Bioinformatic Tools in Crop Improvement - Crop Improvement: New Approaches and Modern Techniques - page 109

tion. Gene silencing and virus-induced gene silencing (VIGS) can be used in crop
plants to discover key genes involved in phenotypic differences.
References
Adams MD, Soares MB, Kerlavage AR, Fields C, Venter JC (1993) Rapid cDNA sequencing
(expressed sequence tags) from a directionally cloned human infant brain cDNA library. Nat
Genet 4:373-380
Ahmad P, Ashraf M, Younis M, Hu X, Kumar A, Akram NA, Al-Qurainy F (2011) Role of trans-
genic plants in agriculture and biopharming. Biotech Advances 30:525-540
Agrawal GK, Yonekura M, Iwahashi Y, Iwahashi H, Rakwal R (2005) System, trends and perspec-
tives of proteomics in dicot plants. Part I: technologies in proteome establishment. J Chro-
matogr B 815:109-123
Akhunov E, Nicolet C, Dvorak J (2009) Single nucleotide polymorphism genotyping in polyploid
wheat with the Illumina GoldenGate assay. Theor App Genet 119:507-517
Akiyama K, Chikayama E, Yuasa H, Shimada Y, Tohge T, Shinozaki K et al (2008) PRIMe: a Web
site that assembles tools for metabolomics and transcriptomics. In Silico Biol 8:339-345
Alonso JM, Ecker JR (2006) Moving forward in reverse: genetic technologies to enable genome-
wide phenomic screens in Arabidopsis. Nat Rev Genet 7:524-536
An G, Jeong DH, Jung KH, Lee S (2005) Reverse genetic approaches for functional genomics of
rice. Plant Mol Biol 59:111-123
Andersen JS, Mann M (2006) Organellar proteomics: turning inventories into insights. EMBO
Rep 7:874-879
Andreeva A, Howorth D, Chandonia JM, Brenner SE, Hubbard TJ, Chothia C et al (2008) Data
growth and its impact on the SCOP database: new developments. Nucleic Acids Res 36:D419-
D425
Anisimov SV (2008) Serial analysis of gene expression (SAGE): 13 years of application in re-
search. Curr Pharm Biotechnol 9:338-350
Ansorge WJ (2009) Next-generation DNA sequencing techniques. Nat Biotechnol 25:195-203
Ashikari M, Sakakibara H, Lin S, Yamamoto T, Takashi T, Nishimura A et al (2005) Cytokinin
oxidase regulates rice grain production. Science 309:741-745
Baginsky S (2009) Plant proteomics: concepts, applications, and novel strategies for data interpre-
tation. Mass Spectrom Rev 28:93-120
Barakat A, Wall PK, Diloreto S, Depamphilis CW, Carlson JE (2007) Conservation and divergence
of microRNAs in Populus . BMC Genomics 8:481
Barjaktarovic Z, Nordheim A, Lamkemeyer T, Fladerer C, Madlung J, Hampp R (2007) Time
course of changes in amounts of specific proteins upon exposure to hyper-g, 2-D clinorotation,
and 3-D random positioning of Arabidopsis cultures. J Exper Botany 58:4357-4363
Barjaktarovic Z, Schultz W, Madlung J, Fladerer C, Nordheim A, Hampp R (2009) Changes in
the effective gravitational field strength affect the state of phosphorylation of stress related
proteins in callus of Arabidopsis thaliana . J Exper Botany 60:779-789
Barkley NA, Wang ML (2008) Application of TILLING and EcoTILLING as reverse genetic ap-
proaches to elucidate the function of genes in plants and animals. Curr Genomics 9:212-226
Barnholtz-Sloan JS, Tiwari HK (2009) Population Genetics. In: Krawetz S (ed) Bioinformatics for
Systems Biology. Humana Press (Springer Science Business Media)
Barrett T, Troup DB, Wilhite SE, Ledoux P, Rudnev D, Evangelista C et al (2009) NCBI GEO:
archive for high-throughput functional genomic data. Nucleic Acids Res 37:D885-D890
Benschop JJ, Mohammed S, O'Flaherty M, Heck AJ, Slijper M, Menke FL (2007) Quantitative
phosphoproteomics of early elicitor signaling in Arabidopsis. Mol Cell Proteomics 6:1198-
1214