Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis

By H. Ikeda, J. Ishikawa, Akiharu Hanamoto, M. Shinose, H. Kikuchi, T. Shiba, Y. Sakaki, M. Hattori, S. Ōmura. Nature Biotechnology, 2003

1,208 citations recorded by the source corpus.

Species of the genus Streptomyces are of major pharmaceutical interest because they synthesize a variety of bioactive secondary metabolites. We have determined the complete nucleotide sequence of the linear chromosome of Streptomyces avermitilis. S. avermitilis produces avermectins, a group of antiparasitic agents used in human and veterinary medicine. The genome contains 9,025,608 bases (average GC content, 70.7%) and encodes at least 7,574 potential open reading frames (ORFs). Thirty-five percent of the ORFs (2,664) constitute 721 paralogous families. Thirty gene clusters related to secondary metabolite biosynthesis were identified, corresponding to 6.6% of the genome. Comparison with Streptomyces coelicolor A3(2) revealed that an internal 6.5-Mb region in the S. avermitilis genome was highly conserved with respect to gene order and content, and contained all known essential genes but showed perfectly asymmetric structure at the oriC center. In contrast, the terminal regions were not conserved and preferentially contained nonessential genes.

Subfields: Endocrinology, Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/c5eedd1492519fa5bcdd1b2e6a0c3fa89fa97401

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Citations in the corpus

Molecular Techniques to Assess Microbial Community Structure, Function, and Dynamics in the Environment (2011, background): “Whole-genome sequencing has provided unprecedented insights into microbial processes at the molecular level and has potential applications in individual and community ecology, bioenergy production, bioremediation, human and plant health, and various industries (Ikeda et al. 2003).”
Biotechnology and molecular biology of the α-glucosidase inhibitor acarbose (2004, background): “However, related gene sets do not occur in all strains; e.g. they are absent from the full-length genomes of S. coelicolor A3(2) and S. avermitilis (Piepersberg 2001; Bentley et al. 2002; Ikeda et al. 2003).”
Genomic islands in pathogenic and environmental microorganisms (2004, background): “cgi?db=genome&gi=294"> Streptomyces avermitilis revealed that most antibiotic biosynthesis clusters are located in the linear chromosome, where genetic rearrangements are common, and that they are frequently accompanied by transposase gene”
Natural product discovery: past, present, and future (2016, background): “It is now estimated that 10 % of SMGCs are expressed in sufficient quantities to be observed under routine fermentation analyses, and the others require special conditions or genetic manipulations to reveal their products [21, 89, 133, 1 3 134].”
The Natural Product Domain Seeker NaPDoS: A Phylogeny Based Bioinformatic Tool to Classify Secondary Metabolite Gene Diversity (2012, background): “Genome sequencing has revealed that the secondary metabolite potential of even well studied bacteria has been severely underestimated [1,2].”
The antibiotic resistome: the nexus of chemical and genetic diversity (2007, background): “Genome sequencing of actinomycetes, which include many antibiotic producing bacteria, have revealed numerous genes encoding Ser/Thr/Tyr protein kinase”
A Patchwork of Streptomyces Species Isolated from Potato Common Scab Lesions in North America (2009, result): “2001), but this is infrequent and was not the case for the three published Streptomyces genomes (Bentley et al. 2002; Ikeda et al. 2003; Ohnishi et al. 2008).”