ZBED6: The birth of a new transcription factor in the common ancestor of placental mammals

Transcription

Volumn 1, Issue 3, 2010, Pages 144-148

  Andersson, Leif ^a,b   Andersson, Göran ^b   Hjälm, Göran ^a   Jiang, Lin ^a   Lindblad Toh, Kerstin ^a,c   Lindroth, Anders M ^b   Markljung, Ellen ^d   Nyström, Anna Maja ^b   Rubin, Carl Johan ^a   Sundström, Elisabeth ^b  

^a UPPSALA UNIVERSITY   (Sweden)

^b SWEDISH UNIVERSITY OF AGRICULTURAL SCIENCES   (Sweden)

^c BROAD INSTITUTE OF MIT AND HARVARD   (United States)

^d KAROLINSKA UNIVERSITY HOSPITAL   (Sweden)

Author keywords

ChIP seq; Evolution; IGF2; Muscle growth; Transcriptional regulation; ZBED6

Indexed keywords

MESSENGER RNA; PROTEIN ZBED6; SOMATOMEDIN B; TRANSCRIPTION FACTOR; UNCLASSIFIED DRUG;

ARTICLE; BINDING SITE; GENE DISRUPTION; GENE MUTATION; GENE REGULATORY NETWORK; HUMAN; INTRON; LAST COMMON ANCESTOR; MUSCLE GROWTH; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PLACENTAL MAMMALS; PROMOTER REGION; PROTEIN EXPRESSION; PROTEIN LOCALIZATION; PROTEIN PROTEIN INTERACTION; QUANTITATIVE TRAIT LOCUS MAPPING; REGULATORY MECHANISM; TRANSCRIPTION REGULATION;

EUTHERIA; MAMMALIA; SUIDAE;

EID: 79952275008     PISSN: 21541264     EISSN: 21541272     Source Type: Journal    
DOI: 10.4161/trns.1.3.13343     Document Type: Article

References (29)

1. Jeon JT, Carlborg Ö, Törnsten A, Giuffra E, Amarger V, Chardon P, et al. A paternally expressed QTL affecting skeletal and cardiac muscle mass in pigs maps to the IGF2 locus. Nat Genet 1999; 21:13-5.
2. Nezer C, Moreau L, Brouwers B, Coppieters W, Detilleux J, Hanset R, et al. An imprinted QTL with major effect on muscle mass and fat deposition maps to the IGF2 locus in pigs. Nat Genet 1999; 21:155-6.
3. Van Laere AS, Nguyen M, Braunschweig M, Nezer C, Collette C, Moreau L, et al. A regulatory mutation in IGF2 causes a major QTL effect on muscle growth in the pig. Nature 2003; 425:832-6.
4. Ojeda A, Huang LS, Ren J, Angiolillo A, Cho IC, Soto H, et al. Selection in the making: a worldwide survey of haplotypic diversity around a causative mutation in porcine IGF2. Genetics 2008; 178:1639-52.
5. Markljung E, Jiang L, Jaffe JD, Mikkelsen TS, Wallerman O, Larhammar M, et al. ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth. PloS Biol 2009; 7:e1000256.
6. Ong SE, Blagoev B, Kratchmarova I, Kristensen DB, Steen H, Pandey A, et al. Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomics. Mol Cell Proteomics 2002; 1:376-86.
7. Butter F, Kappei D, Buchholz F, Vermeulen M, Mann M. A domesticated transposon mediates the effects of a single-nucleotide polymorphism responsible for enhanced muscle growth. EMBO Rep 2010; 11:305-11.
8. Aravind L. The BED finger, a novel DNA-binding domain in chromatin-boundary-element-binding proteins and transposases. Trends Biochem Sci 2000; 25:421-3.
9. Calvi BR, Hong TJ, Findley SD, Gelbart WM. Evidence for a common evolutionary origin of inverted repeat transposons in Drosophila and plants: hobo, Activator and Tam3. Cell 1991; 66:465-71.
10. International Human Genome Sequencing Consortium. Initial sequencing and analysis of the human genome. Nature 2001; 409:860-921.
11. Boisvert FM, van Koningsbruggen S, Navascués J, Lamond AI. The multifunctional nucleolus. Nat Rev Mol Cell Biol 2007; 8:574-85.
12. Russell J, Zomerdijk JC. RNA-polymerase-I-directed rDNA transcription, life and works. Trends Biochem Sci 2005; 30:87-96.
13. Frescas D, Guardavaccaro D, Bassermann F, Koyama-Nasu R, Pagano M. JHDM1B/FBXL10 is a nucleolar protein that represses transcription of ribosomal RNA genes. Nature 2007; 450:309-13.
14. Ali SA, Zaidi SK, Dacwag CS, Salma N, Young DW, Shakoori AR, et al. Phenotypic transcription factors epigenetically mediate cell growth control. Proc Natl Acad Sci USA 2008; 105:6632-7.
15. Ali SA, Huang MB, Campbell PE, Roth WW, Campbell T, Khan M, et al. Transcriptional corepressor TLE1 functions with Runx2 in epigenetic repression of ribosomal RNA genes. Proc Natl Acad Sci USA 2010; 107:4165-9.
16. Matsukage A, Hirose F, Yoo MA, Yamaguchi M. The DRE/DREF transcriptional regulatory system: a master key for cell proliferation. Biochim Biophys Acta 2008; 1779:81-9.
17. Visel A, Blow MJ, Li Z, Zhang T, Akiyama JA, Holt A, et al. ChIP-seq accurately predicts tissue-specific activity of enhancers. Nature 2009; 457:854-8.
18. Bieda M, Xu X, Singer MA, Green R, Farnham PJ. Unbiased location analysis of E2F1-binding sites suggests a widespread role for E2F1 in the human genome. Genome Res 2006; 16:595-605.
19. King MC, Wilson AC. Evolution at two levels in humans and chimpanzees. Science 1975; 188:107-16.
20. Haygood R, Babbitt CC, Fedrigo O, Wray GA. Contrasts between adaptive coding and noncoding changes during human evolution. Proc Natl Acad Sci USA 2010; 107:7853-7.
21. Carroll SB. Evo-devo and an expanding evolutionary synthesis: a genetic theory of morphological evolution. Cell 2008; 134:25-36.
22. Wright D, Boije H, Meadows JRS, Bed'hom B, Gourichon D, Vieaud A, et al. Copy number variation in intron 1 of SOX5 causes the Pea-comb phenotype in chickens. PLoS Genet 2009; 5:e1000512.
23. Fisher SE, Marcus GF. The eloquent ape: genes, brains and the evolution of language. Nat Rev Genet 2006; 7:9-20.
24. Odom DT, Dowell RD, Jacobsen ES, Gordon W, Danford TW, MacIsaac KD, et al. Tissue-specific transcriptional regulation has diverged significantly between human and mouse. Nat Genet 2007; 39:730-2.
25. Meireles-Filho AC, Stark A. Comparative genomics of gene regulation-conservation and divergence of cis-regulatory information. Curr Opin Genet Dev 2009; 19:565-70.
26. Schmidt D, Wilson MD, Ballester B, Schwalie PC, Brown GD, Marshall A, et al. Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding. Science 2010; 328:1036-40.
27. Murphy WJ, Pringle TH, Crider TA, Springer MS, Miller W. Using genomic data to unravel the root of the placental mammal phylogeny. Genome Res 2007; 17:413-21.
28. Warren WC, Hillier LW, Marshall Graves JA, Birney E, Ponting CP, Grützner F, et al. Genome analysis of the platypus reveals unique signatures of evolution. Nature 2008; 453:175-83.
29. Chen X, Xu H, Yuan P, Fang F, Huss M, Vega VB, et al. Integration of external signaling pathways with the core transcriptional network in embryonic stem cells. Cell 2008; 133:1106-17.