Construction and characterization of Japanese medaka (Oryzias latipes) hepatic cDNA library and its implementation to biomarker screening in aquatic toxicology

Chi Hoa Pham, Kyung Seo Park, Byoung Chan Kim, Han Na Kim, Man Bock Gu

Research output: Contribution to journalArticle

7 Citations (Scopus)

Abstract

To strengthen the toxicogenomic study, we constructed a library of hepatic cDNA from Japanese medaka under influence of specific chemical mediated stress responses. Gene expression profile analysis of the cDNA microarrays followed by real time RT-PCR assay were conducted to screen particular biomarkers for 17-beta estradiol (E2), nonylphenol (NP) and 2-chlorophenol (2CP). Information of 1509 high-quality ESTs including 260 new ESTs was added onto GenBank and dbEST. The ESTs were clustered and assembled into 159 contigs and 372 singletons. Among them, 128 contigs and 163 singletons (54.8%) were functionally characterized and 13 UniESTs (2.5%) were hypothetical proteins. Ontology analysis resulting in 282 UniESTs which involved with 2102 GOs and 93 sequences associated with 116 enzyme codes. For each test chemical, two specific biomarkers were selected from the gene expression profiling of microarrays. The expression patterns of the marker genes in real time PCR analysis were consistent with the regulated gene expression patterns in microarrays. The tentative biomarkers showed unique gene expression patterns depending on chemical concentration(s) and exposure duration in real time RT-PCR analysis. The analysis accomplished of the hepatic cDNA library and its information added to genetic and genomic resources could be sufficiently valuable specifically for aquatic toxicity studies.

Original languageEnglish
Pages (from-to)569-575
Number of pages7
JournalAquatic Toxicology
Volume105
Issue number3-4
DOIs
Publication statusPublished - 2011 Oct 1

Fingerprint

Oryzias
Oryzias latipes
Expressed Sequence Tags
toxicology
Gene Library
cDNA libraries
Toxicology
biomarker
Real-Time Polymerase Chain Reaction
biomarkers
Biomarkers
gene expression
screening
liver
Liver
Toxicogenetics
Gene Expression
2-chlorophenol
toxicogenomics
reverse transcriptase polymerase chain reaction

Keywords

  • Aquatic toxicology
  • Biomarker
  • CDNA library
  • Medaka
  • Real time RT-PCR

ASJC Scopus subject areas

  • Aquatic Science
  • Health, Toxicology and Mutagenesis

Cite this

Construction and characterization of Japanese medaka (Oryzias latipes) hepatic cDNA library and its implementation to biomarker screening in aquatic toxicology. / Pham, Chi Hoa; Park, Kyung Seo; Kim, Byoung Chan; Kim, Han Na; Gu, Man Bock.

In: Aquatic Toxicology, Vol. 105, No. 3-4, 01.10.2011, p. 569-575.

Research output: Contribution to journalArticle

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