Improvement of Oligonucleotide Probe Design Criteria for Functional Gene Microarrays in Environmental Applications-Reference-Cited by-同舟云学术

Improvement of Oligonucleotide Probe Design Criteria for Functional Gene Microarrays in Environmental Applications

Published:2006-02 Issue:2 Volume:72 Page:1688-1691
ISSN:0099-2240
Container-title:Applied and Environmental Microbiology
language:en
Short-container-title:Appl Environ Microbiol

Author:

Liebich Jost¹²,Schadt Christopher W.¹,Chong Song C.¹,He Zhili¹,Rhee Sung-Keun¹³,Zhou Jizhong¹

Affiliation:

1. Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, Tennessee 37831

2. Agrosphere Institute (ICG IV), Forschungszentrum Jülich GmbH, 52425 Jülich, Germany

3. Department of Microbiology, Chungbuk National University, Cheungju 361-763, Korea

Abstract

ABSTRACT To optimize oligonucleotide probe design criteria, PCR products with different similarities to probes were hybridized to a functional gene microarray designed to detect homologous genes from different organisms. In contrast to more restrictive probe designs based on a single criterion, simultaneous consideration of the percent similarity (≤90%), the length of identical sequence stretches (≤20 bases), and the binding free energy (≥−35 kcal mol −1 ) was found to be predictive of probe specificity.

Publisher

American Society for Microbiology

Subject

Ecology,Applied Microbiology and Biotechnology,Food Science,Biotechnology

Link

https://journals.asm.org/doi/pdf/10.1128/AEM.72.2.1688-1691.2006

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