Molecular evolution of dimeric α-amylase inhibitor genes in wild emmer wheat and its ecological association

BMC Evolutionary Biology

Volumn 8, Issue 1, 2008, Pages

  Wang, Ji Rui ^a   Wei, Yu Ming ^a   Long, Xiang Yu ^a   Yan, Ze Hong ^a   Nevo, Eviatar ^b   Baum, Bernard R ^c   Zheng, You Liang ^a  

^a SICHUAN AGRICULTURAL UNIVERSITY   (China)

^b UNIVERSITY OF HAIFA   (Israel)

^c AGRICULTURE AND AGRI FOOD CANADA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

AMYLASE INHIBITOR; AMYLASE; PRIMER DNA; VEGETABLE PROTEIN; WDAI 3 PROTEIN, TRITICUM AESTIVUM; WDAI-3 PROTEIN, TRITICUM AESTIVUM;

ARTICLE; CONTROLLED STUDY; GENE LOCUS; GENE STRUCTURE; GENETIC CODE; GENETIC DIFFERENCE; GENETIC VARIABILITY; HAPLOTYPE; HETEROZYGOSITY; ISRAEL; MOLECULAR EVOLUTION; NONHUMAN; PLANT ECOLOGY; SEQUENCE ANALYSIS; SINGLE NUCLEOTIDE POLYMORPHISM; WHEAT; WILD TYPE; DRUG ANTAGONISM; GENE; GENETICS; OPEN READING FRAME;

BRUCHINAE; HEXAPODA; TRITICUM AESTIVUM; TRITICUM DICOCCON; TRITICUM TURGIDUM SUBSP. DICOCCOIDES;

ALPHA-AMYLASE; DNA PRIMERS; EVOLUTION, MOLECULAR; GENES, PLANT; HAPLOTYPES; OPEN READING FRAMES; PLANT PROTEINS; POLYMORPHISM, SINGLE NUCLEOTIDE; TRITICUM; VARIATION (GENETICS);

EID: 42449103399     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-8-91     Document Type: Article

References (58)

1. Genetic diversity of wild emmer wheat in Israel and Turkey: Structure, evolution and application in breeding. E Nevo A Beiles, Theor Appl Genet 1989 77 421 455 10.1007/BF00305839
2. Genetic diversity in nature: patterns and theory. E Nevo, Evol Biol 1988 23 217 246
3. Molecular evolution and ecological stress at global, regional and local scales: the Israeli perspective. E Nevo, J Exp Zool 1998 282 95 119 10.1002/(SICI)1097-010X(199809/10)282:1/2<95::AID-JEZ12>3.0.CO;2-F
4. Natural selection of allozyme polymorphisms: mocro-geographical spatial and temporal ecological differentiations in wild emmer wheat. E Nevo I Noy-Meir A Beiles T Krugman M Agami, Israel J Botany 1991 40 419 449
5. Genetic polymorphisms of α- and β-amylase in wild emmer wheat, Triticum dicoccoides, in Israel. E Nevo K Nishikawa Y Furuta Y Gonokami A Beiles, Theor Appl Genet 1993 85 1029 1042 10.1007/BF00215044
6. Evolution of genome-phenome diversity under environmental stress. E Nevo, Proc Natl Acad Sci USA 2001 98 6233 6240 11371642 10.1073/pnas.101109298
7. Structure of linkage disequilibrium and phenotypic associations in the maize genome. DL Remington JM Thornsberry Y Matsuoka LM Wilson SR Whitt J Doebley S Kresovich MM Goodman ES Buckler, Proc Natl Acad Sci USA 2001 98 11479 11484 11562485 10.1073/pnas.201394398
8. Novel genetic mapping tools in plants: SNPs and LD-based approaches. A Rafalski, Plant Sci 2002 162 329 333 10.1016/S0168-9452(01)00587-8
9. Patterns of DNA sequence polymorphism along chromosome 1 of maize (Zea mays ssp. mays L.). MI Tenaillon MC Swakins AD Long RL Gaut JF Doebley BS Gaut, Proc Natl Acad Sci USA 2001 98 9161 9166 11470895 10.1073/pnas.151244298
10. Identification of candidate coding region single nucleotide polymorphisms in 165 human genes using assembled expressed sequence tags. K Garg P Green DA Nickerson, Genome Research 1999 9 1087 1092 10568748 10.1101/gr.9.11.1087
11. Relationship of sequence and structure to specificity in the α-amylase family of enzymes. EA MacGregor S Janecek B Svensson, Biochim Biophys Acta 2001 1546 1 20 11257505
12. Analysis of structural and physico-chemical parameters involved in the specificity of binding between α-amylases and their inhibitors. MC Silva M Da MF Grossi de sα MJ Chrispeels RC Togawa G Neshich, Protein Engineering 2000 13 167 177 10.1093/protein/13.3.167 10775658
13. Genetic engineering with a-amylase inhibitors seeds resistant to bruchids. MJ Chrispeels MF Grossi-de-Sá TJV Higgins, Seed Sci Res 1998 8 257 263
14. Identifying proteins with insecticidal activity: use of encoding genes to produce insect-resistant transgenic crops. AMR Gatehouse JA Gatehouse, Pest Sci 1998 52 165 175 10.1002/(SICI)1096-9063(199802)52:2<165::AID-PS679>3.0. CO;2-7
15. Interaction of insect digestive enzymes with plant protein inhibitors and host-parasite co-evolution. AV Konarev, Euphytica 1996 92 89 94 10.1007/BF00022833
16. Activity of wheat α-amylase inhibitors towards bruchid α-amylases and structural explanation of observed specificities. OL Franco DJ Rigden FR Melo JC Bloch CP Silva MF Grossi de Sá Eur J Biochem 2000 267 8 2166 2173 10.1046/j.1432-1327.2000.01199.x 10759839
17. Determination of the three-dimensional structure of the bifunctional alpha-amylase/trypsin inhibitor from ragi seeds by NMR spectroscopy. S Strobl P Muhlhahn R Bernstein R Wiltscheck K Maskos M Wunderlich R Huber R Glockshuber TA Holak, Biochemistry 1995 34 8281 8293 10.1021/bi00026a009 7599120
18. Albumin polymorphism and mapping of a dimeric α-amylase inhibitor in wheat. J Singh R Appels PJ Sharp JH Sherritt, Aust J Agric Res 2001 52 1173 1179 10.1071/AR01057
19. Molecular characterization of dimeric alpha-amylase inhibitor genes in wheat and development of genome allele-specific primers for the genes located on chromosome 3BS and 3DS. JR Wang ZH Yan YM Wei BR Baum E Nevo YL Zheng, J Cereal Sci 2006 43 360 368 10.1016/j.jcs.2005.12.005
20. Nutritive quality of plant protein: sources of variation and insect herbivore response. GW Felton, Arch Insect Biochem Physiol 1996 32 107 130 10.1002/(SICI)1520-6327(1996)32:1<107::AID-ARCH7>3.0.CO;2-X
21. Protease inhibitors in plants: genes for improving defenses against insect and pathogens. CA Ryan, Annu Rev Phytophathol 1990 28 425 449 10.1146/annurev.py.28.090190.002233
22. Evolutionary mechanisms acting on proteinase inhibitor variability. JT Christeller, FEBS Journal 2005 272 5710 5722 10.1111/j.1742-4658.2005.04975.x 16279937
23. Characterization of a bifunctional wheat inhibitor of endogenous α-amylase and subtilisin. J Mundy J Hejgaard I Svendsen, FEBS Lett 1984 167 210 214 10.1016/0014-5793(84)80128-3
24. Wheat protein inhibitors of α-amylase. V Buonocore T Petrucci V Silano, Phytochemistry 1977 16 811 820 10.1016/S0031-9422(00)86672-8
25. Insect-plant interactions on a planet of weeds. PB McEvoy, Entomologia Experimentalis et Applicata 2002 104 165 179 10.1023/A:1021238030692
26. Molecular Evolution of the Wound-Induced Serine Protease Inhibitor wip1 in Zea and Related Genera. P Tiffin BS Gaut, Mol Biol Evol 2001 18 2092 2101 11606705
27. Sequence polymorphisms and relationships of dimeric α-amylase inhibitor genes in the B genomes of Triticum and S genomes of Aegilops. JR Wang Li Zhang YM Wei ZH Yan BR Baum E Nevo YL Zheng, Plant Science 2007 173 1 11 10.1016/j.plantsci.2007.03.006
28. Single nucleotide polymorphism, haplotype diversity and recombination in the Isa gene of barley. PC Bundock RJ Henry, Theor Appl Genet 2004 109 543 551 10.1007/s00122-004-1675-z 15146316
29. Alpha-amylase/subtilisin inhibitor levels in Australian barleys. SJ Jarrett RJ Marschke MH Symons CE Gibson GP Fox RJ Henry, J Cereal Sci 1997 25 261 266 10.1006/jcrs.1996.0084
30. Detection of single nucleotide polymorphisms in the 24 kDa dimeric α-amylase inhibitors from cultivated wheat and its diploid putative progenitors. JR Wang YM Wei ZH Yan YL Zheng, Biochem Biophys Acta 2005 1723 1-3 309 320 15837429
31. Assignment of the five disulphide bridges in an alpha-amylase inhibitor from wheat kernel by FAB/MS and Edman degradation. E Poerio C Caporale L Carrano P Pucci V Buonocore, Eur J Biochem 1991 199 595 600 10.1111/j.1432-1033.1991. tb16159.x 1868845
32. Plant α-amylase inhibitors and their interaction with insect α-amylases Structure, function and potential for crop protection. OL Franco DJ Rigden FR Melo MF Grossi-de-Sá Eur J Biochem 2002 269 397 412 10.1046/j.0014-2956.2001.02656.x 11856298
33. Tertiary and quaternary structures of 0.19 alpha-amylase inhibitor from wheat kernel determined by X-ray analysis at 2.06 A resolution. Y Oda T Matsunaga K Fukuyama T Miyazaki T Morimoto, Biochemistry 1997 36 13503 13511 10.1021/bi971307m 9354618
34. Wheat storage proteins: glutenin diversity in wild emmer, Triticum dicoccoides, in Israel and Turkey. 3. Environmental correlates and allozymic associations. E Nevo MA Pagnotta A Beiles E Porceddu, Theor Appl Genet 1995 91 415 420 10.1007/BF00222968
35. Wheat storage proteins: glutenin diversity in wild emmer, Triticum dicoccoides, in Israel and Turkey. 1. Geographical patterns and ecological predictability. E Nevo PI Payne, Theor Appl Genet 1987 74 827 836 10.1007/BF00247564
36. Wheat storage proteins: glutenin diversity in wild emmer, Triticum dicoccoides, in Israel and Turkey. 2. DNA diversity detected by PCR. MA Pagnotta E Nevo A Beiles E Porceddu, Theor Appl Genet 1995 91 409 414 10.1007/BF00222967
37. RAPD polymorphism of wild emmer wheat populations, Triticum dicocoides, in Israel. T Fahima GL Sun A Beharav T Krugman A Beiles E Nevo, Theor Appl Genet 1999 98 434 447 10.1007/s001220051089
38. Microsatellite polymorphism in antural populations of wild emmer wheat, Triticum dicocoides, in Israel. T Fahima MS Röder VM Wendehake E Nevo, Theor Appl Genet 2002 104 17 29 10.1007/s001220200002 12579424
39. Genetic diversity and environmental associations of wild wheat, Triticum dicoccoides, in Israel. E Nevo E Golenberg A Beiles, Theor Appl Genet 1982 62 241 254
40. Natural selection of allozyme polymorphisms: a microgeographic climatic differentiation in wild emmer wheat (Triticum dicoccoides). E Nevo A Beiles T Krugman, Theor Appl Genet 1988 75 529 538 10.1007/BF00276761
41. Natural selection of allozyme polymorphisms: a microgeographical differentiation by edaphic, topographical, and temporal factors in wild emmer wheat (Triticum dicoccoides). E Nevo A Beiles T Krugman, Theor Appl Genet 1988 76 737 752 10.1007/BF00303521
42. Photosynthetic performance in wild emmer wheat, Triticum dicoccoides: ecological and genetic predictability. E Nevo BF Carver A Beiles, Theor Appl Genet 1991 81 445 460 10.1007/BF00219434
43. The role of drought in outbreaks of plant-eating insects. WJ Mattson RA Haack, BioScience 1987 37 110 118 10.2307/1310365
44. Ecosystem Functioning Under Abrupt Climate Change, Potential Surprises and Adaptations. J Price T Root, 2004 http://www.accstrategy.org/presentdrafts. html
45. Plant resistance to insect herbivores: a field test of the environmental stress hypothesis. SM Louda SK Collinge, Ecology 1992 73 153 169 10.2307/1938728
46. Stressful times for the plant stress-insect performance hypothesis. S Larsson, Oikos 1989 56 277 283 10.2307/3565348
47. Adaptive climatic molecular evolution in wild barley at the Isa defense locus. JK Cronin PC Bundock RJ Henry E Nevo, Proc Natl Acad Sci USA 2007 104 2773 2778 17301230 10.1073/pnas.0611226104
48. Distribution of wild wheat and barley. JR Harlan D Zohary, Science 1966 153 1074 1080 10.1126/science.153.3740.1074 17737582
49. Rapid isolation of high molecular weight plant DNA. M Murray WF Thompson, Nucleic Acids Res 1980 8 4321 4325 7433111 10.1093/nar/8.19.4321
50. http://www.lynnon.com
51. http://www.ebi.ac.uk/clustalw
52. http://www.ncbi.nlm.nih.gov
53. MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. S Kumar K Tamura M Nei, Brief Bioinform 2004 5 150 163 10.1093/bib/5.2.150 15260895
54. PCR amplification of specific alleles (PASA) is a general method for rapidly detecting known single base-pair changes. SS Sommer AR Groszbar CDK Bottema, Biotechniques 1992 12 82 87 1734929
55. Genetic mapping of the wheat dimeric α-amylase inhibitor multi-gene family using allele-specific primers based on intergenomic SNPs. JR Wang YM Wei ZH Yan YL Zheng, Plant molecular biology report 2006 4 3 http://pubs.nrc-cnrc. gc.ca/ispmb/PR24-03.html
56. Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS). CR Newton LE Graham LE Heptinstall SJ Powell C Summers N Kalsheker JC Smith AF Markham, Nucleic Acids Research 1989 17 2503 2516 2785681 10.1093/nar/17.7.2503
57. POPGENE, the user-friendly shareware for population genetic analysis. FC Yeh RC Yang T Boyle ZH Ye JX Mao, Molecular Biology and Biotechnology Center, University of Alberta, Canada 1977
58. StatSoft, Inc. Electronic Statistics Textbook. Tulsa, OK: StatSoft. 2006 http://www.statsoft.com/textbook/stathome.html