Selection and phenotypic characterization of a core collection of Brachypodium distachyon inbred lines

BMC Plant Biology

Volumn 14, Issue 1, 2014, Pages

  Tyler, Ludmila ^a,b,e   Fangel, Jonatan U ^c   Fagerström, Alexandra D ^c,f   Steinwand, Michael A ^a,b   Raab, Theodore K ^d   Willats, William G T ^c   Vogel, John P ^a  

^a WESTERN REGIONAL RESEARCH CENTER   (United States)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c UNIVERSITY OF COPENHAGEN   (Denmark)

^d GEOPHYSICAL LABORATORY   (United States)

^e UNIVERSITY OF MASSACHUSETTS   (United States)

^f Energy Biosciences Institute   (United States)

Author keywords

Biofuel; Brachypodium distachyon; Cell wall; NIR; Seed

Indexed keywords

BRACHYPODIUM; BRACHYPODIUM DISTACHYON; POACEAE;

COUMARIC ACID; FERULIC ACID; HEMICELLULOSE; POLYSACCHARIDE;

ARTICLE; BIOMASS; BRACHYPODIUM; CLASSIFICATION; INFRARED SPECTROPHOTOMETRY; METABOLISM; PHYLOGENY; PLANT SEED; PLANT STEM;

BIOMASS; BRACHYPODIUM; COUMARIC ACIDS; PHYLOGENY; PLANT STEMS; POLYSACCHARIDES; SEEDS; SPECTROPHOTOMETRY, INFRARED;

EID: 84892424745     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/1471-2229-14-25     Document Type: Article

References (37)

1. Draper J, Mur LAJ, Jenkins G, Ghosh-Biswas GC, Bablak P, Hasterok R, Routledge APM. Brachypodium distachyon: a new model system for functional genomics in grasses. Plant Physiol 2001, 127(4):1539-1555. 10.1104/pp.010196, 133562, 11743099.
2. Vain P, Worland B, Thole V, McKenzie N, Alves SC, Opanowicz M, Fish LJ, Bevan MW, Snape JW. Agrobacterium-mediated transformation of the temperate grass Brachypodium distachyon (genotype Bd21) for T-DNA insertional mutagenesis. Plant Biotechnol J 2008, 6:236-245. 10.1111/j.1467-7652.2007.00308.x, 18004984.
3. Vogel J, Hill T. High-efficiency Agrobacterium-mediated transformation of Brachypodium distachyon inbred line Bd21-3. Plant Cell Rep 2008, 27(3):471-478. 10.1007/s00299-007-0472-y, 17999063.
4. Vogel JP, Garvin DF, Leong OM, Hayden DM. Agrobacterium-mediated transformation and inbred line development in the model grass Brachypodium distachyon. Plant Cell Tiss Org Cult 2006, 85:199-211.
5. IBI Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 2010, 463:763-768. 10.1038/nature08747, 20148030, IBI.
6. Filiz E, Ozdemir BS, Budak F, Vogel JP, Tuna M, Budak H. Molecular, morphological, and cytological analysis of diverse Brachypodium distachyon inbred lines. Genome 2009, 52(10):876-890. 10.1139/G09-062, 19935911.
7. Vogel JP, Tuna M, Budak H, Huo N, Gu YQ, Steinwand MA. Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon. BMC Plant Biol 2009, 9:88. 10.1186/1471-2229-9-88, 2719641, 19594938.
8. Mur LAJ, Allainguillaume J, Catalán P, Hasterok R, Jenkins G, Lesniewska K, Thomas I, Vogel J. Exploiting the Brachypodium tool box in cereal and grass research. New Phytol 2011, 191:334-347. 10.1111/j.1469-8137.2011.03748.x, 21623796.
9. Bragg JN, Wu J, Gordon SP, Guttman ME, Thilmony R, Lazo GR, Gu YQ, Vogel JP. Generation and characterization of the Western Regional Research Center Brachypodium T-DNA insertional mutant collection. PLoS One 2012, 7(9):e41916. 10.1371/journal.pone.0041916, 3444500, 23028431.
10. Thole V, Worland B, Wright J, Bevan MW, Vain P. Distribution and characterization of more than 1000 T-DNA tags in the genome of Brachypodium distachyon community standard line Bd21. Plant Biotechnol J 2012, 8(6):734-747.
11. Brkljacic J, Grotewold E, Scholl S, Mockler T, Garvin D, Vain P, Brutnell T, Sibout R, Bevan M, Budak H, et al. Brachypodium as a model for the grasses: today and the future. Plant Physiol 2011, 157:3-13. 10.1104/pp.111.179531, 3165879, 21771916.
12. Salas Fernandez MG, Becraft PW, Yin Y, Lübberstedt T. From dwarves to giants? Plant height manipulation for biomass yield. Trends Plant Sci 2009, 14(8):454-461. 10.1016/j.tplants.2009.06.005, 19616467.
13. Murray SC, Rooney WL, Mitchell SE, Sharma A, Klein PE, Mullet JE, Kresovich S. Genetic improvement of sorghum as a biofuel feedstock: II QTL for stem and leaf structural carbohydrates. Crop Sci 2008, 48(6):2180-2193.
14. Richard TL. Challenges in scaling up biofuels infrastructure. Science 2012, 329(5993):793-796.
15. Somerville C, Bauer S, Brininstool G, Facette M, Hamann T, Milne J, Osborne E, Paredez A, Persson S, Raab T, et al. Toward a systems approach to understanding plant cell walls. Science 2004, 306(5705):2206-2211. 10.1126/science.1102765, 15618507.
16. Liepman AH, Wightman R, Geshi N, Turner SR, Scheller HV. Arabidopsis - a powerful model system for plant cell wall research. Plant J 2010, 61(6):1107-1121. 10.1111/j.1365-313X.2010.04161.x, 20409281.
17. Carpita NC. Structure and biogenesis of the cell walls of grasses. Annu Rev Plant Physiol Plant Mol Biol 1996, 47:445-476. 10.1146/annurev.arplant.47.1.445, 15012297.
18. Vogel J. Unique aspects of the grass cell wall. Curr Opin Plant Biol 2008, 11(3):301-307. 10.1016/j.pbi.2008.03.002, 18434239.
19. Gomez LD, Bristow JK, Statham ER, McQueen-Mason SJ. Analysis of saccharification in Brachypodium distachyon stems under mild conditions of hydrolysis. Biotechnol for Biofuels 2008, 1:15.
20. Anderson JW, Baird P, Davis RH, Ferreri S, Knudtson M, Koraym A, Waters V, Williams CL. Health benefits of dietary fiber. Nutr Rev 2009, 67(4):188-205. 10.1111/j.1753-4887.2009.00189.x, 19335713.
21. Foster CE, Martin TM, Pauly M. Comprehensive compositional analysis of plant cell walls (lignocellulosic biomass) part II: carbohydrates. J Vis Exp 2010, 37:10521577.
22. Brinkmann K, Blaschke L, Polle A. Comparison of different methods for lignin determination as a basis for calibration of near-infrared reflectance spectroscopy and implications of lignoproteins. J Chem Ecol 2002, 28(12):2483-2501. 10.1023/A:1021484002582, 12564795.
23. Himmelsbach DS, Akin DE. Near-infrared fourier-transform Raman spectroscopy of flax (linum usitatissimum L.) stems. J Agric Food Chem 1998, 46(3):991-998.
24. Chen LM, Carpita NC, Reiter WD, Wilson RH, Jeffries C, McCann MC. A rapid method to screen for cell-wall mutants using discriminant analysis of Fourier transform infrared spectra. Plant J 1998, 16(3):385-392. 10.1046/j.1365-313x.1998.00301.x, 9881159.
25. Penning BW, Hunter CT, Tayengwa R, Eveland AL, Dugard CK, Olek AT, Vermerris W, Koch KE, McCarty DR, Davis MF, et al. Genetic resources for maize cell wall biology. Plant Physiol 2009, 151(4):1703-1728. 10.1104/pp.109.136804, 2785990, 19926802.
26. Ruiter JM, Burns JC FMW, TD H. Prediction of cell wall carbohydrates and quality in panicum species by near infrared reflectance spectroscopy. Crop Sci 1988, 28:348-353.
27. Casler MD. Phenotypic recurrent selection methodology for reducing fiber concentration in smooth bromegrass. Crop Sci 1999, 39:381-390.
28. Moller IE, Pettolino FA, Hart C, Lampugnani ER, Willats WG, Bacic A. Glycan profiling of plant cell wall polymers using microarrays. J Vis Exp 2012, (70).
29. Moller I, Sørensen I, Bernal AJ, Blaukopf C, Lee K, Øbro J, Pettolino F, Roberts A, Mikkelsen JD, Knox JP, et al. High-throughput mapping of cell-wall polymers within and between plants using novel microarrays. Plant J 2007, 50(6):1118-1128. 10.1111/j.1365-313X.2007.03114.x, 17565618.
30. Alonso-Simón A, Kristensen JB, Øbro J, Felby C, Willats WGT, Jørgensen H. High-throughput microarray profiling of cell wall polymers during hydrothermal pre-treatment of wheat straw. Biotechnol Bioeng 2010, 105(3):509-514. 10.1002/bit.22546, 19777595.
31. Schneider C, Rasband W, Eliceiri K. NIH image to Image J: 25 years of image analysis. Nat Methods 2012, 9:671-675. 10.1038/nmeth.2089, 22930834.
32. Kemsley EK. Discriminant Analysis and Class Modeling of Spectroscopic Data 1998, New York: John Wiley & Sons.
33. Fuller DQ, Allaby R. Seed dispersal and crop domestication: shattering, germination and seasonality in evolution under cultivation. Annu Plant Rev 2009, 38:238-232.
34. Schwartz C, Doyle M, Manzaneda AJ, Rey PJ, Mitchell-Olds T, Amasino R. Natural variation of flowering time and vernalization responsiveness in Brachypodium distachyon. Bioenergy Res 2010, in press.
35. Caffall KH, Mohnen D. The structure, function, and biosynthesis of plant cell wall pectic polysaccharides. Carbohydr Res 2009, 344(14):1879-1900. 10.1016/j.carres.2009.05.021, 19616198.
36. Palin R, Geitmann A. The role of pectin in plant morphogenesis. Biosyst 2012, 109(3):397-402.
37. Akin DE. Plant cell wall aromatics: influence on degradation of biomass. Biofuels Bioprod Biorefin 2008, 2(4):288-303.