Functional prediction of Calamus manan inflorescence ESTs through motif detection

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

Calamus manan floral cDNA libraries were constructed for four stages of flowering in male and female plants, respectively. The Calamus manan inflorescence ESTs were generated to provided a better understanding of the flowering process through the identification of genes that are expressed in the floral tissues of this plant. The BLASTX homology search showed that 119 ESTs that were generated from this study had significant matches to unknown proteins and an additional 127 ESTs did not match any protein sequences in the NCBI database. Therefore, a motif search was carried out for the unknown ESTs to predict their putative functions. A total of 136 EST clusters were used in the motif analysis and the InterProScan software was chosen as the motif search tool. There were 66 types of motifs detected from this search. Based on the motifs detected within the query sequences, putative function predictions were successfully performed on 49 EST clusters.

Original languageEnglish
Pages (from-to)329-342
Number of pages14
JournalBiotechnology
Volume8
Issue number3
DOIs
Publication statusPublished - 2009

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Calamus
Inflorescence
Expressed Sequence Tags
Gene Library
Proteins
Software
Genes
Databases
Tissue

Keywords

  • Calamus manan
  • EST
  • InterProScan
  • Motif detection
  • Open reading frames putative function prediction

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)

Cite this

Functional prediction of Calamus manan inflorescence ESTs through motif detection. / K. Nadarajah, Kalaivani; Choong, Chee Yen; Leong, S. J.; V Ratnam, R Wickneswari.

In: Biotechnology, Vol. 8, No. 3, 2009, p. 329-342.

Research output: Contribution to journalArticle

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