Complete genome sequence and genomic characterization of Microcystis panniformis FACHB 1757 by third-generation sequencing

被引：18

作者：

Zhang, Jun-Yi ^{[1
,2
]}

Guan, Rui ^{[1
]}

Zhang, Hu-Jun ^{[2
]}

Li, Hua ^{[3
]}

Xiao, Peng ^{[4
]}

Yu, Gong-Liang ^{[3
]}

Du, Lei ^{[5
]}

Cao, De-Min ^{[5
]}

Zhu, Bing-Chuan ^{[2
]}

Li, Ren-Hui ^{[3
]}

Lu, Zu-Hong ^{[1
,6
]}

机构：

[1] Southeast Univ, Sch Biol Sci & Med Engn, State Key Lab Bioelect, Nanjing 210096, Jiangsu, Peoples R China

[2] Wuxi Environm Monitoring Ctr, Wuxi 214121, Peoples R China

[3] Chinese Acad Sci, Inst Hydrobiol, Wuhan 430072, Hubei, Peoples R China

[4] Shenzhen Univ, Coll Life Sci, Shenzhen Key Lab Marine Bioresource & Ecoenvironm, Shenzhen 518060, Peoples R China

[5] Next Biosci Co Ltd, Wuhan 430072, Hubei, Peoples R China

[6] Peking Univ, Coll Engn, Dept Biomed Engn, Beijing 100871, Peoples R China

来源：

STANDARDS IN GENOMIC SCIENCES | 2016年 / 11卷

基金：

中国国家自然科学基金;

关键词：

Microcystis panniformis FACHB1757; Microcystis; Lake Taihu; Water bloom; Third-generation sequencing; Comparative genomics; CYANOBACTERIAL GENUS; LAKE TAIHU; NONTOXIC STRAINS; DNA RESTRICTION; GAS VESICLES; EPS CONTENT; AERUGINOSA; MORPHOLOGY; BLOOMS; GENES;

D O I：

10.1186/s40793-016-0130-5

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

The cyanobacterial genus Microcystis is well known as the main group that forms harmful blooms in water. A strain of Microcystis, M. panniformis FACHB1757, was isolated from Meiliang Bay of Lake Taihu in August 2011. The whole genome was sequenced using PacBio RS II sequencer with 48-fold coverage. The complete genome sequence with no gaps contained a 5,686,839 bp chromosome and a 38,683 bp plasmid, which coded for 6,519 and 49 proteins, respectively. Comparison with strains of M. aeruginosa and some other water bloom-forming cyanobacterial species revealed large-scale structure rearrangement and length variation at the genome level along with 36 genomic islands annotated genome-wide, which demonstrates high plasticity of the M. panniformis FACHB1757 genome and reveals that Microcystis has a flexible genome evolution.

引用

页数：13

共 78 条

[1] Gene Ontology: tool for the unification of biology [J].

Ashburner, M ;

Ball, CA ;

Blake, JA ;

Botstein, D ;

Butler, H ;

Cherry, JM ;

Davis, AP ;

Dolinski, K ;

Dwight, SS ;

Eppig, JT ;

Harris, MA ;

Hill, DP ;

Issel-Tarver, L ;

Kasarskis, A ;

Lewis, S ;

Matese, JC ;

Richardson, JE ;

Ringwald, M ;

Rubin, GM ;

Sherlock, G .

NATURE GENETICS, 2000, 25 (01) :25-29

[2] The RAST server: Rapid annotations using subsystems technology [J].

Aziz, Ramy K. ;

Bartels, Daniela ;

Best, Aaron A. ;

DeJongh, Matthew ;

Disz, Terrence ;

Edwards, Robert A. ;

Formsma, Kevin ;

Gerdes, Svetlana ;

Glass, Elizabeth M. ;

Kubal, Michael ;

Meyer, Folker ;

Olsen, Gary J. ;

Olson, Robert ;

Osterman, Andrei L. ;

Overbeek, Ross A. ;

McNeil, Leslie K. ;

Paarmann, Daniel ;

Paczian, Tobias ;

Parrello, Bruce ;

Pusch, Gordon D. ;

Reich, Claudia ;

Stevens, Rick ;

Vassieva, Olga ;

Vonstein, Veronika ;

Wilke, Andreas ;

Zagnitko, Olga .

BMC GENOMICS, 2008, 9 (1)

[3] Tandem repeats finder: a program to analyze DNA sequences [J].

Benson, G .

NUCLEIC ACIDS RESEARCH, 1999, 27 (02) :573-580

[4] Cyanopeptolin 963A, a chymotrypsin inhibitor of Microcystis PCC 7806 [J].

Bister, B ;

Keller, S ;

Baumann, HI ;

Nicholson, G ;

Weist, S ;

Jung, G ;

Süssmuth, RD ;

Jüttner, F .

JOURNAL OF NATURAL PRODUCTS, 2004, 67 (10) :1755-1757

[5] HIP1 DNA fingerprinting in Microcystis panniformis (Chroococcales, Cyanobacteria) [J].

Bittencourt-Oliveira, Maria Do Carmo ;

Moura, Ariadne Do Nascimento ;

Gouvea-Barros, Selma ;

Pinto, Ernani .

PHYCOLOGIA, 2007, 46 (01) :3-9

[6]

Bittencourt-Oliveira MD, 2012, GENETIC DIVERSITY IN MICROORGANISMS, P275

[7] Allelopathic interactions between microcystin-producing and non-microcystin-producing cyanobacteria and green microalgae: implications for microcystins production [J].

Bittencourt-Oliveira, Maria do Carmo ;

Chia, Mathias Ahii ;

Bezerra de Oliveira, Helton Soriano ;

Cordeiro Araujo, Micheline Kezia ;

Reis Molica, Renato Jose ;

Santos Dias, Carlos Tadeu .

JOURNAL OF APPLIED PHYCOLOGY, 2015, 27 (01) :275-284

[8]

Bittencourt-Oliveira MD, 2009, BRAZ ARCH BIOL TECHN, V52, P901, DOI 10.1590/S1516-89132009000400014

[9] A novel rhythm of microcystin biosynthesis is described in the cyanobacterium Microcystis panniformis Komarek et al. [J].

Bittencourt-Oliveira, MD ;

Kujbida, P ;

Cardozo, KHM ;

Carvalho, VM ;

Moura, AD ;

Colepicolo, P ;

Pinto, E .

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS, 2005, 326 (03) :687-694

[10] CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats [J].

Bland, Charles ;

Ramsey, Teresa L. ;

Sabree, Fareedah ;

Lowe, Micheal ;

Brown, Kyndall ;

Kyrpides, Nikos C. ;

Hugenholtz, Philip .

BMC BIOINFORMATICS, 2007, 8 (1)

← 1 2 3 4 5 6 7 8 →