Haploid Strategies for Functional Validation of Plant Genes

Trends in Biotechnology

Volumn 33, Issue 10, 2015, Pages 611-620

  Shen, Yaou ^a,b   Pan, Guangtang ^a   Lübberstedt, Thomas ^b  

^a SICHUAN AGRICULTURAL UNIVERSITY   (China)

^b IOWA STATE UNIVERSITY   (United States)

Author keywords

Functional validation; Genetic approaches; Haploid mutagenesis; Haploid transformation; Plant genes

Indexed keywords

CHEMICAL MODIFICATION; MUTAGENESIS;

EXPERIMENTAL APPROACHES; FUNCTIONAL ANNOTATION; FUNCTIONAL IDENTIFICATION; FUNCTIONAL VALIDATION; GENETIC APPROACH; GENETIC MODIFICATIONS; HAPLOID TRANSFORMATION; PLANT GENES;

GENES;

MICRORNA; SMALL INTERFERING RNA; TRANSPOSON;

DIPLOIDY; DNA MODIFICATION; EMBRYO DEVELOPMENT; GAIN OF FUNCTION MUTATION; GENE EXPRESSION; GENE FUNCTION; GENE INACTIVATION; GENE SILENCING; GENE TARGETING; HAPLOIDY; IN VITRO STUDY; MUTAGENESIS; NONHUMAN; PHENOTYPE; PLANT GENE; PLANT GENETICS; PRIORITY JOURNAL; REVIEW; RNA INTERFERENCE; TRANSPOSON; AGROBACTERIUM TUMEFACIENS; ARABIDOPSIS; GENE ONTOLOGY; GENETIC ENGINEERING; GENETIC TRANSFORMATION; GENETICS; GENOTYPE; MOLECULAR GENETICS; PLANT GENOME; REVERSE GENETICS; TRANSGENIC PLANT;

AGROBACTERIUM TUMEFACIENS; ARABIDOPSIS; DNA TRANSPOSABLE ELEMENTS; GENE ONTOLOGY; GENES, PLANT; GENETIC ENGINEERING; GENOME, PLANT; GENOTYPE; HAPLOIDY; MOLECULAR SEQUENCE ANNOTATION; MUTAGENESIS; PHENOTYPE; PLANTS, GENETICALLY MODIFIED; REVERSE GENETICS; TRANSFORMATION, GENETIC;

EID: 84942080599     PISSN: 01677799     EISSN: 18793096     Source Type: Journal    
DOI: 10.1016/j.tibtech.2015.07.005     Document Type: Review

References (85)

1. Østergaard L., Yanofsky M.F. Establishing gene function by mutagenesis in Arabidopsis thaliana. Plant J. 2004, 39:682-696.
2. Krysan P.J., et al. T-DNA as an insertional mutagen in Arabidopsis. Plant Cell 1999, 11:2283-2290.
3. Zhan Z., et al. Establishing RNA interference as a reverse-genetic approach for gene functional analysis in protoplasts. Plant Physiol. 2009, 149:642-652.
4. Stemple D.L. TILLING - a high-throughput harvest for functional genomics. Nat. Rev. Genet. 2004, 5:145-150.
5. Abdeeva I., et al. Transgenic plants as a tool for plant functional genomics. Transgenic Plants - Advances and Limitations 2012, 259-284. Creative Commons. 13th edn. Y. Çiftçi (Ed.).
6. Barbas C.F., et al. ZFN, TALEN, and CRISPR/Cas-based methods for genome engineering. Trends Biotechnol. 2013, 31:397-405.
7. Harrison M.M., et al. A CRISPR view of development. Gene Dev. 2014, 28:1859-1872.
8. Kodym A., Afza R. Physical and chemical mutagenesis. Methods Mol. Biol. 2003, 236:189-204.
9. Sikora P., et al. Mutagenesis as a tool in plant genetics, functional genomics, and breeding. Int. J. Plant Genom. 2011, 2011:ID314829.
10. Penning B.W., et al. Genetic resources for maize cell wall biology. Plant Physiol. 2009, 151:1703-1728.
11. Krishnan A., et al. Mutant resources in rice for functional genomics of the grasses. Plant Physiol. 2009, 149:165-170.
12. Kuromori T., et al. Phenome analysis in plant species using loss-of-function and gain-of-function mutants. Plant Cell Physiol. 2009, 50:1215-1231.
13. Kim C.M., et al. Rapid, large-scale generation of Ds transposant lines and analysis of the Ds insertion sites in rice. Plant J. 2004, 39:252-263.
14. Petersen M., et al. Arabidopsis MAP kinase 4 negatively regulates systemic acquired resistance. Cell 2000, 103:1111-1120.
15. Kurowska M., et al. TILLING - a shortcut in functional genomics. J. Appl. Genet. 2011, 52:371-390.
16. Heikoff S., et al. TILLING. Traditional mutagenesis meets. Plant Physiol. 2004, 135:630-636.
17. Small L. RNAi for revealing and engineering plant gene functions. Curr. Opin. Biotechnol. 2007, 18:148-153.
18. de Felippes F.F., et al. MIGS: miRNA-induced gene silencing. Plant J. 2012, 70:541-547.
19. Travella S., et al. RNA interference-based gene silencing as an efficient tool for functional genomics in hexaploid bread wheat. Plant Physiol. 2006, 142:6-20.
20. Crane Y.M., Gelvin S.B. RNAi-mediated gene silencing reveals involvement of Arabidopsis chromatin-related genes in Agrobacterium-mediated root transformation. Proc. Natl. Acad. Sci. U.S.A. 2007, 104:15156-15161.
21. Prelich G. Gene overexpression: uses, mechanisms, and interpretation. Genetics 2012, 190:841-854.
22. Durai S., et al. Zinc finger nucleases: custom-designed molecular scissors for genome engineering of plant and mammalian cells. Nucleic Acids Res. 2005, 33:5978-5990.
23. Cao C., Chen K. TALENs: customizable molecular DNA scissors for genome engineering of plants. J. Genet. Genom. 2013, 40:271-279.
24. Belhaj K., et al. Editing plant genomes with CRISPR/Cas. Curr. Opin. Biotechnol. 2015, 32:76-84.
25. Ann Ran F., et al. Genome engineering using the CRISPR-Cas9 system. Nat. Protoc. 2013, 8:2281-2308.
26. Belhaj K., et al. Plant genome editing made easy: targeted mutagenesis in model and crop plants using the CRISPR/Cas system. Plant Methods 2013, 9:39.
27. Shan Q., et al. Targeted genome modification of crop plants using a CRISPR-Cas system. Nat. Biotechnol. 2013, 31:686-688.
28. Miao J., et al. Targeted mutagenesis in rice using CRISPR-Cas system. Cell Res. 2013, 23:1233-1236.
29. Feng Z., et al. Efficient genome editing in plants using a CRISPR/Cas system. Cell Res. 2013, 23:1229-1232.
30. Nekrasov V., et al. Targeted mutagenesis in the model plant Nicotiana benthamiana using Cas9 RNA-guided. Nat. Biotechnol. 2013, 31:691-693.
31. Liang Z., et al. Targeted mutagenesis in Zea mays using TALENs and the CRISPR/Cas system. J. Genet. Genomics 2014, 41:63-68.
32. Martin-Ortigosa S., et al. Mesoporous silica nanoparticle mediated intracellular Cre protein delivery for maize genome editing via loxP sites excision. Plant Physiol. 2014, 164:537-547.
33. Hansen K., et al. Genome editing with CompoZr custom zinc finger nucleases (ZFNs). J. Vis. Exp. 2012, 64:e3304.
34. Ravi M., et al. A haploid genetics toolbox for Arabidopsis thaliana. Nat. Commun. 2014, 5:5334.
35. Torres Ruiz R.A., et al. The use of balanced lines for preservation of mutants in Arabidopsis and other plants. J. Exp. Bot. 1998, 49:1597-1601.
36. Mao Y., et al. Application of the CRISPR-Cas system for efficient genome engineering in plants. Mol. Plant 2013, 6:2008-2011.
37. Wang Y., et al. Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew. Nat. Biotechnol. 2014, 32:947-951.
38. Murovec J., Bohanec B. Haploids and doubled haploids in plant breeding. Plant Breed. 2012, 5:87-105.
39. Guha S., Maheshwari S.C. Cell division and differentiation of embryos in the pollen grains of Datura in vitro. Nature 1966, 212:97-98.
40. Vicente O., et al. Pollen cultures as a tool to study plant development. Cell Biol. Rev. 1991, 25:295-306.
41. Kyo M., Harada H. Studies on conditions for cell division and embryogenesis in isolated pollen culture of Nicotiana rustica. Plant Physiol. 1985, 79:90-94.
42. Cho M.S., Zapata F.J. Callus formation and plant regeneration in isolated pollen culture of rice (Oryza sativa L. cv. Taipei 309). Plant Sci. 1988, 58:239-244.
43. Zhao X., et al. Fertilization and uniparental chromosome elimination during crosses with maize haploid inducers. Plant Physiol. 2013, 163:721-731.
44. Houben A., et al. Barley doubled-haploid production by uniparental chromosome elimination. Plant Cell Tiss. Org. Cult. 2011, 104:321-327.
45. Swanson E.B., Erickson L.R. Haploid transformation in Brassica napus using an octopine-producing strain of Agrobacterium tumefaciens. Theor. Appl. Genet. 1989, 78:831-835.
46. Ishizaki K., et al. Agrobacterium-mediated transformation of the haploid liverwort Marchantia polymorpha L., and emerging model for plant biology. Plant Cell Physiol. 2008, 49:1084-1091.
47. Aulinger I.E., et al. Rapid attainment of a doubled haploid line from transgenic maize (Zea mays L.). Plants by means of anther culture. In Vitro Cell. Dev. Biol. Plant 2003, 39:165-170.
48. Brew-Appiah R.A.T., et al. Generation of doubled haploid transgenic wheat lines by microspore transformation. PLoS ONE 2013, 8:e80155.
49. Yang C., et al. Molecular genetic analysis of pollen irradiation mutagenesis in Arabidopsis. New Phytol. 2004, 164:279-288.
50. Zhao, Z.Y. et al. Pioneer Hi-Bred International, Inc. Methods of transforming somatic cells of maize haploid embryos, US 8865971 B2.
51. Songstad D.D., et al. Production of transgenic maize plants and progeny by bombardment of Hi-II immature embryos. In Vitro Cell. Dev. Biol. Plant 1996, 32:179-183.
52. Horn M.E., et al. Use of Hi II-elite inbred hybrids in Agrobacterium-based transformation of maize. In Vitro Cell. Dev. Biol. Plant 2006, 42:359-366.
53. Forster B.P., Shu Q.Y. Plant mutagenesis in crop improvement: basic terms and applications. Plant Mutation Breeding and Biotechnology 2012, 9-22. CABI. Q.Y. Shu (Ed.).
54. Novak F.J., Brunner H. Plant breeding: induced mutation technology for crop improvement. IAEA Bull. 1992, 4:25-33.
55. Char S.N., et al. Heritable site-specific mutagenesis using TALENs in maize. Plant Biotechnol. J. 2015, Published online February 3, 2015. 10.1111/pbi.12344.
56. Lübberstedt T., Frei U.K. Application of doubled haploids for target gene fixation in backcross programs. Plant Breed. 2012, 131:449-452.
57. De La Fuente G., et al. Accelerating plant breeding. Trends Plant Sci. 2013, 18:667-672.
58. International Atomic Energy Agency Low cost options for tissue culture technology in developing countries. Proceedings of a Technical Meeting organized by the Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture 2002.
59. Takahashi Y., et al. Effects of genotypes and culture conditions on microspore embryogenesis and plant regeneration in several subspecies of Brassica rapa L. Plant Biotechnol. Rep. 2012, 6:297-304.
60. Tizaoui K., Kchouk M.E. Genetic approaches for studying transgene inheritance and genetic recombination in three successive generations of transformed tobacco. Genet. Mol. Biol. 2012, 35:640-649.
61. Zheng M. Microspore culture in wheat (Triticum aestivum) - doubled haploid production via induced embryogenesis. Plant Cell Tiss. Org. 2003, 73:213-230.
62. Touraev A., et al. Stress-induced microspore embryogenesis in tobacco: an optimized system for molecular studies. Plant Cell Rep. 1996, 15:561-565.
63. Hu T.C., Kasha K.J. A cytological study of pretreatments used to improve isolated microspore cultures of wheat (Triticum aestivum L.) cv. Chris. Genome 1999, 42:432-441.
64. Reynolds T.L. Pollen embryogenesis. Plant Mol. Biol. 1997, 33:1-10.
65. Pechan P.M., Keller W.A. Induction of microspore embryogenesis in Brassica napus L. by gamma irradiation and ethanol stress. In Vitro Cell. Dev. Biol. 1989, 25:1073-1074.
66. Prem D., et al. A new microspore embryogenesis system under low temperature which mimics zygotic embryogenesis initials, expresses auxin and efficiently regenerates doubled-haploid plants in Brassica napus. BMC Plant Biol. 2012, 12:127.
67. Liu W., et al. Highly efficient doubled-haploid production in wheat (Triticum aestivum L.) via induced microspore embryogenesis. Crop Sci. 2002, 42:686-692.
68. Esteves P., et al. Improving the efficiency of isolated microspore culture in six-row spring barley: I - optimization of key physical factors. Plant Cell Rep. 2014, 33:993-1001.
69. Cheng Y., et al. Impact of genotype, plant growth regulators and activated charcoal on embryogenesis induction in microspore culture of pepper (Capsicum annuum L.). S. Afr. J. Bot. 2013, 88:306-309.
70. Beaumont V.H., et al. Mapping the anther culture response genes in maize (Zea mays.). Genome 1995, 38:968-975.
71. Boutilier K.A., et al. Expression of the BnmNAP subfamily of napin genes coincides with the induction of Brassica microspore embryogenesis. Plant Mol. Biol. 1994, 26:1711-1723.
72. Kyo M., Harada H. Specific phosphoproteins in the initial period of tobacco pollen embryogenesis. Planta 1990, 182:58-63.
73. Eder J., Chalyk S.T. In vivo haploid induction in maize. Theor. Appl. Genet. 2002, 104:703-708.
74. Deimling S., et al. Methodik und Genetik der in vivo Haploideninduktion bei Mais. Vortr. Pflanzenzuchtung 1997, 38:203-224.
75. Ham L.H., et al. Haploid technique: an approach to improve maize adaptation to marginal environment. Buletinul AŞM 2010, 2:179-183.
76. Kato A., Geiger H.H. Chromosome doubling of haploid maize seedlings using nitrous oxide gas at the flower primordial stage. Plant Breed. 2002, 121:370-377.
77. Kitamura S., et al. Mechanism of action of nitrous oxide gas applied as a polyploidizing agent during meiosis in lilies. Sex. Plant Reprod. 2009, 22:9-14.
78. Testillano P., et al. Spontaneous chromosome doubling results from nuclear fusion during in vitro maize induced microspore embryogenesis. Chromosoma 2004, 112:342-349.
79. Anderson J.A., et al. An in vitro chromosome doubling method for clovers (Trifolium spp.). Genome 1991, 34:1-5.
80. Gomes S.S.L., et al. Karyotype, genome size, and in vitro chromosome doubling of Pfaffia glomerata (Spreng.) Pedersen. Plant Cell Tiss. Org. Cult. 2014, 118:45-56.
81. Joersbo M., et al. Transient electropermeabilization of barley (Hordeum vulgare L.) microspores to propidium iodide. Plant Cell Tiss. Org. 1989, 23:125-129.
82. Fennell A., Hauptmann R. Electroporation and PEG delivery of DNA into maize microspores. Plant Cell Rep. 1992, 11:567-570.
83. Mishra K.P., et al. In vitro electroporation of tobacco pollen. Plant Sci. 1987, 52:135-139.
84. Obert B., et al. Optimization of electroporation conditions for maize microspores. Maydica 2004, 49:15-19.
85. Rotarenco V., et al. New inducers of maternal haploid maize. Maize Genet. Cooperation Newsl. 2010, 84:1-7.