, Yu-Chen Liu, Ivana Crnovcic, Dong Yang, Thibault Annaval, Christoph Rader, Ben Shen
JOURNAL OF MEDICINAL CHEMISTRY
(2020)
Article
Chemistry, Multidisciplinary
Mingming Cao, Chengjian Zheng, Dong Yang, Edward Kalkreuter, Ajeeth Adhikari, Yu-Chen Liu, Mostafa E. Rateb, Ben Shen
Summary: Through a series of in vitro and in vivo experiments, it has been shown that the conversion of TACs may result from two non-enzymatic steps, possibly mediated by endogenous hydrogen sulfide. Therefore, TACs are proposed to derive from a detoxification process.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Article
Biotechnology & Applied Microbiology
Hindra, Dong Yang, Jun Luo, Tingting Huang, Xiaohui Yan, Ajeeth Adhikari, Christiana N. Teijaro, Huiming Ge, Ben Shen
Summary: The study presents a method for increasing the production of UCM through genetic manipulation and fermentation of engineered S. uncialis strains.
JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Jun Luo, Dong Yang, Hindra, Ajeeth Adhikari, Liao-Bin Dong, Fei Ye, Xiaohui Yan, Christoph Rader, Ben Shen
Summary: The discovery of a new sub-family of AMM congeners, named AMEs, with different chemical features and modest cytotoxicity against cancer cells, expands the understanding of structure-activity relationship for pyrroloquinoline alkaloids. Comparative analysis of the gene clusters of AMEs and AMMs supports the use of a scaffold peptide for biosynthesis of the pyrroloquinoline family of natural products, providing insights for future efforts in mimicking Nature's combinatorial biosynthetic strategies for natural product structural diversity.
JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Thibault Annaval, Christiana N. Teijaro, Ajeeth Adhikari, Xiaohui Yan, Jian-Jun Chen, Ivana Crnovcic, Dong Yang, Ben Shen
Summary: The study revealed that TnmL can catalyze two successive hydroxylations of TNM E, has strict substrate preference with the C-26 side chain playing a critical role in substrate binding, and is able to demethylate the C-7 OCH3 group of TNM G, channeling it back into TNM A biosynthesis.
ACS CHEMICAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Fei Ye, Hafeez S. Haniff, Blessy M. Suresh, Dong Yang, Peiyuan Zhang, Gogce Crynen, Christiana N. Teijaro, Wei Yan, Daniel Abegg, Alexander Adibekian, Ben Shen, Matthew D. Disney
Summary: This study identified compounds with RNA affinity through direct screening of partially purified NPs and correlated the interactions with the human transcriptome. One compound, nocathiacin I (NOC-I), demonstrated low affinity binding to oncogenic noncoding microRNA-18a, selectively inhibiting its nuclease processing and triggering apoptosis in vitro and in prostate cancer cells.
ACS CHEMICAL BIOLOGY
(2022)
Article
Chemistry, Organic
Dong Yang, Fei Ye, Christiana N. Teijaro, Dobeen Hwang, Thibault Annaval, Ajeeth Adhikari, Gengnan Li, Xiaohui Yan, Chun Gui, Christoph Rader, Ben Shen
Summary: Comparative analysis of four anthraquinone-fused enediyne biosynthetic gene clusters revealed YpmL as a unique cytochrome P450 enzyme in the yangpumicin BGC. In vitro characterization confirmed YpmL as a hydroxylase that catalyzes C-6 hydroxylation in YPM A biosynthesis. In vivo application of YpmL enabled the engineered production of four novel tiancimycin analogues and provided insight into their cytotoxicity against human cancer cell lines.
Article
Chemistry, Multidisciplinary
Chun Gui, Edward Kalkreuter, Yu-Chen Liu, Ajeeth Adhikari, Christiana N. Teijaro, Dong Yang, Changsoo Chang, Ben Shen
Summary: This study investigates the biosynthetic mechanism of anthraquinone-fused enediynes. By identifying and characterizing the enzyme TnmK1, it reveals a new way of forming chemical bonds in these molecules. Additionally, an intermediate with potential anti-cancer activity was discovered. These findings are important for enzymology, natural product biosynthesis, and drug development.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Medicinal
Andrew D. Steele, Alexander F. Kiefer, Dobeen Hwang, Dong Yang, Christiana N. Teijaro, Ajeeth Adhikari, Christoph Rader, Ben Shen
Summary: Antibody-drug conjugates (ADCs) are cancer chemotherapeutics that combine an antibody-based delivery system, cytotoxic payload, and a chemical linker. Functionalization of the payload must be carefully designed to maintain the potency needed for ADC efficacy. In this study, we successfully translated biocatalytically functionalized TNMs into ADCs using a dual-variable domain (DVD)-mAb platform. We evaluated different linker chemistries and found a trade-off between potency and antigen selectivity. This work represents a novel approach in the development of ADCs for various cancer types.
JOURNAL OF MEDICINAL CHEMISTRY
(2023)
Article
Chemistry, Organic
Mingming Cao, Dong Yang, Ajeeth Adhikari, Fei Ye, Chengjian Zheng, Wei Yan, Song Meng, Ping Su, Ben Shen
Summary: The authors isolated neogrisemycin (1) from a recombinant Streptomyces albus J1074 strain SB4061 expressing an engineered thioangucycline (TAC) biosynthetic gene cluster (BGC). They determined the structure and absolute configuration of 1 using mass spectrometry, nuclear magnetic resonance, and single-crystal X-ray diffraction analyses. They proposed that 1, like the TACs, is derived non-enzymatically from the common epoxide (8) encoded by the tac BGC, mediated by endogenous hydrogen trisulfide.
Article
Biochemical Research Methods
Virneliz Fernandez Vega, Dong Yang, Luis Ortiz Jordan, Fei Ye, Louis Conway, Li Yun Chen, Justin Shumate, Pierre Baillargeon, Louis Scampavia, Christopher Parker, Ben Shen, Timothy P. Spicer
Summary: Non-small cell lung cancer (NSCLC) is the most common type of lung cancer, accounting for 84% of all cases. Understanding the dynamics of tumor microenvironment and its role in cancer initiation, progression, and metastasis is crucial for developing new molecular therapies.
Article
Biochemistry & Molecular Biology
Chun Gui, Edward Kalkreuter, Yu-Chen Liu, Gengnan Li, Andrew D. Steele, Dong Yang, Changsoo Chang, Ben Shen
Summary: In this study, two cofactorless oxygenases were characterized for their biochemical and structural properties, revealing their roles in catalyzing deformylation, ring cleavage, and epoxidation in the biosynthesis of tiancimycin A. These oxygenases are rare in nature and play important roles in natural product biosynthesis.
NATURE CHEMICAL BIOLOGY
(2023)