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Microarray analysis for the influence of CMV infection on tomato genomes (617.1)
Author(s) -
Montasser Magdy,
AiAjmy Afrah,
AlMulla Fahd
Publication year - 2014
Publication title -
the faseb journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.709
H-Index - 277
eISSN - 1530-6860
pISSN - 0892-6638
DOI - 10.1096/fasebj.28.1_supplement.617.1
Subject(s) - biology , dna microarray , gene , microarray , gene expression , genome , microarray analysis techniques , gene expression profiling , microbiology and biotechnology , real time polymerase chain reaction , rna , oligonucleotide , gene chip analysis , genetics
Functional genomics is the study of gene function through parallel expression measurements of a genome. The most common tools used to carry out these measurements include complementary DNA microarrays, oligonucleotide microarrays or serial analysis of gene expression (SAGE)3. A custom‐designed Affymetrix tomato GeneChip array was used to study the gene expression changes in response to viral inoculation with a mild and severe CMV strains. The basic technique involves extraction of RNA from tomato leaf samples and then copied, while incorporating either fluorescent nucleotides or a tag that is later stained with fluorescence. Labeled RNA is then hybridized to a microarray for a period of time, then excess is washed off and the microarray is scanned under laser light. Different expression responses were resulted due to the type of viral infection. Total number of expressed genes were 3213, Out of this 1660 genes were down‐regulated and 1553 were up‐regulated. The response to CMV‐16 infection led to 1365 gene expression, 642 were down‐regulated and 723 genes were up‐regulated Specific seven different genes in tomato genome (Hsp70,ChMDH, Wif1, rccr, AAP2, PIIF & GAPDH endogenous gene used as a control) were analyzed and resulted in down regulation of Hsp70 and upper regulation of both ChMDH and PIIF. Gene expression results were confirmed with relative quantitative RT‐PCR technology.