Gene expression profiling in peanut using high density oligonucleotide microarrays.
BMC Genomics
; 10: 265, 2009 Jun 12.
Article
in En
| MEDLINE
| ID: mdl-19523230
ABSTRACT
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.
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
Arachis
/
Oligonucleotide Array Sequence Analysis
/
Expressed Sequence Tags
/
Gene Expression Profiling
Language:
En
Journal:
BMC Genomics
Journal subject:
GENETICA
Year:
2009
Document type:
Article
Affiliation country:
United States