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Novel Features of the Polysaccharide-Digesting Gliding Bacterium Flavobacterium johnsoniae as Revealed by Genome Sequence Analysis
McBride, Mark J.1; Xie, Gary2,3; Martens, Eric C.4,5; Lapidus, Alla3; Henrissat, Bernard6,7,8; Rhodes, Ryan G.; Goltsman, Eugene3; Wang, Wei9; Xu, Jian4,9; Hunnicutt, David W.10; Staroscik, Andrew M.11; Hoover, Timothy R.12; Cheng, Yi-Qiang; Stein, Jennifer L.12
2009-11-01
Source PublicationAPPLIED AND ENVIRONMENTAL MICROBIOLOGY
ISSN0099-2240
Volume75Issue:21Pages:6864-6875
AbstractThe 6.10-Mb genome sequence of the aerobic chitin-digesting gliding bacterium Flavobacterium johnsoniae (phylum Bacteroidetes) is presented. F. johnsoniae is a model organism for studies of bacteroidete gliding motility, gene regulation, and biochemistry. The mechanism of F. johnsoniae gliding is novel, and genome analysis confirms that it does not involve well-studied motility organelles, such as flagella or type IV pili. The motility machinery is composed of Gld proteins in the cell envelope that are thought to comprise the "motor" and SprB, which is thought to function as a cell surface adhesin that is propelled by the motor. Analysis of the genome identified genes related to sprB that may encode alternative adhesins used for movement over different surfaces. Comparative genome analysis revealed that some of the gld and spr genes are found in nongliding bacteroidetes and may encode components of a novel protein secretion system. F. johnsoniae digests proteins, and 125 predicted peptidases were identified. F. johnsoniae also digests numerous polysaccharides, and 138 glycoside hydrolases, 9 polysaccharide lyases, and 17 carbohydrate esterases were predicted. The unexpected ability of F. johnsoniae to digest hemicelluloses, such as xylans, mannans, and xyloglucans, was predicted based on the genome analysis and confirmed experimentally. Numerous predicted cell surface proteins related to Bacteroides thetaiotaomicron SusC and SusD, which are likely involved in binding of oligosaccharides and transport across the outer membrane, were also identified. Genes required for synthesis of the novel outer membrane flexirubin pigments were identified by a combination of genome analysis and genetic experiments. Genes predicted to encode components of a multienzyme nonribosomal peptide synthetase were identified, as were novel aspects of gene regulation. The availability of techniques for genetic manipulation allows rapid exploration of the features identified for the polysaccharide-digesting gliding bacteroidete F. johnsoniae.; The 6.10-Mb genome sequence of the aerobic chitin-digesting gliding bacterium Flavobacterium johnsoniae (phylum Bacteroidetes) is presented. F. johnsoniae is a model organism for studies of bacteroidete gliding motility, gene regulation, and biochemistry. The mechanism of F. johnsoniae gliding is novel, and genome analysis confirms that it does not involve well-studied motility organelles, such as flagella or type IV pili. The motility machinery is composed of Gld proteins in the cell envelope that are thought to comprise the "motor" and SprB, which is thought to function as a cell surface adhesin that is propelled by the motor. Analysis of the genome identified genes related to sprB that may encode alternative adhesins used for movement over different surfaces. Comparative genome analysis revealed that some of the gld and spr genes are found in nongliding bacteroidetes and may encode components of a novel protein secretion system. F. johnsoniae digests proteins, and 125 predicted peptidases were identified. F. johnsoniae also digests numerous polysaccharides, and 138 glycoside hydrolases, 9 polysaccharide lyases, and 17 carbohydrate esterases were predicted. The unexpected ability of F. johnsoniae to digest hemicelluloses, such as xylans, mannans, and xyloglucans, was predicted based on the genome analysis and confirmed experimentally. Numerous predicted cell surface proteins related to Bacteroides thetaiotaomicron SusC and SusD, which are likely involved in binding of oligosaccharides and transport across the outer membrane, were also identified. Genes required for synthesis of the novel outer membrane flexirubin pigments were identified by a combination of genome analysis and genetic experiments. Genes predicted to encode components of a multienzyme nonribosomal peptide synthetase were identified, as were novel aspects of gene regulation. The availability of techniques for genetic manipulation allows rapid exploration of the features identified for the polysaccharide-digesting gliding bacteroidete F. johnsoniae.
SubtypeArticle
Subject Area功能基因组
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
DOI10.1128/AEM.01495-09
WOS KeywordPORPHYROMONAS-GINGIVALIS W50 ; BACILLUS-CIRCULANS WL-12 ; FLEXIRUBIN-TYPE PIGMENTS ; OUTER-MEMBRANE PROTEINS ; GRAM-NEGATIVE BACTERIA ; HUMAN GUT SYMBIONT ; CYTOPHAGA-JOHNSONAE ; BACTEROIDES-THETAIOTAOMICRON ; CELL-SURFACE ; RHODOTHERMUS-MARINUS
Indexed BySCI
Language英语
WOS Research AreaBiotechnology & Applied Microbiology ; Microbiology
WOS SubjectBiotechnology & Applied Microbiology ; Microbiology
WOS IDWOS:000271161700029
Citation statistics
Document Type期刊论文
Identifierhttp://ir.qibebt.ac.cn/handle/337004/538
Collection单细胞中心组群
Affiliation1.Univ Wisconsin, Dept Biol Sci, Milwaukee, WI 53211 USA
2.Los Alamos Natl Lab, Biosci Div, Los Alamos, NM USA
3.Joint Genome Inst, Dept Energy, Walnut Creek, CA USA
4.Washington Univ, Sch Med, St Louis, MO USA
5.Univ Michigan, Sch Med, Ann Arbor, MI USA
6.CNRS, UMR 6098, F-75700 Paris, France
7.Univ Aix Marseille 1, Marseille, France
8.Univ Aix Marseille 2, F-13284 Marseille 07, France
9.Chinese Acad Sci, BioEnergy Genome Ctr, Qingdao Inst BioEnergy & Bioproc Technol, Qingdao, Peoples R China
10.St Norbert Coll, De Pere, WI USA
11.Univ Rhode Isl, Kingston, RI 02881 USA
12.Univ Georgia, Athens, GA 30602 USA
Recommended Citation
GB/T 7714
McBride, Mark J.,Xie, Gary,Martens, Eric C.,et al. Novel Features of the Polysaccharide-Digesting Gliding Bacterium Flavobacterium johnsoniae as Revealed by Genome Sequence Analysis[J]. APPLIED AND ENVIRONMENTAL MICROBIOLOGY,2009,75(21):6864-6875.
APA McBride, Mark J..,Xie, Gary.,Martens, Eric C..,Lapidus, Alla.,Henrissat, Bernard.,...&Stein, Jennifer L..(2009).Novel Features of the Polysaccharide-Digesting Gliding Bacterium Flavobacterium johnsoniae as Revealed by Genome Sequence Analysis.APPLIED AND ENVIRONMENTAL MICROBIOLOGY,75(21),6864-6875.
MLA McBride, Mark J.,et al."Novel Features of the Polysaccharide-Digesting Gliding Bacterium Flavobacterium johnsoniae as Revealed by Genome Sequence Analysis".APPLIED AND ENVIRONMENTAL MICROBIOLOGY 75.21(2009):6864-6875.
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