TALEN mediated targeted mutagenesis of the caffeic acid O-methyltransferase in highly polyploid sugarcane improves cell wall composition for production of bioethanol

Plant Molecular Biology

Volumn 92, Issue 1-2, 2016, Pages 131-142

  Jung, Je Hyeong ^a,b   Altpeter, Fredy ^a  

^a UNIVERSITY OF FLORIDA   (United States)

^b Korea University   (South Korea)

Author keywords

Caffeic acid O methyltransferase; Capillary electrophoresis; Genome editing; Lignin; Sugarcane; Transcription activator like effector nucleases

Indexed keywords

CAFFEATE O-METHYLTRANSFERASE; LIGNIN; METHYLTRANSFERASE; PLANT PROTEIN; TRANSCRIPTION ACTIVATOR LIKE EFFECTOR NUCLEASE;

CAPILLARY ELECTROPHORESIS; CELL WALL; ENZYMOLOGY; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; SUGARCANE; TRANSGENIC PLANT;

CELL WALL; ELECTROPHORESIS, CAPILLARY; GENE EXPRESSION REGULATION, PLANT; LIGNIN; METHYLTRANSFERASES; PLANT PROTEINS; PLANTS, GENETICALLY MODIFIED; SACCHARUM; TRANSCRIPTION ACTIVATOR-LIKE EFFECTOR NUCLEASES;

EID: 84974823875     PISSN: 01674412     EISSN: 15735028     Source Type: Journal    
DOI: 10.1007/s11103-016-0499-y     Document Type: Article

References (55)

1. Altpeter F et al (2016) Advancing crop transformation in the era of genome editing. Plant Cell (accepted)
2. Baxter HL et al (2014) Two-year field analysis of reduced recalcitrance transgenic switchgrass. Plant Biotechnol J 12:914–924
3. Blank T, Trendelenburg M, Kleinschmidt JA (1992) Reactivation of DNA replication in erythrocyte nuclei by Xenopus egg extract involves energy-dependent chromatin decondensation and changes in histone phosphorylation. Exp Cell Res 202:224–232
4. Bout S, Vermerris W (2003) A candidate-gene approach to clone the sorghum brown midrib gene encoding caffeic acid O-methyltransferase. Mol Genet Genomics 269:205–214
5. Char SN et al (2015) Heritable site-specific mutagenesis using TALENs in maize. Plant Biotechnol J 13:1002–1010
6. Chen F, Dixon RA (2007) Lignin modification improves fermentable sugar yields for biofuel production. Nat Biotech 25:759–761
7. Christian M et al (2010) Targeting DNA double-strand breaks with TAL effector nucleases. Genetics 186:757–761
8. Clasen BM et al (2016) Improving cold storage and processing traits in potato through targeted gene knockout. Plant Biotechnol J 14:169–176
9. Dal-Bianco M, Carneiro MS, Hotta CT, Chapola RG, Hoffmann HP, Garcia AAF, Souza GM (2012) Sugarcane improvement: how far can we go? Curr Opin Biotech 23:265–270
10. de Setta N et al (2014) Building the sugarcane genome for biotechnology and identifying evolutionary trends. BMC Genomics 15:540
11. Dias MOS, Cavalett O, Filho RM, Bonomi A (2014) Integrated first and second generation ethanol production from sugarcane. Chem Eng Trans 37:445–450
12. Exner V, Hennig L (2008) Chromatin rearrangements in development. Curr Opin Plant Biol 11:64–69
13. Feng Z et al (2014) Multigeneration analysis reveals the inheritance, specificity, and patterns of CRISPR/Cas-induced gene modifications in Arabidopsis. Proc Natl Acad Sci USA 111:4632–4637
14. Fu C et al (2011) Genetic manipulation of lignin reduces recalcitrance and improves ethanol production from switchgrass. Proc Natl Acad Sci USA 108:3803–3808
15. Grafi G (2004) How cells dedifferentiate: a lesson from plants. Dev Biol 268:1–6
16. Gurushidze M, Hensel G, Hiekel S, Schedel S, Valkov V, Kumlehn J (2014) True-breeding targeted gene knock-out in barley using designer TALE-nuclease in haploid cells. PLoS ONE 9:e92046
17. Haun W et al (2014) Improved soybean oil quality by targeted mutagenesis of the fatty acid desaturase 2 gene family. Plant Biotechnol J 12:934–940
18. Jackson PA (2005) Breeding for improved sugar content in sugarcane. Field Crops Res 92:277–290
19. Jinek M, Chylinski K, Fonfara I, Hauer M, Doudna JA, Charpentier E (2012) A programmable dual-RNA–guided DNA endonuclease in adaptive bacterial immunity. Science 337:816–821
20. Jørgensen H, Kristensen JB, Felby C (2007) Enzymatic conversion of lignocellulose into fermentable sugars: challenges and opportunities. Biofuels Bioprod Biorefining 1:119–134
21. Jung JH, Fouad WM, Vermerris W, Gallo M, Altpeter F (2012) RNAi suppression of lignin biosynthesis in sugarcane reduces recalcitrance for biofuel production from lignocellulosic biomass. Plant Biotechnol J 10:1067–1076
22. Jung JH, Vermerris W, Gallo M, Fedenko JR, Erickson JE, Altpeter F (2013) RNA interference suppression of lignin biosynthesis increases fermentable sugar yields for biofuel production from field-grown sugarcane. Plant Biotechnol J 11:709–716
23. Junqueira TL et al (2011) Simulation and evaluation of autonomous and annexed sugarcane distilleries. Chem Eng Trans 25:941–946
24. Kim H, Kim J-S (2014) A guide to genome engineering with programmable nucleases. Nat Rev Genet 15:321–334
25. Kim YG, Cha J, Chandrasegaran S (1996) Hybrid restriction enzymes: zinc finger fusions to Fok I cleavage domain. Proc Natl Acad Sci USA 93:1156–1160
26. Kim J, Gallo M, Altpeter F (2012) Analysis of transgene integration and expression following biolistic transfer of different quantities of minimal expression cassette into sugarcane (Saccharum spp. hybrids). Plant Cell Tiss Organ Cult 108:297–302
27. Le Cunff L et al (2008) Diploid/polyploid syntenic shuttle mapping and haplotype-specific chromosome walking toward a rust resistance gene (Bru1) in highly polyploid sugarcane (2n ∼ 12x ∼ 115). Genetics 180:649–660
28. Li T, Liu B, Spalding MH, Weeks DP, Yang B (2012) High-efficiency TALEN-based gene editing produces disease-resistant rice. Nat Biotech 30:390–392
29. Mikami M, Toki S, Endo M (2015) Parameters affecting frequency of CRISPR/Cas9 mediated targeted mutagenesis in rice. Plant Cell Rep 34:1807–1815
30. Miller JE, Geadelmann JL, Marten GC (1983) Effect of the brown midrib-allele on maize silage quality and yield. Crop Sci 23:493–496
31. Morbitzer R, Römer P, Boch J, Lahaye T (2010) Regulation of selected genome loci using de novo-engineered transcription activator-like effector (TALE)-type transcription factors. Proc Natl Acad Sci USA 107:21617–21622
32. Nagaya S, Kawamura K, Shinmyo A, Kato K (2010) The HSP terminator of Arabidopsis thaliana increases gene expression in plant cells. Plant Cell Physiol 51:328–332
33. Oliver AL, Pedersen JF, Grant RJ, Klopfenstein TJ (2005a) Comparative effects of the Sorghum bmr-6 and bmr-12 genes: I. Forage Sorghum yield and quality. Crop Sci 45:2234–2239
34. Oliver AL, Pedersen JF, Grant RJ, Klopfenstein TJ, Jose HD (2005b) Comparative effects of the Sorghum bmr-6 and bmr-12 genes: II. Grain yield, stover yield, and stover quality in grain Sorghum. Crop Sci 45:2240–2245
35. Pilate G et al (2002) Field and pulping performances of transgenic trees with altered lignification. Nat Biotech 20:607–612
36. Saballos A, Vermerris W, Rivera L, Ejeta G (2008) Allelic association, chemical characterization and saccharification properties of brown midrib mutants of sorghum (Sorghum bicolor (L.) Moench). Bioenerg Res 1:193–204
37. Sattler SE, Funnell-Harris DL, Pedersen JF (2010) Brown midrib mutations and their importance to the utilization of maize, sorghum, and pearl millet lignocellulosic tissues. Plant Sci 178:229–238
38. Shan Q et al (2013) Rapid and efficient gene modification in rice and Brachypodium using TALENs. Mol Plant 6:1365–1368
39. Shan Q, Zhang Y, Chen K, Zhang K, Gao C (2015) Creation of fragrant rice by targeted knockout of the OsBADH2 gene using TALEN technology. Plant Biotechnol J 13:791–800
40. Sluiter A, Hames B, Ruiz R, Scarlata C, Sluiter J, Templeton D, Crocker D (2008) Determination of structural carbohydrates and lignin in biomass. In: Laboratory analytical procedure (LAP), technical report NREL⁄TP-510-42618. National Renewable Energy Laboratory, Golden
41. Smith J et al (2006) A combinatorial approach to create artificial homing endonucleases cleaving chosen sequences. Nucleic Acids Res 34:e149
42. Stavolone L et al (2003) Cestrum yellow leaf curling virus (CmYLCV) promoter: a new strong constitutive promoter for heterologous gene expression in a wide variety of crops. Plant Mol Biol 53:703–713
43. Studer MH et al (2011) Lignin content in natural Populus variants affects sugar release. Proc Natl Acad Sci USA 108:6300–6305
44. Taparia Y, Fouad W, Gallo M, Altpeter F (2012a) Rapid production of transgenic sugarcane with the introduction of simple loci following biolistic transfer of a minimal expression cassette and direct embryogenesis. In Vitro Cell Dev Bio Plant 48:15–22
45. Taparia Y, Gallo M, Altpeter F (2012b) Comparison of direct and indirect embryogenesis protocols, biolistic gene transfer and selection parameters for efficient genetic transformation of sugarcane. Plant Cell Tiss Organ Cult 111:131–141
46. Vignols F, Rigau J, Torres MA, Capellades M, Puigdomènech P (1995) The brown midrib3 (bm3) mutation in maize occurs in the gene encoding caffeic acid O-methyltransferase. Plant Cell 7:407–416
47. Voytas DF (2013) Plant genome engineering with sequence-specific nucleases. Annu Rev Plant Biol 64:327–350
48. Wang Y, Cheng X, Shan Q, Zhang Y, Liu J, Gao C, Qiu J-L (2014) Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew. Nat Biotech 32:947–951
49. Wendt T, Holm P, Starker C, Christian M, Voytas D, Brinch-Pedersen H, Holme I (2013) TAL effector nucleases induce mutations at a pre-selected location in the genome of primary barley transformants. Plant Mol Biol 83:279–285
50. Wu H, Altpeter F (2015) Sugarcane (Saccharum spp. hybrids). In: Wang K (ed) Agrobacterium protocols: volume 2. Springer, New York, pp 307–316
51. Zhang Y et al (2013) Transcription activator-like effector nucleases enable efficient plant genome engineering. Plant Physiol 161:20–27
52. Zhang H et al (2014) The CRISPR/Cas9 system produces specific and homozygous targeted gene editing in rice in one generation. Plant Biotechnol J 12:797–807
53. Zhang H et al (2016) TALEN-mediated targeted mutagenesis produces a large variety of heritable mutations in rice. Plant Biotechnol J 14:186–194
54. Zhao X, Zhang L, Liu D (2012) Biomass recalcitrance. Part I: the chemical compositions and physical structures affecting the enzymatic hydrolysis of lignocellulose. Biofuels Bioprod Biorefining 6:465–482
55. Zhou X, Jacobs TB, Xue L-J, Harding SA, Tsai CJ (2015) Exploiting SNPs for biallelic CRISPR mutations in the outcrossing woody perennial Populus reveals 4-coumarate:CoA ligase specificity and redundancy. New Phytol 208:298–301