Comparative genomics at the vertebrate extremes

被引：193

作者：

Boffelli, D

Nobrega, MA

Rubin, EM ^{[1
]}

机构：

[1] US DOE, Joint Genome Inst, Walnut Creek, CA 94598 USA

[2] Univ Calif Berkeley, Lawrence Berkeley Lab, Genom Div, Berkeley, CA 94720 USA

来源：

NATURE REVIEWS GENETICS | 2004年 / 5卷 / 06期

关键词：

D O I：

10.1038/nrg1350

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Annotators of the human genome are increasingly exploiting comparisons with genomes at both the distal and proximal evolutionary edges of the vertebrate tree. Despite the sequence similarity between primates, comparisons among members of this clade are beginning to identify primate-as well as human-specific functional elements. At the distal evolutionary extreme, comparing the human genome to that of non-mammal vertebrates such as fish has proved to be a powerful filter to prioritize sequences that most probably have significant functional activity in all vertebrates.

引用

页码：456 / 465

页数：10

共 86 条

[1] Divergence of Hoxc8 early enhancer parallels diverged axial morphologies between mammals and fishes [J].

Anand, S ;

Wang, WCH ;

Powell, DR ;

Bolanowski, SA ;

Zhang, J ;

Ledje, C ;

Pawashe, AB ;

Amemiya, CT ;

Shashikant, CS .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2003, 100 (26) :15666-15669

[2] Whole-genome shotgun assembly and analysis of the genome of Fugu rubripes [J].

Aparicio, S ;

Chapman, J ;

Stupka, E ;

Putnam, N ;

Chia, J ;

Dehal, P ;

Christoffels, A ;

Rash, S ;

Hoon, S ;

Smit, A ;

Gelpke, MDS ;

Roach, J ;

Oh, T ;

Ho, IY ;

Wong, M ;

Detter, C ;

Verhoef, F ;

Predki, P ;

Tay, A ;

Lucas, S ;

Richardson, P ;

Smith, SF ;

Clark, MS ;

Edwards, YJK ;

Doggett, N ;

Zharkikh, A ;

Tavtigian, SV ;

Pruss, D ;

Barnstead, M ;

Evans, C ;

Baden, H ;

Powell, J ;

Glusman, G ;

Rowen, L ;

Hood, L ;

Tan, YH ;

Elgar, G ;

Hawkins, T ;

Venkatesh, B ;

Rokhsar, D ;

Brenner, S .

SCIENCE, 2002, 297 (5585) :1301-1310

[3] DETECTING CONSERVED REGULATORY ELEMENTS WITH THE MODEL GENOME OF THE JAPANESE PUFFER FISH, FUGU RUBRIPES [J].

APARICIO, S ;

MORRISON, A ;

GOULD, A ;

GILTHORPE, J ;

CHAUDHURI, C ;

RIGBY, P ;

KRUMLAUF, R ;

BRENNER, S .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1995, 92 (05) :1684-1688

[4]

Arnone MI, 1997, DEVELOPMENT, V124, P1851

[5] Comparative genomics of the SOX9 region in human and Fugu rubripes:: Conservation of short regulatory sequence elements within large intergenic regions [J].

Bagheri-Fam, S ;

Ferraz, C ;

Demaille, J ;

Scherer, G ;

Pfeifer, D .

GENOMICS, 2001, 78 (1-2) :73-82

[6] Regulation of the stem cell leukemia (SCL) gene:: A tale of two fishes [J].

Barton, LM ;

Göttgens, B ;

Gering, M ;

Gilbert, JGR ;

Grafham, D ;

Rogers, J ;

Bentley, D ;

Patient, R ;

Green, AR .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2001, 98 (12) :6747-6752

[7]

BEJERANO G, 2004, SCIENCE 0506, DOI DOI 10.1126/SCIENCE.1098119

[8] Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome [J].

Berman, BP ;

Nibu, Y ;

Pfeiffer, BD ;

Tomancak, P ;

Celniker, SE ;

Levine, M ;

Rubin, GM ;

Eisen, MB .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (02) :757-762

[9] Multiple regulatory elements with spatially and temporally distinct activities control neurogenin1 expression in primary neurons of the zebrafish embryo [J].

Blader, P ;

Plessy, C ;

Strähle, U .

MECHANISMS OF DEVELOPMENT, 2003, 120 (02) :211-218

[10] Convergent evolution in primates and an insectivore [J].

Boffelli, D ;

Cheng, JF ;

Rubin, EM .

GENOMICS, 2004, 83 (01) :19-23

← 1 2 3 4 5 6 7 8 9 →