Article
Biotechnology & Applied Microbiology
Yongjae Lee, Namil Lee, Soonkyu Hwang, Woori Kim, Suhyung Cho, Bernhard O. Palsson, Byung-Kwan Cho
Summary: This study utilizes Next-Generation Sequencing techniques to analyze Streptomyces avermitilis and investigates its genome organization and gene expression regulation. The findings provide insights into the transcriptional and translational control of S. avermitilis and enhance its potential as a producer of secondary metabolites.
Article
Biochemistry & Molecular Biology
Jing Cui, Yibing Wang, Andong Zhou, Shuhui He, Zihan Mao, Ting Cao, Nan Wang, Ye Yuan, Helen Osborn
Summary: In this study, a novel 13-galactosidase/oc-L-arabinopyranosidase (PpBGal42A) from Paenibacillus polymyxa was identified and characterized. PpBGal42A showed significant activity in hydrolyzing lactose and degrading citrus pectin. This finding provides a potentially effective tool for the food industry.
Article
Biochemistry & Molecular Biology
Vitchan Kim, Dogyeong Kim, Sunggyu Lee, Gyuhyeong Lee, Lin-Woo Kang, Donghak Kim
Summary: This study characterized the biochemical function and structural aspects of CYP184A1, a cytochrome P450 gene product in Streptomyces avermitilis, showing that it induces an epoxidation reaction to produce 9,10-epoxystearic acid. Analysis revealed the enzyme's kinetic parameters and its unique substrate pocket architecture for binding linear chain fatty acids. Crystal structures of CYP184A1 demonstrated its role in the oxidative metabolism of fatty acids in Streptomyces species.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2022)
Article
Biotechnology & Applied Microbiology
Xiaojun Pan, Jun Cai
Summary: By mutagenesis and CHC tolerance screening, a high-yielding strain XY-62 was obtained, which showed a 1.3-fold increase in doramectin fermentation yield compared to S. avermitilis N72. The strain was more adaptable to temperature, pH, and CHC concentration, and exhibited enhanced mycelial growth viability. Further studies revealed that glucose supplementation during the fermentation process could further increase doramectin accumulation, with a yield of 1068 μg/mL achieved in scaled-up cultures. This highlights the potential for industrial production of doramectin using S. avermitilis.
FERMENTATION-BASEL
(2023)
Article
Chemistry, Applied
Huan Qi, Cheng-Hong Zhang, Shao-Yong Zhang, Wen-Shuai Song, Wen-Sheng Xiang, Li-Qin Zhang, Ji-Dong Wang
Summary: A new beta-class milbemycin, 13 alpha-hydroxy milbemycin beta(6) (1), was isolated from the fermentation broth of a mutant of genetically engineered strain Streptomyces avermitilis AVE-H39. Its structure and absolute configuration were elucidated by extensive spectroscopic methods and confirmed by single crystal X-ray diffraction.
NATURAL PRODUCT RESEARCH
(2023)
Article
Biotechnology & Applied Microbiology
Yi Hao, Yanting You, Zhi Chen, Jilun Li, Gang Liu, Ying Wen
Summary: This study successfully increased the production of avermectins B1a, a potent anthelmintic agent, in Streptomyces avermitilis by combining multiple strategies.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Crystallography
Sangeun Jeon, Jisub Hwang, Wanki Yoo, Joo Won Chang, Hackwon Do, Han-Woo Kim, Kyeong Kyu Kim, Jun Hyuck Lee, T. Doohun Kim
Summary: This report presents the isolation, characterization, and crystallographic study of a novel cold-active esterase HaEst1 from a halophilic bacterium. The enzyme was successfully cloned, expressed, purified, and crystallized, with diffraction data collected and unit cell parameters determined.
Article
Biochemistry & Molecular Biology
Kanako Sugawara, Toru Yoshida, Rena Hirashima, Ryoko Toriumi, Hotaka Akiyama, Yurika Kakuta, Yuki Ishige, Yasushi Sugano
Summary: DyP-type peroxidases are a family of heme peroxidases known for their ability to degrade anthraquinone dyes, with subclassification into three classes based on genome sequences. SaDyP1 and SaDyP2, both members of class V, exhibit similar characteristics and substrate specificity, showing expression in mycelia of wild-type S. avermitilis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Dan Wu, Guanyu Zhu, Yufei Zhang, Yan Wu, Chunlei Zhang, Jiayi Shi, Xiaofeng Zhu, Xiaohuan Yuan
Summary: In this study, the cloning, expression, purification, and crystallization of Cbs2 from Saccharomyces cerevisiae were successfully conducted for structural studies. Analysis indicated that the Cbs2 protein may form a dimer. Preliminary X-ray crystallographic studies suggested the presence of two Cbs2 molecules in the asymmetric unit.
Article
Crystallography
Hackwon Do, Ying Wang, Chang Woo Lee, Wanki Yoo, Sangeun Jeon, Jisub Hwang, Min Ju Lee, Kyeong Kyu Kim, Han-Woo Kim, Jun Hyuck Lee, T. Doohun Kim
Summary: In this study, a gene encoding LgEstI was cloned from a bacterial fish pathogen, Lactococcus garvieae. The enzymatic activity and crystal structure of LgEstI were analyzed. The results showed that LgEstI has high esterase activity and the crystal structure of LgEstI was successfully determined. These findings contribute to the understanding of the function of LgEstI and provide a basis for protein engineering studies.
Article
Multidisciplinary Sciences
Nami Lee, Mira Choi, Woori Kim, Soonkyu Hwang, Yongjae Lee, Ji Hun Kim, Gahyeon Kim, Hyeseong Kim, Suhyung Cho, Sun Chang Kim, Bernhard Palsson, Kyoung-Soon Jang, Byung-Kwan Cho
Summary: Streptomyces species have been studied for their medically important secondary metabolites, with considerable diversity between strains. This study reevaluated ten strains of Streptomyces venezuelae, revealing misclassification in seven of the strains. By mining secondary metabolite biosynthetic gene clusters and screening metabolites, a total of 59 secondary metabolites were identified.
Article
Biotechnology & Applied Microbiology
Xiaorui Lu, Qian Wang, Mengyao Yang, Zhi Chen, Jilun Li, Ying Wen
Summary: This study demonstrates the crucial role of HspR in coordinating biological processes in Streptomyces species such as avermectin production, morphological development, and stress responses. Additionally, HspR acts as a dual repressor/activator, and interacts with PhoP to regulate the heat shock response. The findings provide insights into the regulatory roles and mechanisms of HspR and PhoP, as well as potential methods for antibiotic overproduction in Streptomyces species.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Mengya Lyu, Yaqing Cheng, Yujie Dai, Ying Wen, Yuan Song, Jilun Li, Zhi Chen
Summary: This study reveals the crucial regulatory roles of the zinc-sensing regulator Zur in zinc homeostasis, biosynthesis of avermectin and oligomycin, and morphological differentiation in Streptomyces avermitilis.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Jing Guo, Yi Wang, Wenjun Gao, Xinrou Wang, Xin Gao, Zaiwei Man, Zhiqiang Cai, Qing Qing
Summary: The novel glycoside hydrolase family 46 chitosanase SaCsn46A from Streptomyces avermitilis has been successfully cloned and functionally expressed. This enzyme shows high stability and activity in moderate temperature and pH conditions, with the ability to hydrolyze a variety of polysaccharides linked by beta-1,4-glycosidic bonds. Moreover, it can be enhanced by divalent metal ions like Mg2+ and Mn2+, making it a promising candidate for producing glucosamine and chitooligosaccharides from chitosan.
APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Munenori Takehara, Masayuki Saimura, Haruka Inaba, Yoshinao Kato, Shogo Muro, Tatsuki Matsunaga, Kazuya Yamanaka
Summary: Polymers of basic amino acids function as polycationic compounds with various biological properties under physiological conditions, such as antimicrobial and antiviral activities, immunopotentiating ability, and DNA-binding activity. The ε-PL and PAP produced by some Streptomyces strains have potential as food preservatives and inhibitors with wide applications in various fields.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Nobuhiro Suzuki, Naomi Kishine, Zui Fujimoto, Mutsumi Sakurai, Mitsuru Momma, Jin-A. Ko, Seung-Hee Nam, Atsuo Kimura, Young-Min Kim
JOURNAL OF BIOCHEMISTRY
(2016)
Editorial Material
Biochemistry & Molecular Biology
Wade Abbott, Orly Alber, Ed Bayer, Jean-Guy Berrin, Alisdair Boraston, Harry Brumer, Ryszard Brzezinski, Anthony Clarke, Beatrice Cobucci-Ponzano, Darrell Cockburn, Pedro Coutinho, Mirjam Czjzek, Bareket Dassa, Gideon John Davies, Vincent Eijsink, Jens Eklof, Alfons Felice, Elizabeth Ficko-Blean, Geoff Pincher, Thierry Fontaine, Zui Fujimoto, Kiyotaka Fujita, Shinya Fushinobu, Harry Gilbert, Tracey Gloster, Ethan Goddard-Borger, Ian Greig, Jan-Hendrik Hehemann, Glyn Hemsworth, Bernard Henrissat, Masafumi Hidaka, Ramon Hurtado-Guerrero, Kiyohiko Igarashi, Takuya Ishida, Stefan Janecek, Seino Jongkees, Nathalie Juge, Satoshi Kaneko, Takane Katayama, Motomitsu Kitaoka, Naotake Konno, Daniel Kracher, Anna Kulminskaya, Alicia Lammerts van Bueren, Sine Larsen, Junho Lee, Markus Linder, Leila LoLeggio, Roland Ludwig, Ana Luis, Mirko Maksimainen, Brian Mark, Richard McLean, Gurvan Michel, Gurvan Michel, Cedric Montanier, Marco Moracci, Haruhide Mori, Hiroyuki Nakai, Wim Nerinckx, Takayuki Ohnuma, Richard Pickersgill, Kathleen Piens, Tirso Pons, Etienne Rebuffet, Peter Reilly, Magali Remaud-Simeon, Brian Rempel, Kyle Robinson, David Rose, Juha Rouvinen, Wataru Saburi, Yuichi Sakamoto, Mats Sandgren, Fathima Shaikh, Yuval Shoham, Franz St John, Jerry Stahlberg, Michael Suits, Gerlind Sulzenbacher, Tomomi Sumida, Ryuichiro Suzuki, Birte Svensson, Toki Taira, Ed Taylor, Takashi Tonozuka, Breeanna Urbanowicz, Gustav Vaaje-Kolstad, Wim Van den Ende, Annabelle Varrot, Maxime Versluys, Florence Vincent, David Vocadlo, Warren Wakarchuk, Tom Wennekes, Rohan Williams, Spencer Williams, David Wilson, Stephen Withers, Katsuro Yaoi, Vivian Yip, Ran Zhang
Article
Biochemistry & Molecular Biology
Tomohiko Matsuzawa, Satoshi Kaneko, Naomi Kishine, Zui Fujimoto, Katsuro Yaoi
JOURNAL OF BIOCHEMISTRY
(2017)
Article
Biochemistry & Molecular Biology
Tomohiko Matsuzawa, Masahiro Watanabe, Yusuke Nakamichi, Zui Fujimoto, Katsuro Yaoi
JOURNAL OF STRUCTURAL BIOLOGY
(2019)
Article
Immunology
Satoko Watanabe, Zui Fujimoto, Masaji Mase
Article
Biochemistry & Molecular Biology
Koji Teramoto, Sosyu Tsutsui, Tomoko Sato, Zui Fujimoto, Satoshi Kaneko
Summary: The substrate specificities of glycoside hydrolase families from Bacillus halodurans C-125 were investigated, showing that different xylosidases exhibit varying efficiency and order in hydrolyzing xylooligosaccharides.
APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY
(2021)
Article
Microbiology
Kasumi Takeuchi, Wataru Tsuchiya, Zui Fujimoto, Kosumi Yamada, Nobutaka Someya, Toshimasa Yamazaki
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Biotechnology & Applied Microbiology
Zui Fujimoto, Naomi Kishine, Koji Teramoto, Sosyu Tsutsui, Satoshi Kaneko
Summary: This study elucidated the substrate specificity and subsite structures of a GH11 xylanase from Streptomyces olivaceoviridis. SoXyn11B showed no affinity for the subsites at the ends of the glycosidic bond, with the sugar-binding energy highest at subsite -2. The xylanase produced different branched oligosaccharides compared to a GH10 xylanase from the same species.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biochemical Research Methods
Yuji Ashikawa, Zui Fujimoto, Kengo Inoue, Hisakazu Yamane, Hideaki Nojiri
Summary: The study resolved two crystal structures of class III CARDO-R, revealing the absence of FAD in the type II structure and significant conformational changes to the FAD-binding domain and C-terminus. Docking simulation of NADH into CARDO-R-J3 suggested that shifts of residues at the C-terminus may facilitate electron transfer. Differences in domain arrangement compared to RO reductases from the ferredoxin-NADP reductase family may correspond to differences in structures of redox partners.
ACTA CRYSTALLOGRAPHICA SECTION D-STRUCTURAL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Zui Fujimoto, Le Thi Thu Hong, Naomi Kishine, Nobuhiro Suzuki, Keitarou Kimura
Summary: The study revealed that the dominant allele of yabJ gene caused by a single amino acid mutation leads to changes in B. subtilis production, and the structural change may be related to the inversion of the fifth beta-strand, affecting its ligand-binding capability.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Ryuichiro Suzuki, Zui Fujimoto, Satoshi Kaneko, Tsunemi Hasegawa, Atsushi Kuno
JOURNAL OF APPLIED GLYCOSCIENCE
(2018)
Article
Biotechnology & Applied Microbiology
Tomoko Maehara, Haruka Yagi, Tomoko Sato, Mayumi Ohnishi-Kameyama, Zui Fujimoto, Kei Kamino, Yoshiaki Kitamura, Franz St John, Katsuro Yaoi, Satoshi Kaneko
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2018)
Article
Biochemistry & Molecular Biology
Zui Fujimoto, Nobuhiro Suzuki, Naomi Kishine, Hitomi Ichinose, Mitsuru Momma, Atsuo Kimura, Kazumi Funane
BIOCHEMICAL JOURNAL
(2017)
Article
Biochemistry & Molecular Biology
Zui Fujimoto, Naomi Kishine, Nobuhiro Suzuki, Ryuichiro Suzuki, Daiki Mizushima, Mitsuru Momma, Keitarou Kimura, Kazumi Funane
BIOSCIENCE REPORTS
(2017)
Article
Biotechnology & Applied Microbiology
Hitomi Ichinose, Ryuichiro Suzuki, Takatsugu Miyazaki, Keitarou Kimura, Mitsuru Momma, Nobuhiro Suzuki, Zui Fujimoto, Atsuo Kimura, Kazumi Funane
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2017)