Standardized nomenclature for Alu repeats

Journal of Molecular Evolution

Volumn 42, Issue 1, 1996, Pages 3-6

  Batzer, Mark A ^a,b   Deininger, Prescott L ^b   Hellmann Blumberg, Utha ^c   Jurka, Jerzy ^d   Labuda, Damian ^e   Rubin, Carol M ^c   Schmid, Carl W ^c   Ziȩtkiewicz, Ewa ^e   Zuckerkandl, Emile ^f  

^a LAWRENCE LIVERMORE NATIONAL LABORATORY   (United States)

^b LOUISIANA STATE UNIV MEDICAL CENTER   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d OREGON STATE UNIVERSITY   (United States)

^e UNIVERSITY OF MONTREAL   (Canada)

^f Inst of Molecular Medical Sciences   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CONFERENCE PAPER; CONSENSUS SEQUENCE; GENOME; MULTIGENE FAMILY; NOMENCLATURE; RETROPOSON; SHORT INTERSPERSED REPEAT;

EID: 0030052666     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/BF00163204     Document Type: Conference Paper

References (39)

1. Batzer MA, Deininger PL (1991) A human-specific subfamily of Alu sequences. Genomics 9:481-487
2. Batzer MA, Kilroy GE, Richard PE, Shaikh TH, Desselle TD, Hoppens CL, Deininger PL (1990) Structure and variability of recently inserted Alu family members. Nucleic Acids Res 18:6793-6798
3. Batzer MA, Gudi VA, Mena JC, Foltz DW, Herrera RJ, Deininger PL (1991) Amplification dynamics of Human-Specific (HS) Alu family members. Nucleic Acids Res 19:3619-3623
4. Batzer MA, Stoneking M, Alegria-Hartman M, Bazan H, Kass DH, Shaikh TH, Novick GE, Ioannou PA, Scheer WD, Herrera RJ, Deininger PL (1994) African origin of human-specific polymorphic Alu insertions. Proc Natl Acad Sci USA 91:12288-12292
5. Batzer MA, Arcot SS, Phinney JW, Alegria-Hartman M, Kass DH, Milligan SM, Kimpton C, Gill P, Hochmeister M, Ioannou PA, Herrera RJ, Boudreau DA, Scheer WD, Keats BJB, Deininger PL, Stoneking M (1996) Genetic variation of recent Alu insertions in human populations. J Mol Evol 42:22-29
6. Batzer MA, Rubin CM, Hellman-Blumberg U, Alegria-Hartman M, Leeflang EP, Stern JD, Bazan HA, Shaikh TH, Deininger PL, Schmid CW (1995) Dispersion and insertion polymorphism in two small subfamilies of recently amplified human Alu repeats. J Mol Biol 247:418-427
7. Blonden LAJ, Terwindt GM, Den Dunnen JT, Van Ommen G-JB (1994) A polymorphic STS in intron 44 of the dystrophin gene. Hum Genet 93:479-480
8. Britten RJ (1994) Evidence that most human Alu sequences were inserted in a process that ceased about 30 million years ago. Proc Natl Acad Sci USA 91:6148-6150
9. Britten RJ, Baron WF, Stout DB, Davidson EH (1988) Sources and evolution of human Alu repeated sequences. Proc Natl Acad Sci USA 85:4770-4774
10. Britten RJ, Stout DB, Davidson EH (1989) The current source of human Alu retroposons is a conserved gene shared with Old World monkey. Proc Natl Acad Sci USA 86:3718-3722
11. Deininger PL (1989) SINEs: short interspersed repeated DNA elements in higher eucaryotes. In: Berg DE, Howe MM (eds) Mobile DNA. American Society for Microbiology, Washington, DC, pp 619-636
12. Deininger PL, Batzer MA (1993) Evolution of retroposons. Evol Biol 27:157-196
13. Deininger PL, Batzer MA (1995) SINE master genes and population biology. In: Maraia RJ (ed) The impact of short interspersed elements (SINEs) on the host genome. RG Landes, Georgetown, TX, pp 43-60
14. Deininger PL, Slagel VK (1988) Recently amplified Alu family members share a common parental Alu sequence. Mol Cell Biol 8:4566-4569
15. Deininger PL, Batzer MA, Hutchison III CA, Edgell MH (1992) Master genes in mammalian repetitive DNA amplification. Trends Genet 8:307-311
16. Hammer MF (1994) A recent insertion of an Alu element on the Y chromosome is a useful marker for human population studies. Mol Biol Evol 11:749-761
17. Hutchinson GB, Andrew SE, McDonald H, Goldberg YP, Graharn R, Rommens JR, Hayden MR (1993) An Alu element retroposition in two families with Huntington disease defines a new active Alu subfamily. Nucleic Acids Res 21:3379-3383
18. Jurka J (1993) A new subfamily of recently retroposed Alu repeats. Nucleic Acids Res 21:2252
19. Jurka J, Milosavljevic A (1991) Reconstruction and analysis of human Alu genes. J Mol Evol 32:105-121
20. Jurka J, Smith T (1988) A fundamental division in the Alu family of repeated sequences. Proc Natl Acad Sci USA 85:4775-4778
21. Kass DH, Aleman C, Batzer MA, Deininger PL (1994) Identification of a human specific Alu insertion in the Factor XIIIB gene. Genetica 94:1-8
22. Labuda D, Striker G (1989) Sequence conservation in Alu evolution. Nucleic Acids Res 17:2477-2491
23. Leeflang EP, Liu W-M, Hashimoto C, Choudary PV, Schmid CW (1992) Phylogenetic evidence for multiple Alu source genes. J Mol Evol 35:7-16
24. Matera AG, Hellmann U, Schmid CW (1990a) A transpositionally and transcriptionally competent Alu subfamily. Mol Cell Biol 10:5424-5432
25. Matera AG, Hellmann U, Hintz MF, Schmid CW (1990b) Recently transposed Alu repeats result from multiple source genes. Nucleic Acids Res 18:6019-6023
26. Muratani K, Hada T, Yamamoto Y, Kaneko T, Shigeto Y, Ohue T, Furuyama J, Higashino K (1991) Inactivation of the cholinesterase gene by Alu insertion: possible mechanism for human gene transposition. Proc Natl Acad Sci USA 88:11315-11319
27. Okada N (1991) SINEs. Curr Opin Genet Dev 1:498-504.
28. Perna NT, Batzer MA, Deininger PL, Stoneking M (1992) Alu insertion polymorphism: A new type of marker for human population studies. Hum Biol 64:641-648
29. Quentin Y (1988) The Alu family developed through successive waves of fixation closely connected with primate lineage history. J Mol Evol 27:194-202
30. Rogers J (1983) Retroposons defined. Nature 301:460
31. Schmid CW, Maraia R (1992) Transcriptional regulation and transpositional selection of active SINE sequences. Curr Opin Genet Dev 2:874-882.
32. Shen M-R, Batzer MA, Deininger PL (1991) Evolution of the master Alu gene(s). J Mol Evol 33:311-320
33. Slagel V, Flemington E, Traina-Dorge V, Bradshaw H, Deininger PL (1987) Clustering and sub-family relationships of the Alu family in the human genome. Mol Biol Evol 14:19-29
34. Stoppa-Lynnet D, Carter PE, Meo T, Tosi M (1990) Clusters of intragenic Alu repeats predispose the human C1 inhibitor locus to deleterious rearrangements. Proc Natl Acad Sci USA 87:1551-1555
35. Ullu E, Murphy S, Melli M (1982) Human 7S RNA consists of a 140 nucleotide middle repetitive sequence inserted in an Alu sequence. Cell 29:195-202
36. Vidaud D, Vidaud M, Bahnak BR, Siguret V, Sanchez SG, Laurin Y, Meyer D, Goossens M, Lavergne JM (1993) Hemophilia B due to a de novo insertion of a Human-Specific Alu subfamily member within the coding region of the factor IX gene. Eur J Hum Genet 1:30-36
37. Wallace MR, Andersen LB, Saulino AM, Gregory PE, Glover TW, Collins FS (1991) A de novo Alu insertion results in neurofibromatosis type 1. Nature 353:864-866
38. Willard C, Nguyen HT, Schmid CW (1987) Existence of at least three distinct Alu subfamilies. J Mol Evol 26:180-186
39. Zietkiewicz E, Richer C, Makalowski W, Jurka J, Labuda D (1994) A young Alu subfamily amplified independently in human and African great apes lineages. Nucleic Acids Res 22:5608-5612