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
收藏
页码：609 / 618
页数：10
相关论文
共 50 条
  • [31] Variation Among Biosynthetic Gene Clusters, Secondary Metabolite Profiles, and Cards of Virulence AcrossAspergillusSpecies
    Steenwyk, Jacob L.
    Mead, Matthew E.
    Knowles, Sonja L.
    Raja, Huzefa A.
    Roberts, Christopher D.
    Bader, Oliver
    Houbraken, Jos
    Goldman, Gustavo H.
    Oberlies, Nicholas H.
    Rokas, Antonis
    GENETICS, 2020, 216 (02) : 481 - 497
  • [32] 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
  • [33] Mining of novel secondary metabolite biosynthetic gene clusters from acid mine drainage
    Ling Wang
    Wan Liu
    Jieliang Liang
    Linna Zhao
    Qiang Li
    Chenfen Zhou
    Hui Cen
    Qingbei Weng
    Guoqing Zhang
    Scientific Data, 9
  • [34] Draft genome and secondary metabolite biosynthetic gene clusters ofStreptomycessp. strain 196
    Kumar, Prateek
    Chauhan, Anjali
    Kumar, Munendra
    Kuanr, Bijoy K.
    Solanki, Renu
    Kapur, Monisha Khanna
    MOLECULAR BIOLOGY REPORTS, 2020, 47 (09) : 6741 - 6747
  • [35] Impacts of environmental stress on growth, secondary metabolite biosynthetic gene clusters and metabolite production of xerotolerant/xerophilic fungi
    Medina, Angel
    Schmidt-Heydt, Markus
    Rodriguez, Alicia
    Parra, Roberto
    Geisen, Rolf
    Magan, Naresh
    CURRENT GENETICS, 2015, 61 (03) : 325 - 334
  • [36] Impacts of environmental stress on growth, secondary metabolite biosynthetic gene clusters and metabolite production of xerotolerant/xerophilic fungi
    Angel Medina
    Markus Schmidt-Heydt
    Alicia Rodríguez
    Roberto Parra
    Rolf Geisen
    Naresh Magan
    Current Genetics, 2015, 61 : 325 - 334
  • [37] CRAGE-CRISPR facilitates rapid activation of secondary metabolite biosynthetic gene clusters in bacteria
    Ke, Jing
    Robinson, David
    Wu, Zong-Yen
    Kuftin, Andrea
    Louie, Katherine
    Kosina, Suzanne
    Northen, Trent
    Cheng, Jan-Fang
    Yoshikuni, Yasuo
    CELL CHEMICAL BIOLOGY, 2022, 29 (04) : 696 - +
  • [38] Identification of secondary metabolite biosynthetic gene clusters associated with the infection of citrus fruit by Penicillium digitatum
    Zhu, Congyi
    Sheng, Donglai
    Wu, Xiaodan
    Wang, Mingshuang
    Hu, Xu
    Li, Hongye
    Yu, Dongliang
    POSTHARVEST BIOLOGY AND TECHNOLOGY, 2017, 134 : 17 - 21
  • [39] In silico prediction and characterization of secondary metabolite biosynthetic gene clusters in the wheat pathogen Zymoseptoria tritici
    Timothy Cairns
    Vera Meyer
    BMC Genomics, 18
  • [40] 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
12345