Microarray chip development using infrared imaging for the identification of catfish species

Appl Spectrosc. 2014;68(12):1365-73. doi: 10.1366/14-07505. Epub 2014 Nov 1.

Abstract

Several families of catfish species are extensively aquacultured around the world; however, only those from the family Ictaluridae can be labeled as catfish in the United States. Non-Ictalurid catfish species that are marketed as "catfish" in the USA are considered misbranded. Misbranding in general has led to an increased interest in developing deoxyribonucleic acid (DNA)-based methods such as DNA barcoding, polymerase chain reaction restriction fragment length polymorphism, and DNA microarrays with fluorescence detection for the identification of fish species. In this proof-of-concept study, DNA microarrays coupled with a newly developed mid-infrared imaging detection method were applied to the identification of seven species of catfish for the first time. Species-specific DNA probes targeting three regions per species of the cytochrome c oxidase 1 (barcoding) gene were developed and printed as microarrays on glass slides. Deoxyribonucleic acid targets labeled with biotin were hybridized to their complementary probes using a strategy that allowed the selective formation of a silver layer on hybridized spots needed for detection. Using this three-probe format, the seven species were all identified correctly, even when a limited number of false positive spots were observed. Raman spectroscopy was employed to further characterize the arrays.

Publication types

  • Evaluation Study

MeSH terms

  • Animals
  • Catfishes / classification*
  • Catfishes / genetics*
  • DNA / analysis
  • DNA / genetics*
  • Equipment Design
  • Equipment Failure Analysis
  • Oligonucleotide Array Sequence Analysis / instrumentation*
  • Reproducibility of Results
  • Sensitivity and Specificity
  • Species Specificity
  • Spectrophotometry, Infrared / instrumentation*

Substances

  • DNA