Transformational tools for next-generation plant ecology: manipulation of gene expression for the functional analysis of genes

Plant Ecology and Diversity

Volumn 5, Issue 4, 2012, Pages 485-490

  Gase, Klaus ^a   Baldwin, Ian T ^a  

^a MAX PLANCK INSTITUTE FOR CHEMICAL ECOLOGY   (Germany)

Author keywords

field releases; GS FLX Titanium sequencing; next generation sequencing; Nicotiana attenuata; RNA interference; screening of transgenic plant lines; stable plant transformation; virus induced gene silencing

Indexed keywords

NICOTIANA; NICOTIANA ATTENUATA; NICOTIANA TABACUM;

EID: 84871974423     PISSN: 17550874     EISSN: 17551668     Source Type: Journal    
DOI: 10.1080/17550874.2012.754797     Document Type: Review

References (26)

1. Baldwin, IT. 2001. An ecologically motivated analysis of plant-herbivore interactions in native tobacco. Plant Physiology, 127: 1449-1458.
2. Bhat, SR and Srinivasan, S. 2002. Molecular and genetic analyses of transgenic plants: Considerations and approaches. Plant Science, 163: 673-681.
3. De Buck, S, Podevin, N, Nolf, J, Jacobs, A and Depicker, A. 2009. The T-DNA integration pattern in Arabidopsis transformants is highly determined by the transformed target cell. Plant Journal, 60: 134-145.
4. Ekblom, R and Galindo, J. 2011. Application of next generation sequencing in molecular ecology of non-model organisms. Heredity, 107: 1-15.
5. Fragoso, V, Goddard, H, Baldwin, IT and Kim, S-G. 2011. A simple and efficient micrografting method for stably transformed Nicotiana attenuata plants to examine shoot-root signaling. Plant Methods, 7(34)
6. Garcia-Reyero, N, Griffitt, RJ, Liu, L, Kroll, KJ, Farmerie, WG, Barber, DS and Denslow, ND. 2008. Construction of a robust microarray from a non-model species largemouth bass, Micropterus salmoides (Lacepede), using pyrosequencing technology. Journal of Fish Biology, 72: 2354-2376.
7. Gase, K, Weinhold, A, Bozorov, T, Schuck, S and Baldwin, IT. 2011. Efficient screening of transgenic plant lines for ecological research. Molecular Ecology Resources, 11: 890-902.
8. Gilardoni, PA, Hettenhausen, C, Baldwin, IT and Bonaventure, G. 2011. Nicotiana attenuata lectin receptor kinase1 suppresses the insect-mediated inhibition of induced defense responses during Manduca sexta herbivory. Plant Cell, 23: 3512-3532.
9. Hahn, DA, Ragland, GJ, Shoemaker, DD and Denlinger, DL. 2009. Gene discovery using massively parallel pyrosequencing to develop ESTs for the flesh fly Sarcophaga crassipalpis. BMC Genomics, 10: 234
10. Heidel, AJ and Baldwin, IT. 2004. Microarray analysis of salicylic acid- and jasmonic acid-signalling in responses of Nicotiana attenuata to attack by insects from multiple feeding guilds. Plant Cell and Environment, 27: 1362-1373.
11. Hermsmeier, D, Schittko, U and Baldwin, IT. 2001. Molecular interactions between the specialist herbivore Manduca sexta (Lepidoptera, Sphingidae) and its natural host Nicotiana attenuata. I. Large-scale changes in the accumulation of growth- and defense-related plant mRNAs. Plant Physiology, 125: 683-700.
12. Hui, DQ, Iqbal, J, Lehmann, K, Gase, K, Saluz, HP and Baldwin, IT. 2003. Molecular interactions between the specialist herbivore Manduca sexta (Lepidoptera, Sphingidae) and its natural host Nicotiana attenuata: V. Microarray analysis and further characterization of large-scale changes in herbivore-induced mRNAs. Plant Physiology, 131: 1877-1893.
13. Kim, SG, Yon, F, Gaquerel, E, Gulati, J and Baldwin, IT. 2011. Tissue specific diurnal rhythms of metabolites and their regulation during herbivore attack in a native tobacco. Nicotiana attenuata, PLoS ONE 6:10
14. Kruegel, T, Lim, M, Gase, K, Halitschke, R and Baldwin, IT. 2002. Agrobacterium-mediated transformation of Nicotiana attenuata, a model ecological expression system. Chemoecology, 12: 177-183.
15. Meyer, E, Aglyamova, GV, Wang, S, Buchanan-Carter, J, Abrego, D, Colbourne, JK, Willis, BL and Matz, MV. 2009. Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx. BMC Genomics, 10: 219
16. Murray, D, Doran, P, MacMathuna, P and Moss, AC. 2007. In silico gene expression analysis-an overview. Molecular Cancer, 6(50)
17. Pespeni, MH, Garfield, DA, Manier, MK and Palumbi, SR. 2012. Genome-wide polymorphisms show unexpected targets of natural selection. Proceedings of the Royal Society of London Series B-Biological Sciences, 279: 1412-1420.
18. Purkayastha, A and Dasgupta, I. 2009. Virus-induced gene silencing: a versatile tool for discovery of gene functions in plants. Plant Physiology and Biochemistry, 47: 967-976.
19. Ratcliff, F, Martin-Hernandez, AM and Baulcombe, DC. 2001. Tobacco rattle virus as a vector for analysis of gene function by silencing. Plant Journal, 25: 237-245.
20. Schwarz, D, Robertson, HM, Feder, JL, Varala, K, Hudson, ME, Ragland, GJ, Hahn, DA and Berlocher, SH. 2009. Sympatric ecological speciation meets pyrosequencing: Sampling the transcriptome of the apple maggot Rhagoletis pomonella. BMC Genomics, 10: 633
21. Sessions, A, Burke, E, Presting, G, Aux, G, McElver, J, Patton, D, Dietrich, B, Ho, P, Bacwaden, JKo, C. 2002. A high-throughput Arabidopsis reverse genetics system. Plant Cell, 14: 2985-2994.
22. Soderlund, C, Johnson, E, Bomhoff, M and Descour, A. 2009. PAVE: Program for assembling and viewing ESTs. BMC Genomics, 10: 400
23. Stapley, J, Reger, J, Feulner, PGD, Smadja, C, Galindo, J, Ekblom, R, Bennison, C, Ball, AD, Beckerman, AP and Slate, J. 2010. Adaptation genomics: the next generation. Trends in Ecology and Evolution, 25: 705-712.
24. Thomas, CL, Jones, L, Baulcombe, DC and Maule, AJ. 2001. Size constraints for targeting post-transcriptional gene silencing and for RNA-directed methylation in Nicotiana benthamiana using a potato virus X vector. Plant Journal, 25: 417-425.
25. Voelckel, C and Baldwin, IT. 2003. Detecting herbivore-specific transcriptional responses in plants with multiple DDRT-PCR and subtractive library procedures. Physiologia Plantarum, 118: 240-252.
26. Wang, L, Allmann, S, Wu, JS and Baldwin, IT. 2008. Comparisons of lipoxygenase3- and jasmonate-resistant4/6-silenced plants reveal that jasmonic acid and jasmonic acid-amino acid conjugates play different roles in herbivore resistance of Nicotiana attenuata. Plant Physiology, 146: 904-915.