Nền tảng RT-qPCR định lượng cho phân tích biểu hiện cao thông qua 2500 yếu tố phiên mã của cây lúa
Tóm tắt
Từ khóa
#PCR ngược định lượng #cây lúa #yếu tố phiên mã #phân tích biểu hiện gen #nghiên cứu thực vậtTài liệu tham khảo
Lee JY, Levesque M, Benfey PN: High-throughput RNA isolation technologies. New tools for high-resolution gene expression profiling in plant systems. Plant Physiology. 2005, 138: 585-590.
Pfaffl MW, Daxenberger A, Hageleit M, Meyer HHD: Effects of synthetic progestagens on the mRNA expression of androgen receptor, progesterone receptor, oestrogen receptor alpha and beta, insulin-like growth factor-1 (IGF-1) and IGF-1 receptor in heifer tissues. Journal of Veterinary Medicine Series A-Physiology Pathology Clinical Medicine. 2002, 49: 57-64. 10.1046/j.1439-0442.2002.jv412.x.
Holland MJ: Transcript abundance in yeast varies over six orders of magnitude. Journal of Biological Chemistry. 2002, 277: 14363-14366.
Horak CE, Snyder M: Global analysis of gene expression in yeast. Functional & Integrative Genomics. 2002, 2: 171-180.
Czechowski T, Bari RP, Stitt M, Scheible WR, Udvardi MK: Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes. Plant Journal. 2004, 38: 366-379.
Brunner A, Yakovlev I, Strauss S: Validating internal controls for quantitative plant gene expression studies. BMC Plant Biology. 2004, 4: 14-
Riechmann JL, Heard J, Martin G, Reuber L, Jiang CZ, Keddie J, Adam L, Pineda O, Ratcliffe OJ, Samaha RR: Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes. Science. 2000, 290: 2105-2110.
Gao G, Zhong YF, Guo AY, Zhu QH, Tang W, Zheng WM, Gu XC, Wei LP, Luo JC: DRTF: a database of rice transcription factors. Bioinformatics. 2006, 22: 1286-1287.
Goff SA, Ricke D, Lan TH, Presting G, Wang RL, Dunn M, Glazebrook J, Sessions A, Oeller P, Varma H: A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science. 2002, 296: 92-100.
Yu J, Hu SN, Wang J, Wong GKS, Li SG, Liu B, Deng YJ, Dai L, Zhou Y, Zhang XQ: A draft sequence of the rice genome (Oryza sativa L. ssp.indica). Science. 2002, 296: 79-92.
Rice Transcription Factor Database. http://ricetfdb.bio.uni-potsdam.de/
Riano-Pachon DM, Ruzicic S, Dreyer I, Mueller-Roeber B: PlnTFDB: an integrative plant transcription factor database. BMC Bioinformatics. 2007, 8: 42-
Wang BB, Brendel V: Genomewide comparative analysis of alternative splicing in plants. Proceedings of the National Academy of Sciences of the United States of America. 2006, 103: 7175-7180.
Taneri B, Snyder B, Novoradovsky A, Gaasterland T: Alternative splicing of mouse transcription factors affects their DNA-binding domain architecture and is tissue specific. Genome Biology. 2004, 5: R75-
TIGR: The Institute of Genomic Research. http://www.tigr.org/tdb/e2k1/osa1
Jain M, Nijhawan A, Tyagi AK, Khurana JP: Validation of housekeeping genes as internal control for studying gene expression in rice by quantitative real-time PCR. Biochemical and Biophysical Research Communications. 2006, 345: 646-651. 10.1016/j.bbrc.2006.04.140.
Suzuki Y, Makino A, Mae T: An efficient method for extraction of RNA from rice leaves at different ages using benzyl chloride. Journal of Experimental Botany. 2001, 52: 1575-1579.
Chomczynski P, Sacchi N: Single-step method of RNA isolation by acid guanidinium thiocyanate phenol chloroform extraction. Analytical Biochemistry. 1987, 162: 156-159.
Pfaffl MW: Quantification strategies in real-time PCR. The real-time PCR encyclopaedia A-Z of quantitative PCR. Edited by: Bustin SA. 2004, 87-120. La Jolla, CA, USA: International University Line (IUL)
Ramakers C, Ruijter JM, Deprez RHL, Moorman AFM: Assumption-free analysis of quantitative real-time polymerase chain reaction (PCR) data. Neuroscience Letters. 2003, 339: 62-66.
Feltus FA, Wan J, Schulze SR, Estill JC, Jiang N, Paterson AH: An SNP resource for rice genetics and breeding based on subspecies Indica and Japonica genome alignments. Genome Research. 2004, 14: 1812-1819.
Ma JX, Bennetzen JL: Rapid recent growth and divergence of rice nuclear genomes. Proceedings of the National Academy of Sciences of the United States of America. 2004, 101: 12404-12410.
Rajeevan MS, Vernon SD, Taysavang N, Unger ER: Validation of array-based gene expression profiles by real-time (kinetic) RT-PCR. Journal of Molecular Diagnostics. 2001, 3: 26-31.
Wang YL, Barbacioru C, Hyland F, Xiao WM, Hunkapiller KL, Blake J, Chan F, Gonzalez C, Zhang L, Samaha RR: Large scale real-time PCR validation on gene expression measurements from two commercial long-oligonucleotide microarrays. BMC Genomics. 2006, 7: 59-
Kim BR, Nam HY, Kim SU, Kim SI, Chang YJ: Normalization of reverse transcription quantitative-PCR with housekeeping genes in rice. Biotechnology Letters. 2003, 25: 1869-1872.
Czechowski T, Stitt M, Altmann T, Udvardi MK, Scheible WR: Genome-wide identification and testing of superior reference genes for transcript normalization in Arabidopsis. Plant Physiology. 2005, 139: 5-17.
Vandesompele J, De Preter K, Pattyn F, Poppe B, Van Roy N, De Paepe A, Speleman F: Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biology. 2002, 3: research0034.0031-research0034.0011. 10.1186/gb-2002-3-7-research0034.
Yang X, Romheld V, Marschner H: Effect of bicarbonate on root-growth and accumulation of organic-acids in Zn-Inefficient and Zn-efficient rice cultivars (Oryza sativa L.). Plant and Soil. 1994, 164: 1-7. 10.1007/BF00010104.
NCBI: The National Center for Biotechnology Information. http://www.ncbi.nlm.nih.gov/blast