Diversifying Selection on Flavanone 3-Hydroxylase and Isoflavone Synthase Genes in Cultivated Soybean and Its Wild Progenitors

PLoS ONE

Volumn 8, Issue 1, 2013, Pages

  Cheng, Hao ^a   Wang, Jiao ^a   Chu, Shanshan ^a   Yan, Hong Lang ^a   Yu, Deyue ^a  

^a NANJING AGRICULTURAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

FLAVANONE 3 HYDROXYLASE; ISOFLAVONE SYNTHASE; OXYGENASE; SYNTHETASE; UNCLASSIFIED DRUG;

ARTICLE; CONTROLLED STUDY; CULTIVAR; DIVERSIFYING SELECTION; DOMESTICATION; GENE; GENETIC POLYMORPHISM; GENETIC VARIABILITY; GLYCINE (PLANT); GLYCINE SOJA; IFS1 GENE; IFS2 GENE; INTROGRESSION; MOLECULAR EVOLUTION; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANT MICROORGANISM INTERACTION; PROGENY; SOYBEAN;

MIXED FUNCTION OXYGENASES; OXYGENASES; PHYLOGENY; PLANT PROTEINS; POLYMORPHISM, GENETIC; SOYBEANS;

GLYCINE MAX; GLYCINE SOJA;

EID: 84872434907     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0054154     Document Type: Article

References (32)

1. Lee G, Crawford G, Liu L, Sasaki Y, Chen X, (2011) Archaeological soybean (Glycine max) in East Asia: does size matter? PloS one 6: e26720.
2. Xu D, Abe J, Gai J, Shimamoto Y, (2002) Diversity of chloroplast DNA SSRs in wild and cultivated soybeans: evidence for multiple origins of cultivated soybean. Theor Appl Genet 105: 645-653.
3. Hyten DL, Song Q, Zhu Y, Choi IY, Nelson RL, et al. (2006) Impacts of genetic bottlenecks on soybean genome diversity. Proc Natl Acad Sci USA 103: 16666-16671.
4. Yu O, McGonigle B, (2005) Metabolic engineering of isoflavone biosynthesis. Adv Agron 86: 147-190.
5. Akashi T, Aoki T, Ayabe S, (1999) Cloning and functional expression of a cytochrome P450 cDNA encoding 2-hydroxyisoflavanone synthase involved in biosynthesis of the isoflavonoid skeleton in licorice. Plant Physiol 121: 821-828.
6. Jung W, Yu O, Lau SM, O'Keefe DP, Odell J, et al. (2000) Identification and expression of isoflavone synthase, the key enzyme for biosynthesis of isoflavones in legumes. Nat Biotechnol 18: 208-212.
7. Steele CL, Gijzen M, Qutob D, Dixon RA, (1999) Molecular Characterization of the Enzyme Catalyzing the Aryl Migration Reaction of Isoflavonoid Biosynthesis in Soybean. Arch Biochem Biophys 367: 146-150.
8. Springob K, Nakajima J, Yamazaki M, Saito K, (2003) Recent advances in the biosynthesis and accumulation of anthocyanins. Nat Prod Rep 20: 288-303.
9. Zabala G, Vodkin LO, (2005) The wp mutation of Glycine max carries a gene-fragment-rich transposon of the CACTA superfamily. Plant Cell 17: 2619-2632.
10. Gutierrez-Gonzalez JJ, Wu X, Gillman JD, Lee JD, Zhong R, et al. (2010) Intricate environment-modulated genetic networks control isoflavone accumulation in soybean seeds. BMC Plant Biol 10: 105.
11. Kim HK, Jang YH, Baek IS, Lee JH, Park MJ, et al. (2005) Polymorphism and expression of isoflavone synthase genes from soybean cultivars. Mol Cells 19: 67-73.
12. Aguadé M, (2001) Nucleotide sequence variation at two genes of the phenylpropanoid pathway, the FAH1 and F3H genes, in Arabidopsis thaliana. Mol Biol Evol 18: 1-9.
13. Cheng H, Yang H, Zhang D, Gai J, Yu D, (2010) Polymorphisms of soybean isoflavone synthase and flavanone 3-hydroxylase genes are associated with soybean mosaic virus resistance. Molecular Breeding 25: 13-24.
14. Cheng H, Yu O, Yu D, (2008) Polymorphisms of IFS1 and IFS2 gene are associated with isoflavone concentrations in soybean seeds. Plant Sci 175: 505-512.
15. Bergelson J, Kreitman M, Stahl EA, Tian D, (2001) Evolutionary dynamics of plant R-genes. Science 292: 2281-2285.
16. Shen P, Huang HV, (1986) Homologous recombination in Escherichia coli: dependence on substrate length and homology. Genetics 112: 441-457.
17. Wang Y, Gai J, (2002) Study on the ecological regions of soybean in China II. Ecological environment and representative varieties. Ying Yong Sheng Tai Xue Bao 13: 71-75.
18. Lam HM, Xu X, Liu X, Chen W, Yang G, et al. (2010) Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection. Nat Genet 42: 1053-1059.
19. Keim P, Olson TC, Shoemaker RC, (1988) A rapid protocol for isolating soybean DNA. Soybean Genet Newsl 15: 150-152.
20. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG, (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882.
21. Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R, (2003) DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19: 2496-2497.
22. Nei M (1987) Molecular Evolutionary Genetics. New York: Columbia Univ. Press.
23. Lynch M, Crease TJ, (1990) The analysis of population survey data on DNA sequence variation. Mol Biol Evol 7: 377-394.
24. Watterson GA, (1975) On the number of segregating sites in genetical models without recombination. Theor Popul Biol 7: 256-276.
25. Hudson RR, Kaplan NL, (1985) Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111: 147-164.
26. Tamura K, Dudley J, Nei M, Kumar S, (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0. Mol Biol Evol 24: 1596.
27. Tajima F, (1989) The effect of change in population size on DNA polymorphism. Genetics 123: 597-601.
28. Nei M, Gojobori T, (1986) Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3: 418-426.
29. Weir B (1996) Genetic data analysis; Xu J, editor. Beijing: Publishing House of Agricultural Science.
30. Excoffier L, Laval G, Schneider S, (2005) Arlequin (version 3.0): an integrated software package for population genetics data analysis. Evolutionary bioinformatics online 1: 47.
31. Hudson RR, (2000) A new statistic for detecting genetic differentiation. Genetics 155: 2011-2014.
32. Zhi HJ, Gai JY, He XH, (2005) Study on methods of classification of quantitative resistance to soybean mosaic virus in soybean. Soybean science 24: 5-11.