Annotation of the modular polyketide synthase and nonribosomal peptide synthetase gene clusters in the genome of Streptomyces tsukubaensis NRRL18488.

PubWeight™: 0.76‹?›

🔗 View Article (PMC 3497360)

Published in Appl Environ Microbiol on September 14, 2012

Authors

Marko Blazic1, Antonio Starcevic, Mohamed Lisfi, Damir Baranasic, Dusan Goranovic, Stefan Fujs, Enej Kuscer, Gregor Kosec, Hrvoje Petkovic, John Cullum, Daslav Hranueli, Jurica Zucko

Author Affiliations

1: Faculty of Food Technology and Biotechnology, University of Zagreb, Zagreb, Croatia.

Articles cited by this

MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol (2011) 220.97

Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2). Nature (2002) 19.35

Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs. Genome Res (2004) 10.40

antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences. Nucleic Acids Res (2011) 9.22

A new generation of homology search tools based on probabilistic inference. Genome Inform (2009) 8.93

Assembly algorithms for next-generation sequencing data. Genomics (2010) 8.56

Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol (2003) 7.84

Genomic basis for natural product biosynthetic diversity in the actinomycetes. Nat Prod Rep (2009) 3.74

The Genome Sequencer FLX System--longer reads, more applications, straight forward bioinformatics and more complete data sets. J Biotechnol (2008) 2.89

Cloning, disruption, and transcriptional analysis of three RNA polymerase sigma factor genes of Streptomyces coelicolor A3(2). J Bacteriol (1990) 2.46

ClustScan: an integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures. Nucleic Acids Res (2008) 2.34

Marcel Faber Roundtable: is our antibiotic pipeline unproductive because of starvation, constipation or lack of inspiration? J Ind Microbiol Biotechnol (2006) 1.94

The FK520 gene cluster of Streptomyces hygroscopicus var. ascomyceticus (ATCC 14891) contains genes for biosynthesis of unusual polyketide extender units. Gene (2000) 1.89

Metabolic products of microorganisms. 224. Bafilomycins, a new group of macrolide antibiotics. Production, isolation, chemical structure and biological activity. J Antibiot (Tokyo) (1984) 1.75

Soil to genomics: the Streptomyces chromosome. Annu Rev Genet (2006) 1.64

Biosynthesis of the allylmalonyl-CoA extender unit for the FK506 polyketide synthase proceeds through a dedicated polyketide synthase and facilitates the mutasynthesis of analogues. J Am Chem Soc (2010) 1.49

Natural biocombinatorics in the polyketide synthase genes of the actinobacterium Streptomyces avermitilis. PLoS Comput Biol (2006) 1.37

Insights into polyether biosynthesis from analysis of the nigericin biosynthetic gene cluster in Streptomyces sp. DSM4137. Chem Biol (2007) 1.27

Origin of the allyl group in FK506 biosynthesis. J Biol Chem (2010) 1.22

The biosynthetic gene cluster for the macrolactone ring of the immunosuppressant FK506. Eur J Biochem (1998) 1.20

Functional evidence that the principal DNA replication origin of the Streptomyces coelicolor chromosome is close to the dnaA-gyrB region. J Bacteriol (1994) 1.06

The enduracidin biosynthetic gene cluster from Streptomyces fungicidicus. Microbiology (2006) 1.05

Organization of the biosynthetic gene cluster for the macrolide concanamycin A in Streptomyces neyagawaensis ATCC 27449. Microbiology (2005) 0.98

Incorporation of dITP or 7-deaza dGTP during PCR improves sequencing of the product. Nucleic Acids Res (1993) 0.97

Novel chemobiosynthetic approach for exclusive production of FK506. Metab Eng (2011) 0.94

Horizontal gene transfer and gene conversion drive evolution of modular polyketide synthases. J Ind Microbiol Biotechnol (2012) 0.88

A novel docking domain interface model predicting recombination between homoeologous modular biosynthetic gene clusters. J Ind Microbiol Biotechnol (2010) 0.83

Draft genome of Streptomyces tsukubaensis NRRL 18488, the producer of the clinically important immunosuppressant tacrolimus (FK506). J Bacteriol (2012) 0.82

Recombinatorial biosynthesis of polyketides. J Ind Microbiol Biotechnol (2011) 0.78

Articles by these authors

ClustScan: an integrated program package for the semi-automatic annotation of modular biosynthetic gene clusters and in silico prediction of novel chemical structures. Nucleic Acids Res (2008) 2.34

Spontaneity in the patellamide biosynthetic pathway. Org Biomol Chem (2006) 1.71

Enzymes of the shikimic acid pathway encoded in the genome of a basal metazoan, Nematostella vectensis, have microbial origins. Proc Natl Acad Sci U S A (2008) 1.51

Autophagy is involved in nutritional stress response and differentiation in Trypanosoma cruzi. J Biol Chem (2007) 1.31

Biotechnological applications of acetic acid bacteria. Crit Rev Biotechnol (2008) 1.30

Active-site residue, domain and module swaps in modular polyketide synthases. J Ind Microbiol Biotechnol (2003) 1.24

Origin of the allyl group in FK506 biosynthesis. J Biol Chem (2010) 1.22

Genetics of Streptomyces rimosus, the oxytetracycline producer. Microbiol Mol Biol Rev (2006) 1.15

Draft Genome Sequence of Streptomyces rapamycinicus Strain NRRL 5491, the Producer of the Immunosuppressant Rapamycin. Genome Announc (2013) 1.12

KEGG orthology-based annotation of the predicted proteome of Acropora digitifera: ZoophyteBase - an open access and searchable database of a coral genome. BMC Genomics (2013) 0.98

FK506 biosynthesis is regulated by two positive regulatory elements in Streptomyces tsukubaensis. BMC Microbiol (2012) 0.96

Predicting the nature and timing of epimerisation on a modular polyketide synthase. Chembiochem (2007) 0.96

Novel chemobiosynthetic approach for exclusive production of FK506. Metab Eng (2011) 0.94

Selective activity-based probes for cysteine cathepsins. Angew Chem Int Ed Engl (2008) 0.94

Analysis of a comprehensive dataset of diversity generating retroelements generated by the program DiGReF. BMC Genomics (2012) 0.94

Reclassification of Amycolatopsis mediterranei DSM 46095 as Amycolatopsis rifamycinica sp. nov. Int J Syst Evol Microbiol (2004) 0.92

Antioxidative action of royal jelly in the yeast cell. Exp Gerontol (2007) 0.90

Hexachlorocyclohexane-degrading bacterial strains Sphingomonas paucimobilis B90A, UT26 and Sp+, having similar lin genes, represent three distinct species, Sphingobium indicum sp. nov., Sphingobium japonicum sp. nov. and Sphingobium francense sp. nov., and reclassification of [Sphingomonas] chungbukensis as Sphingobium chungbukense comb. nov. Int J Syst Evol Microbiol (2005) 0.90

Draft Genome Sequence of the Oxytetracycline-Producing Bacterium Streptomyces rimosus ATCC 10970. Genome Announc (2013) 0.90

Plasticity of the streptomyces genome-evolution and engineering of new antibiotics. Curr Med Chem (2005) 0.90

Ablation of the otcC gene encoding a post-polyketide hydroxylase from the oxytetracyline biosynthetic pathway in Streptomyces rimosus results in novel polyketides with altered chain length. J Biol Chem (2005) 0.89

A profile of an endosymbiont-enriched fraction of the coral Stylophora pistillata reveals proteins relevant to microbial-host interactions. Mol Cell Proteomics (2012) 0.89

Horizontal gene transfer and gene conversion drive evolution of modular polyketide synthases. J Ind Microbiol Biotechnol (2012) 0.88

Development of cloning vectors and transformation methods for Amycolatopsis. J Ind Microbiol Biotechnol (2003) 0.88

Mutasynthesis of rapamycin analogues through the manipulation of a gene governing starter unit biosynthesis. Angew Chem Int Ed Engl (2005) 0.88

A cold-active esterase of Streptomyces coelicolor A3(2): from genome sequence to enzyme activity. J Ind Microbiol Biotechnol (2007) 0.87

Gene expression in the scleractinian Acropora microphthalma exposed to high solar irradiance reveals elements of photoprotection and coral bleaching. PLoS One (2010) 0.87

Rapamycin biosynthesis: Elucidation of gene product function. Org Biomol Chem (2006) 0.86

Blocking autophagy to prevent parasite differentiation: a possible new strategy for fighting parasitic infections? Autophagy (2008) 0.85

Isolation and characterization of pre-rapamycin, the first macrocyclic intermediate in the biosynthesis of the immunosuppressant rapamycin by S. hygroscopicus. Angew Chem Int Ed Engl (2004) 0.85

Substrate specificity of the acyl transferase domains of EpoC from the epothilone polyketide synthase. Org Biomol Chem (2007) 0.84

Predicting substrate specificity of adenylation domains of nonribosomal peptide synthetases and other protein properties by latent semantic indexing. J Ind Microbiol Biotechnol (2013) 0.83

A novel docking domain interface model predicting recombination between homoeologous modular biosynthetic gene clusters. J Ind Microbiol Biotechnol (2010) 0.83

Evolutionary concepts in natural products discovery: what actinomycetes have taught us. J Ind Microbiol Biotechnol (2013) 0.83

Identification of essential genes for linear replication of an SCP1 composite plasmid. FEMS Microbiol Lett (2007) 0.82

Databases of the thiotemplate modular systems (CSDB) and their in silico recombinants (r-CSDB). J Ind Microbiol Biotechnol (2013) 0.82

Clustering of protein domains for functional and evolutionary studies. BMC Bioinformatics (2009) 0.81

Selective and sensitive monitoring of caspase-1 activity by a novel bioluminescent activity-based probe. Chem Biol (2010) 0.81

Recombinant strains for the enhanced production of bioengineered rapalogs. Metab Eng (2012) 0.80

Murine and human cathepsin B exhibit similar properties: possible implications for drug discovery. Biol Chem (2009) 0.80

SACE_5599, a putative regulatory protein, is involved in morphological differentiation and erythromycin production in Saccharopolyspora erythraea. Microb Cell Fact (2013) 0.80

Global genome analysis of the shikimic acid pathway reveals greater gene loss in host-associated than in free-living bacteria. BMC Genomics (2010) 0.80

Evolutionary dynamics of modular polyketide synthases, with implications for protein design and engineering. J Antibiot (Tokyo) (2010) 0.79

Construction of a new class of tetracycline lead structures with potent antibacterial activity through biosynthetic engineering. Angew Chem Int Ed Engl (2015) 0.79

Proposed arrangement of proteins forming a bacterial type II polyketide synthase. Chem Biol (2008) 0.79

The proinflammatory cytokines interleukin-1α and tumor necrosis factor α promote the expression and secretion of proteolytically active cathepsin S from human chondrocytes. Biol Chem (2013) 0.79

Genomic characterization of variable surface antigens reveals a telomere position effect as a prerequisite for RNA interference-mediated silencing in Paramecium tetraurelia. MBio (2014) 0.78

The abc1-/coq8- respiratory-deficient mutant of Schizosaccharomyces pombe suffers from glutathione underproduction and hyperaccumulates Cd2+. Folia Microbiol (Praha) (2011) 0.78

Mining the genome sequence for novel enzyme activity: characterisation of an unusual member of the hormone-sensitive lipase family of esterases from the genome of Streptomyces coelicolor A3 (2). Protein Eng Des Sel (2009) 0.78

Recombinatorial biosynthesis of polyketides. J Ind Microbiol Biotechnol (2011) 0.78

New methods for medicinal chemistry--universal gene cloning and expression systems for production of marine bioactive metabolites. Curr Med Chem (2006) 0.77

Genome Sequences of the Oxytetracycline Production Strain Streptomyces rimosus R6-500 and Two Mutants with Chromosomal Rearrangements. Genome Announc (2014) 0.75

2-epi-5-epi-Valiolone synthase activity is essential for maintaining phycobilisome composition in the cyanobacterium Anabaena variabilis ATCC 29413 when grown in the presence of a carbon source. Photosynth Res (2013) 0.75