The evolution of the DLK1-DIO3 imprinted domain in mammals

被引：148

作者：

Edwards, Carol A. ^{[1
]}

Mungall, Andrew J. ^{[2
]}

Matthews, Lucy ^{[2
]}

Ryder, Edward ^{[3
]}

Gray, Dionne J. ^{[1
]}

Pask, Andrew J. ^{[4
]}

Shaw, Geoffrey ^{[4
]}

Graves, Jennifer A. M. ^{[5
]}

Rogers, Jane ^{[2
]}

Dunham, Ian ^{[2
]}

Renfree, Marilyn B. ^{[4
]}

Ferguson-Smith, Anne C. ^{[1
]}

机构：

[1] Univ Cambridge, Dept Phys Dev & Neurosci, Cambridge, England

[2] Wellcome Trust Sanger Inst, Cambridge, England

[3] Univ Cambridge, Dept Genet, Cambridge CB2 3EH, England

[4] Univ Melbourne, Dept Zool, Melbourne, Vic 3010, Australia

[5] Australian Natl Univ, Res Sch Biol Sci, Canberra, ACT 2601, Australia

来源：

PLOS BIOLOGY | 2008年 / 6卷 / 06期

基金：

英国惠康基金; 英国医学研究理事会;

关键词：

D O I：

10.1371/journal.pbio.0060135

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：

A comprehensive, domain-wide comparative analysis of genomic imprinting between mammals that imprint and those that do not can provide valuable information about how and why imprinting evolved. The imprinting status, DNA methylation, and genomic landscape of the Dlk1-Dio3 cluster were determined in eutherian, metatherian, and prototherian mammals including tammar wallaby and platypus. Imprinting across the whole domain evolved after the divergence of eutherian from marsupial mammals and in eutherians is under strong purifying selection. The marsupial locus at 1.6 megabases, is double that of eutherians due to the accumulation of LINE repeats. Comparative sequence analysis of the domain in seven vertebrates determined evolutionary conserved regions common to particular subgroups and to all vertebrates. The emergence of Dlk1-Dio3 imprinting in eutherians has occurred on the maternally inherited chromosome and is associated with region-specific resistance to expansion by repetitive elements and the local introduction of noncoding transcripts including microRNAs and C/D small nucleolar RNAs. A recent mammal-specific retrotransposition event led to the formation of a completely new gene only in the eutherian domain, which may have driven imprinting at the cluster.

引用

页码：1292 / 1305

页数：14

共 56 条

[11] Restricted co-expression of Dlk1 and the reciprocally imprinted non-coding RNA, Glk2:: Implications for cis-acting control [J].

da Rocha, Simao T. ;

Tevendale, Maxine ;

Knowles, Edward ;

Takada, Shuji ;

Watkins, Marie ;

Ferguson-Smith, Anne C. .

DEVELOPMENTAL BIOLOGY, 2007, 306 (02) :810-823

[12] RNAi-mediated allelic trans-interaction at the imprinted Rtl1/Peg11 locus [J].

Davis, E ;

Caiment, F ;

Tordoir, X ;

Cavaillé, J ;

Ferguson-Smith, A ;

Cockett, N ;

Georges, M ;

Charlier, C .

CURRENT BIOLOGY, 2005, 15 (08) :743-749

[13] STATISTICAL-ANALYSIS OF VERTEBRATE SEQUENCES REVEALS THAT LONG GENES ARE SCARCE IN GC-RICH ISOCHORES [J].

DURET, L ;

MOUCHIROUD, D ;

GAUTIER, C .

JOURNAL OF MOLECULAR EVOLUTION, 1995, 40 (03) :308-317

[14] A new perspective on isochore evolution [J].

Duret, Laurent ;

Eyre-Walker, Adam ;

Galtier, Nicolas .

GENE, 2006, 385 :71-74

[15] The evolution of imprinting: chromosomal mapping of orthologues of mammalian imprinted domains in monotreme and marsupial mammals [J].

Edwards, Carol A. ;

Rens, Willem ;

Clarke, Oliver ;

Mungall, Andrew J. ;

Hore, Timothy ;

Graves, Jennifer A. Marshall ;

Dunham, Ian ;

Ferguson-Smith, Anne C. ;

Ferguson-Smith, Malcolm A. .

BMC EVOLUTIONARY BIOLOGY, 2007, 7

[16] Mechanisms regulating imprinted genes in clusters [J].

Edwards, Carol A. ;

Ferguson-Smith, Anne C. .

CURRENT OPINION IN CELL BIOLOGY, 2007, 19 (03) :281-289

[17] VISTA: computational tools for comparative genomics [J].

Frazer, KA ;

Pachter, L ;

Poliakov, A ;

Rubin, EM ;

Dubchak, I .

NUCLEIC ACIDS RESEARCH, 2004, 32 :W273-W279

[18] Origin, evolution, and biological role of miRNA cluster in DLK-DIO3 genomic region in placental mammals [J].

Glazov, Evgeny A. ;

McWilliam, Sean ;

Barris, Wesley C. ;

Dalrymple, Brian P. .

MOLECULAR BIOLOGY AND EVOLUTION, 2008, 25 (05) :939-948

[19] Short interspersed transposable elements (SINEs) are excluded from imprinted regions in the human genome [J].

Greally, JM .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (01) :327-332

[20] Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution [J].

Hillier, LW ;

Miller, W ;

Birney, E ;

Warren, W ;

Hardison, RC ;

Ponting, CP ;

Bork, P ;

Burt, DW ;

Groenen, MAM ;

Delany, ME ;

Dodgson, JB ;

Chinwalla, AT ;

Cliften, PF ;

Clifton, SW ;

Delehaunty, KD ;

Fronick, C ;

Fulton, RS ;

Graves, TA ;

Kremitzki, C ;

Layman, D ;

Magrini, V ;

McPherson, JD ;

Miner, TL ;

Minx, P ;

Nash, WE ;

Nhan, MN ;

Nelson, JO ;

Oddy, LG ;

Pohl, CS ;

Randall-Maher, J ;

Smith, SM ;

Wallis, JW ;

Yang, SP ;

Romanov, MN ;

Rondelli, CM ;

Paton, B ;

Smith, J ;

Morrice, D ;

Daniels, L ;

Tempest, HG ;

Robertson, L ;

Masabanda, JS ;

Griffin, DK ;

Vignal, A ;

Fillon, V ;

Jacobbson, L ;

Kerje, S ;

Andersson, L ;

Crooijmans, RPM ;

Aerts, J .

NATURE, 2004, 432 (7018) :695-716

← 1 2 3 4 5 6 →