Expansion of the gamma-gliadin gene family in Aegilops and Triticum

BMC Evolutionary Biology

Volumn 12, Issue 1, 2012, Pages

  Goryunova, Svetlana V ^a,b   Salentijn, Elma M J ^a   Chikida, Nadejda N ^c   Kochieva, Elena Z ^d   Van Der Meer, Ingrid M ^a   Gilissen, Luud J W J ^a   Smulders, Marinus J M ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

^b VAVILOV INSTITUTE OF GENERAL GENETICS   (Russian Federation)

^c N I VAVILOV ALL RUSSIAN INSTITUTE OF PLANT GENETIC RESOURCES   (Russian Federation)

^d INSTITUTE OF BIOENGINEERING   (Russian Federation)

Author keywords

Aegilops; Evolution; Gamma gliadin; Multigene family; Triticum; Wheat

Indexed keywords

AMINO ACID; CEREAL; DEVELOPMENTAL BIOLOGY; ECOLOGICAL MODELING; GAMMA RAY RADIATION; GENE EXPRESSION; GENOME; GRASS; PROTEIN; RANGE EXPANSION;

AEGILOPS; AEGILOPS COMOSA; AEGILOPS MARKGRAFII; AEGILOPS SPELTOIDES; AEGILOPS TAUSCHII; AEGILOPS UMBELLULATA; AEGILOPS UNIARISTATA; AMBLYOPYRUM MUTICUM; CAUDATA; CRITHOPSIS; DASYPYRUM; LOPHOPYRUM; TRITICUM; TRITICUM AESTIVUM; TRITICUM MONOCOCCUM;

GLIADIN;

AMINO ACID SEQUENCE; ARTICLE; BIOLOGICAL MODEL; CLASSIFICATION; CLUSTER ANALYSIS; GENE DUPLICATION; GENETIC SELECTION; GENETIC VARIABILITY; GENETICS; MOLECULAR EVOLUTION; MOLECULAR GENETICS; MULTIGENE FAMILY; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLANT GENOME; POACEAE; PSEUDOGENE; SEQUENCE HOMOLOGY; WHEAT;

AMINO ACID SEQUENCE; BASE SEQUENCE; CLUSTER ANALYSIS; EVOLUTION, MOLECULAR; GENE DUPLICATION; GENETIC VARIATION; GENOME, PLANT; GLIADIN; MODELS, GENETIC; MOLECULAR SEQUENCE DATA; MULTIGENE FAMILY; PHYLOGENY; POACEAE; PSEUDOGENES; SELECTION, GENETIC; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID; TRITICUM;

MLCS; MLOWN;

EID: 84868503369     PISSN: None     EISSN: 14712148     Source Type: Journal    
DOI: 10.1186/1471-2148-12-215     Document Type: Article

References (66)

1. Analysis of the gliadin multigene loci in bread wheat using nullisomic-tetrasomic lines. Harberd NP, Bartels D, Thompson RD, Mol Gen Genet 1985 198 234 242 10.1007/BF00383001
2. Evolution and heterogeneity of the α-/β-type and γ-type gliadin DNA sequences. Okita TW, Cheesbrough V, Reeves CD, J Biol Chem 1985 260 8203 8213 2989281 (Pubitemid 15231472)
3. The α-gliadin gene family. I. Characterization of ten new wheat α-gliadin genomic clones, evidence for limited sequence conservation of flanking DNA, and southern analysis of the gene family. Anderson OD, Litts JC, Greene FC, Theor Appl Genet 1997 95 50 58 10.1007/s001220050531 (Pubitemid 27369623)
4. Alpha-gliadin genes from the A, B, and D genomes of wheat contain different sets of celiac disease epitopes. Van Herpen TWJM, Goryunova SV, Van der Schoot J, et al. BMC Genom 2006 7 1
5. The prolamin storage proteins of cereal seeds: structure and evolution. Shewry PR, Tatham AS, Biochem J 1990 267 1 12 2183790 (Pubitemid 20122626)
6. Wheat storage proteins: their genetics and their potential for manipulation by plant breeding. Payne PI, Holt LM, Jackson EA, Law CN, Phil Trans R Soc Lond B 1984 304 359 371 10.1098/rstb.1984.0031
7. Genetic linkage between endosperm storage protein genes on each of the short arms of chromosomes 1A and 1B in wheat. Payne PI, Jackson EA, Holt LM, Law CN, Theor Appl Genet 1984 67 235 243 10.1007/BF00317044
8. Characterization and organization of gene families at the Gli-1 loci of bread and durum wheat by restriction fragment analysis. Sabelli P, Shewry PR, Theor Appl Genet 1991 83 209 216
9. The wheat γ-gliadin genes: characterization of ten new sequences and further understanding of γ-gliadin gene family structure. Anderson OD, Hsia CC, Torres V, Theor Appl Genet 2001 103 323 330 10.1007/s00122-001-0551-3 (Pubitemid 32773615)
10. The γ-gliadin multigene family in common wheat (Triticum aestivum) and its closely related species. Qi PF, Wei YM, Ouellet T, Chen Q, Tan X, Zheng YL, BMC Genom 2009 10 168 10.1186/1471-2164-10-168
11. Phylogenetic relationships of Triticum and Aegilops and evidence for the origin of the A, B, and D genomes of common wheat (Triticum aestivum). Petersen G, Seberg O, Yde M, Berthelsen K, Mol Phylogenet Evol 2006 39 70 82 10.1016/j.ympev.2006.01.023 16504543
12. Independent wheat B and G genome origins in outcrossing Aegilops progenitor haplotypes. Kilian B, Ozkan H, Deusch O, Effgen S, Brandolini A, Kohl J, Martin W, Salamini F, Mol Biol Evol 2007 24 217 227 17053048 (Pubitemid 46026296)
13. Disulphide bonds in wheat gluten proteins. Shewry PR, Tatham AS, J Cereal Sci 1997 25 207 227 10.1006/jcrs.1996.0100 (Pubitemid 127368297)
14. Molecular characterization and dynamic expression patterns of two types of γ-gliadin genes from Aegilops and Triticum species. Wang S, Shen X, Ge P, Li J, Subburaj S, Li X, Zeller FJ, Hsam SL, Yan Y, Theor Appl Genet 2012 125 1371 1384 10.1007/s00122-012-1917-4 22751951
15. Characterization of HMW glutenin subunits in common wheat and related species by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF-MS). Zhang Q, Donga Y, An X, Wang A, Zhang Y, Li X, Gao L, Xi X, He Z, Yan Y, J Cereal Sci 2008 47 252 261 10.1016/j.jcs.2007.04.013 (Pubitemid 351288995)
16. Molecular cloning, heterologous expression, and phylogenetic analysis of a novel y-type HMW glutenin subunit gene from the G genome of Triticum timopheevi. Li XH, Zhang YZ, Gao LY, Wang AL, Ji KM, He ZH, Genome 2007 50 1130 1140 10.1139/G07-089 18059540
17. Molecular cloning, function prediction and phylogenetic analysis of LMW glutenin subunit genes in Triticum timopheevii (Zhuk.). Zhang MY, Wang K, Wang SL, Li XH, Zeller FJ, Hsam SLK, Yan YM, Plant Breed 2010 129 622 629 10.1111/j.1439-0523.2010.01768.x
18. Phylogenetic analysis of C, M, N, and U genomes and their relationships with Triticum and other related genomes as revealed by LMW-GS genes at Glu-3 loci. Wang S, Li X, Wang K, Wang X, Li S, Zhang Y, Guo G, Zeller FJ, Hsam SLK, Yan Y, Genome 2011 54 273 284 10.1139/g10-119 21491971
19. Wild wheats: a monograph of Aegilops L. and Amblyopyrum (Jaub. & Spach) Eig (Poaceae). Van Slageren MW, Wag Ag Un P 1994 7 513
20. A simple and rapid method for the preparation of plant genomic DNA for PCR analysis. Edwards K, Johnstone C, Thompson C, Nucleic Acids Res 1991 19 1349 10.1093/nar/19.6.1349 2030957
21. Rapid and economic technique for RAPD analysis of plant genomes. Dorokhov DB, Klocke EA, Russ J Genet 1997 33 358 365 (Pubitemid 127497937)
22. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Tamura K, Dudley J, Nei M, Kumar S, Mol Biol Evol 2007 24 1596 1599 10.1093/molbev/msm092 17488738 (Pubitemid 47236692)
23. (12 co-authors): Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Dereeper A, Guignon V, Blanc G, et al. Nucleic Acids Res 2008 36 465 W469 10.1093/nar/gkn180 18424797
24. BLAST-EXPLORER helps you building datasets for phylogenetic analysis. Dereeper A, Audic S, Claverie JM, Blanc G, BMC Evol Biol 2010 10 8 10.1186/1471-2148-10-8 20067610
25. Approximate likelihood ratio test for branchs: A fast, accurate and powerful alternative. Anisimova M, Gascuel O, Syst Biol 2006 55 539 52 10.1080/10635150600755453 16785212 (Pubitemid 43922340)
26. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Nei M, Gojobori T, Mol Biol Evol 1986 3 418 426 3444411 (Pubitemid 16010523)
27. Celiac disease T cell epitopes from gamma-gliadins: immunoreactivity depends on the genome of origin, transcript frequency, and flanking protein variation. Salentijn EMJ, Mitea DC, Goryunova SV, Van der Meer IM, Padioleau I, Gilissen LJWJ, Koning F, Smulders MJM, BMC Genomics 2012 13 277 10.1186/1471-2164-13-277 22726570
28. The taxonomy and nomenclature of the wheats, barleys, and ryes and their wild relatives. Bowden WM, Can J Bot 1959 37 657 684 10.1139/b59-053
29. Evolution in the genusTriticumand the origin of cultivated wheat. Kimber G, Sears ER, Wheat and Wheat Improvement Madison, WI: Am. Soc. Agron, Heyne EG, 2 1987 154 164
30. Genes encoding plastid acetyl-CoA carboxylase and 3-phosphoglycerate kinase of the Triticum/Aegilops complex and the evolutionary history of polyploid wheat. Huang S, Sirikhachornkit A, Su X, Faris J, Gill B, Haselkorn R, Gornicki P, Proc Natl Acad Sci USA 2002 99 8133 8138 10.1073/pnas.072223799 12060759 (Pubitemid 34651018)
31. The evolution of plant nuclear genes. Clegg MT, Cummings MP, Durbin ML, Proc Natl Acad Sci USA 1997 94 7791 7798 10.1073/pnas.94.15.7791 9223265 (Pubitemid 27343727)
32. Divergent evolution of plant NBS-LRR resistance gene homologues in dicot and cereal genomes. Pan Q, Wendel J, Fluhr R, J Mol Evol 2000 50 203 213 10754062 (Pubitemid 30429973)
33. Rapid evolution and complex structural organization in genomic regions harboring multiple prolamin genes in the polyploid wheat genome. Gao S, Gu YQ, Wu J, Coleman-Derr D, Huo N, Crossman C, Jia J, Zuo Q, Ren Z, Anderson OD, Kong X, Plant Mol Biol 2007 65 189 203 10.1007/s11103-007-9208-1 17629796
34. Evolution by the birth-and-death process in multigene families of the vertebrate immune system. Nei M, Gu X, Sitnikova T, Proc Natl Acad Sci USA 1997 94 7799 7806 10.1073/pnas.94.15.7799 9223266 (Pubitemid 27343728)
35. Multigenic phylogeny and analysis of tree incongruences in Triticeae (Poaceae). Escobar JS, Scornavacca C, Cenci A, Guilhaumon C, Santoni S, Douzery EJP, Ranwez V, Glémin S, David J, BMC Evol Biol 2011 11 181 10.1186/1471-2148-11-181 21702931
36. A critical systematic survey of the species of the genus Aegilops L. Zhukovsky PM, B Appl Botany, Genet Plant Breeding 1928 18 497 609
37. Monographisch-kritische Übersicht der Gattung Aegilops. Eig A, Feddes Repertorium Specierum novarum regni vegetabilis Beih 1929 55 1 228
38. Fertility and morphological variation in the substitution backcrosses of the hybrid Triticum vulgare × Aegilops caudata. Kihara H, Proc X Int Congr Genet 1959 1 142 171
39. Vorarbeiten zur monographischen Darstellung von Wildpflanzensortimenten: Aegilops L. Hammer K, Kulturpflanze 1980 28 33 180 10.1007/BF02014641
40. Whitcombe JR, A guide to the species of Aegilops L.: their taxonomy, morphology, and distribution Rome, Italy: International Board for Plant Genetic Resources (IPGRI) 1983 74
41. Amblyopyrum Eig. A new genus separated from the genus Aegilops. Eig A, PZE Ins Agr Nat Hist Agr Res 1929 2 199 204
42. Genome differentiation in Aegilops. 1. Distribution of highly repetitive DNA sequences on chromosomes of diploid species. Badaeva E, Friebe B, Gill B, Genome 1996 39 293 306 10.1139/g96-040 18469894 (Pubitemid 126529662)
43. Considerations on the evolution and distribution of Aegilops species based on the analyser-method. Kihara H, Cytologia 1954 19 336 357 10.1508/cytologia.19.336
44. Reconstruction of the phylogeny of the genus Triticum from variation in repeated nucleotide sequences. Dvorak J, Zhang HB, Theor Appl Genet 1992 84 419 429 10.1007/BF00229502
45. Restriction fragment length polymorphism and divergence in the genomic regions of high and low recombination in self-fertilizing and cross-fertilizing Aegilops species. Dvorak J, Luo M-C, Yang Z-L, Genetics 1998 148 423 434 9475752 (Pubitemid 28063507)
46. The structure of the Aegilops tauschii genepool and the evolution of hexaploid wheat. Dvorak J, Luo M-C, Yang Z-L, Zhang H-B, Theor Appl Genet 1998 97 657 670 10.1007/s001220050942 (Pubitemid 28476431)
47. Diversity and evolution of chloroplast DNA in Triticum and Aegilops as revealed by restriction fragment analysis. Ogihara Y, Tsunewaki K, Theor Appl Genet 1988 76 321 332
48. Variation in repeated nucleotide sequences sheds light on the phylogeny of the wheat B and G genomes. Dvorak J, Zhang HB, Proc Natl Acad Sci USA 1990 87 9640 9644 10.1073/pnas.87.24.9640 11607134 (Pubitemid 120016498)
49. Molecular variation in chloroplast DNA regions in ancestral species of wheat. Miyashita NT, Monri N, Tsunewaki K, Genetics 1994 137 883 889 7916310 (Pubitemid 24196482)
50. Wheat phylogeny determined by RFLP analysis of nuclear DNA. 3. Intra- and interspecific variations of five Aegilops Sitopsis species. Sasanuma T, Miyashita NT, Tsunewaki K, Theor Appl Genet 1996 92 928 934 10.1007/BF00224032 (Pubitemid 26267453)
51. Genetic evidence on the origin of T. aestivum L. Dvorak J, Luo M-C, Yang Z-L, The origins of agriculture and the domestication of crop plants in the Near East Aleppo, Syria, ICARDA: ICARDA, Damania A, 1998 235 251
52. RFLP analysis of Aegilops species belonging to the Sitopsis section. Giorgi D, D'Ovidio R, Tanzarella OA, Porceddu E, Genet Resour Crop Evol 2002 49 145 151 10.1023/A:1014743823887 (Pubitemid 34287194)
53. Phylogenetic relationships and intraspecific variation of D-genome Aegilops L. as revealed by RAPD analysis. Goryunova SV, Kochieva EZ, Chikida NN, Pukhalskyi VA, Russ J Genet 2004 40 515 523 (Pubitemid 39563213)
54. Karyomorphologic and Cytotaxonomic Studies in Aegilops. Chennaveeraiah MA, Acta Horti Gotoburgensis 1960 23 85 178
55. Zhukovskii PM, Kul'turnye rasteniya i ikh sorodichi (Cultivated Plants and Their Relatives) Kolos, Leningrad 1971 122 130 in Russian 23270267
56. Phylogenetic relationships in some diploid species of Triticineae: cytogenetic analysis of interspecific hybrids. Lucas H, Jahier J, Theor Appl Genet 1988 75 498 502 10.1007/BF00276756
57. Multiple origins promote the ecological amplitude of allopolyploid Aegilops (Poaceae). Meimberg H, Rice KJ, Milan NF, Njoku CC, Mckay JK, Am J Bot 2009 96 1262 1273 10.3732/ajb.0800345 21628275
58. Analysis of expressed sequence tags from a single wheat cultivar facilitates interpretation of tandem mass spectrometry data and discrimination of gamma gliadin proteins that may play different functional roles in flour. Altenbach SB, Vensel WH, DuPont FM, BMC Plant Biol 2010 10 7 10.1186/1471-2229-10-7 20064259
59. Gianibelli MC, Larroque OR, MacRitchie F, Wrigley CW, Biochemical, genetic, and molecular characterization of wheat endosperm proteins St. Paul, Minnesota, USA: American Association of Cereal Chemists, Inc Online review. 2001 1 20 Publication no. C-2001-0926-01O
60. On the use of alleles of gliadin-coding loci as possible adaptability markers in the spring wheat (Triticum aestivum L.) cultivars during seed germination. Upelniek VP, Brezhneva TA, Dadashev SY, Novozhilova OA, Molkanova OI, Semikhov VF, Russ J Genet 2003 39 1426 1431 (Pubitemid 39571989)
61. Silencing of γ-gliadins by RNA interference (RNAi) in bread wheat. Gil-Humanes J, Pistón F, Hernando A, Alvarez JB, Shewry PR, Barro F, J Cereal Sci 2008 48 565 568 10.1016/j.jcs.2008.03.005
62. Effective shutdown in the expression of celiac disease-related wheat gliadin T-cell epitopes by RNA interference. Gil-Humanes J, Pistón F, Tollefsen S, Sollid LM, Barro F, Proc Natl Acad Sci USA 2010 107 17023 17028 10.1073/pnas.1007773107 20829492
63. Suppression of gliadins results in altered protein body morphology in wheat. Gil-Humanes J, Pistón F, Shewry PR, Tosi P, Barro F, J Exp Bot 2011 62 4203 4213 10.1093/jxb/err119 21561951
64. Down-regulating γ-gliadins in bread wheat leads to non-specific increases in other gluten proteins and has no major effect on dough gluten strength. Pistón F, Gil-Humanes J, Rodríguez-Quijano M, Barro F, PLoS ONE 2011 6 24754 10.1371/journal.pone.0024754 21935456
65. The Introgression of RNAi Silencing of γ-Gliadins into Commercial Lines of Bread Wheat Changes the Mixing and Technological Properties of the Dough. Gil-Humanes J, Pistón F, Giménez MJ, Martín A, Barro F, PLoS ONE 2012 7 45937 10.1371/journal.pone.0045937 23029328
66. Removing celiac disease-related gluten proteins from bread wheat while retaining technological properties: a study with Chinese Spring deletion lines. Van den Broeck HC, Van Herpen TWJM, Schuit C, Salentijn EMJ, Dekking L, Bosch D, Hamer RJ, Smulders MJM, Gilissen LJWJ, Van der Meer IM IM, BMC Plant Biol 2009 9 41 10.1186/1471-2229-9-41 19351412