First published online July 14, 2003; 10.1105/tpc.012526
The Plant Cell, Vol. 15, 1795-1806,
August 2003, Copyright © 2003,
American Society of Plant Biologists
Contrasting Effects of Selection on Sequence Diversity and Linkage Disequilibrium at Two Phytoene Synthase Loci
Kelly A. Palaisa1,a,
Michele Morgante2,b,
Mark Williamsb and
Antoni Rafalskia,b
a Department of Plant and Soil Sciences, University of Delaware, and Delaware Biotechnology Institute, Newark, Delaware 19716
b DuPont Crop Genetics, Molecular Genetics Group, Newark, Delaware 19711
1 To whom correspondence should be addressed. E-mail kapal918{at}yahoo.com; fax 302-631-2607
We investigated the effects of human selection for yellow endosperm color, representing increased carotenoid content, on two maize genes, the Y1 phytoene synthase and PSY2, a putative second phytoene synthase. Multiple polymorphic sites were identified at Y1 and PSY2 in 75 white and yellow maize inbred lines. Many polymorphic sites showed strong association with the endosperm color phenotype at Y1, but no detectable association was found at PSY2. Nucleotide diversity was equivalent for whites and yellows at PSY2 but was 19-fold less in yellows than in whites at Y1, consistent with the white ancestral state of the gene. The strong sequence haplotype conservation within yellows at Y1 and a significant, negative Tajima's D both verified positive selection for yellow endosperm. We propose that two independent gain-of-function events associated with insertions into the promoter of the Y1 gene and upregulation of expression in endosperm have been incorporated into yellow maize.
This article has been cited by other articles:
|
|
|
|
 
C. Zhu, S. Naqvi, J. Breitenbach, G. Sandmann, P. Christou, and T. Capell
Combinatorial genetic transformation generates a library of metabolic phenotypes for the carotenoid pathway in maize
PNAS,
November 25, 2008;
105(47):
18232 - 18237.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
M. Aluru, Y. Xu, R. Guo, Z. Wang, S. Li, W. White, K. Wang, and S. Rodermel
Generation of transgenic maize with enhanced provitamin A content
J. Exp. Bot.,
October 1, 2008;
59(13):
3551 - 3562.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
L. Camus-Kulandaivelu, L.-M. Chevin, C. Tollon-Cordet, A. Charcosset, D. Manicacci, and M. I. Tenaillon
Patterns of Molecular Evolution Associated With Two Selective Sweeps in the Tb1-Dwarf8 Region in Maize
Genetics,
October 1, 2008;
180(2):
1107 - 1121.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
Y. Koide, M. Ikenaga, N. Sawamura, D. Nishimoto, K. Matsubara, K. Onishi, A. Kanazawa, and Y. Sano
The Evolution of Sex-Independent Transmission Ratio Distortion Involving Multiple Allelic Interactions at a Single Locus in Rice
Genetics,
September 1, 2008;
180(1):
409 - 420.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
P. J. Brown, W. L. Rooney, C. Franks, and S. Kresovich
Efficient Mapping of Plant Height Quantitative Trait Loci in a Sorghum Association Population With Introgressed Dwarfing Genes
Genetics,
September 1, 2008;
180(1):
629 - 637.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
F. Li, R. Vallabhaneni, J. Yu, T. Rocheford, and E. T. Wurtzel
The Maize Phytoene Synthase Gene Family: Overlapping Roles for Carotenogenesis in Endosperm, Photomorphogenesis, and Thermal Stress Tolerance
Plant Physiology,
July 1, 2008;
147(3):
1334 - 1346.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
M. Zhou, M. Lei, Y. Rao, Q. Nie, H. Zeng, M. Xia, F. Liang, D. Zhang, and X. Zhang
Polymorphisms of Vasoactive Intestinal Peptide Receptor-1 Gene and Their Genetic Effects on Broodiness in Chickens
Poult. Sci.,
May 1, 2008;
87(5):
893 - 903.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
A. M. Casa, G. Pressoir, P. J. Brown, S. E. Mitchell, W. L. Rooney, M. R. Tuinstra, C. D. Franks, and S. Kresovich
Community Resources and Strategies for Association Mapping in Sorghum
Crop Sci.,
January 16, 2008;
48(1):
30 - 40.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
J.-B. Veyrieras, L. Camus-Kulandaivelu, B. Gouesnard, D. Manicacci, and A. Charcosset
Bridging Genomics and Genetic Diversity: Linkage Disequilibrium Structure and Association Mapping in Maize and Other Cereals
Crop Sci.,
December 18, 2007;
47(Supplement_3):
S-60 - S-71.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
K. A. Mather, A. L. Caicedo, N. R. Polato, K. M. Olsen, S. McCouch, and M. D. Purugganan
The Extent of Linkage Disequilibrium in Rice (Oryza sativa L.)
Genetics,
December 1, 2007;
177(4):
2223 - 2232.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
M. Yamasaki, S. I. Wright, and M. D. McMullen
Genomic Screening for Artificial Selection during Domestication and Improvement in Maize
Ann. Bot.,
October 1, 2007;
100(5):
967 - 973.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
R. Papa, E. Bellucci, M. Rossi, S. Leonardi, D. Rau, P. Gepts, L. Nanni, and G. Attene
Tagging the Signatures of Domestication in Common Bean (Phaseolus vulgaris) by Means of Pooled DNA Samples
Ann. Bot.,
October 1, 2007;
100(5):
1039 - 1051.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
S. Salvi, G. Sponza, M. Morgante, D. Tomes, X. Niu, K. A. Fengler, R. Meeley, E. V. Ananiev, S. Svitashev, E. Bruggemann, et al.
Conserved noncoding genomic sequences associated with a flowering-time quantitative trait locus in maize
PNAS,
July 3, 2007;
104(27):
11376 - 11381.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
S. Stracke, T. Presterl, N. Stein, D. Perovic, F. Ordon, and A. Graner
Effects of Introgression and Recombination on Haplotype Structure and Linkage Disequilibrium Surrounding a Locus Encoding Bymovirus Resistance in Barley
Genetics,
February 1, 2007;
175(2):
805 - 817.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
A. M. Casa, S. E. Mitchell, J. D. Jensen, M. T. Hamblin, A. H. Paterson, C. F. Aquadro, and S. Kresovich
Evidence for a Selective Sweep on Chromosome 1 of Cultivated Sorghum
Crop Sci.,
November 1, 2006;
46(Supplement_1):
S-27 - S-40.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
F. Breseghello and M. E. Sorrells
Association Analysis as a Strategy for Improvement of Quantitative Traits in Plants
Crop Sci.,
April 25, 2006;
46(3):
1323 - 1330.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
F. Breseghello and M. E. Sorrells
Association Mapping of Kernel Size and Milling Quality in Wheat (Triticum aestivum L.) Cultivars
Genetics,
February 1, 2006;
172(2):
1165 - 1177.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
K. S. Caldwell, J. Russell, P. Langridge, and W. Powell
Extreme Population-Dependent Linkage Disequilibrium Detected in an Inbreeding Plant Species, Hordeum vulgare
Genetics,
January 1, 2006;
172(1):
557 - 567.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
M. Yamasaki, M. I. Tenaillon, I. Vroh Bi, S. G. Schroeder, H. Sanchez-Villeda, J. F. Doebley, B. S. Gaut, and M. D. McMullen
A Large-Scale Screen for Artificial Selection in Maize Identifies Candidate Agronomic Loci for Domestication and Crop Improvement
PLANT CELL,
November 1, 2005;
17(11):
2859 - 2872.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
S. I. Wright and B. S. Gaut
Molecular Population Genetics and the Search for Adaptive Evolution in Plants
Mol. Biol. Evol.,
March 1, 2005;
22(3):
506 - 519.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
Z. Xu and H. K. Dooner
Mx-rMx, a Family of Interacting Transposons in the Growing hAT Superfamily of Maize
PLANT CELL,
February 1, 2005;
17(2):
375 - 388.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
L. M. Wilson, S. R. Whitt, A. M. Ibanez, T. R. Rocheford, M. M. Goodman, and E. S. Buckler IV
Dissection of Maize Kernel Composition and Starch Production by Candidate Gene Association
PLANT CELL,
October 1, 2004;
16(10):
2719 - 2733.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
C. E. Gallagher, P. D. Matthews, F. Li, and E. T. Wurtzel
Gene Duplication in the Carotenoid Biosynthetic Pathway Preceded Evolution of the Grasses
Plant Physiology,
July 1, 2004;
135(3):
1776 - 1783.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
|
|
K. Palaisa, M. Morgante, S. Tingey, and A. Rafalski
Long-range patterns of diversity and linkage disequilibrium surrounding the maize Y1 gene are indicative of an asymmetric selective sweep
PNAS,
June 29, 2004;
101(26):
9885 - 9890.
[Abstract]
[Full Text]
[PDF]
|
|
|
|
|
