Identification of a set of widely expressed genes in grape (Vitis vinifera L.) and its functional characterisation: A multi-evidence based study

Vitis - Journal of Grapevine Research

Volumn 49, Issue 4, 2010, Pages 175-179

  Faccioli, P ^a   Stanca, A M ^a   Morcia, C ^a   Alberici, R ^a   Terzi, V ^a  

^a ISTITUTO NAZIONALE DELLA NUTRIZIONE   (Italy)

Author keywords

Grape; Housekeeping genes; MicroRNA non target genes; Widely expressed genes

Indexed keywords

VITACEAE; VITIS VINIFERA;

EID: 78549234366     PISSN: 00427500     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (18)

1. BARAKAT, A.; WALL, P. K.; DILORETO, S.; DEPAMPHJLIS, C. W.; CARLSON, J. E.; 2007: Conservation and divergence of microRNA in Populus. BMC Genomics 8, 481.
2. BARTEL, D. P.; CHEN, C.; 2004: Micromanagers of gene expression: the potentially widespread influence of metazoan microRNAs. Nat. Rev. Genet. 5, 396-400.
3. EISENBERG, E.; LEVANON, E. Y.; 2003: Human housekeeping genes are compact. Trends Genet. 19, 362-365. (Pubitemid 36794535)
4. FACCIOLI, P.; CICERI, G. P.; PROVERO, P.; STANCA, A. M.; MORCIA, C.; TERZI, V.; 2007: A combined strategy of "in silico" transcriptome analysis and web search engine optimization allows an agile identification of reference genes suitable for normalization in gene expression studies. Plant Mol. Biol. 63, 679-688.
5. FACCIOLI, P.; CICERI, G. P.; PROVERO, P.; STANCA, A. M.; MORCIA, C.; TERZI, V.; 2008: Transcriptome analysis in the post-genomic era. In: J. L. MOLINA CANO, P. CHRISTOU, A. GRANER, K. HAMMER, N. JOUVE, A. KELLER, J. M. LASA, W. POWELL, C ROYO, P. SHEWRY, A. M. STANCA (Eds): Options Mè diterranéennes, Series A, 81, 421-426.
6. FACCIOLI, P.; PROVERO, P.; HERMANN, C.; STANCA A. M.; MORCIA, C.; TERZI, V.; 2005: From single genes to co-expression networks: extracting knowledge from barley functional genomics. Plant Mol. Biol. 58, 739-750.
7. JAIN, M.; NUHAWAN, A.; TYAGI, A. K.; KHURANA, J. P.; 2006: Validation of housekeeping genes as internal control for studying gene expression in rice by quantitative real-time PCR. Biochem. Biophys. Res. Commun. 345, 646-651.
8. JONES, L. J.; YUE, S. T.; CHEUNG, C.; SINGER, V. L.; 1998: RNA quantitation by fluorescence-based solution assay: RiboGreen reagent characterization. Anal. Biochem. 265, 368-374.
9. Lu, Y.; GAN, Q.; CHI, X.; QUIN, S.; 2008: Identification and characterization of microRNAs and their targets in grapevine (Vitis vinifera). Agr. Sci. China 7, 929-943.
10. MUKHOPADHYAY, P.; BASAK, S.; GHOSH, T. C.; 2008: Differential selective constraints shaping codon usage pattern of housekeeping and tissue-specific homologous genes of rice and Arabidopsis. DNA Res. 15, 347-356.
11. QUACKENBUSH, J.; LIANG, F; HOLT, I.; PERTEA, G.; UPTON, J.; 2000: The TIGR Gene Indices: reconstruction and representation of expressed gene sequences. Nucl. Acids Res. 28, 141-145.
12. SCHWAB, R.; PALATNIK, J. F.; RIESTER, M.; SCHOMMER, C.; SCHMID, M.; WEIGEL, D.; 2005: Specific effects of microRNAs on the plant transcriptome. Dev. Cell 8, 517-527.
13. STARK, A.; BRENNECKE, J.; BUSHATI, N.; RUSSELL, R. B.; COHEN, S. M.; 2005: Animal microRNAs confer robustness to gene expression an have a significant impact on 3'UTR evolution. Cell 123, 1133-1146.
14. TATTERSALL, E. A. R.; ERGUL, A.; ALKAYAL, F.; DELUC, L.; CUSHMAN, J. C.; CRAMER, G. R.; 2005: Comparison of methods for isolating high-quality RNA from leaves of grapevine. Am J Enol Vitic 56, 400-406.
15. VANDESOMPELE, J.; DE PRETER, K.; PATTYN, F.; POPPE, B.;VAN ROY, N.; DE PAEPE, A.; SPELEMAN, F.; 2002: Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biol. 3, research0034.
16. WARRINGTON, J.; NAIR, A.; MAHADEVAPPA, M.; 2000: Comparison of human adult and fetal expression and identification of 535 housekeeping/maintenance genes. Physiol. Genomics 2, 143-147.
17. ZHANG, L.; LI, W.H.; 2004: Mammalian housekeeping genes evolve more slowly than tissue-specific genes. Mol. Biol. Evol. 21, 236-239.
18. ZHANG Y.; 2005: miRU: an automated plant miRNA target prediction server. Nucleic Acid Res. 33, 701-704.