Functional genomics in a non-model crop: transcriptomics or proteomics?
There is no question that protein- and RNA-based measurements are complementary, but which approach has the highest return in the case of a non-model crop and what is the correlation between mRNA and proteins? We describe and evaluate in detail the advantages and pitfalls of both a proteomics and a transcriptomics approach. The information on the abundance of transcripts was obtained by serial analysis of gene expression (SAGE), while information on the abundance of proteins was obtained via two-dimensional gel electrophoresis.
Carpentier
Sebastien Christian
SC
Laboratory of Tropical Crop Improvement, Katholieke Universiteit, 3001 Leuven, Belgium. sebastien.carpentier@biw.kuleuven.be
Coemans
Bert
B
Podevin
Nancy
N
Laukens
Kris
K
Witters
Erwin
E
Matsumura
Hideo
H
Terauchi
Ryohei
R
Swennen
Rony
R
Panis
Bart
B
D018556:Crops, Agricultural / Q000737:chemistry* / Q000235:genetics*; D015180:Electrophoresis, Gel, Two-Dimensional; D020224:Expressed Sequence Tags; D020869:Gene Expression Profiling / Q000379:methods*; D018506:Gene Expression Regulation, Plant; D023281:Genomics / Q000379:methods*; D007526:Isoelectric Point; D008954:Models, Biological; D028521:Musa / Q000737:chemistry* / Q000235:genetics*; D018515:Plant Leaves / Q000737:chemistry; D010940:Plant Proteins / Q000032:analysis / Q000302:isolation & purification; D020543:Proteome / Q000032:analysis; D040901:Proteomics / Q000379:methods*; D012333:RNA, Messenger / Q000235:genetics / Q000378:metabolism; D015203:Reproducibility of Results; D013045:Species Specificity
D010940:Plant Proteins; D020543:Proteome; D012333:RNA, Messenger