Gene expression profiling in peanut using high density oligonucleotide microarrays. Academic Article uri icon


  • BACKGROUND: Transcriptome expression analysis in peanut to date has been limited to a relatively small set of genes and only recently has a significant number of ESTs been released into the public domain. Utilization of these ESTs for oligonucleotide microarrays provides a means to investigate large-scale transcript responses to a variety of developmental and environmental signals, ultimately improving our understanding of plant biology. RESULTS: We have developed a high-density oligonucleotide microarray for peanut using 49,205 publicly available ESTs and tested the utility of this array for expression profiling in a variety of peanut tissues. To identify putatively tissue-specific genes and demonstrate the utility of this array for expression profiling in a variety of peanut tissues, we compared transcript levels in pod, peg, leaf, stem, and root tissues. Results from this experiment showed 108 putatively pod-specific/abundant genes, as well as transcripts whose expression was low or undetected in pod compared to peg, leaf, stem, or root. The transcripts significantly over-represented in pod include genes responsible for seed storage proteins and desiccation (e.g., late-embryogenesis abundant proteins, aquaporins, legumin B), oil production, and cellular defense. Additionally, almost half of the pod-abundant genes represent unknown genes allowing for the possibility of associating putative function to these previously uncharacterized genes. CONCLUSION: The peanut oligonucleotide array represents the majority of publicly available peanut ESTs and can be used as a tool for expression profiling studies in diverse tissues.

published proceedings

  • BMC Genomics

author list (cited authors)

  • Payton, P., Kottapalli, K. R., Rowland, D., Faircloth, W., Guo, B., Burow, M., Puppala, N., & Gallo, M.

citation count

  • 48

complete list of authors

  • Payton, Paxton||Kottapalli, Kameswara Rao||Rowland, Diane||Faircloth, Wilson||Guo, Baozhu||Burow, Mark||Puppala, Naveen||Gallo, Maria

publication date

  • June 2009