antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences.
antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences.
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Antismash：细菌和真菌基因组序列中继发代谢物生物合成簇的快速鉴定，注释和分析。
DOI：
10.1093/nar/gkr466
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发表时间：
2011-07
影响因子：
14.9
通讯作者：
Breitling R
中科院分区：
文献类型：
--
作者：
Medema MH;Blin K;Cimermancic P;de Jager V;Zakrzewski P;Fischbach MA;Weber T;Takano E;Breitling R
细菌和真菌的次生代谢是新型生物活性化合物的丰富来源，具有潜在的药物应用前景，如抗生素、抗肿瘤药物或降胆固醇药物。为了寻找新的候选药物，微生物学家越来越依赖于对各种微生物的基因组进行测序。然而，由于它们的生化异质性、未知酶的存在以及必要的专门生物信息学工具和资源的分散性质，快速可靠地定位数十个新测序基因组中所有潜在的次生代谢物基因簇一直是极其具有挑战性的。在这里，我们介绍了ANTSMASH(抗生素和次生代谢物分析壳)，这是第一个能够识别覆盖所有已知次生代谢物化合物类别(聚酮、非核糖体肽、萜类、氨基糖苷类、氨基香豆素、吲哚咔唑、抗生素、细菌素、核苷、β-内酰胺类、丁内酮类、铁载体、黑色素等)的生物合成基因座的综合性管道。它将基因簇水平上已识别的区域与包含所有其他已知基因簇的数据库中最接近的亲缘区域进行比对，并在一个交互视图中集成或交叉链接所有先前可用的次生代谢物特定基因分析方法。可以在http://antismash.secondarymetabolites.org.上获得反SMASH。
Bacterial and fungal secondary metabolism is a rich source of novel bioactive compounds with potential pharmaceutical applications as antibiotics, anti-tumor drugs or cholesterol-lowering drugs. To find new drug candidates, microbiologists are increasingly relying on sequencing genomes of a wide variety of microbes. However, rapidly and reliably pinpointing all the potential gene clusters for secondary metabolites in dozens of newly sequenced genomes has been extremely challenging, due to their biochemical heterogeneity, the presence of unknown enzymes and the dispersed nature of the necessary specialized bioinformatics tools and resources. Here, we present antiSMASH (antibiotics & Secondary Metabolite Analysis Shell), the first comprehensive pipeline capable of identifying biosynthetic loci covering the whole range of known secondary metabolite compound classes (polyketides, non-ribosomal peptides, terpenes, aminoglycosides, aminocoumarins, indolocarbazoles, lantibiotics, bacteriocins, nucleosides, beta-lactams, butyrolactones, siderophores, melanins and others). It aligns the identified regions at the gene cluster level to their nearest relatives from a database containing all other known gene clusters, and integrates or cross-links all previously available secondary-metabolite specific gene analysis methods in one interactive view. antiSMASH is available at http://antismash.secondarymetabolites.org.
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影响因子：
5.6
作者：
Yadav, G;Gokhale, RS;Mohanty, B
通讯作者：
Mohanty, B
影响因子：
4.1
作者：
Weber, T.;Rausch, C.;Wohlleben, W.
通讯作者：
Wohlleben, W.
影响因子：
14.9
作者：
Letunic I;Doerks T;Bork P
通讯作者：
Bork P
影响因子：
14.9
作者：
Finn RD;Mistry J;Tate J;Coggill P;Heger A;Pollington JE;Gavin OL;Gunasekaran P;Ceric G;Forslund K;Holm L;Sonnhammer EL;Eddy SR;Bateman A
通讯作者：
Bateman A
影响因子：
3
作者：
Camacho C;Coulouris G;Avagyan V;Ma N;Papadopoulos J;Bealer K;Madden TL
通讯作者：
Madden TL