Theoretical and Applied Genetics

, Volume 111, Issue 6, pp 1118–1126

SuperSAGE combined with PCR walking allows global gene expression profiling of banana (Musa acuminata), a non-model organism

Authors

    • Laboratory of Tropical Crop ImprovementKatholieke Universiteit Leuven
  • Hideo Matsumura
    • Iwate Biotechnology Research Center
  • Ryohei Terauchi
    • Iwate Biotechnology Research Center
  • Serge Remy
    • Laboratory of Tropical Crop ImprovementKatholieke Universiteit Leuven
  • Rony Swennen
    • Laboratory of Tropical Crop ImprovementKatholieke Universiteit Leuven
  • László Sági
    • Laboratory of Tropical Crop ImprovementKatholieke Universiteit Leuven
Original Paper

DOI: 10.1007/s00122-005-0039-7

Cite this article as:
Coemans, B., Matsumura, H., Terauchi, R. et al. Theor Appl Genet (2005) 111: 1118. doi:10.1007/s00122-005-0039-7

Abstract

Super-serial analysis of gene expression (SuperSAGE) was used to characterize, for the first time, the global gene expression pattern in banana (Musa acuminata). A total of 10,196 tags were generated from leaf tissue, representing 5,292 expressed genes. Forty-nine tags of the top 100 most abundantly expressed transcripts were annotated by homology to cDNA or EST sequences. Typically for leaf tissue, analysis of the transcript profiles showed that the majority of the abundant transcripts are involved in energy production, mainly photosynthesis. However, the most abundant tag was derived from a type 3 metallothionein transcript, which accounted for nearly 3% of total transcripts analysed. Furthermore, the 26-bp long SuperSAGE tags were applied in 3′-rapid amplification of cDNA ends (3′RACE) for the identification of unknown tags. In combination with thermal asymmetric interlaced PCR (TAIL-PCR), this allowed the recovery of a full gene sequence of a novel NADPH:protochlorophyllide oxidoreductase, the key enzyme in chlorophyll biosynthesis. SuperSAGE in conjunction with 3′RACE and TAIL-PCR will be a powerful tool for transcriptomics of non-model, but otherwise important organisms.

Abbreviations

MT

metallothionein

RACE

rapid amplification of cDNA ends

SAGE

serial analysis of gene expression

TAIL-PCR

thermal asymmetric interlaced PCR

Copyright information

© Springer-Verlag 2005