RAPD markers as predictors of infectious hypodermal and hematopoietic necrosis virus (IHHNV) resistance in shrimp (Litopenaeus stylirostris)

Suzanne E. Hizer, Arun K. Dhar, Kurt R. Klimpel, Denise K. Garcia

Research output: Contribution to journalArticle

24 Scopus citations

Abstract

Random amplified polymorphic DNA (RAPD) fingerprints of two shrimp populations (Litopenaeus stylirostris) were compared to find genetic marker(s) that may be associated with infectious hypodermal and hematopoietic necrosis virus (IHHNV) resistance or susceptibility. Of the 100 10-mer random primers and 100 intersimple-sequence repeat (ISSR) primers screened, five provided markers specific to the Super Shrimp population and three provided markers specific to the wild caught population. The two populations were further characterized for relative viral load (reported as cycle threshold, CT) using real-time quantitative PCR with primers specific to the IHHNV genome. The Β-actin gene was amplified to serve as a control for normalization of the IHHNV viral load. The mean viral load was significantly lower (CT = 34.58; equivalent to 3.3 × 101 copies of IHHNV genome/ng DNA) in Super Shrimp than in the wild caught population (CT = 23.49; equivalent to 4.2 × 104 copies/ng DNA; P < 0.001; CT values are inversely related to viral load). A preliminary prediction model was created with Classification and Regression Tree (CART) software (Salford Systems, San Diego, Calif.), where the resultant decision tree uses the presence or absence of seven RAPD markers as predictors of the relative viral load.

Original languageEnglish (US)
Pages (from-to)1-7
Number of pages7
JournalGenome
Volume45
Issue number1
DOIs
StatePublished - Mar 14 2002
Externally publishedYes

Keywords

  • Genetic markers
  • Litopenaeus stylirostris
  • Quantitative PCR
  • RAPD
  • Shrimp

ASJC Scopus subject areas

  • Biotechnology
  • Molecular Biology
  • Genetics

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