Genomic Structure of an Economically Important Cyanobacterium, Arthrospira (Spirulina) platensis NIES-39

被引：94

作者：

Fujisawa, Takatomo ^{[1
]}

Narikawa, Rei ^{[2
]}

Okamoto, Shinobu ^{[3
]}

Ehira, Shigeki ^{[4
]}

Yoshimura, Hidehisa ^{[2
]}

Suzuki, Iwane ^{[5
]}

Masuda, Tatsuru ^{[2
]}

Mochimaru, Mari ^{[6
]}

Takaichi, Shinichi ^{[7
]}

Awai, Koichiro ^{[8
]}

Sekine, Mitsuo ^{[1
]}

Horikawa, Hiroshi ^{[1
]}

Yashiro, Isao ^{[1
]}

Omata, Seiha ^{[1
]}

Takarada, Hiromi ^{[1
]}

Katano, Yoko ^{[1
]}

Kosugi, Hiroki ^{[1
]}

Tanikawa, Satoshi ^{[1
]}

Ohmori, Kazuko ^{[9
]}

Sato, Naoki ^{[2
]}

Ikeuchi, Masahiko ^{[2
]}

Fujita, Nobuyuki ^{[1
]}

Ohmori, Masayuki ^{[4
]}

机构：

[1] NITE, Dept Biotechnol, Bioresource Informat Ctr, Shibuya Ku, Tokyo 1510066, Japan

[2] Univ Tokyo, Dept Life Sci Biol, Meguro Ku, Tokyo 1538902, Japan

[3] Res Org Informat & Syst, Database Ctr Life Sci, Bunkyo Ku, Tokyo 1130032, Japan

[4] Chuo Univ, Fac Sci & Engn, Dept Biol Sci, Bunkyo Ku, Tokyo 1128551, Japan

[5] Univ Tsukuba, Grad Sch Life & Environm Sci, Tsukuba, Ibaraki 3058572, Japan

[6] Komazawa Univ, Fac Nat Sci, Setagaya Ku, Tsukuba, Ibaraki 1548525, Japan

[7] Nippon Med Sch, Biol Lab, Nakahara Ku, Kawasaki, Kanagawa 2110063, Japan

[8] Shizuoka Univ, Div Global Res Leaders, Suruga Ku, Shizuoka 4228529, Japan

[9] Showa Womens Univ, Dept Life Sci, Setagaya Ku, Tokyo 1548533, Japan

来源：

DNA RESEARCH | 2010年 / 17卷 / 02期

关键词：

cyanobacteria; Arthrospira; health supplement; genome; cAMP; MICROBIAL GENE IDENTIFICATION; PROVIDES ACQUIRED-RESISTANCE; SIGNAL-TRANSDUCTION; GAF-DOMAIN; HETEROCYST DIFFERENTIATION; FILAMENTOUS CYANOBACTERIA; RESPONSE-REGULATOR; PATTERN-FORMATION; GLIDING MOTILITY; ADENYLYL-CYCLASE;

D O I：

10.1093/dnares/dsq004

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

A filamentous non-N-2-fixing cyanobacterium, Arthrospira (Spirulina) platensis, is an important organism for industrial applications and as a food supply. Almost the complete genome of A. platensis NIES-39 was determined in this study. The genome structure of A. platensis is estimated to be a single, circular chromosome of 6.8 Mb, based on optical mapping. Annotation of this 6.7 Mb sequence yielded 6630 protein-coding genes as well as two sets of rRNA genes and 40 tRNA genes. Of the protein-coding genes, 78% are similar to those of other organisms; the remaining 22% are currently unknown. A total 612 kb of the genome comprise group II introns, insertion sequences and some repetitive elements. Group I introns are located in a protein-coding region. Abundant restriction-modification systems were determined. Unique features in the gene composition were noted, particularly in a large number of genes for adenylate cyclase and haemolysin-like Ca2+-binding proteins and in chemotaxis proteins. Filament-specific genes were highlighted by comparative genomic analysis.

引用

页码：85 / 103

页数：19

共 111 条

[81] Whole-genome shotgun optical mapping of Rhodospirillum rubrum [J].

Reslewic, S ;

Zhou, SG ;

Place, M ;

Zhang, YP ;

Briska, A ;

Goldstein, S ;

Churas, C ;

Runnheim, R ;

Forrest, D ;

Lim, A ;

Lapidus, A ;

Han, CS ;

Roberts, GP ;

Schwartz, DC .

APPLIED AND ENVIRONMENTAL MICROBIOLOGY, 2005, 71 (09) :5511-5522

[82] A second conserved GAF domain cysteine is required for the blue/green photoreversibility of cyanobacteriochrome Tlr0924 from Thermosynechococcus elongatus [J].

Rockwell, Nathan C. ;

Njuguna, Stephanie Lane ;

Roberts, Laurel ;

Castillo, Elenor ;

Parson, Victoria L. ;

Dwojak, Sunshine ;

Lagarias, J. Clark ;

Spiller, Susan C. .

BIOCHEMISTRY, 2008, 47 (27) :7304-7316

[83]

Römling U, 2009, CONTRIB MICROBIOL, V16, P161, DOI 10.1159/000219379

[84] Microbial gene identification using interpolated Markov models [J].

Salzberg, SL ;

Delcher, AL ;

Kasif, S ;

White, O .

NUCLEIC ACIDS RESEARCH, 1998, 26 (02) :544-548

[85]

SASAKI VN, 2010, DATABASE, DOI DOI 10.1093/DATABASE/BAP025

[86] Gclust: trans-kingdom classification of proteins using automatic individual threshold setting [J].

Sato, Naoki .

BIOINFORMATICS, 2009, 25 (05) :599-605

[87] Calx, a Na-Ca exchanger gene of Drosophila melanogaster [J].

Schwarz, EM ;

Benzer, S .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1997, 94 (19) :10249-10254

[88] Sequence analysis of three plasmids harboured in Rhodococcus erythropolis strain PR4 [J].

Sekine, M ;

Tanikawa, S ;

Omata, S ;

Saito, M ;

Fujisawa, T ;

Tsukatani, N ;

Tajima, T ;

Sekigawa, T ;

Kosugi, H ;

Matsuo, Y ;

Nishiko, R ;

Imamura, K ;

Ito, M ;

Narita, H ;

Tago, S ;

Fujita, N ;

Harayama, S .

ENVIRONMENTAL MICROBIOLOGY, 2006, 8 (02) :334-346

[89] Complete genome sequence of Methanobacterium thermoautotrophicum Delta H: Functional analysis and comparative genomics [J].

Smith, DR ;

DoucetteStamm, LA ;

Deloughery, C ;

Lee, HM ;

Dubois, J ;

Aldredge, T ;

Bashirzadeh, R ;

Blakely, D ;

Cook, R ;

Gilbert, K ;

Harrison, D ;

Hoang, L ;

Keagle, P ;

Lumm, W ;

Pothier, B ;

Qiu, DY ;

Spadafora, R ;

Vicaire, R ;

Wang, Y ;

Wierzbowski, J ;

Gibson, R ;

Jiwani, N ;

Caruso, A ;

Bush, D ;

Safer, H ;

Patwell, D ;

Prabhakar, S ;

McDougall, S ;

Shimer, G ;

Goyal, A ;

Pietrokovski, S ;

Church, GM ;

Daniels, CJ ;

Mao, JI ;

Rice, P ;

Nolling, J ;

Reeve, JN .

JOURNAL OF BACTERIOLOGY, 1997, 179 (22) :7135-7155

[90] CRISPR - a widespread system that provides acquired resistance against phages in bacteria and archaea [J].

Sorek, Rotem ;

Kunin, Victor ;

Hugenholtz, Philip .

NATURE REVIEWS MICROBIOLOGY, 2008, 6 (03) :181-186

← 3 4 5 6 7 8 9 10 11 12 →