Integrated analysis of transcript, protein and metabolite data to study lignin biosynthesis in hybrid aspen.
Tree biotechnology will soon reach a mature state where it will influence the overall supply of fiber, energy and wood products. We are now ready to make the transition from identifying candidate genes, controlling important biological processes, to discovering the detailed molecular function of these genes on a broader, more holistic, systems biology level. In this paper, a strategy is outlined for informative data generation and integrated modeling of systematic changes in transcript, protein and metabolite profiles measured from hybrid aspen samples. The aim is to study characteristics of common changes in relation to genotype-specific perturbations affecting the lignin biosynthesis and growth. We show that a considerable part of the systematic effects in the system can be tracked across all platforms and that the approach has a high potential value in functional characterization of candidate genes.
Bylesjö
Max
M
Department of Chemistry, Umeå University, SE-901 87 Umeå, Sweden.
Nilsson
Robert
R
Srivastava
Vaibhav
V
Grönlund
Andreas
A
Johansson
Annika I
AI
Jansson
Steffan
S
Karlsson
Jan
J
Moritz
Thomas
T
Wingsle
Gunnar
G
Trygg
Johan
J
D002678:Chimera / Q000378:metabolism; D019295:Computational Biology / Q000379:methods*; D018076:DNA, Complementary / Q000378:metabolism; D017343:Genes, Plant; D005838:Genotype; D008031:Lignin / Q000096:biosynthesis* / Q000737:chemistry*; D013058:Mass Spectrometry / Q000379:methods; D008962:Models, Theoretical; D020411:Oligonucleotide Array Sequence Analysis; D010455:Peptides / Q000737:chemistry; D032107:Populus; D020543:Proteome; D040901:Proteomics / Q000379:methods*; D014158:Transcription, Genetic; D014197:Trees / Q000378:metabolism
D018076:DNA, Complementary; D010455:Peptides; D020543:Proteome; D008031:Lignin