伊朗链霉菌基因组序列草图
Draft Genome Sequence of Streptomyces iranensis.
作者信息
Horn Fabian, Schroeckh Volker, Netzker Tina, Guthke Reinhard, Brakhage Axel A, Linde Jörg
机构信息
Bioinformatics/Systems Biology, Leibniz Institute for Natural Product Research and Infection Biology, Hans Knoell Institute (HKI), Jena, Germany.
Molecular and Applied Microbiology, HKI, Jena, Germany
出版信息
Genome Announc. 2014 Jul 17;2(4):e00616-14. doi: 10.1128/genomeA.00616-14.
Abstract
Streptomyces iranensis HM 35 has been shown to exhibit 72.7% DNA-DNA similarity to the important drug rapamycin (sirolimus)-producing Streptomyces rapamycinicus NRRL5491. Here, we report the genome sequence of HM 35, which represents a partially overlapping repertoire of secondary metabolite gene clusters with S. rapamycinicus, including the gene cluster for rapamycin biosynthesis.
摘要
伊朗链霉菌HM 35已被证明与重要药物雷帕霉素（西罗莫司）产生菌雷帕霉素链霉菌NRRL5491具有72.7%的DNA-DNA相似性。在此，我们报道了HM 35的基因组序列，其代表了与雷帕霉素链霉菌部分重叠的次生代谢物基因簇库，包括雷帕霉素生物合成基因簇。
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1
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Nucleic Acids Res. 2013 Jul;41(Web Server issue):W204-12. doi: 10.1093/nar/gkt449. Epub 2013 Jun 3.
2
SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler.SOAPdenovo2：一种经验丰富的、内存效率高的短读长从头组装器。
Gigascience. 2012 Dec 27;1(1):18. doi: 10.1186/2047-217X-1-18.
3
Molecular regulation of antibiotic biosynthesis in streptomyces.链霉菌中抗生素生物合成的分子调控。
Microbiol Mol Biol Rev. 2013 Mar;77(1):112-43. doi: 10.1128/MMBR.00054-12.
4
Eukaryotic gene prediction using GeneMark.hmm-E and GeneMark-ES.使用GeneMark.hmm-E和GeneMark-ES进行真核基因预测。
Curr Protoc Bioinformatics. 2011 Sep;Chapter 4:4.6.1-4.6.10. doi: 10.1002/0471250953.bi0406s35.
5
Quake: quality-aware detection and correction of sequencing errors.Quake：测序错误的质量感知检测和校正。
Genome Biol. 2010;11(11):R116. doi: 10.1186/gb-2010-11-11-r116. Epub 2010 Nov 29.
6
Biosynthesis of rapamycin and its regulation: past achievements and recent progress.雷帕霉素的生物合成及其调控：过去的成就和最近的进展。
J Antibiot (Tokyo). 2010 Aug;63(8):434-41. doi: 10.1038/ja.2010.71. Epub 2010 Jun 30.
7
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8
Velvet: algorithms for de novo short read assembly using de Bruijn graphs.《天鹅绒：使用德布鲁因图进行从头短读长拼接的算法》
Genome Res. 2008 May;18(5):821-9. doi: 10.1101/gr.074492.107. Epub 2008 Mar 18.
9
Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research.Blast2GO：功能基因组学研究中用于注释、可视化和分析的通用工具。
Bioinformatics. 2005 Sep 15;21(18):3674-6. doi: 10.1093/bioinformatics/bti610. Epub 2005 Aug 4.
10
InterProScan: protein domains identifier.InterProScan：蛋白质结构域识别工具。
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W116-20. doi: 10.1093/nar/gki442.
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