The non-LTR retrotransposon R2 in termites (Insecta, Isoptera): Characterization and dynamics

Journal of Molecular Evolution

Volumn 72, Issue 3, 2011, Pages 296-305

  Ghesini, Silvia ^a   Luchetti, Andrea ^a   Marini, Mario ^a   Mantovani, Barbara ^a  

^a UNIVERSITY OF BOLOGNA   (Italy)

Author keywords

Kalotermes; Mobile elements; R2 phylogeny; R2 structure; Reticulitermes; Truncated variants

Indexed keywords

ANIMAL; ARTICLE; GENETICS; ISOPTERA; LONG TERMINAL REPEAT; MOLECULAR EVOLUTION; MOLECULAR GENETICS; PHYLOGENY; RETROPOSON;

ANIMALS; EVOLUTION, MOLECULAR; ISOPTERA; MOLECULAR SEQUENCE DATA; PHYLOGENY; RETROELEMENTS; TERMINAL REPEAT SEQUENCES;

INSECTA; ISOPTERA; KALOTERMES; KALOTERMES FLAVICOLLIS; KALOTERMITIDAE; RETICULITERMES BALKANENSIS; RETICULITERMES GRASSEI; RETICULITERMES LUCIFUGUS; RETICULITERMES URBIS; RHINOTERMITIDAE;

EID: 79953651062     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00239-011-9430-y     Document Type: Article

References (48)

1. Aksoy S, Williams S, Chang S, Richards FF (1990) SLACS retrotransposon from Trypanosoma brucei gambiense is similar to mammalian LINEs. Nucleic Acids Res 18:785-792
2. Biémont C, Vieira C (2006) Junk DNA as an evolutionary force. Nature 443:521-524
3. Bowen NJ, Jordan IK (2002) Transposable elements and the evolution of eukaryotic complexity. Curr Issues Mol Biol 4:65-76 (Pubitemid 34649544)
4. Bunikis J, Barbour AG (2005) Ticks have R2 retrotransposons but not the consensus transposon target site of other arthropods. Insect Mol Biol 14:465-474 (Pubitemid 43899611)
5. Burke WD, Eickbush DG, Xiong Y, Jakubczak J, Eickbush TH (1993) Sequence relationship of retrotransposable elements R1 an R2 within and between divergent insect species. Mol Biol Evol 10:163-185 (Pubitemid 23040230)
6. Burke WD, Malik HS, Lathe WCIII, Eickbush TH (1998) Are retrotransposons long-term hitchhikers? Nature 392:141-142
7. Burke WD, Malik HS, Jones JP, Eickbush TH (1999) The domain structure and retrotransposition mechanism of R2 elements are conserved throughout arthropods. Mol Biol Evol 16:502-511 (Pubitemid 29190957)
8. Christensen SM, Ye J, Eickbush TH (2006) RNA from the 5′ end of the R2 retrotransposon controls R2 protein binding to and cleavage of its DNA target site. Proc Natl Acad Sci USA 103:17602-17607 (Pubitemid 44852207)
9. Cordaux R, Batzer MA (2009) The impact of retrotransposons on human genome evolution. Nat Rev Genet 10:691-703
10. Cummings MP (1994) Transmission patterns of eukaryotic transposable elements: arguments for and against horizontal transfer. Trends Ecol Evol 9:141-145
11. Davis RB, Baldauf SL, Mayhew PJ (2009) Eusociality and the success of termites: insights from a supertree of dictyopteran families. J Evol Biol 22:1750-1761
12. Doyle JJ, Doyle JL (1987) A rapid DNA isolation procedure for small amounts of fresh leaf tissue. Phytochem Bull 19:11-15
13. Eickbush TH, Jamburuthugoda VK (2008) The diversity of retrotransposons and the proprieties of their reverse transcriptases. Virus Res 134:221-234
14. Eickbush DG, Ye J, Zhang X, Burke WD, Eickbush TH (2008) Epigenetic regulation of retrotransposons within the nucleolus of Drosophila. Mol Cell Biol 28:6452-6461
15. Feschotte C, Pritham E (2007) DNA transposons and the evolution of eukaryotic genomes. Annu Rev Genet 41:331-368
16. George JA, Eickbush TH (1999) Conserved features at the 5′ end of Drosophila R2 retrotransposable elements: implications for transcription and translation. Insect Mol Biol 8:3-10 (Pubitemid 29032130)
17. Ghesini S, Marini M (2009) Caste differentiation and growth of laboratory colonies of Reticulitermes urbis (Isoptera, Rhinotermitidae). Insect Soc 56:309-318
18. Gladyshev EA, Arkhipova IR (2009) Rotifer-specific R9 retrotransposable elements generate an exceptionally long target site duplication upon insertion. Gene 448:145-150
19. Jakubczak JL, Burke WD, Eickbush TH (1991) Retrotransposable elements R1 and R2 interrupt the rDNA genes of most insects. Proc Natl Acad Sci USA 88:3295-3299 (Pubitemid 21916607)
20. Kagramanova AS, Kapelinskaya TV, Korolev AL, Mukha DV (2007) R1 and R2 retrotransposons of German cockroach Blattella germanica: a comparative study of 5′- truncated copies integrated into the genome. Mol Biol 41:546-553 (Pubitemid 47360353)
21. Kidwell MG, Lisch DR (2001) Perspective: transposable elements, parasitic DNA, and genome evolution. Evolution 55:1-24 (Pubitemid 32175281)
22. Kojima KK, Fujiwara H (2004) Cross-Genome screening of novel sequence-specific Non-LTR retrotransposons: various multicopy RNA genes and microsatellites are selected as targets. Mol Biol Evol 21:207-217 (Pubitemid 38314607)
23. Kojima KK, Fujiwara H (2005) Long-term inheritance of the 28S rDNA-specific retrotransposon R2. Mol Biol Evol 22:2157-2165 (Pubitemid 41437797)
24. Kojima KK, Kuma K, Toh H, Fujiwara H (2006) Identification of rDNA-specific non-LTR retrotransposons in Cnidaria. Mol Biol Evol 23:1984-1993 (Pubitemid 44412885)
25. Lathe WC III, Eickbush TH (1997) A single lineage of R2 retrotransposable elements is an active, evolutionarily stable component of the Drosophila rDNA locus. Mol Biol Evol 14:1232-1241
26. Luan DD, Eickbush TH (1995) RNA template requirements for target DNA-primed reverse transcription by the R2 retrotransposable element. Mol Cell Biol 15:3882-3891
27. Luan DD, Korman MH, Jakubczak JL, Eickush TH (1993) Reverse transcription of R2Bm RNA is primed by a nick at the chromosomal target site: a mechanism for non-LTR retrotransposition. Cell 72:595-605 (Pubitemid 23077747)
28. Madalena CRG, Andrioli LPM, Gorab E (2008) Ribosomal RNA gene insertions in the R2 site of Rhynchosciara (Diptera: Sciaridae). Chromosome Res 16:1233-1241
29. Malik HS, Eickbush TH (1999) Retrotransposable elements R1 and R2 in the rDNA units of Drosophila mercatorum: abnormal abdomen revisited. Genetics 151:653-665 (Pubitemid 29082933)
30. Matsuura K, Nishida T (2001) Comparison of colony foundation success between sexual pairs and female asexual units in the termite Reticulitermes speratus (Isoptera: Rhinotermitidae). Popul Ecol 43:119-124 (Pubitemid 32900989)
31. Mingazzini V, Luchetti A, Mantovani B (2011) R2 dynamics in Triops cancriformis (Bosc, 1801) (Crustacea, Branchiopoda, Notostraca): turnover rate and 28S concerted evolution. Heredity (in press) (doi:10.1038/hdy.2010.86)
32. Nei M, Rooney AP (2005) Concerted and birth-and-death evolution of multigene families. Annu Rev Genet 39:121-152 (Pubitemid 43011110)
33. Pérez-González CE, Eickbush TH (2001) Dynamics of R1 and R2 elements in the rDNA locus of Drosophila simulans. Genetics 158:1557-1567 (Pubitemid 32783141)
34. Pérez-González CE, Burke WD, Eickbush TH (2003) R1 and R1 retrotransposition and deletion in the rDNA loci on the X and Y chromosomes of Drosophila melanogaster. Genetics 165:675-685 (Pubitemid 37337634)
35. 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
36. Ronquist F, Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574 (Pubitemid 37038874)
37. Rozen S, Skaletsky HJ (2000) Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener S (eds) Bioinformatics methods and protocols: methods in molecular biology. Humana, Totowa, pp 365-386
38. Silva JC, Loreto EL, Clark JB (2004) Factors that affect the horizontal transfer of transposable elements. Curr Issues Mol Biol 6:57-72 (Pubitemid 37441574)
39. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA 4: Molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596-1599 (Pubitemid 47236692)
40. Vargo EL, Husseneder C (2009) Biology of subterranean termites: insights from molecular studies of Reticulitermes and Coptotermes. Annu Rev Entomol 54:379-403
41. Velonà A, Ghesini S, Luchetti A, Marini M, Mantovani B (2010a) Starting from Crete, a phylogenetic re-analysis of the genus Reticulitermes in the Mediterranean area. Mol Phylogenet Evol 56:1051-1058
42. Velonà A, Luchetti A, Mantovani B (2010a). Colony structure of Kalotermes flavicollis (Isoptera, Kalotermitidae): Preliminary results from two molecular markers. XVI° World congress of the international union for the study of social insects (IUSSI), Copenhagen, Denmark, 8-14th August, p 143
43. Venner S, Feschotte C, Biémont C (2009) Dynamics of transposable elements: towards a community ecology of the genome. Trends Genet 25:317-323
44. Wicker T, Sabot F, Hua-Van A, Bennetzen JL, Capy P, Chalhoub B, Flavell A, Leroy P, Morgante M, Panaud O, Paux E, SanMiguel P, Schulman AH (2007) A unified classification system for eukaryotic transposable elements. Nat Rev Gen 8:973-982 (Pubitemid 350129169)
45. Yang J, Malik HS, Eickbush TH (1999) Identification of the endonuclease domain encoded by R2 and other site-specific, non-long terminal repeat retrotransposable elements. Proc Natl Acad Sci USA 96:7847-7852 (Pubitemid 29328370)
46. Zhang X, Eickbush TH (2005) Characterization of active R2 retrotransposition in the rDNA locus of Drosophila simulans. Genetics 170:195-205 (Pubitemid 40799983)
47. Zhang X, Zhou J, Eickbush TH (2008) Rapid R2 retrotransposition leads to the loss of previously inserted copies via large deletions of the rDNA locus. Mol Biol Evol 25:229-237
48. Zhou J, Eickbush TH (2009) The pattern of R2 retrotransposition activity in natural populations of Drosophila simulans reflects the dynamic nature of the rDNA locus. PLoS Genetics 5:1-11