Construction of EST database for comparative gene studies of Acanthamoeba

Eun Kyung Moon; Joung Ok Kim; Ying Hua Xuan; Young Sun Yun; Se Won Kang; Yong Seok Lee; Tae In Ahn; Yeon Chul Hong; Dong Il Chung; Hyun Hee Kong

doi:10.3347/kjp.2009.47.2.103

Construction of EST database for comparative gene studies of Acanthamoeba

Eun Kyung Moon, Joung Ok Kim, Ying Hua Xuan, Young Sun Yun, Se Won Kang, Yong Seok Lee, Tae In Ahn, Yeon Chul Hong, Dong Il Chung, Hyun Hee Kong

Department of Medicine

Research output: Contribution to journal › Article › peer-review

6 Scopus citations

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).

Original language	English
Pages (from-to)	103-107
Number of pages	5
Journal	Korean Journal of Parasitology
Volume	47
Issue number	2
DOIs	https://doi.org/10.3347/kjp.2009.47.2.103
State	Published - 2009

Keywords

Acanthamoeba
Brain passage
Database
ESTs
Encystation

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.3347/kjp.2009.47.2.103

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title = "Construction of EST database for comparative gene studies of Acanthamoeba",

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).",

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year = "2009",

doi = "10.3347/kjp.2009.47.2.103",

language = "English",

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T1 - Construction of EST database for comparative gene studies of Acanthamoeba

AU - Moon, Eun Kyung

AU - Kim, Joung Ok

AU - Xuan, Ying Hua

AU - Yun, Young Sun

AU - Kang, Se Won

AU - Lee, Yong Seok

AU - Ahn, Tae In

AU - Hong, Yeon Chul

AU - Chung, Dong Il

AU - Kong, Hyun Hee

PY - 2009

Y1 - 2009

N2 - 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).

AB - 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).

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KW - Encystation

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Construction of EST database for comparative gene studies of Acanthamoeba

Abstract

Keywords

UN SDGs

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