Polymorphisms in O-methyltransferase genes are associated with stover cell wall digestibility in European maize (Zea mays L.)

BMC Plant Biology

Volumn 10, Issue , 2010, Pages

  Brenner, Everton A ^a   Zein, Imad ^b   Chen, Yongsheng ^a   Andersen, Jeppe R ^c   Wenzel, Gerhard ^b   Ouzunova, Milena ^d   Eder, Joachim ^e   Darnhofer, Birte ^e   Frei, Uschi ^a   Barrière, Yves ^f   Lübberstedt, Thomas ^a  

^a IOWA STATE UNIVERSITY   (United States)

^b TECHNICAL UNIVERSITY OF MUNICH   (Germany)

^c AARHUS UNIVERSITY   (Denmark)

^d KWS SAAT SE   (Germany)

^e Bavarian State Research Center for Agriculture   (Germany)

^f CEMAGREF   (France)

Author keywords

[No Author keywords available]

Indexed keywords

ZEA MAYS;

CAFFEATE O METHYLTRANSFERASE; CAFFEATE O-METHYLTRANSFERASE; LIGNIN; METHYLTRANSFERASE; PLANT DNA;

ARTICLE; BIOLOGICAL MODEL; BIOSYNTHESIS; CELL WALL; CHEMISTRY; DNA SEQUENCE; ENZYMOLOGY; GENE LINKAGE DISEQUILIBRIUM; GENETIC ASSOCIATION; GENETICS; GENOTYPE; INDEL MUTATION; MAIZE; PHENOTYPE; SEQUENCE ALIGNMENT; SINGLE NUCLEOTIDE POLYMORPHISM; STATISTICAL MODEL;

CELL WALL; DNA, PLANT; GENETIC ASSOCIATION STUDIES; GENOTYPE; INDEL MUTATION; LIGNIN; LINKAGE DISEQUILIBRIUM; LOGISTIC MODELS; METHYLTRANSFERASES; MODELS, GENETIC; PHENOTYPE; POLYMORPHISM, SINGLE NUCLEOTIDE; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; ZEA MAYS;

EID: 77949456098     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/1471-2229-10-27     Document Type: Article

References (70)

1. Gray KA, Zhao L, Emptage M. Bioethanol. Curr Opin Chem Biol 2006, 10:141-146. 10.1016/j.cbpa.2006.02.035, 16522374.
2. Hahn-Hägerdal B, Galbe M, Gorwa-Grauslund MF, Lidén G, Zacchi G. Bio-ethanol - the fuel of tomorrow from the residues of today. Trends Biotechnol 2006, 24:549-556. 10.1016/j.tibtech.2006.10.004, 17050014.
3. Lin Y, Tanaka S. Ethanol fermentation from biomass resources: current state and prospects. Appl Microbiol Biotechnol 2006, 69:627-642. 10.1007/s00253-005-0229-x, 16331454.
4. U.S. Department of Energy (DOE) Breaking the Biological Barriers to Cellulosic Ethanol: A Joint Research Agenda (U.S. DOE Office of Science and Office of Energy Efficiency and Renewable Energy, 2006) U.S. Department of Energy (DOE)., http://www.doegenomestolife.org/biofuels/
5. Boerjan W, Ralph J, Baucher M. Lignin biosynthesis. Annu Rev Plant Biol 2003, 54:519-546. 10.1146/annurev.arplant.54.031902.134938, 14503002.
6. Lapierre C. Applications of new methods for the investigation of lignin structure. Forage Cell Wall Structure and Digestibility 1993, 133-136. Madison: ASA-CSSA-SSSA, Jung HG, Buxton DR, Hatfield RD.
7. Humphreys JM, Chapple C. Rewriting of new methods for the investigation of lignin structure the lignin roadmap. Curr Opin Plant Biol 2002, 5:224-229. 10.1016/S1369-5266(02)00257-1, 11960740.
8. Civardi L, Rigau J, Puigdomènech P. Nucleotide Sequence of two cDNAs coding for Caffeoyl-coenzyme A O-Methyltransferase (CCoAOMT) and study of their expression in Zea mays. Plant Physiol 1999, 120:1026-113.
9. Collazo P, Montoliu L, Puigdomenech P, Rigau J. Structure and expression of the lignin O-methyltransferase gene from Zea mays L. Plant Mol Biol 1992, 20:857-867. 10.1007/BF00027157, 1463825.
10. Gardiner J, Schroeder S, Polacco ML, Sanchez-Villeda H, Fang Z, Morgante M, Landewe T, Fengler K, Useche F, Hanafey M, Tingey S, Chou H, Wing R, Soderlund C, Coe EH. Anchoring 9,371 maize expressed sequence tagged unigenes to the Bacterial Artificial Chromosome Contig Map by Two-Dimensional Overgo Hybridization. Plant Physiol 2004, 134:1317-1326. 10.1104/pp.103.034538, 419808, 15020742.
11. Guillaumie S, San Clemente H, Deswarte C, Martinez Y, Lapierre C, Murigneux A, Barrière Y, Pichon M, Goffner D. MAIZEWALL. Database and developmental gene expression profiling of cell wall biosynthesis and assembly in maize. Plant Physiol 2007, 143:339-363. 10.1104/pp.106.086405, 1761967, 17098859.
12. Halpin C, Holt K, Chojecki J, Oliver D, Chabbert B, Monties B, Edwards K, Barakate A, Foxon GA. Brown-midrib maize (bm1) - a mutation affecting the cinnamyl alcohol dehydrogenase gene. Plant J 1998, 14:545-553. 10.1046/j.1365-313X.1998.00153.x, 9675900.
13. Pichon M, Courbou I, Beckert M, Boudet A-M, Grima-Pettenati J. Cloning and characterization of two maize cDNAs encoding Cinnamoyl-CoA Reductase (CCR) and differential expression of the corresponding genes. Plant Mol Biol 1998, 38:671-676. 10.1023/A:1006060101866, 9747812.
14. Puigdomenech PC, Perez P, Murigneux A, Martinant JP, Tixier MH, Rigau J, Civardi L, Maes T. Identifying genes associated with a QTL corn digestibility locus. Patent 2001, WO 0155395-A..
15. Rosler J, Krekel F, Amrhein N, Schmid J. Maize phenylalanine ammonia-lyase has tyrosine ammonia-lyase activity. Plant Physiol 1997, 113:175-179. 10.1104/pp.113.1.175, 158128, 9008393.
16. Barriere Y, Argillier O. Brown-midrib genes of maize: a review. Agronomie 1993, 13:865-876.
17. Halpin C, Holt K, Chojecki J, Oliver D, Chabbert B, Monties B, Edwards K, Barakate A, Foxon GA. Brown-midrib maize (bm1) - a mutation affecting the cinnamyl alcohol dehydrogenase gene. Plant J 1998, 14:545-553. 10.1046/j.1365-313X.1998.00153.x, 9675900.
18. Vignols F, Rigau J, Torres MA, Capellades M, Puigdomenech P. The brown midrib3 (bm3) Mutation in Maize Occurs in the Gene Encoding Caffeic Acid O-methyltransferase. Plant Cell 1995, 7:407-416. 10.1105/tpc.7.4.407, 160792, 7773015.
19. Muller LD, Lechtenberg VL, Bauman LF, Barnes RF, Rhykerd CL. In vivo evaluation of a brown midrib mutant of Zea mays. J Anim Sci 1972, 35:883-889.
20. Gallais A, Huguet L, Berthet H, Bertin G, Broqua B, Mourguet A, Traineau R. Preliminary evaluation of brown midrib maize hybrids for their feeding and agronomic value in France. Improvement of quality traits of maize for grain and silage use 1980, 319-339. The Hague:Martinus Nijhoff, Pollmer WG, Phipps RH.
21. Colenbrander VL, Lechtenberg LF, Bauman LF, Muller LD, Rhykerd CL. Nutritive value of brown midrib corn silage. J Anim Sci 1972, 35:1113.
22. Colenbrander VL, Lechtenberg LF, Bauman LF. Digestibility and feeding value of brown midrib corn stover silage. J Animal Sci 1973, 37:294-295.
23. Colenbrander VL, Lechtenberg LF, Bauman LF. Feeding value of low lignin corn silage. J Anim Sci 1975, 41:332-333.
24. Keith EA, Colenbrander VF, Perry TW, Bauman LF. Performance of feedlot cattle fed brown midrib-three or normal corn silage with various levels of additional corn grain. J Anim Sci 1981, 52:8-13.
25. Frenchick GE, Johnson DG, Murphy JM, Otterby DE. Brown midrib corn silage in dairy cattle rations. J Dairy Sci 1976, 59:2126-2129.
26. Miller JE, Geadelmann JL, Marten GC. Effect of the brown midrib-allele on maize silage quality and yield. Crop Sci 1983, 23:493-496.
27. Lee MH, Brewbaker LL. Effects of brown midrib on yields and yield components of maize. Crop Sci 1984, 24:105-108.
28. Cox WJ, Cherney DJR. Influence of brown midrib, leafy, and transgenic hybrids on corn forage production. Agron J 2001, 93:790-796.
29. Gentinetta E, Bertolini M, Rossi I, Lorenzoni C, Motto M. Effect of brown midrib3 mutant on forage quality and yield in maize. J Genet Breed 1990, 44:21-26.
30. Marita JM, Ralph J, Lapierre C, Jouanin L, Boerjan W. NMR characterization of lignins from transgenic poplars with suppressed caffeic acid O-methyltransferase activity. J Chem Soc Perk T 1 2001, 22:2939-2945.
31. Jouanin L, Goujon T, de Nadai V, Martin MT, Mila I, Vallet C, Pollet B, Yoshinaga A, Chabbert B, Petit-Conil M, Lapierre C. Lignification in transgenic poplars with extremely reduced caffeic acid O-methyltransferase activity. Plant Physiol 2000, 123:1363-1374. 10.1104/pp.123.4.1363, 59094, 10938354.
32. Jouanin L, Gujon T, Sibout R, Pollet B, Mila I, Leplé JC, Pilate G, Petit-Conil M, Ralph J, Lapierre C. Comparison of the consequences on lignin content and structure of COMT and CAD downregulation in poplar and Arabidopsis thaliana. Plantation Forest Biotechnology in the 21st Century 2004, 219-229. Kerala:Research Signpost, Walter C, Carson M.
33. Guo D, Chen F, Inoue K, Blount J, Dixon R. Downregulation of caffeic acid 3-O-methyltransferase and caffeoyl CoA 3-O-methyltransferase in transgenic alfalfa. Impacts on lignin structure and implications for the biosynthesis of G and S lignin. Plant Cell 2001, 13:73-88. 10.1105/tpc.13.1.73, 102215, 11158530.
34. Ralph J, Lapierre C, Lu F, Marita JM, Pilate G, Van Doorsselaere J, Boerjan W, Jouanin L. NMR evidence for benzodioxane structures resulting from incorporation of 5-hydroxyconiferyl alcohol into lignins of O-methyltransferase-deficient plants. J Agric Food Chem 2001, 49:86-91. 10.1021/jf001042+, 11302112.
35. Van Doorsselaere J, Baucher M, Chognot E, Chabbert B, Tollier MT, Petit-Conil M, Leple JC, Pilate G, Cornu D, Monties B, Van Montagu M, Inze D, Boerjan W, Jouanin L. A novel lignin in poplar trees with a reduced caffeic acid/5-hydroxyferulic acid O-methyltransferase activity. Plant J 1995, 8:855-64.
36. Piquemal J, Chamayou S, Nadaud I, Beckert M, Barriere Y, Mila I, Lapierre C, Rigau J, Puigdomenech P, Jauneau A, Digonnet C, Boudet AM, Goffner D, Pichon M. Down-regulation of caffeic acid O-methyltransferase in maize revisited using a transgenic approach. Plant Physiol 2002, 130:1675-1685. 10.1104/pp.012237, 166682, 12481050.
37. Andersen JR, Lübberstedt T. Functional markers in plants. Trends Plant Sci 2003, 8:554-560. 10.1016/j.tplants.2003.09.010, 14607101.
38. Andersen JR, Zein I, Wenzel G, Krützfeldt B, Eder J, Ouzunova M, Lübberstedt T. High levels of linkage disequilibrium and associations with forage quality at a Phenylalanine Ammonia-Lyase locus in European maize (Zea mays L.) inbreds. Theor Appl Genet 2007, 114:307-319. 10.1007/s00122-006-0434-8, 17123062.
39. Fontaine AS, Barrière Y. Caffeic acid O-methyltransferase allelic polymorphism characterization and analysis in different maize inbred lines. Mol Breed 2003, 11:69-75.
40. Guillet-Claude C, Birolleau-Touchard C, Manicacci D, Fourmann M, Barraud S, Carret V, Martinant JP, Barrière Y. Genetic diversity associated with variation in silage corn digestibility for three O-methyltransferase genes involved in lignin biosynthesis. Theor Appl Genet 2004, 110:126-135. 10.1007/s00122-004-1808-4, 15536523.
41. Zein I, Wenzel G, Andersen JR, Lübberstedt T. Low Level of Linkage Disequilibrium at the COMT (Caffeic Acid O-methyl Transferase) Locus in European Maize (Zea mays L.). Genet Resour Crop Ev 2007, 54:139-148.
42. Andersen JR, Zein I, Wenzel G, Darnhofer B, Eder J, Ouzunova M, Lübberstedt T. Characterization of phenylpropanoid pathway genes within European maize (Zea mays L.) inbreds. BMC Plant Biology 2008, 8:2. 10.1186/1471-2229-8-2, 2265712, 18173847.
43. Goering HK, Van Soest PJ. Forage Fiber Analysis: Apparatus Reagents, Procedures and Some Applications. 1970, Agricultural Handbook No. 379. Agricultural Research Service, United States Department of Agriculture.
44. Barriere Y, Guillet C, Goffner D, Pichon M. Genetic variation and breeding strategies for improved cell wall digestibility in annual forage crops. A review. Anim Res 2003, 52:193-228.
45. Struik P. Physiology of forage maize (Zea mays L.) in relation to its production and quality. 1983, 1-252. PhD Dissertation, Agricultural University, 6700 GW Wageningen, The Netherlands.
46. Aufrere J, Michalet-Doreau B. In vivo digestibility and prediction of digestibility of some by-products. EEC seminar Melle Gontrode 1983, 25-33.
47. Saghai-Maroof MA, Soliman KM, Jorgensen RA, Allard RW. Ribosomal DNA spacer-length polymorphisms in barley: Mendelian inheritance, chromosomal location, and population dynamics. PNAS 1984, 81:8014-8018. 10.1073/pnas.81.24.8014, 392284, 6096873.
48. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990, 215:403-410.
49. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994, 22:4673-4680. 10.1093/nar/22.22.4673, 308517, 7984417.
50. Pritchard JK, Stephens M, Donnelly P. Inference of Population Structure Using Multilocus Genotype Data. Genetics 2000, 155:945-959. 1461096, 10835412.
51. Falush D, Stephens M, Pritchard JK. Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies. Genetics 2003, 164:1567-1587. 1462648, 12930761.
52. Thornsberry JM, Goodman MM, Doebley J, Kresovich S, Nielsen D, Buckler ES. Dwarf8 polymorphisms associate with variation in flowering time. Nat Genet 2001, 28:286-289. 10.1038/90135, 11431702.
53. Yu JM, Pressoir G, Briggs WH, Bi IV, Yamasaki M, Doebley JF, McMullen MD, Gaut BS, Nielsen DM, Holland JB, Kresovich S, Buckler ES. A unified mixed-model method for association mapping that accounts for multiple levels of relatedness. Nat Genet 2006, 38:203-208. 10.1038/ng1702, 16380716.
54. Loiselle BA, Sork VL, Nason J, Graham C. Spatial genetic structure of a tropical understory shrub, Psychotria officinalis (Rubiaceae). Am J Bot 1995, 82:1420-1425.
55. Hardy OJ, Vekemans X. spagedi: a versatile computer program to analyse spatial genetic structure at the individual or population levels. Mol Ecol Notes 2002, 2:618-620.
56. Holm S. A Simple Sequentially Rejective Bonferroni Test Procedure. Scand J Stat 1979, 6:65-70.
57. Camus-Kulandaivelu L, Veyrieras J-B, Madur D, Combes V, Fourmann M, Barraud S, Dubreuil P, Gouesnard B, Manicacci D, Charcosset A. Maize adaptation to temperate climate: relationship with population structure and polymorphism in the Dwarf8 gene. Genetics 2006, 172:2449-2463. 10.1534/genetics.105.048603, 1456379, 16415370.
58. Pons J, Vogler AP. Size, frequency, and phylogenetic signal of multiple-residue indels in sequence alignment of introns. Cladistics 2006, 22:144-156.
59. Wheeler WC. Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data. Syst Biol 1995, 44:321-331.
60. Morrison DA, Ellis JT. Effects of nucleotide sequence alignment on phylogeny estimation: A case study of 18S rDNAs of Apicomplexa. Mol Biol Evol 1997, 14:428-441.
61. Xia X, Xie Z, Kjer KM. 18S ribosomal RNA and tetrapod phylogeny. Syst Biol 2003, 52:283-295. 10.1080/10635150390196948, 12775520.
62. Terry MD, Whiting MF. Comparison of two alignment techniques within a single complex data set: POY versus Clustal. Cladistics 2005, 21:272-281.
63. Piepho HP, Gauch HG. Marker pair selection for mapping quantitative trait loci. Genetics 2001, 157:433-444. 1461460, 11139523.
64. Bernardo R. What proportion of declared QTL in plants are false?. Theor Appl Genet 2004, 109:419-424. 10.1007/s00122-004-1639-3, 15085262.
65. Freedman ML, Reich D, Penney KL, McDonald GJ, Mignault AA, Patterson N, et al. Assessing the impact of population stratification on genetic association studies. Nature Genet 2004, 36:388-393. 10.1038/ng1333, 15052270.
66. Andersen JR, Schrag T, Melchinger AE, Zein I, Lübberstedt T. Validation of Dwarf8 polymorphisms associated with flowering time in elite European inbred lines of maize (Zea mays L.). Theor Appl Genet 2005, 111:206-217. 10.1007/s00122-005-1996-6, 15933874.
67. Wilson LM, Whitt SR, Ibanez AM, Rocheford TR, Goodman MM, Buckler ES. Dissection of maize kernel composition and starch production by candidate gene association. Plant Cell 2004, 16:2719-2733. 10.1105/tpc.104.025700, 520967, 15377761.
68. Jeong YM, Mun JH, Lee I, Woo JC, Hong CB, Kim SG. Distinct roles of the first introns on the expression of Arabidopsis profilin gene family members. Plant Physiol 2006, 140:196-209. 10.1104/pp.105.071316, 1326044, 16361517.
69. Rogers LA, Dubos C, Surman C, Willment J, Cullis IF, Mansfield SD, Campbell MM. Comparison of lignin deposition in three ectopic lignification mutants. New Phytol 2005, 168:123-140. 10.1111/j.1469-8137.2005.01496.x, 16159327.
70. Barriere Y, Thomas J, Denoue D. QTL mapping for lignin content, lignin monomeric composition, p-hydroxycinnamate content, and cell wall digestibility in the maize recombinant inbred line progeny F838 × F286. Plant Sci 2008,