The Genome of the Alga-Associated Marine Flavobacterium Formosa agariphila KMM 3901T Reveals a Broad Potential for Degradation of Algal Polysaccharides

被引:181
作者
Mann, Alexander J. [1 ,2 ]
Hahnke, Richard L. [1 ]
Huang, Sixing [1 ]
Werner, Johannes [1 ,2 ]
Xing, Peng [1 ]
Barbeyron, Tristan [3 ]
Huettel, Bruno [4 ]
Stueber, Kurt [4 ]
Reinhardt, Richard [4 ]
Harder, Jens [1 ]
Gloeckner, Frank Oliver [1 ,2 ]
Amann, Rudolf I. [1 ]
Teeling, Hanno [1 ]
机构
[1] Max Planck Inst Marine Microbiol, Bremen, Germany
[2] Jacobs Univ Bremen gGmbH, Bremen, Germany
[3] Univ Paris 06, Natl Ctr Sci Res, UMR Marine Plants & Biomol 7139, Roscoff, Bretagne, France
[4] Max Planck Genome Ctr Cologne, Cologne, Germany
关键词
SP-NOV; GEN; NOV; PROLYL OLIGOPEPTIDASE; BACTERIAL COMMUNITIES; DEPENDENT TRANSPORT; OUTER-MEMBRANE; FAMILY; CARBOHYDRATE; PROTEIN; TONB;
D O I
10.1128/AEM.01937-13
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
In recent years, representatives of the Bacteroidetes have been increasingly recognized as specialists for the degradation of macromolecules. Formosa constitutes a Bacteroidetes genus within the class Flavobacteria, and the members of this genus have been found in marine habitats with high levels of organic matter, such as in association with algae, invertebrates, and fecal pellets. Here we report on the generation and analysis of the genome of the type strain of Formosa agariphila (KMM 3901(T)), an isolate from the green alga Acrosiphonia sonderi. F. agariphila is a facultative anaerobe with the capacity for mixed acid fermentation and denitrification. Its genome harbors 129 proteases and 88 glycoside hydrolases, indicating a pronounced specialization for the degradation of proteins, polysaccharides, and glycoproteins. Sixty-five of the glycoside hydrolases are organized in at least 13 distinct polysaccharide utilization loci, where they are clustered with TonB-dependent receptors, SusD-like proteins, sensors/transcription factors, transporters, and often sulfatases. These loci play a pivotal role in bacteroidetal polysaccharide biodegradation and in the case of F. agariphila revealed the capacity to degrade a wide range of algal polysaccharides from green, red, and brown algae and thus a strong specialization of toward an alga-associated lifestyle. This was corroborated by growth experiments, which confirmed usage particularly of those monosaccharides that constitute the building blocks of abundant algal polysaccharides, as well as distinct algal polysaccharides, such as laminarins, xylans, and kappa-carrageenans.
引用
收藏
页码:6813 / 6822
页数:10
相关论文
共 82 条
[1]   The RAST server: Rapid annotations using subsystems technology [J].
Aziz, Ramy K. ;
Bartels, Daniela ;
Best, Aaron A. ;
DeJongh, Matthew ;
Disz, Terrence ;
Edwards, Robert A. ;
Formsma, Kevin ;
Gerdes, Svetlana ;
Glass, Elizabeth M. ;
Kubal, Michael ;
Meyer, Folker ;
Olsen, Gary J. ;
Olson, Robert ;
Osterman, Andrei L. ;
Overbeek, Ross A. ;
McNeil, Leslie K. ;
Paarmann, Daniel ;
Paczian, Tobias ;
Parrello, Bruce ;
Pusch, Gordon D. ;
Reich, Claudia ;
Stevens, Rick ;
Vassieva, Olga ;
Vonstein, Veronika ;
Wilke, Andreas ;
Zagnitko, Olga .
BMC GENOMICS, 2008, 9 (1)
[2]   Target cell specificity of a bacteriocin molecule: A C-terminal signal directs lysostaphin to the cell wall of Staphylococcus aureus [J].
Baba, T ;
Schneewind, O .
EMBO JOURNAL, 1996, 15 (18) :4789-4797
[3]   Zobellia galactanovorans gen. nov., sp nov., a marine species of Flavobacteriaceae isolated from a red alga, and classification of [Cytophaga] uliginosa (ZoBell and Upham 1944) Reichenbach 1989 as Zobellia uliginosa gen. nov., comb. nov. [J].
Barbeyron, T ;
L'Haridon, S ;
Corre, E ;
Kloareg, B ;
Potin, P .
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 2001, 51 :985-997
[4]   Whole genome analysis of the marine Bacteroidetes 'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter [J].
Bauer, Margarete ;
Kube, Michael ;
Teeling, Hanno ;
Richter, Michael ;
Lombardot, Thierry ;
Allers, Elke ;
Wuerdemann, Chris A. ;
Quast, Christian ;
Kuhl, Heiner ;
Knaust, Florian ;
Woebken, Dagmar ;
Bischof, Kerstin ;
Mussmann, Marc ;
Choudhuri, Jomuna V. ;
Meyer, Folker ;
Reinhardt, Richard ;
Amann, Rudolf I. ;
Gloeckner, Frank Oliver .
ENVIRONMENTAL MICROBIOLOGY, 2006, 8 (12) :2201-2213
[5]   Bacterial communities of some brown and red algae from Peter the Great Bay, the Sea of Japan [J].
Beleneva, I. A. ;
Zhukova, N. V. .
MICROBIOLOGY, 2006, 75 (03) :348-357
[6]   Plant Carbohydrate Scavenging through TonB-Dependent Receptors: A Feature Shared by Phytopathogenic and Aquatic Bacteria [J].
Blanvillain, Servane ;
Meyer, Damien ;
Boulanger, Alice ;
Lautier, Martine ;
Guynet, Catherine ;
Denance, Nicolas ;
Vasse, Jacques ;
Lauber, Emmanuelle ;
Arlat, Matthieu .
PLOS ONE, 2007, 2 (02)
[7]   N-terminal processing:: the methionine aminopeptidase and Nα-acetyl transferase families [J].
Bradshaw, RA ;
Brickey, WW ;
Walker, KW .
TRENDS IN BIOCHEMICAL SCIENCES, 1998, 23 (07) :263-267
[8]   The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics [J].
Cantarel, Brandi L. ;
Coutinho, Pedro M. ;
Rancurel, Corinne ;
Bernard, Thomas ;
Lombard, Vincent ;
Henrissat, Bernard .
NUCLEIC ACIDS RESEARCH, 2009, 37 :D233-D238
[9]   Biochemical analysis of interactions between outer membrane proteins that contribute to starch utilization by Bacteroides thetaiotaomicron [J].
Cho, KH ;
Salyers, AA .
JOURNAL OF BACTERIOLOGY, 2001, 183 (24) :7224-7230
[10]   Why are there so many carbohydrate-active enzyme-related genes in plants? [J].
Coutinho, PM ;
Starn, M ;
Blanc, E ;
Henrissat, B .
TRENDS IN PLANT SCIENCE, 2003, 8 (12) :563-565