- Screening and Characterization of a Cellulase Gene from the Gut Microflora of Abalone Using Metagenomic Library
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Duwoon Kim , Se-Na Kim , Keun Sik Baik , Seong Chan Park , Chae Hong Lim , Jong-Oh Kim , Tai-Sun Shin , Myung-Joo Oh , Chi Nam Seong
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J. Microbiol. 2011;49(1):141-145. Published online March 3, 2011
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DOI: https://doi.org/10.1007/s12275-011-0205-3
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745
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A metagenomic fosmid library was constructed using genomic DNA isolated from abalone intestine. Screening of a library of 3,840 clones revealed a 36 kb insert of a cellulase positive clone (pAM11E10). A shotgun clone library was constructed using the positive clone (pAM11E10) and further screening of 3,840 shotgun clones with an approximately 5 kb insert size using a Congo red overlay revealed only one cellulase positive clone (pAM11L9). The pAM11L9 consisted of a 5,293-bp DNA sequence and three open reading frames (ORFs). Among the three ORFs, cellulase activity was only shown in the recombinant protein (CelAM11) coded by ORF3, which showed 100% identity with outer membrane protein A from Vibrio alginolyticus
12G01, but no significant sequence homology to known cellulases. The expressed protein (CelAM11) has a molecular weight of approximately 37 kDa and the highest CMC hydrolysis activity was observed at pH 7.0 and 37°C. The carboxymethyl cellulase activity was determined by zymogram active staining and different degraded product profiles for CelAM11 were obtained when cellotetraose and cellopentaose were used as the substrates, while no substrate hydrolysis was observed on oligosaccharides such as cellobiose and cellotriose.
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Hai-Feng Xia, Xiao-Yu Jia, Yan-Xia Zhou, Zong-Jun Du, Da-Shuai Mu, Guan-Jun Chen Frontiers in Marine Science.2023;[Epub] CrossRef - A primer on metagenomics and next‐generation sequencing in fish gut microbiome research
Tina Kollannoor Johny, Rinu Madhu Puthusseri, Sarita Ganapathy Bhat Aquaculture Research.2021; 52(10): 4574. CrossRef - Characterization of Bacillus Species with Keratinase and Cellulase Properties Isolated from Feather Dumping Soil and Cockroach Gut
Sonika Sharma, Rajesh Kumar Prasad, Soumya Chatterjee, Angkita Sharma, Mohan G. Vairale, Kamlesh Kumar Yadav Proceedings of the National Academy of Sciences, India Section B: Biological Sciences.2019; 89(3): 1079. CrossRef - Prospects of Metagenomic Cellulases for Converting Lignocellulosic Biomass into Bio-ethanol
Sangeeta Pandey Journal of Pure and Applied Microbiology.2017; 11(2): 1079. CrossRef - Metagenomics for the development of new biocatalysts to advance lignocellulose saccharification for bioeconomic development
Salvatore Montella, Antonella Amore, Vincenza Faraco Critical Reviews in Biotechnology.2016; 36(6): 998. CrossRef - Identification and Characterization of Carboxyl Esterases of Gill Chamber-Associated Microbiota in the Deep-Sea Shrimp Rimicaris exoculata by Using Functional Metagenomics
María Alcaide, Anatoli Tchigvintsev, Mónica Martínez-Martínez, Ana Popovic, Oleg N. Reva, Álvaro Lafraya, Rafael Bargiela, Taras Y. Nechitaylo, Ruth Matesanz, Marie-Anne Cambon-Bonavita, Mohamed Jebbar, Michail M. Yakimov, Alexei Savchenko, Olga V. Golysh Applied and Environmental Microbiology.2015; 81(6): 2125. CrossRef - Purification and characterization of a carboxymethyl cellulase from Artemia salina
Hyun Woo Zin, Kwang-Hyun Park, Tae Jin Choi Biochemical and Biophysical Research Communications.2014; 443(1): 194. CrossRef - Cloning and functional characterization of endo-β-1,4-glucanase gene from metagenomic library of vermicompost
Muhammad Yasir, Haji Khan, Syed Sikander Azam, Amar Telke, Seon Won Kim, Young Ryun Chung Journal of Microbiology.2013; 51(3): 329. CrossRef - Processive and nonprocessive cellulases for biofuel production—lessons from bacterial genomes and structural analysis
David B. Wilson Applied Microbiology and Biotechnology.2012; 93(2): 497. CrossRef - Gene Cloning of Endoglucanase Cel5A from Cellulose-Degrading Paenibacillus xylanilyticus KJ-03 and Purification and Characterization of the Recombinant Enzyme
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- Detection of Hepatitis A Virus from Oyster by Nested PCR Using Efficient Extraction and Concentration Method
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Duwoon Kim , Seok-Ryel Kim , Ki-Sung Kwon , Ji-Won Lee , Myung-Joo Oh
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J. Microbiol. 2008;46(4):436-440. Published online August 31, 2008
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DOI: https://doi.org/10.1007/s12275-008-0131-1
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700
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The molecular methods using polymerase chain reaction have been proposed as useful tools for the identification of viral pathogens in food and water. However, the PCR-based methods are highly dependent on the methods of virus concentration and nucleic acid purification due to the low sensitivity of PCR in the presence of PCR inhibitors. We developed TPTT [tris elution buffer-PEG-TRIzol-poly(dT) magnetic bead] protocol in order to detect hepatitis A virus (HAV) inoculated in oyster digestive glands. The detection limit of HAV precipitated with zirconium hydroxide was 105 fold less sensitive in a nested PCR than that precipitated the HAV supernatant twice with PEG/NaCl (16% polyethylene glycol 6,000, 0.525 M NaCl) in a 1:2 (v/v) ratio, which provided an efficient detection of 0.0148 PFU/g from approximately 0.05 g of oyster homogenate. This method is efficient for potential use in the detection of HAV from shellfish and is more sensitive than most currently published tests.
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Yijing Li, Liang Xue, Junshan Gao, Weicheng Cai, Yanhui Liang, Zilei Zhang, Linping Wang, Xiaojing Hong, Luobing Meng, Mingfang Xu, Qingping Wu, Jumei Zhang International Journal of Food Microbiology.2023; 384: 109957. CrossRef - Application of Concanavalin A–Linked Magnetic Beads for the Detection of Hepatitis A Virus
Sang-Mu Ko, Se-Young Cho, Myung-Joo Oh, Joseph Kwon, Bipin Vaidya, Duwoon Kim Journal of Food Protection.2018; 81(12): 1997. CrossRef - Molecular Detection of theSxtaGene from Saxitoxin-ProducingAlexandrium minutumin Commercial Oysters
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Therapeutic Effect of Carboxymethylated and Quanternized Chitosan on Insulin Resistance in High-Fat-Diet-Induced Rats and 3T3-L1 Adipocytes
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- Acinetobacter soli sp. nov., Isolated from Forest Soil
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Duwoon Kim , Keun Sik Baik , Mi Sun Kim , Seong Chan Park , Seon Suk Kim , Moon Soo Rhee , Young Se Kwak , Chi Nam Seong
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J. Microbiol. 2008;46(4):396-401. Published online August 31, 2008
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DOI: https://doi.org/10.1007/s12275-008-0118-y
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1,218
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A non-motile and rod shaped bacterium, designated strain B1T, was isolated from forest soil at Mt. Baekwoon, Republic of Korea. Cells were Gram-negative, catalase-positive, and oxidase-negative. The major fatty acids were 9-octadecenoic acid (C18:1 ω9c; 42%) and hexadecanoic acid (C16:0; 25.9%) and summed feature 3 (comprising iso-C15:0 2-OH and/or C16:1 ω7c; 10.0%). The DNA G+C content was 44.1 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain B1T formed a lineage within the genus Acinetobacter and was closely related to A. baylyi DSM 14961T (98.6% sequence similarity), followed by A. baumannii DSM 30007T (97.4%), A. calcoaceticus DSM 30006T (97.0%), and 3 genomic species (96.8~7.6%). Phenotypic characteristics, gyrB gene sequence analysis and DNA-DNA relatedness data distinguished strain B1T from type strains of A. baylyi, A. baumannii, and A. calcoaceticus. On the basis of the evidence presented in this study, strain B1T represents a novel species of the genus Acinetobacter, for which the name Acinetobacter soli sp. nov. is proposed. The type strain is B1T (= KCTC 22184T= JCM 15062T).
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Acinetobacter
puyangensis sp. nov., isolated from the healthy and diseased part of Populus ×euramericana canker bark
Yong Li, Chun-gen Piao, Yu-chao Ma, Wei He, Hai-ming Wang, Ju-pu Chang, Li-min Guo, Xi-zhuo Wang, Shou-jiang Xie, Min-wei Guo
International Journal of Systematic and Evolutionary Microbiology
.2013; 63(Pt_8): 2963. CrossRef - Complete Genome Sequence of Bacteriophage phiAC-1 Infecting Acinetobacter soli Strain KZ-1
Ji Hyung Kim, Chulhong Oh, Casiano H. Choresca, Sang Phil Shin, Jee Eun Han, Jin Woo Jun, Soo-Jin Heo, Do-Hyung Kang, Se Chang Park Journal of Virology.2012; 86(23): 13131. CrossRef -
Acinetobacter indicus sp. nov., isolated from a hexachlorocyclohexane dump site
Jaya Malhotra, Shailly Anand, Swati Jindal, Raman Rajagopal, Rup Lal
International Journal of Systematic and Evolutionary Microbiology
.2012; 62(Pt_12): 2883. CrossRef - Genetic Diversity of Endophytic Diazotrophs of the Wild Rice, Oryza alta and Identification of the New Diazotroph, Acinetobacter oryzae sp. nov.
Hassan Javed Chaudhary, Guixiang Peng, Mei Hu, Yumei He, Lijuan Yang, Yan Luo, Zhiyuan Tan Microbial Ecology.2012; 63(4): 813. CrossRef - Acinetobacter: A potential reservoir and dispenser for β-lactamases
Wei-Hua Zhao, Zhi-Qing Hu Critical Reviews in Microbiology.2012; 38(1): 30. CrossRef - First Carbapenem-Resistant Isolates of Acinetobacter soli in Japan
Shiro Endo, Mina Sasano, Hisakazu Yano, Kazuaki Arai, Tetsuji Aoyagi, Masumitsu Hatta, Yoshiaki Gu, Mitsuhiro Yamada, Koichi Tokuda, Miho Ogawa, Masahiro Shimojima, Miho Kitagawa, Hiroyuki Kunishima, Yoichi Hirakata, Mitsuo Kaku Antimicrobial Agents and Chemotherapy.2012; 56(5): 2786. CrossRef - Acinetobacter soli as a Cause of Bloodstream Infection in a Neonatal Intensive Care Unit
Flávia Lúcia Piffano Costa Pellegrino, Verônica V. Vieira, Paulo Victor Pereira Baio, Rosana Maria R. dos Santos, Ana Lucia Alves dos Santos, Nadir Gomes de Barros Santos, Martha Maria Gaudie Ley Meohas, Rodrigo Teixeira Santos, Talita Coelho de Souza, Ru Journal of Clinical Microbiology.2011; 49(6): 2283. CrossRef - UV-resistant Acinetobacter sp. isolates from Andean wetlands display high catalase activity
Cecilia Di Capua, Ana Bortolotti, María Eugenia Farías, Néstor Cortez FEMS Microbiology Letters.2011; 317(2): 181. CrossRef - Species identification and molecular characterization of Acinetobacter spp. blood culture isolates from Norway
Nabil Karah, Bjørg Haldorsen, Kristin Hegstad, Gunnar Skov Simonsen, Arnfinn Sundsfjord, Ørjan Samuelsen Journal of Antimicrobial Chemotherapy.2011; 66(4): 738. CrossRef - Acinetobacter brisouii sp. nov., isolated from a wetland in Korea
Rangasamy Anandham, Hang-Yeon Weon, Soo-Jin Kim, Yi-Seul Kim, Byung-Yong Kim, Soon-Wo Kwon The Journal of Microbiology.2010; 48(1): 36. CrossRef - Do Biofilm Formation and Interactions with Human Cells Explain the Clinical Success of Acinetobacter baumannii?
Anna de Breij, Lenie Dijkshoorn, Ellen Lagendijk, Joke van der Meer, Abraham Koster, Guido Bloemberg, Ron Wolterbeek, Peterhans van den Broek, Peter Nibbering, Olivier Neyrolles PLoS ONE.2010; 5(5): e10732. CrossRef - List of new names and new combinations previously effectively, but not validly, published
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY.2009; 59(7): 1555. CrossRef
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