A genomic approach to the cryptic secondary metabolome of the anaerobic world

被引：74

作者：

Letzel, Anne-Catrin ^{[1
]}

Pidot, Sacha J. ^{[1
]}

Hertweck, Christian ^{[1
,2
]}

机构：

[1] Leibniz Inst Nat Prod Res & Infect Biol HKI, D-07745 Jena, Germany

[2] Univ Jena, Chair Nat Prod Chem, Jena, Germany

来源：

NATURAL PRODUCT REPORTS | 2013年 / 30卷 / 03期

关键词：

SULFATE-REDUCING BACTERIUM; BIOSYNTHETIC GENE-CLUSTER; NONRIBOSOMAL PEPTIDE SYNTHETASES; PSEUDOMONAS-FLUORESCENS PF-5; EXTENSIVE DNA INVERSIONS; TO-HEAD HYDROCARBON; POLYKETIDE SYNTHASE; PROPIONIBACTERIUM-ACNES; CLOSTRIDIUM-DIFFICILE; SP NOV;

D O I：

10.1039/c2np20103h

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

A total of 211 complete and published genomes from anaerobic bacteria are analysed for the presence of secondary metabolite biosynthesis gene clusters, in particular those tentatively coding for polyketide synthases (PKS) and non-ribosomal peptide synthetases (NRPS). We investigate the distribution of these gene clusters according to bacterial phylogeny and, if known, correlate these to the type of metabolic pathways they encode. The potential of anaerobes as secondary metabolite producers is highlighted.

引用

页码：392 / 428

页数：37

共 323 条

[1] Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov and emendations of the family Spirochaetaceae and the genus Sphaerochaeta [J].

Abt, Birte ;

Han, Cliff ;

Scheuner, Carmen ;

Lu, Megan ;

Lapidus, Alla ;

Nolan, Matt ;

Lucas, Susan ;

Hammon, Nancy ;

Deshpande, Shweta ;

Cheng, Jan-Fang ;

Tapia, Roxanne ;

Goodwin, Lynne A. ;

Pitluck, Sam ;

Liolios, Konstantinos ;

Pagani, Ioanna ;

Ivanova, Natalia ;

Mavromatis, Konstantinos ;

Mikhailova, Natalia ;

Huntemann, Marcel ;

Pati, Amrita ;

Chen, Amy ;

Palaniappan, Krishna ;

Land, Miriam ;

Hauser, Loren ;

Brambilla, Evelyne-Marie ;

Rohde, Manfred ;

Spring, Stefan ;

Gronow, Sabine ;

Goeker, Markus ;

Woyke, Tanja ;

Bristow, James ;

Eisen, Jonathan A. ;

Markowitz, Victor ;

Hugenholtz, Philip ;

Kyrpides, Nikos C. ;

Klenk, Hans-Peter ;

Detter, John C. .

STANDARDS IN GENOMIC SCIENCES, 2012, 6 (02) :194-209

[2]

AIBA A, 1989, J BIOL CHEM, V264, P21239

[3] Toll receptor families: structure and function [J].

Akira, S .

SEMINARS IN IMMUNOLOGY, 2004, 16 (01) :1-2

[4] The genome of Geobacter bemidjiensis, exemplar for the subsurface clade of Geobacter species that predominate in Fe(III)-reducing subsurface environments [J].

Aklujkar, Muktak ;

Young, Nelson D. ;

Holmes, Dawn ;

Chavan, Milind ;

Risso, Carla ;

Kiss, Hajnalka E. ;

Han, Cliff S. ;

Land, Miriam L. ;

Lovley, Derek R. .

BMC GENOMICS, 2010, 11

[5] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[6] SBSPKS: structure based sequence analysis of polyketide synthases [J].

Anand, Swadha ;

Prasad, M. V. R. ;

Yadav, Gitanjali ;

Kumar, Narendra ;

Shehara, Jyoti ;

Ansari, Md. Zeeshan ;

Mohanty, Debasisa .

NUCLEIC ACIDS RESEARCH, 2010, 38 :W487-W496

[7] Complete genome sequence of the thermophilic sulfate-reducing ocean bacterium Thermodesulfatator indicus type strain (CIR29812T) [J].

Anderson, Iain ;

Saunders, Elizabeth ;

Lapidus, Alla ;

Nolan, Matt ;

Lucas, Susan ;

Tice, Hope ;

Del Rio, Tijana Glavina ;

Cheng, Jan-Fang ;

Han, Cliff ;

Tapia, Roxanne ;

Goodwin, Lynne A. ;

Pitluck, Sam ;

Liolios, Konstantinos ;

Mavromatis, Konstantinos ;

Pagani, Ioanna ;

Ivanova, Natalia ;

Mikhailova, Natalia ;

Pati, Amrita ;

Chen, Amy ;

Palaniappan, Krishna ;

Land, Miriam ;

Hauser, Loren ;

Jeffries, Cynthia D. ;

Chang, Yun-juan ;

Brambilla, Evelyne-Marie ;

Rohde, Manfred ;

Spring, Stefan ;

Goeker, Markus ;

Detter, John C. ;

Woyke, Tanja ;

Bristow, James ;

Eisen, Jonathan A. ;

Markowitz, Victor ;

Hugenholtz, Philip ;

Kyrpides, Nikos C. ;

Klenk, Hans-Peter .

STANDARDS IN GENOMIC SCIENCES, 2012, 6 (02) :155-164

[8] Genome Sequence of the Polysaccharide-Degrading, Thermophilic Anaerobe Spirochaeta thermophila DSM 6192 [J].

Angelov, Angel ;

Liebl, Susanne ;

Ballschmiter, Meike ;

Boemeke, Mechthild ;

Lehmann, Ruediger ;

Liesegang, Heiko ;

Daniel, Rolf ;

Liebl, Wolfgang .

JOURNAL OF BACTERIOLOGY, 2010, 192 (24) :6492-6493

[9] High Ethanol Titers from Cellulose by Using Metabolically Engineered Thermophilic, Anaerobic Microbes [J].

Argyros, D. Aaron ;

Tripathi, Shital A. ;

Barrett, Trisha F. ;

Rogers, Stephen R. ;

Feinberg, Lawrence F. ;

Olson, Daniel G. ;

Foden, Justine M. ;

Miller, Bethany B. ;

Lynd, Lee R. ;

Hogsett, David A. ;

Caiazza, Nicky C. .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2011, 77 (23) :8288-8294

[10] Gut bacterial metabolism of the soy isoflavone daidzein: Exploring the relevance to human health [J].

Atkinson, C ;

Frankenfeld, CL ;

Lampe, JW .

EXPERIMENTAL BIOLOGY AND MEDICINE, 2005, 230 (03) :155-170

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