Assembly and features of secondary metabolite biosynthetic gene clusters in Streptomyces ansochromogenes

被引：11

作者：

Zhong XingYu ^{[1
,2
]}

Tian YuQing ^{[1
]}

Niu GuoQing ^{[1
]}

Tan HuaRong ^{[1
]}

机构：

[1] Chinese Acad Sci, Inst Microbiol, State Key Lab Microbial Resources, Beijing 100101, Peoples R China

[2] Univ Chinese Acad Sci, Beijing 100049, Peoples R China

来源：

SCIENCE CHINA-LIFE SCIENCES | 2013年 / 56卷 / 07期

基金：

中国国家自然科学基金;

关键词：

secondary metabolite; gene cluster; assemble; features; draft genome; GENOME SEQUENCE; IDENTIFICATION; ANNOTATION; BACTERIAL; PRODUCTS;

D O I：

10.1007/s11427-013-4506-0

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

A draft genome sequence of Streptomyces ansochromogenes 7100 was generated using 454 sequencing technology. In combination with local BLAST searches and gap filling techniques, a comprehensive antiSMASH-based method was adopted to assemble the secondary metabolite biosynthetic gene clusters in the draft genome of S. ansochromogenes. A total of at least 35 putative gene clusters were identified and assembled. Transcriptional analysis showed that 20 of the 35 gene clusters were expressed in either or all of the three different media tested, whereas the other 15 gene clusters were silent in all three different media. This study provides a comprehensive method to identify and assemble secondary metabolite biosynthetic gene clusters in draft genomes of Streptomyces, and will significantly promote functional studies of these secondary metabolite biosynthetic gene clusters.

引用

页码：609 / 618

页数：10

共 50 条

[21] The antiSMASH database version 2: a comprehensive resource on secondary metabolite biosynthetic gene clusters
Blin, Kai
Andreu, Victoria Pascal
de los Santos, Emmanuel L. C.
Del Carratore, Francesco
Lee, Sang Yup
Medema, Marnix H.
Weber, Tilmann
NUCLEIC ACIDS RESEARCH, 2019, 47 (D1) : D625 - D630
[22] TaxiBGC: a Taxonomy-Guided Approach for Profiling Experimentally Characterized Microbial Biosynthetic Gene Clusters and Secondary Metabolite Production Potential in Metagenomes
Gupta, Vinod K.
Bakshi, Utpal
Chang, Daniel
Lee, Aileen R.
Davis III, John M. M.
Chandrasekaran, Sriram
Jin, Yong-Su
Freeman, Michael F.
Sung, Jaeyun
MSYSTEMS, 2022, 7 (06)
[23] In silico prediction and characterization of secondary metabolite biosynthetic gene clusters in the wheat pathogen Zymoseptoria tritici
Cairns, Timothy
Meyer, Vera
BMC GENOMICS, 2017, 18
[24] Recent development of antiSMASH and other computational approaches to mine secondary metabolite biosynthetic gene clusters
Blin, Kai
Kim, Hyun Uk
Medema, Marnix H.
Weber, Tilmann
BRIEFINGS IN BIOINFORMATICS, 2019, 20 (04) : 1103 - 1113
[25] In silico prediction and characterization of secondary metabolite biosynthetic gene clusters in the wheat pathogen Zymoseptoria tritici
Timothy Cairns
Vera Meyer
BMC Genomics, 18
[26] Rational engineering of Streptomyces albus J1074 for the overexpression of secondary metabolite gene clusters
Kallifidas, Dimitris
Jiang, Guangde
Ding, Yousong
Luesch, Hendrik
MICROBIAL CELL FACTORIES, 2018, 17
[27] Genome mining of biosynthetic and chemotherapeutic gene clusters in Streptomyces bacteria
Belknap, Kaitlyn C.
Park, Cooper J.
Barth, Brian M.
Andam, Cheryl P.
SCIENTIFIC REPORTS, 2020, 10 (01)
[28] Application of serine integrases for secondary metabolite pathway assembly in Streptomyces
Ga, Hong
Taylor, Gabrielle
Evans, Stephanie K.
Fogg, Paul C. M.
Smith, Margaret C. M.
SYNTHETIC AND SYSTEMS BIOTECHNOLOGY, 2020, 5 (02) : 111 - 119
[29] Comprehensive analysis of secondary metabolite biosynthetic gene clusters in Helianthus annuus L.: A bioinformatics approach
Oz, Ummahan
SOUTH AFRICAN JOURNAL OF BOTANY, 2024, 174 : 830 - 840
[30] Current status of secondary metabolite pathways linked to their related biosynthetic gene clusters in Aspergillus section Nigri
Wang, Xinhui
Jarmusch, Scott A.
Frisvad, Jens C.
Larsen, Thomas O.
NATURAL PRODUCT REPORTS, 2023, 40 (02) : 237 - 274

← 1 2 3 4 5 →