Evolutionary story of a satellite DNA from phodopus sungorus (rodentia, cricetidae)

Genome Biology and Evolution

Volumn 6, Issue 10, 2014, Pages 2944-2955

  Paço, Ana ^a   Adega, Filomena ^a   Meštrović, Nevenka ^b   Plohl, Miroslav ^b   Chaves, Raquel ^a  

^a UNIVERSITY OF TRÁS OS MONTES AND ALTO DOURO   (Portugal)

^b RUDER BO KOVI INSTITUTE   (Croatia)

Author keywords

Chromosomal distribution; Copy number; Phodopus sungorus; Rodentia; Satellite DNA; Transcriptional activity

Indexed keywords

SATELLITE DNA;

ANIMAL; GENETIC TRANSCRIPTION; GENETICS; MOLECULAR EVOLUTION; PHODOPUS; RODENT;

ANIMALS; DNA, SATELLITE; EVOLUTION, MOLECULAR; PHODOPUS; RODENTIA; TRANSCRIPTION, GENETIC;

EID: 84937250132     PISSN: None     EISSN: 17596653     Source Type: Journal    
DOI: 10.1093/gbe/evu233     Document Type: Article

References (44)

1. Adega F, Guedes-Pinto H, Chaves R. 2009. Satellite DNA in the karyotype evolution of domestic animals-clinical considerations. Cytogenet Genome Res. 126:12-20.
2. Antequera F. 2003. Structure, function and evolution of CpG island promoters. Cell Mol Life Sci. 60:1647-1658.
3. Benson G. 1999. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 27(2):573-580.
4. Bierhoff H, Postepska-Igielska A, Grummt I. 2013. Noisy silence: Noncoding RNA and heterochromatin formation at repetitive elements. Epigenetics 9(1):1-8.
5. Brannan CI, Disteche CM, Park LS, Copeland NG, Jenkins NA. 2001. Autosomal telomere exchange results in the rapid amplification and dispersion and Csf2ra genes in wild-derived mice. Mamm Genome. 12:882-886.
6. Castagnone-Sereno P, Leroy F, Abad P. 2000. Cloning and characterization of an extremely conserved satellite DNA family from the root-knot nematode Meloidogyne arenaria. Genome 43: 346-353.
7. Cazaux B, Catalan J, Veyrunes F, Douzery EJP, Britton-Davidian J. 2011. Are ribosomal DNA clusters rearrangement hotspots? A case study in the genus Mus (Rodentia, Muridae). BMC Evol Biol. 11:124.
8. Chaves R, Frönicke L, Guedes-Pinto H, Wienberg J. 2004. Multidirectional chromosome painting between the Hirola antelope (Damaliscus hunteri, Alcelaphini, Bovidae), sheep and human. Chromosome Res. 12: 495-503.
9. Dover G. 2002. Molecular drive. Trends Genet. 18:587-589.
10. Elder JF, Turner BJ. 1995. Concerted evolution of repetitive DNA sequences in eukaryotes. Q Rev Biol. 70:297-320.
11. Enukashvily NI, Ponomartsev NV. 2013. Mammalian satellite DNA: a speaking dumb. Adv Protein Chem Struct Biol. 90:31-65.
12. Garagna S, et al. 1997. Genome composition in Venezuelan spiny-rats of the genus Proechimys (Rodentia, Echimyidae). I. Genome size, Cheterochromatin and repetitive DNAs in situ hybridization patterns. Cytogenet Cell Genet. 78:36-43.
13. Levan G. 1974. Nomenclature for G-bands in rat chromosomes. Hereditas 77:37-52.
14. Livak K, Schmittgen T. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2-δ δCT method. Methods 25:402-408.
15. Lorite P, Carrillo JA, Tinaut A, Palomeque T. 2004. Evolutionary dynamics of satellite DNA in species of the genus Formica (Hymenoptera, Formicidae). Gene 332:159-168.
16. Manuelidis L. 1982. Repeated DNA sequences and nuclear structure. In: Dover GA, Flavell RB, editors. Genome evolution. London (United Kingdom): Academic Press. p. 263-285.
17. Marshall LG, Clarke L. 1995. A novel cis-acting centromeric DNA elements affects S. pombe chromatin structure at a distance. J Cell Biol. 128: 445-454.
18. Miklos G, Gill AC. 1982. Nucleotide sequences of highly repeated DNAs, compilation and comments. Genet Res. 39:1-30.
19. Modi WS. 1992. Nucleotide sequence and genomic organization of a tandem satellite array from the rock vole Mierotus ehrotorrhinus (Rodentia). Mamm Genome. 3:226-232.
20. Modi WS. 1993. Rapid, localized amplification of a unique satellite DNA family in the rodent Microtus chrotorrhinus. Chromosoma 102: 484-490.
21. Modi WS, Serdyukova NA, Vorobieva NV, Graphodatsky AS. 2003. Chromosomal localization of six repeated DNA sequences among species of Microtus (Rodentia). Chromosome Res. 11: 705-713.
22. Mravinać B, Plohl M. 2010. Parallelism in evolution of highly repetitive DNAs in sibling species. Mol Biol Evol. 27:1857-1867.
23. Mravinać B, Plohl M, Ugarković-D. 2004. Conserved patterns in the evolution of Tribolum satellite DNAs. Gene 332:169-177.
24. Musser G, Carleton M. 2005. Superfamily Muroidea. In: Wilson DE, Reeder DM, editors. Mammal species of the world. Washington (DC): Smithsonian Institution Press. p. 894-1522.
25. Nijman IJ, Lenstra JA. 2001. Mutation and recombination in cattle satellite DNA: a feedback model for the evolution of satellite DNA repeats. J Mol Evol. 52:361-371.
26. Paço A, Chaves R, Vieira-da-Silva A, Adega F. 2013. The involvement of repetitive sequences in the remodelling of karyotypes: the Phodopus genomes (Rodentia, Cricetidae). Micron 46:27-34.
27. Palomeque T, Lorite P. 2008. Satellite DNA in insects: a review. Heredity 100:564-573.
28. Pezer Ž, Ugarković-D. 2012. Satellite DNA-associated siRNAs as mediators of heat shock response in insects. RNA Biol. 9(5):587-595.
29. Plohl M. 2010. Those mysterious sequences of satellite DNAs. Period Biol. 112(4):403-410.
30. Plohl M, Luchetti A, Meštrović N, Mantovani B. 2008. Satellite DNAs between selfishness and functionality: structure, genomics and evolution of tandem repeats in centromeric (hetero)chromatin. Gene 409: 72-82.
31. Plohl M, Meštrović N, Mravinac B. 2012. Satellite DNA evolution. In: Garrido-Ramos MA, editor. Repetitive DNA. Basel (Switzerland): Karger. p. 126-152.
32. Robinson M, Catzeflis F, Briolay J, Mouchiroud D. 1997. Molecular phylogeny of rodents, with special emphasis on murids: evidence from nuclear gene LCAT. Mol Phylogenet Evol. 8:423-434.
33. Romanenko SA, et al. 2007. Karyotype evolution and phylogenetic relationships of hamsters (Cricetidae, Muroideia, Rodentia) inferred from chromosomal painting and banding comparison. Chromosome Res. 15:283-297.
34. Rudert F, Bronner S, Garnier JM, Dollé P. 1995. Transcripts from opposite strands of g satellite DNA are differentially expressed during mouse development. Mamm Genome. 6:76-83.
35. Scherthan H, et al. 1996. Centromere and telomere movements during early meiotic prophase of mouse and man are associated with the onset of chromosome pairing. J Cell Biol. 134: 1109-1125.
36. Schwarzacher, T, Heslop-Harrison, JS, editors. 2000. Practical in situ hybridization. Oxford: Bios Scientific Publishers.
37. Singer MF. 1982. Highly repeated sequences in mammalian genomes. Int Rev Cytol. 76:67-112.
38. Spyropoulos B, Ross PD, Moens PB, Cameron DM. 1982. The synaptonemal complex karyotypes of palearctic hamsters, Phodopus roborovskii Satunin and P. sungorus Pallas. Chromosoma 86:397-408.
39. Sumner AT. 1972. A simple technique for demonstrating centromeric heterochromatin. Exp Cell Res. 75:304-306.
40. Thompson JD, Higgins DG, Gibson TJ. 1994. Clustal W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Res. 22(22):4673-4680.
41. Ugarković-D. 2005. Functional elements residing within satellite DNAs. EMBO Rep. 6(11):1035-1039.
42. Vourc'hC, BiamontiG. 2011. Longnon-codingRNAs. Progress inmolecular and subcellular biology. In: UgarkovicD, editor. Transcription of satellite DNAs in mammals. Berlin (Germany): Springer-Verlag. p. 95-118.
43. Walsh JB. 1987. Persistence of tandem arrays: implications for satellite DNA and simple-sequence DNAs. Genetics 115:553-567.
44. Wichman HA, et al. 1991. Genomic distribution of heterochromatic sequences in equids: implications to rapid chromosomal evolution. J Hered. 82:369-377.