title: Suppression subtractive hybridization cDNA libraries to identify differentially expressed genes from contrasting fish habitats.
abstract: Suppression subtractive hybridization complementary DNA libraries identified differentially expressed genes in liver tissue of winter flounder collected from the highly impacted Raritan-Hudson estuary versus those from less industrialized estuaries farther south in New Jersey. Distinct transcript profiles emerged in the fish from these different habitats. A total of 251 clones from the forward (upregulated with anthropogenic impact) and reverse (downregulated with anthropogenic impact) subtracted libraries were sequenced. In the upregulated library immune response transcripts, including complement C-3, C-7, factor H, factor Bf/C2, differentially regulated trout protein 1, and the antimicrobial hepcidin, indicated the pollution-impacted fish were under a high viral or bacterial load. Transcripts for cytochrome P450 1A, P450 3A, and glutathione S-transferase, important components of phase I and II metabolism of xenobiotics, were found in the upregulated-with-pollution library. Vitellogenins I and II and egg envelope protein (zp) appeared to be downregulated. A homologue of the tumor suppressor p33(ING1) (down) and hepatocyte growth factor-like protein (up) may indicate liver damage or hepatocellular carcinoma or hepatoma. These expression patterns, confirmed by quantitative polymerase chain reaction, indicate that transcript analysis is a useful method for assessing the health of local habitats and the organisms therein.
authors.affiliation: Natural Sciences & Math, Richard Stockton College, Pomona, New Jersey 08240, USA. pete.straub@stockton.edu.
authors.forename: Peter F
authors.initials: PF
authors.lastname: Straub
authors.forename: Mary L
authors.initials: ML
authors.lastname: Higham
authors.forename: Arnaud
authors.initials: A
authors.lastname: Tanguy
authors.forename: Brenda J
authors.initials: BJ
authors.lastname: Landau
authors.forename: William C
authors.initials: WC
authors.lastname: Phoel
authors.forename: L Stanton
authors.initials: LS
authors.lastname: Hales
authors.forename: Theodore K M
authors.initials: TK
authors.lastname: Thwing
mesh_terms: D000818:Animals; D001483:Base Sequence; D017931:DNA Primers; D004777:Environment; D005432:Flounder / Q000235:genetics* / Q000378:metabolism; D005786:Gene Expression Regulation; D015723:Gene Library; D005819:Genetic Markers / Q000235:genetics; D008099:Liver / Q000378:metabolism*; D008969:Molecular Sequence Data; D009515:New Jersey; D009693:Nucleic Acid Hybridization / Q000379:methods; D016133:Polymerase Chain Reaction / Q000379:methods; D020133:Reverse Transcriptase Polymerase Chain Reaction; D017422:Sequence Analysis, DNA; D014877:Water Pollution, Chemical
chemical_list: D017931:DNA Primers; D005819:Genetic Markers