A fosmid-based genomic map and identification of 474 genes of the hyperthermophilic archaeon Pyrobaculum aerophilum

被引：66

作者：

FitzGibbon, S

Choi, AJ

Miller, JH

Stetter, KO

Simon, MI

Swanson, R

Kim, UJ

机构：

[1] UNIV CALIF LOS ANGELES,DEPT MICROBIOL & MOL GENET,LOS ANGELES,CA 90095

[2] UNIV CALIF LOS ANGELES,INST MOL BIOL,LOS ANGELES,CA 90095

[3] UNIV REGENSBURG,ARCHAEENZENTRUM,D-93053 REGENSBURG,GERMANY

[4] CALTECH,DIV BIOL,PASADENA,CA 91125

来源：

EXTREMOPHILES | 1997年 / 1卷 / 01期

关键词：

Pyrobaculum aerophilum; genome; hyperthermophile; archaea; eocyte;

D O I：

10.1007/s007920050013

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We have constructed a physical map of the approximately 1.7-Mb genome of the hyperthermophilic archaeon Pyrobaculum aerophilum. Derived from a 12x coverage genomic fosmid library with an average insert size of 36 Kb, the map consists of a Single circular contig of 96 overlapping fosmid clones with 211 markers ordered along them. One hundred of the sequence markers have strong similarities to known genes. Many overlaps were also checked using restriction fingerprint analysis. This map is an important step in the elucidation of the sequence of the entire genome of Pyrobaculum aerophilum. To this end we have determined more than 95% of the genome with 15000 random sequences. Each sequence has been screened against the public sequence databases to identify similarities to known genes. We report here a list of the 474 putative genes we have identified.

引用

页码：36 / 51

页数：16

共 19 条

[1]

ALTSCHUL SF, 1990, J MOL BIOL, V215, P403, DOI 10.1006/jmbi.1990.9999

[2] Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii [J].

Bult, CJ ;

White, O ;

Olsen, GJ ;

Zhou, LX ;

Fleischmann, RD ;

Sutton, GG ;

Blake, JA ;

FitzGerald, LM ;

Clayton, RA ;

Gocayne, JD ;

Kerlavage, AR ;

Dougherty, BA ;

Tomb, JF ;

Adams, MD ;

Reich, CI ;

Overbeek, R ;

Kirkness, EF ;

Weinstock, KG ;

Merrick, JM ;

Glodek, A ;

Scott, JL ;

Geoghagen, NSM ;

Weidman, JF ;

Fuhrmann, JL ;

Nguyen, D ;

Utterback, TR ;

Kelley, JM ;

Peterson, JD ;

Sadow, PW ;

Hanna, MC ;

Cotton, MD ;

Roberts, KM ;

Hurst, MA ;

Kaine, BP ;

Borodovsky, M ;

Klenk, HP ;

Fraser, CM ;

Smith, HO ;

Woese, CR ;

Venter, JC .

SCIENCE, 1996, 273 (5278) :1058-1073

[3] ANALYSIS OF THE ESCHERICHIA-COLI GENOME .6. DNA-SEQUENCE OF THE REGION FROM 92.8 THROUGH 100 MINUTES [J].

BURLAND, V ;

PLUNKETT, G ;

SOFIA, HJ ;

DANIELS, DL ;

BLATTNER, FR .

NUCLEIC ACIDS RESEARCH, 1995, 23 (12) :2105-2119

[4] The Sulfolobus solfataricus P2 genome project [J].

Charlebois, RL ;

Gaasterland, T ;

Ragan, MA ;

Doolittle, WF ;

Sensen, CW .

FEBS LETTERS, 1996, 389 (01) :88-91

[5] TOWARD A PHYSICAL MAP OF THE GENOME OF THE NEMATODE CAENORHABDITIS-ELEGANS [J].

COULSON, A ;

SULSTON, J ;

BRENNER, S ;

KARN, J .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1986, 83 (20) :7821-7825

[6] The Caenorhabditis elegans genome project [J].

Coulson, A .

BIOCHEMICAL SOCIETY TRANSACTIONS, 1996, 24 (01) :289-291

[7]

FLEISCHMANN RD, 1995, RD SCI, V269, P496

[8] THE MINIMAL GENE COMPLEMENT OF MYCOPLASMA-GENITALIUM [J].

FRASER, CM ;

GOCAYNE, JD ;

WHITE, O ;

ADAMS, MD ;

CLAYTON, RA ;

FLEISCHMANN, RD ;

BULT, CJ ;

KERLAVAGE, AR ;

SUTTON, G ;

KELLEY, JM ;

FRITCHMAN, JL ;

WEIDMAN, JF ;

SMALL, KV ;

SANDUSKY, M ;

FUHRMANN, J ;

NGUYEN, D ;

UTTERBACK, TR ;

SAUDEK, DM ;

PHILLIPS, CA ;

MERRICK, JM ;

TOMB, JF ;

DOUGHERTY, BA ;

BOTT, KF ;

HU, PC ;

LUCIER, TS ;

PETERSON, SN ;

SMITH, HO ;

HUTCHISON, CA ;

VENTER, JC .

SCIENCE, 1995, 270 (5235) :397-403

[9] STABLE PROPAGATION OF COSMID SIZED HUMAN DNA INSERTS IN AN F-FACTOR BASED VECTOR [J].

KIM, UJ ;

SHIZUYA, H ;

DEJONG, PJ ;

BIRREN, B ;

SIMON, MI .

NUCLEIC ACIDS RESEARCH, 1992, 20 (05) :1083-1085

[10] SEQUENCING THE YEAST GENOME - AN INTERNATIONAL ACHIEVEMENT [J].

LEVY, J .

YEAST, 1994, 10 (13) :1689-1706

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