Component identification of electron transport chains in curdlan-producing <Emphasis Type="Italic">Agrobacterium</Emphasis> sp. ATCC 31749 and its genome-specific prediction using comparative genome and phylogenetic trees analysis |
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Authors: | Hongtao Zhang Joao Carlos Setubal Xiaobei Zhan Zhiyong Zheng Lijun Yu Jianrong Wu Dingqiang Chen |
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Institution: | (1) Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, 214122, China;(2) Department of Computer Science, Virginia Polytechnic Institute and State University, Blacksburg, VA 24060, USA;(3) Virginia Bioinformatics Institute, Virginia Polytechnic Institute and State University, Blacksburg, VA 24060, USA;(4) Present address: Glycoscience Laboratory, Faculty of Medicine, Imperial College London, Northwick Park Campus, London, HA1 3GX, UK; |
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Abstract: | Agrobacterium sp. ATCC 31749 (formerly named Alcaligenes faecalis var. myxogenes) is a non-pathogenic aerobic soil bacterium used in large scale biotechnological production of curdlan. However, little is
known about its genomic information. DNA partial sequence of electron transport chains (ETCs) protein genes were obtained
in order to understand the components of ETC and genomic-specificity in Agrobacterium sp. ATCC 31749. Degenerate primers were designed according to ETC conserved sequences in other reported species. DNA partial
sequences of ETC genes in Agrobacterium sp. ATCC 31749 were cloned by the PCR method using degenerate primers. Based on comparative genomic analysis, nine electron
transport elements were ascertained, including NADH ubiquinone oxidoreductase, succinate dehydrogenase complex II, complex
III, cytochrome c, ubiquinone biosynthesis protein ubiB, cytochrome d terminal oxidase, cytochrome bo terminal oxidase, cytochrome cbb
3-type terminal oxidase and cytochrome caa
3-type terminal oxidase. Similarity and phylogenetic analyses of these genes revealed that among fully sequenced Agrobacterium species, Agrobacterium sp. ATCC 31749 is closest to Agrobacterium tumefaciens C58. Based on these results a comprehensive ETC model for Agrobacterium sp. ATCC 31749 is proposed. |
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