Complex mutational patterns and size homoplasy at maize microsatellite loci
Microsatellite markers have become one of the most popular tools for germplasm characterization, population genetics and evolutionary studies. To investigate the mutational mechanisms of maize microsatellites, nucleotide sequence information was obtained for ten loci. In addition, Single-Strand Conf...
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2007
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| LEADER | 14451caa a22012257a 4500 | ||
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| 001 | PAPER-6311 | ||
| 003 | AR-BaUEN | ||
| 005 | 20230518203559.0 | ||
| 008 | 190411s2007 xx ||||fo|||| 00| 0 eng|d | ||
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| 024 | 7 | |2 Molecular Sequence Numbers |a GENBANK: AY033463, AY965917, AY965918, AY965919, AY965920, AY965921, AY965922, AY965923, AY965934, AY965947, AY965948, AY965949, AY965950, AY965951, DQ350843, DQ350844, DQ350845, DQ350846, DQ350847, DQ350848, DQ350849, DQ350850, DQ350851, DQ350852, DQ350853, DQ350854, DQ350855, DQ350856, DQ350857, DQ350858, DQ350859, DQ350860, DQ350861, DQ350862, DQ350863, DQ350864, DQ350865, DQ350866, DQ350867, DQ350868, DQ350869, DQ350870, DQ350871, DQ350872, DQ350873, DQ350874, DQ350875, DQ350876, DQ350877, DQ350878, DQ350879 | |
| 040 | |a Scopus |b spa |c AR-BaUEN |d AR-BaUEN | ||
| 030 | |a THAGA | ||
| 100 | 1 | |a Lia, V.V. | |
| 245 | 1 | 0 | |a Complex mutational patterns and size homoplasy at maize microsatellite loci |
| 260 | |c 2007 | ||
| 270 | 1 | 0 | |m Lia, V.V.; Laboratorio de Genética, Departamento de Ecología, Genética Y Evolución, Pabellón II - Ciudad Universitaria, I. Guiraldes y Costanera N. s/n, C1428EHA Cd. Auton. de Buenos Aires, Argentina; email: verolia@ege.fcen.uba.ar |
| 506 | |2 openaire |e Política editorial | ||
| 504 | |a Adams, R.I., Brown, K.M., Hamilton, M.B., The impact of microsatellite electromorph size homoplasy on multilocus population structure estimates in a tropical tree (Corytophora alta) and an anadromous fish (Morone saxatilis) (2004) Mol Ecol, 13, pp. 2579-2588 | ||
| 504 | |a Anderson, T.J.C., Su, X.-Z., Roddam, A., Day, K.P., Complex mutations in a high proportion of microsatellite loci from the protozoan parasite Plasmodium falciparum (2000) Mol Ecol, 9, pp. 1599-1608 | ||
| 504 | |a Angers, B., Bernatchez, L., Complex evolution of a salmonid microsatellite locus and its consequences in inferring allelic divergence from size information (1997) Mol Biol Evol, 14, pp. 230-238 | ||
| 504 | |a Angers, B., Estoup, A., Jarne, P., Microsatellite size homoplasy, SSCP, and population structure: A case study (2000) Mol Biol Evol, 17, pp. 1926-1932 | ||
| 504 | |a Beck, N.R., Double, M.C., Cockburn, A., Microsatellite evolution at two hypervariable loci revealed by extensive avian pedigrees (2003) Mol Biol Evol, 20, pp. 54-61 | ||
| 504 | |a Blankenship, S.M., May, B., Hedgecock, D., Evolution of a perfect simple sequence repeat locus in the context of its flanking sequence (2002) Mol Biol Evol, 19, pp. 1943-1951 | ||
| 504 | |a Brohede, J., Primmer, C.R., Moller, A., Ellegren, H., Heterogeneity in the rate and pattern of germline mutation at individual microsatellite loci (2002) Nucleic Acids Res, 30, pp. 1997-2003 | ||
| 504 | |a Clark, R.M., Tavare, S., Doebley, J., Estimating a nucleotide substitution rate for maize from polymorphism at a major domestication locus (2005) Mol Biol Evol, 22, pp. 2304-2312 | ||
| 504 | |a Colson, I., Goldstein, D.B., Evidence for complex mutations at microsatellite loci in Drosophila (1999) Genetics, 152, pp. 617-627 | ||
| 504 | |a Culver, M., Menotti-Raymond, M.A., Óbrien, S., Patterns of size homoplasy at 10 microsatellite loci in Pumas (Puma concolor) (2001) Mol Biol Evol, 18, pp. 1151-1156 | ||
| 504 | |a Dellaporta, I.K., Wood, J., Hicks, J.B., A plant DNA minipreparation: Version II (1983) Plant Mol Biol Rep, 1, pp. 19-21 | ||
| 504 | |a Di Rienzo, A., Peterson, A.C., Garza, J.C., Mutational processes of simple-sequence repeat loci in human populations (1994) Proc Natl Acad Sci USA, 91, pp. 3166-3170 | ||
| 504 | |a Dieringer, D., Schlotterer, C., Two distinct modes of microsatellite mutation processes: Evidence from the complete genomic sequences of nine species (2003) Genome Res, 13, pp. 2242-2251 | ||
| 504 | |a Doyle, J.J., Morgante, M., Tingey, S.V., Powell, W., Size homoplasy in chloroplast microsatellites of wild perennial relatives of Soybean (Glycine subgenus Glycine) (1998) Mol Biol Evol, 15, pp. 215-218 | ||
| 504 | |a Ellegren, H., Microsatellites: Simple sequences with complex evolution (2004) Nat Rev Genet, 5, pp. 435-445 | ||
| 504 | |a England, P.R., Usher, A.V., Whelan, R.J., Ayre, D.J., Microsatellite diversity and genetic structure of fragmented populations of the rare, fire-dependent shrub Grevillea macleayana (2002) Mol Ecol, 11, pp. 967-977 | ||
| 504 | |a Estoup, A., Cornuet, J.M., Goldstein, D., Schlotterer, C., Microsatellite evolution: Inferences from population data (1999) Microsatellites: Evolution and Applications, pp. 49-65. , Oxford University Press New York | ||
| 504 | |a Estoup, A., Jarne, P., Cornuet, J.-M., Homoplasy and mutation model at microsatellite loci and their consequences for population genetics analysis (2002) Mol Ecol, 11, pp. 1591-1604 | ||
| 504 | |a Hale, M.L., Borland, A.M., Gustafsson, M.H.G., Wolff, K., Causes of size homoplasy among chloroplast microsatellites in closely related Clusia species (2004) J Mol Evol, 58, pp. 182-190 | ||
| 504 | |a Higgins, D.G., Thompson, J.D., Gibson, T.J., CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice (1994) Nucleic Acids Res, 22, pp. 4673-4680 | ||
| 504 | |a Kimura, M., Ohta, T., Stepwise mutation model and distribution of allelic frequencies in finite populations (1978) Proc Natl Acad Sci USA, 75, pp. 2868-2872 | ||
| 504 | |a Laborda, P.R., Oliveira, K.M., Garcia, A.A.F., Paterniani, M.E., De Souza, A.P., Tropical maize germplasm: What can we say about its genetic diversity in the light of molecular markers? (2005) Theor Appl Genet, 111, pp. 1288-1299 | ||
| 504 | |a Le Clerc, V., Bazante, F., Baril, C., Guiard, J., Zhang, D., Assessing temporal changes in genetic diversity of maize varieties using microsatellite markers (2005) Theor Appl Genet, 110, pp. 294-302 | ||
| 504 | |a Lia, V.V., Confalonieri, V.A., Ratto, N., Cámara Hernández, J., Miante-Alzogaray, A.M., Poggio, L., Brown, T.A., Microsatellite typing of ancient maize: Insights into the history of agriculture in southern South America (2007) Proc Biol Sci, 274, pp. 545-554. , 1609 | ||
| 504 | |a Makova, K., Nekrutenko, A., Baker, R.J., Evolution of microsatellite alleles in four species of mice (Genus Apodemus) (2000) J Mol Evol, 51, pp. 166-172 | ||
| 504 | |a Matsuoka, Y., Mitchell, S.E., Kresovich, S., Goodman, M.M., Doebley, J.F., Microsatellites in Zea-variability, patterns of mutations, and use for evolutionary studies (2002) Theor Appl Genet, 104, pp. 436-450 | ||
| 504 | |a Matsuoka, Y., Vigouroux, Y., Goodman, M.M., A single domestication for maize shown by multilocus microsatellite genotyping (2002) Proc Natl Acad Sci USA, 99, pp. 6080-6084 | ||
| 504 | |a Mogg, R., Batley, J., Hanley, S., Edwards, D., O'Sullivan, H., Edwards, K.J., Characterization of the flanking regions of Zea mays microsatellites reveals a large number of useful sequence polymorphisms (2002) Theor Appl Genet, 105, pp. 532-543 | ||
| 504 | |a Navascués, M., Emerson, B.C., Chloroplast microsatellites: Measures of genetic diversity and the effect of homoplasy (2005) Mol Ecol, 14, pp. 1333-1341 | ||
| 504 | |a Orita, M., Iwahana, H., Kanazawa, H., Hayashi, K., Sekiya, T., Detection of polymorphisms of human DNA by gel electrophoresis as Single-Strand Conformation Polymorphisms (1989) Proc Natl Acad Sci USA, 86, pp. 2766-2770 | ||
| 504 | |a Orti, G., Pearse, D.E., Avise, J.C., Phylogenetic assessment of length variation at a microsatellite locus (1997) Proc Natl Acad Sci USA, 94, pp. 10745-10749 | ||
| 504 | |a Pressoir, G., Berthaud, J., Patterns of population structure in maize landraces from the Central Valleys of Oaxaca in Mexico (2004) Heredity, 92, pp. 88-94 | ||
| 504 | |a Primmer, C.R., Saino, N., Moller, A.P., Ellegren, H., Unraveling the processes of microsatellite evolution through analysis of germ line mutations in barn swallows Hirundo rustica (1998) Mol Biol Evol, 15, pp. 1047-1054 | ||
| 504 | |a Reif, J.C., Xia, X.C., Melchinger, A.E., Genetic diversity determined within and among CIMMYT maize populations of tropical, subtropical, and temperate germplasm by SSR markers (2004) Crop Sci, 44, pp. 326-334 | ||
| 504 | |a Reif, J.C., Hamrit, S., Heckenberger, M., Genetic structure and diversity of European flint maize populations determined with SSR analyses of individuals and bulks (2005) Theor Appl Genet, 111, pp. 906-913 | ||
| 504 | |a Saltonstall, K., Microsatellite variation within and among North American lineages of Phragmites australis (2003) Mol Ecol, 12, pp. 1689-1702 | ||
| 504 | |a Santacruz-Varela, A., Widrlechner, M.P., Ziegler, K.E., Phylogenetic relationships among North American Popcorns and their evolutionary links to Mexican and South American Popcorns (2004) Crop Sci, 44, p. 1456 | ||
| 504 | |a Stumm, G., Vedder, H., Schlegel, J., A simple method for isolation of PCR fragments from silver stained polyacrylamide gels by fine needle scratching (1997) Elsevier Trends Journals Technical Tips on Line, , http://www.tto.biomednet.com/cgi-bin/tto/pr | ||
| 504 | |a Sunnucks, P., Wilson, A., Beheregaray, L.B., SSCP is not so difficult: The application and utility of single-stranded conformation polymorphism in evolutionary biology and molecular ecology (2000) Mol Ecol, 9, pp. 1699-1701 | ||
| 504 | |a Symonds, V.V., Lloyd, A.M., An analysis of microsatellite loci in Arabidopsis thaliana: Mutational dynamics and application (2003) Genetics, 165, pp. 1475-1488 | ||
| 504 | |a Taylor, J.S., Sanny, J.S.P., Breden, F., Microsatellite allele size homoplasy in the Guppy (Poecilia reticulata) (1999) J Mol Evol, 48, pp. 245-247 | ||
| 504 | |a Van Oppen, J.H., Rico, C., Turner, G.F., Hewitt, G.M., Extensive homoplasy, nonstepwise mutations and ancestral polymorphisms at a complex microsatellite locus in lake Malawi Ciclids (2000) Mol Biol Evol, 17, pp. 489-498 | ||
| 504 | |a Viard, F., Franck, P., Dubois, M., Estoup, A., Jarne, P., Variation at microsatellite size homoplasy across electromorphs, loci, and populations in three invertebrate species (1998) J Mol Evol, 47, pp. 42-51 | ||
| 504 | |a Vigouroux, Y., Jaqueth, J.S., Matsuoka, Y., Rate and pattern of mutation at microsatellite loci in maize (2002) Mol Biol Evol, 19, pp. 1251-1260 | ||
| 504 | |a Warburton, M.L., Xianchua, X., Crossa, J., Genetic characterization of CIMMYT inbred lines and open pollinated populations using large scale fingerprinting methods (2002) Crop Sci, 42, pp. 1832-1840 | ||
| 504 | |a Xie, H., Sui, Y., Chang, F.-Q., Xu, Y., Ma, R.-C., SSR allelic variation in almond (Prunus dulcis Mill.) (2006) Theor Appl Genet, 112, pp. 366-372 | ||
| 504 | |a Yokoyama, J., Fukuda, T., Yokoyama, A., Nakajima, M., Extensive size homoplasy at a microsatellite locus in the Japanese bumblebee, Bombus diversus (2004) Entomol Sci, 7, pp. 189-197 | ||
| 520 | 3 | |a Microsatellite markers have become one of the most popular tools for germplasm characterization, population genetics and evolutionary studies. To investigate the mutational mechanisms of maize microsatellites, nucleotide sequence information was obtained for ten loci. In addition, Single-Strand Conformation Polymorphism (SSCP) analysis was conducted to assess the occurrence of size homoplasy. Sequence analysis of 54 alleles revealed a complex pattern of mutation at 8/10 loci, with only 2 loci showing allele variation strictly consistent with stepwise mutations. The overall allelic diversity resulted from changes in the number of repeat units, base substitutions, and indels within repetitive and non-repetitive segments. Thirty-one electromorphs sampled from six maize landraces were considered for SSCP analysis. The number of conformers per electromorph ranged from 1 to 7, with 74.2% of the electromorphs showing more than one conformer. Size homoplasy was apparent within landraces and populations. Variation in the amount of size homoplasy was observed within and between loci, although no differences were detected among populations. The results of the present study provide useful information on the interpretation of genetic data derived from microsatellite markers. Further efforts are still needed to determine the impact of these findings on the estimation of population parameters and on the inference of phylogenetic relationships in maize investigations. © 2007 Springer-Verlag. |l eng | |
| 593 | |a Laboratorio de Genética, Departamento de Ecología, Genética Y Evolución, Pabellón II - Ciudad Universitaria, I. Guiraldes y Costanera N. s/n, C1428EHA Cd. Auton. de Buenos Aires, Argentina | ||
| 593 | |a Consejo Nacional de Investigaciones Científicas Y Técnicas, Buenos Aires, Argentina | ||
| 690 | 1 | 0 | |a DATA ACQUISITION |
| 690 | 1 | 0 | |a INFORMATION ANALYSIS |
| 690 | 1 | 0 | |a NUCLEOTIDES |
| 690 | 1 | 0 | |a PARAMETER ESTIMATION |
| 690 | 1 | 0 | |a POLYMORPHISM |
| 690 | 1 | 0 | |a COMPLEX MUTATIONAL PATTERNS |
| 690 | 1 | 0 | |a MAIZE MICROSATELLITE LOCI |
| 690 | 1 | 0 | |a SINGLE STRAND CONFORMATION POLYMORPHISM (SSCP) |
| 690 | 1 | 0 | |a SIZE HOMOPLASY |
| 690 | 1 | 0 | |a GENETIC ENGINEERING |
| 690 | 1 | 0 | |a MICROSATELLITE DNA |
| 690 | 1 | 0 | |a ALLELE |
| 690 | 1 | 0 | |a ARTICLE |
| 690 | 1 | 0 | |a GENETICS |
| 690 | 1 | 0 | |a MAIZE |
| 690 | 1 | 0 | |a MOLECULAR GENETICS |
| 690 | 1 | 0 | |a MUTATION |
| 690 | 1 | 0 | |a NUCLEOTIDE SEQUENCE |
| 690 | 1 | 0 | |a ALLELES |
| 690 | 1 | 0 | |a BASE SEQUENCE |
| 690 | 1 | 0 | |a MICROSATELLITE REPEATS |
| 690 | 1 | 0 | |a MOLECULAR SEQUENCE DATA |
| 690 | 1 | 0 | |a MUTATION |
| 690 | 1 | 0 | |a ZEA MAYS |
| 690 | 1 | 0 | |a ZEA MAYS |
| 700 | 1 | |a Bracco, M. | |
| 700 | 1 | |a Gottlieb, A.M. | |
| 700 | 1 | |a Poggio, L. | |
| 700 | 1 | |a Confalonieri, V.A. | |
| 773 | 0 | |d 2007 |g v. 115 |h pp. 981-991 |k n. 7 |p Theor. Appl. Genet. |x 00405752 |w (AR-BaUEN)CENRE-2304 |t Theoretical and Applied Genetics | |
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