메뉴 건너뛰기




Volumn 12, Issue , 2011, Pages

Evolution of the nuclear ribosomal DNA intergenic spacer in four species of the Daphnia pulex complex

Author keywords

[No Author keywords available]

Indexed keywords

RNA 28S; SPACER DNA; RIBOSOMAL SPACER DNA;

EID: 78751642113     PISSN: None     EISSN: 14712156     Source Type: Journal    
DOI: 10.1186/1471-2156-12-13     Document Type: Article
Times cited : (22)

References (48)
  • 1
    • 0039174046 scopus 로고
    • Rapid duplication and loss of genes coding for the alpha chains of hemoglobin
    • 10.1073/pnas.77.4.2158, 348671, 6929543
    • Zimmer EA, Martin SL, Beverley SM, Kan YW, Wilson AC. Rapid duplication and loss of genes coding for the alpha chains of hemoglobin. Proc Natl Acad Sci USA 1980, 77:2158-2162. 10.1073/pnas.77.4.2158, 348671, 6929543.
    • (1980) Proc Natl Acad Sci USA , vol.77 , pp. 2158-2162
    • Zimmer, E.A.1    Martin, S.L.2    Beverley, S.M.3    Kan, Y.W.4    Wilson, A.C.5
  • 2
    • 0003016687 scopus 로고
    • Concerted evolution of multigene families
    • New York: Sinauer Associates, Nei M, Koehn R
    • Arnheim N. Concerted evolution of multigene families. Evolution of genes and proteins 1983, 38-61. New York: Sinauer Associates, Nei M, Koehn R.
    • (1983) Evolution of genes and proteins , pp. 38-61
    • Arnheim, N.1
  • 3
    • 0024059439 scopus 로고
    • Multiple repeated units in Drosophila melanogaster ribosomal DNA spacer stimulate rRNA precursor transcription
    • 10.1073/pnas.85.15.5502, 281785, 2840664
    • Grimaldi G, Di Nocera PP. Multiple repeated units in Drosophila melanogaster ribosomal DNA spacer stimulate rRNA precursor transcription. Proc Natl Acad Sci USA 1988, 85:5502-5506. 10.1073/pnas.85.15.5502, 281785, 2840664.
    • (1988) Proc Natl Acad Sci USA , vol.85 , pp. 5502-5506
    • Grimaldi, G.1    Di Nocera, P.P.2
  • 4
    • 0023660794 scopus 로고
    • A complex array of sequences enhances ribosomal transcription in Xenopus laevis
    • 10.1016/0022-2836(87)90407-4, 3681979
    • De Winter RF, Moss T. A complex array of sequences enhances ribosomal transcription in Xenopus laevis. J Mol Biol 1987, 196:813-827. 10.1016/0022-2836(87)90407-4, 3681979.
    • (1987) J Mol Biol , vol.196 , pp. 813-827
    • De Winter, R.F.1    Moss, T.2
  • 5
    • 0027203771 scopus 로고
    • Functional analysis of Arabidopsis thaliana rRNA gene and spacer promoters in vivo and by transient expression
    • 10.1073/pnas.90.16.7528, 47175, 8356050
    • Doelling JH, Gaudino RJ, Pikaard CS. Functional analysis of Arabidopsis thaliana rRNA gene and spacer promoters in vivo and by transient expression. Proc Natl Acad Sci USA 1993, 90:7528-7532. 10.1073/pnas.90.16.7528, 47175, 8356050.
    • (1993) Proc Natl Acad Sci USA , vol.90 , pp. 7528-7532
    • Doelling, J.H.1    Gaudino, R.J.2    Pikaard, C.S.3
  • 6
    • 0027516977 scopus 로고
    • Characterization of the 130-bp repeat enhancer element of the rat ribosomal gene: functional interaction with transcription factor E1BF
    • 10.1016/0378-1119(93)90332-W, 8462876
    • Ghosh AK, Hoff CM, Jacob ST. Characterization of the 130-bp repeat enhancer element of the rat ribosomal gene: functional interaction with transcription factor E1BF. Gene 1993, 125:217-222. 10.1016/0378-1119(93)90332-W, 8462876.
    • (1993) Gene , vol.125 , pp. 217-222
    • Ghosh, A.K.1    Hoff, C.M.2    Jacob, S.T.3
  • 7
    • 11944252059 scopus 로고
    • A 140-base-pair repetitive sequence element in the mouse rRNA gene spacer enhances transcription by RNA Polymerase I in a cell-free system
    • 10.1073/pnas.87.19.7527, 54780, 2217183
    • Kuhn A, Deppert U, Grummt I. A 140-base-pair repetitive sequence element in the mouse rRNA gene spacer enhances transcription by RNA Polymerase I in a cell-free system. Proc Natl Acad Sci USA 1990, 87:7527-7531. 10.1073/pnas.87.19.7527, 54780, 2217183.
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 7527-7531
    • Kuhn, A.1    Deppert, U.2    Grummt, I.3
  • 8
    • 0027984575 scopus 로고
    • Sequence organization of the Acanthamoeba rRNA intergenic spacer: identification of transcriptional enhancers
    • 10.1093/nar/22.22.4798, 308533, 7984432
    • Yang Q, Zwick MG, Paule MR. Sequence organization of the Acanthamoeba rRNA intergenic spacer: identification of transcriptional enhancers. Nucleic Acids Res 1994, 22:4798-4805. 10.1093/nar/22.22.4798, 308533, 7984432.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4798-4805
    • Yang, Q.1    Zwick, M.G.2    Paule, M.R.3
  • 9
    • 0026761011 scopus 로고
    • Evidence that intergenic spacer repeats of Drosophila melanogaster rRNA genes function as X-Y pairing sites in male meiosis, and a general model for achiasmatic pairing
    • 1205154, 1330825
    • McKee BD, Habera L, Vrana JA. Evidence that intergenic spacer repeats of Drosophila melanogaster rRNA genes function as X-Y pairing sites in male meiosis, and a general model for achiasmatic pairing. Genetics 1992, 132:529-544. 1205154, 1330825.
    • (1992) Genetics , vol.132 , pp. 529-544
    • McKee, B.D.1    Habera, L.2    Vrana, J.A.3
  • 10
    • 0021857852 scopus 로고
    • Conservation of major nuclease S1-sensitive sites in the non-conserved spacer region of ribosomal DNA in Drosophila species
    • 10.1016/0022-2836(85)90168-8, 2991535
    • Franz G, Tautz D, Dover GA. Conservation of major nuclease S1-sensitive sites in the non-conserved spacer region of ribosomal DNA in Drosophila species. J Mol Biol 1985, 183:519-527. 10.1016/0022-2836(85)90168-8, 2991535.
    • (1985) J Mol Biol , vol.183 , pp. 519-527
    • Franz, G.1    Tautz, D.2    Dover, G.A.3
  • 11
    • 4143102539 scopus 로고    scopus 로고
    • RDNA enhancer affects replication initiation and mitotic recombination: Fob1 mediates nucleolytic processing independently of replication
    • 10.1016/j.molcel.2004.06.024, 15304221
    • Burkhalter MD, Sogo JM. rDNA enhancer affects replication initiation and mitotic recombination: Fob1 mediates nucleolytic processing independently of replication. Mol Cell 2004, 15:409-421. 10.1016/j.molcel.2004.06.024, 15304221.
    • (2004) Mol Cell , vol.15 , pp. 409-421
    • Burkhalter, M.D.1    Sogo, J.M.2
  • 12
    • 0028803305 scopus 로고
    • Ribosomal DNA evolution at the population level: nucleotide variation in intergenic spacer arrays of Daphnia pulex
    • 1206870, 8601477
    • Crease TJ. Ribosomal DNA evolution at the population level: nucleotide variation in intergenic spacer arrays of Daphnia pulex. Genetics 1995, 141:1327-1337. 1206870, 8601477.
    • (1995) Genetics , vol.141 , pp. 1327-1337
    • Crease, T.J.1
  • 13
    • 77952092006 scopus 로고    scopus 로고
    • Hierarchical domains in concerted evolution of ribosomal DNA intergenic spacers in Arabidopsis (Brassicaceae)
    • Washington University, Division of Biology and Biomedical Sciences
    • Hayworth DA. Hierarchical domains in concerted evolution of ribosomal DNA intergenic spacers in Arabidopsis (Brassicaceae). PhD thesis 2000, Washington University, Division of Biology and Biomedical Sciences.
    • (2000) PhD thesis
    • Hayworth, D.A.1
  • 14
    • 77952095804 scopus 로고    scopus 로고
    • Evolution of repeated sequences in the ribosomal DNA intergenic spacer of 32 arthropod species
    • 10.1007/s00239-010-9324-4, 20191268
    • Ambrose C, Crease T. Evolution of repeated sequences in the ribosomal DNA intergenic spacer of 32 arthropod species. J Mol Evol 2010, 70:247-259. 10.1007/s00239-010-9324-4, 20191268.
    • (2010) J Mol Evol , vol.70 , pp. 247-259
    • Ambrose, C.1    Crease, T.2
  • 15
    • 0030605480 scopus 로고    scopus 로고
    • The systematics of North American Daphnia (Crustacea: Anomopoda): a molecular phylogenetic approach
    • Colbourne JK, Hebert PDN. The systematics of North American Daphnia (Crustacea: Anomopoda): a molecular phylogenetic approach. Phil Trans R Soc Lond B 1996, 351:349-360.
    • (1996) Phil Trans R Soc Lond B , vol.351 , pp. 349-360
    • Colbourne, J.K.1    Hebert, P.D.N.2
  • 16
    • 0032781643 scopus 로고    scopus 로고
    • Holarctic phylogeography of an asexual species complex I. Mitochondrial DNA variation in Arctic Daphnia
    • Weider LJ, Hobaek A, Colbourne JK, Crease TJ, Dufresne F, Hebert PDN. Holarctic phylogeography of an asexual species complex I. Mitochondrial DNA variation in Arctic Daphnia. Evolution 1999, 53:777-792.
    • (1999) Evolution , vol.53 , pp. 777-792
    • Weider, L.J.1    Hobaek, A.2    Colbourne, J.K.3    Crease, T.J.4    Dufresne, F.5    Hebert, P.D.N.6
  • 18
    • 0027145515 scopus 로고
    • Sequence of the intergenic spacer between the 28S and 18S rRNA encoding genes of the crustacean, Daphnia pulex
    • 10.1016/0378-1119(93)90101-8, 7916723
    • Crease TJ. Sequence of the intergenic spacer between the 28S and 18S rRNA encoding genes of the crustacean, Daphnia pulex. Gene 1993, 134:245-249. 10.1016/0378-1119(93)90101-8, 7916723.
    • (1993) Gene , vol.134 , pp. 245-249
    • Crease, T.J.1
  • 19
    • 0025167964 scopus 로고
    • Spacer promoters are orientation-dependent activators of pre-rRNA transcription in Drosophila melanogaster
    • 361056, 2117701
    • Grimaldi G, Fiorentini P, Di Nocera PP. Spacer promoters are orientation-dependent activators of pre-rRNA transcription in Drosophila melanogaster. Mol Cell Biol 1990, 10:4667-4677. 361056, 2117701.
    • (1990) Mol Cell Biol , vol.10 , pp. 4667-4677
    • Grimaldi, G.1    Fiorentini, P.2    Di Nocera, P.P.3
  • 20
    • 34249736353 scopus 로고    scopus 로고
    • Cryptic intercontinental colonization in water fleas Daphnia pulicaria inferred from phylogenetic analysis of mitochondrial DNA variation
    • Marková S, Dufresne F, Černý M, Kotlík P. Cryptic intercontinental colonization in water fleas Daphnia pulicaria inferred from phylogenetic analysis of mitochondrial DNA variation. Mol Phylogenet Evol 2007, 44:42-52.
    • (2007) Mol Phylogenet Evol , vol.44 , pp. 42-52
    • Marková, S.1    Dufresne, F.2    Černý, M.3    Kotlík, P.4
  • 21
    • 0023046875 scopus 로고
    • Preferential homogenization between adjacent and alternate subrepeats in wheat rDNA
    • 10.1093/nar/14.13.5499, 311555, 3737408
    • Lassner M, Dvorak J. Preferential homogenization between adjacent and alternate subrepeats in wheat rDNA. Nucleic Acids Res 1986, 14:5499-5512. 10.1093/nar/14.13.5499, 311555, 3737408.
    • (1986) Nucleic Acids Res , vol.14 , pp. 5499-5512
    • Lassner, M.1    Dvorak, J.2
  • 22
    • 0023376794 scopus 로고
    • Homogenization of tandemly repeated nucleotide sequences by distance-dependent nucleotide sequence conversion
    • 1203160, 3609728
    • Dvorak J, Jue D, Lassner M. Homogenization of tandemly repeated nucleotide sequences by distance-dependent nucleotide sequence conversion. Genetics 1987, 116:487-498. 1203160, 3609728.
    • (1987) Genetics , vol.116 , pp. 487-498
    • Dvorak, J.1    Jue, D.2    Lassner, M.3
  • 23
    • 0028932483 scopus 로고
    • Structure and comparative analysis of the rDNA intergenic spacer of Brassica rapa: Implications for the function and evolution of the Cruciferae spacer
    • 10.1111/j.1432-1033.1995.tb20497.x, 7744079
    • Da Rocha PS, Bertrand H. Structure and comparative analysis of the rDNA intergenic spacer of Brassica rapa: Implications for the function and evolution of the Cruciferae spacer. Eur J Biochem 1995, 229:550-557. 10.1111/j.1432-1033.1995.tb20497.x, 7744079.
    • (1995) Eur J Biochem , vol.229 , pp. 550-557
    • Da Rocha, P.S.1    Bertrand, H.2
  • 25
    • 0034280799 scopus 로고    scopus 로고
    • DNA motif associated with meiotic double-strand break regions in Saccharomyces cerevisiae
    • 10.1093/embo-reports/kvd047, 1083721, 11256605
    • Blumental-Perry A, Zenvirth D, Klein S, Onn I, Simchen G. DNA motif associated with meiotic double-strand break regions in Saccharomyces cerevisiae. EMBO Rep 2000, 1:232-238. 10.1093/embo-reports/kvd047, 1083721, 11256605.
    • (2000) EMBO Rep , vol.1 , pp. 232-238
    • Blumental-Perry, A.1    Zenvirth, D.2    Klein, S.3    Onn, I.4    Simchen, G.5
  • 26
    • 33845395919 scopus 로고    scopus 로고
    • Molecular characterization of ribosomal intergenic spacer in the tadpole shrimp Triops cancriformis (Crustacea, Branchipoda, Notostraca)
    • 10.1139/G06-047, 17036063
    • Luchetti A, Scanabissi F, Mantovani B. Molecular characterization of ribosomal intergenic spacer in the tadpole shrimp Triops cancriformis (Crustacea, Branchipoda, Notostraca). Genome 2006, 49:888-893. 10.1139/G06-047, 17036063.
    • (2006) Genome , vol.49 , pp. 888-893
    • Luchetti, A.1    Scanabissi, F.2    Mantovani, B.3
  • 27
    • 0035983969 scopus 로고    scopus 로고
    • Structure, molecular evolution, and phylogenetic utility of the 5' region of the external transcribed spacer of 18S-26S rDNA in Lessingia (Compositae, Astereae)
    • 10.1016/S1055-7903(02)00004-0, 12069552
    • Markos S, Baldwin BG. Structure, molecular evolution, and phylogenetic utility of the 5' region of the external transcribed spacer of 18S-26S rDNA in Lessingia (Compositae, Astereae). Mol Phylogenet Evol 2002, 23:214-228. 10.1016/S1055-7903(02)00004-0, 12069552.
    • (2002) Mol Phylogenet Evol , vol.23 , pp. 214-228
    • Markos, S.1    Baldwin, B.G.2
  • 28
    • 0032233179 scopus 로고    scopus 로고
    • Phylogenetic utility of the external transcribed spacer (ETS) of 18S-26S rDNA: congruence of ETS and ITS trees of Calycadenia (Compositae)
    • 10.1006/mpev.1998.0545, 10051397
    • Baldwin BG, Markos S. Phylogenetic utility of the external transcribed spacer (ETS) of 18S-26S rDNA: congruence of ETS and ITS trees of Calycadenia (Compositae). Mol Phylogenet Evol 1998, 10:449-463. 10.1006/mpev.1998.0545, 10051397.
    • (1998) Mol Phylogenet Evol , vol.10 , pp. 449-463
    • Baldwin, B.G.1    Markos, S.2
  • 29
    • 0028500562 scopus 로고
    • Chromosomal homogeneity of Drosophila ribosomal DNA arrays suggests intrachromosomal exchanges drive concerted evolution
    • Schlötterer C, Tautz D. Chromosomal homogeneity of Drosophila ribosomal DNA arrays suggests intrachromosomal exchanges drive concerted evolution. Curr Biol 1994, 4:777-783.
    • (1994) Curr Biol , vol.4 , pp. 777-783
    • Schlötterer, C.1    Tautz, D.2
  • 30
    • 17344376854 scopus 로고    scopus 로고
    • Patterns of variation in the intergenic spacers of ribosomal DNA in Drosophila melanogaster support a model for genetic exchanges during X-Y pairing
    • 1461157, 10880483
    • Polanco C, González AI, Dover GA. Patterns of variation in the intergenic spacers of ribosomal DNA in Drosophila melanogaster support a model for genetic exchanges during X-Y pairing. Genetics 2000, 155:1221-1229. 1461157, 10880483.
    • (2000) Genetics , vol.155 , pp. 1221-1229
    • Polanco, C.1    González, A.I.2    Dover, G.A.3
  • 31
    • 65249173452 scopus 로고    scopus 로고
    • Genome size evolution and polyploidy in the Daphnia pulex complex (Cladocera: Daphniidae)
    • Vergilino Belzile C, Dufresne F. Genome size evolution and polyploidy in the Daphnia pulex complex (Cladocera: Daphniidae). Biol J Linn Soc 2009, 97:68-79.
    • (2009) Biol J Linn Soc , vol.97 , pp. 68-79
    • Vergilino Belzile, C.1    Dufresne, F.2
  • 32
    • 0028168870 scopus 로고
    • Variation in chromosome numbers of Daphnia (Crustacea, Cladocera)
    • Beaton MJ, Hebert PDN. Variation in chromosome numbers of Daphnia (Crustacea, Cladocera). Hereditas 1994, 120:275-279.
    • (1994) Hereditas , vol.120 , pp. 275-279
    • Beaton, M.J.1    Hebert, P.D.N.2
  • 33
    • 0031831237 scopus 로고    scopus 로고
    • Multigene family of ribosomal DNA in Drosophila melanogaster reveals contrasting patterns of homogenization for IGS and ITS spacer regions. A possible mechanism to resolve this paradox
    • 1460117, 9584100
    • Polanco C, González AI, de la Fuente A, Dover GA. Multigene family of ribosomal DNA in Drosophila melanogaster reveals contrasting patterns of homogenization for IGS and ITS spacer regions. A possible mechanism to resolve this paradox. Genetics 1998, 149:243-256. 1460117, 9584100.
    • (1998) Genetics , vol.149 , pp. 243-256
    • Polanco, C.1    González, A.I.2    de la Fuente, A.3    Dover, G.A.4
  • 34
    • 0033759525 scopus 로고    scopus 로고
    • Gene conversion drives within genic sequences: concerted evolution of ribosomal RNA genes in Bacteria and Archaea
    • Liao D. Gene conversion drives within genic sequences: concerted evolution of ribosomal RNA genes in Bacteria and Archaea. J Mol Evol 2000, 51:305-317.
    • (2000) J Mol Evol , vol.51 , pp. 305-317
    • Liao, D.1
  • 35
    • 2442670274 scopus 로고    scopus 로고
    • Xenopus U3 snoRNA docks on pre-rRNA through a novel base-pairing interaction
    • 10.1261/rna.5256704, 1370586, 15146078
    • Borovjagin AV, Gerbi SA. Xenopus U3 snoRNA docks on pre-rRNA through a novel base-pairing interaction. RNA 2004, 10:942-953. 10.1261/rna.5256704, 1370586, 15146078.
    • (2004) RNA , vol.10 , pp. 942-953
    • Borovjagin, A.V.1    Gerbi, S.A.2
  • 36
    • 24744441329 scopus 로고    scopus 로고
    • An evolutionary intra-molecular shift in the preferred U3 snoRNA binding site on pre-ribosomal RNA
    • 10.1093/nar/gki815, 1199564, 16147982
    • Borovjagin AV, Gerbi SA. An evolutionary intra-molecular shift in the preferred U3 snoRNA binding site on pre-ribosomal RNA. Nucleic Acids Res 2005, 33:4995-5005. 10.1093/nar/gki815, 1199564, 16147982.
    • (2005) Nucleic Acids Res , vol.33 , pp. 4995-5005
    • Borovjagin, A.V.1    Gerbi, S.A.2
  • 37
    • 0032771416 scopus 로고    scopus 로고
    • Base pairing between U3 small nucleolar RNA and the 5' end of 18S rRNA is required for pre-rRNA processing
    • 199, 84488, 10454548
    • Sharma K, Tollervey D. Base pairing between U3 small nucleolar RNA and the 5' end of 18S rRNA is required for pre-rRNA processing. Mol Cell Biol 19:6012-6019. 199, 84488, 10454548.
    • Mol Cell Biol , vol.19 , pp. 6012-6019
    • Sharma, K.1    Tollervey, D.2
  • 38
    • 0035207848 scopus 로고    scopus 로고
    • Rate acceleration and long-branch attraction in a conserved gene of cryptic daphniid (Crustacea) species
    • Omilian AR, Taylor DJ. Rate acceleration and long-branch attraction in a conserved gene of cryptic daphniid (Crustacea) species. Mol Biol Evol 2001, 18:2201-2212.
    • (2001) Mol Biol Evol , vol.18 , pp. 2201-2212
    • Omilian, A.R.1    Taylor, D.J.2
  • 39
    • 79751534937 scopus 로고    scopus 로고
    • Dotmatcher
    • Dotmatcher. , http://mobyle.pasteur.fr/cgi-bin/portal.py?form=dotmatcher
  • 40
    • 79751532107 scopus 로고    scopus 로고
    • SIM
    • SIM. , http://genome.cs.mtu.edu
  • 41
    • 44949272730 scopus 로고
    • A time-efficient, linear-space local similarity algorithm
    • Huang X, Miller W. A time-efficient, linear-space local similarity algorithm. Adv Appl Math 1991, 12:337-357.
    • (1991) Adv Appl Math , vol.12 , pp. 337-357
    • Huang, X.1    Miller, W.2
  • 42
    • 84867483566 scopus 로고    scopus 로고
    • Multiple Sequence Alignment Program (MAP)
    • Multiple Sequence Alignment Program (MAP). , http://deepc2.psi.iastate.edu/aat/map/map.html
  • 44
    • 3242810318 scopus 로고    scopus 로고
    • MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
    • 10.1093/bib/5.2.150, 15260895
    • Kumar S, Tamura K, Nei M. MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 2004, 5:150-163. 10.1093/bib/5.2.150, 15260895.
    • (2004) Brief Bioinform , vol.5 , pp. 150-163
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 45
    • 85007110786 scopus 로고    scopus 로고
    • Arlequin ver. 3.0: An integrated software package for population genetics data analysis
    • Excoffier L, Laval G, Schneider S. Arlequin ver. 3.0: An integrated software package for population genetics data analysis. Evol Bioinform 2005, 1:47-50.
    • (2005) Evol Bioinform , vol.1 , pp. 47-50
    • Excoffier, L.1    Laval, G.2    Schneider, S.3
  • 46
    • 79751534308 scopus 로고    scopus 로고
    • Genetic Algorithm Recombination Detection (GARD)
    • Genetic Algorithm Recombination Detection (GARD). , http://www.datamonkey.org/gard/
  • 47
    • 79751525602 scopus 로고    scopus 로고
    • GENECONV
    • GENECONV. , http://www.math.wustl.edu/~sawyer/geneconv/
  • 48
    • 79751533441 scopus 로고    scopus 로고
    • GENECONV user manual
    • Sawyer SA. GENECONV user manual. 2000, http://www.math.wustl.edu/~sawyer/geneconv/gconvdoc.pdf
    • (2000)
    • Sawyer, S.A.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.