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Differences in differential gene expression between young and mature Arabidopsis C58 tumours
Author(s) -
Xiao W.M.,
Zhao M.C.,
Zou M.,
Tan Y.D.,
Zhang X.G.
Publication year - 2014
Publication title -
plant biology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.871
H-Index - 87
eISSN - 1438-8677
pISSN - 1435-8603
DOI - 10.1111/plb.12092
Subject(s) - biology , transcriptome , gene , gene expression , gene expression profiling , arabidopsis , carcinogenesis , dna microarray , microarray , microarray analysis techniques , genetics , gene knockdown , metabolic pathway , rna seq , fold change , microbiology and biotechnology , mutant
Tumorigenesis of plants triggered by A grobacterium tumefaciens has been investigated for over a century, but a global study on changes in gene expression in plant tumours during growth and development has received little attention so far due to technical difficulties. Recently a great advance in ‘omic’ technologies, e.g . microarray, proteome and transcriptome analyses, has allowed differential expression profiling of genes for metabolic regulation during plant tumour growth and development. Deeken et al .(The Plant Cell Online, 18, 3617) and Lee C.‐W. et al .(The Plant Cell Online, 21, 2948) used a fold change approach to profile genes differentially expressed ( DE ) between A rabidopsis inflorescence stalks infected with A grobacterium strains C 58 (carrying T ‐ DNA ) or GV 3101 (without T ‐ DNA ) and control stalks at 3 hours, 6 days and 35 days after inoculation. We utilised ranking analysis of microarray data, a modified t ‐test approach, to further analyse these microarray data and compared DE gene functioning in photosynthesis, energy, nucleotide, RNA , DNA , protein and lipid metabolism, biological defence, cell wall and signalling pathways in young (6‐day‐old) and mature (35‐day‐old) tumours. There were large differences in differential expression of genes for these basic metabolic pathways between young and mature tumours. In young tumours, more genes were up‐regulated in most metabolic functional categories than down‐regulated, whereas in mature tumours, genes involved in basic and major metabolic pathways were more down‐regulated than up‐regulated, strongly indicating that relative to the control stalk, many metabolic pathways were enhance in young tumours but decayed or tended to be decayed in mature tumours.