Abstract
Four different units containing three variants of the U1 snRNA gene have been identified in the genome of Asellus aquaticus and only one unit has been identified in the genome of Proasellus coxalis. All four identified U1 snRNA genes can be folded according to the proper secondary structure and possess the functionally useful conserved sequences. Moreover, in the 3′ flanking regions, all genes present both the 3′ box, a conserved sequence required for 3′ processing of mature snRNA, and a polyadenylation signal which is unusual for these genes. The PCR products were used as probes in fluorescent in-situ hybridization (FISH) experiments to locate them on chromosomes of A. aquaticus and P. coxalis.
This is a preview of subscription content, log in via an institution to check access.
Similar content being viewed by others
References
Barzotti R, Pelliccia F, Rocchi A (1996) Heterochromatin and ribosomal genes in Asellus aquaticus (Crust. Isop.). Cromosome Res 4: 177-181.
Barzotti R, Pelliccia F, Rocchi A (2000a) Sex chromosome differentiation revealed by comparative genomic hybridization. Chromosome Res. 8: 459-464.
Barzotti R, Pelliccia F, Bucciarelli E, Rocchi A (2000b) Organization, nucleotide sequence and chromosomal mapping of a tandemly repeated unit containing the four core histone genes and a 5 S rRNA gene in an isopod crustacean species. Genome 43: 341-345.
Bernstein LB, Manser T, Weiner AM (1985) Human U1 small nuclear RNA genes: extensive conservations of flanking sequences suggests cycles of gene amplification and transposition. Mol Cell Biol 5: 2159-2171.
Branlant C, Krol A, Ebel JP, Gallinaro H, Lazar E, Jacob M (1981) The conformation of chicken, rat and human U1A RNAs in solution. Nucleic Acids Res 9: 841-858.
Brown DT, Morris GF, Chodchoy N, Sprecher C, Marzluff WF (1985) Structure of the sea urchin U1 RNA repeat. Nucleic Acids Res 13: 537-556.
Di Castro M, Lanza V, Franconi R, Rocchi A (1985) Observations on the karyotype of Proasellus coxalis. Caryologia 38: 303-308.
Earley JM, Roebuck KA, Stumph WE (1984) Three linked chicken U1 genes have limited DNA flanking homologies that reveal potential regulatory signals. Nucleic Acids Res 12: 7411-7421.
Hernandez N (1992) Transcription of vertebrate snRNA genes and related genes. In: McKnigth SL, Yamamoto KR, eds. Transcriptional Regulation. Cold Spring Harbor Laboratory Press, pp. 281-313.
Hernandez N (2001) Small nuclear RNA genes: a model system to study fundamental mechanisms of transcription. J Biol Chem 276: 26733-26736.
Lo PCH, Mount SM (1990) Drosophila melanogaster genes for U1 snRNA variants and their expression during development. Nucleic Acids Res 18: 6971-6979.
Lobo SM, Hernandez NT (1994) Transcription of snRNA genes by RNA polymerases II and III. In: Conaway RC, Conaway JW, eds. Transcription: Mechanisms and Regulation. New York, NY: Raven Press, pp 127-159.
Lobo SM, Marzluff WF, Seufert AC, Dean WL, Schultz GA, Simerly C (1988) Localization and expression of U1 RNA in early mouse embryo development. Dev Biol 127: 349-361.
Lund E, Dahlberg JE (1987) Differential accumulation of U1 and U4 small nuclear RNAs during Xenopus development. Genes Dev 1: 39-46.
Marzluff WF, Brown DT, Lobo S, Wang S (1983) Isolation and characterization of two mouse U1b small nuclear RNA genes. Nucleic Acids Res 11: 6255-6270.
Mount SM, Steitz JA (1981) Sequence of U1 RNA from Drosophila melanogaster: implications for U1 secondary structure and possible involvment in splicing. Nucleic Acids Res 9: 6351-6368.
Nash MA, Marzluff WF (1988) Structure of an unusual sea urchin U1 RNA gene cluster. Gene 64: 53-63.
Pelliccia F, Barzotti R, Volpi EV, Bucciarelli E, Rocchi A (1998) Nucleotide sequence and chromosomal mapping of the 5 S rDNA repeat of the crustacean Proasellus coxalis. Genome 41: 129-133.
Pelliccia F, Barzotti R, Bucciarelli E, Rocchi A (2001) 5 S rRNA and U1 snRNA genes, a new linkage type in the genome of a crustacean that has three different tandemly repeated units containing 5 S rDNA sequences. Genome 44: 331-335.
Rocchi A, Lanza V, Di Castro M (1989) Surface spreading of synaptonemal complexes in three isopod crustacean species. Genetica 78: 125-132.
Santiago C, Marzluff WF (1989) Expression of the U1 RNA gene repeat during early sea urchin development: evidence for a switch in U1 RNA genes during development. Proc Natl Acad Sci USA 86: 2572-2576.
Tazi J, Kornstadt U, Rossi F, Jeanteur P, Cbrunel C, Luhrman R (1993). Thiophosphorylation of UI-70K protein inhibits pre-mRNA splicing, Nature 363: 283-286.
Watanabe-Nagasu NY, Itoh T, Tani T et al. (1983) Structural analysis of gene loci for rat U1 small nuclear RNA. Nucleic Acids Res 11: 1791-1801.
Zeller R, Carri M-T, Mattaj IW, De Robertis EM (1984) Xenopus laevis U1 small nuclear RNA genes: characterization of transcriptionally active genes reveals major and minor repeated gene families. EMBO J 3: 1075-1081.
Zwieb C (1997) The uRNA database. Nucleic Acids Res 25: 102-102.
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Barzotti, R., Pelliccia, F. & Rocchi, A. Identification and characterization of U1 small nuclear RNA genes from two crustacean isopod species. Chromosome Res 11, 365–373 (2003). https://doi.org/10.1023/A:1024048108918
Issue Date:
DOI: https://doi.org/10.1023/A:1024048108918