Korean J Parasitol.  2009 Jun;47(2):103-107. 10.3347/kjp.2009.47.2.103.

Construction of EST Database for Comparative Gene Studies of Acanthamoeba

Affiliations
  • 1Department of Parasitology, Kyungpook National University School of Medicine, Daegu 700-422, Korea. hhkong@mail.knu.ac.kr
  • 2Department of Parasitology and Malariology, PICR, College of Medicine and Frontier Inje Research for Science and Technology, Inje University, Busan 614-735, Korea.
  • 3Department of Biological Science, Seoul National University, Seoul 151-742, Korea.

Abstract

The genus Acanthamoeba can cause severe infections such as granulomatous amebic encephalitis and amebic keratitis in humans. However, little genomic information of Acanthamoeba has been reported. Here, we constructed Acanthamoeba expressed sequence tags (EST) database (Acanthamoeba EST DB) derived from our 4 kinds of Acanthamoeba cDNA library. The Acanthamoeba EST DB contains 3,897 EST generated from amebae under various conditions of long term in vitro culture, mouse brain passage, or encystation, and downloaded data of Acanthamoeba from National Center for Biotechnology Information (NCBI) and Taxonomically Broad EST Database (TBestDB). The almost reported cDNA/genomic sequences of Acanthamoeba provide stand alone BLAST system with nucleotide (BLAST NT) and amino acid (BLAST AA) sequence database. In BLAST results, each gene links for the significant information including sequence data, gene orthology annotations, relevant references, and a BlastX result. This is the first attempt for construction of Acanthamoeba database with genes expressed in diverse conditions. These data were integrated into a database (http://www.amoeba.or.kr).

Keyword

Acanthamoeba; ESTs; database; brain passage; encystation
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