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. 2022 May 10;204(6):312.
doi: 10.1007/s00203-022-02868-z.

The optimal combination of Nile red identification, colony polymerase chain reaction, and gas chromatography detection methods in screening for polyhydroxyalkanoicate-producing bacteria

Hung-Che Chou  1 , Chia-Hsin Chen  1 , Hsiao-Kai Chu  1 , Chun-Mei Huang  1 , Hui-Jun Wang  1 , Wei-Lin Tu  1 , Gia-Luen Guo  2
Affiliations

The optimal combination of Nile red identification, colony polymerase chain reaction, and gas chromatography detection methods in screening for polyhydroxyalkanoicate-producing bacteria

Hung-Che Chou et al. Arch Microbiol. .

Abstract

The study devised a detection process combining Nile red-containing media, polymerase chain reaction (PCR), and gas chromatography (GC) to evaluate the possibility of microbes becoming polyhydroxyalkanoate (PHA) producers. The Nile red and PCR detection steps of designating PHA producers had true positive rates of 39.4% and 40%, respectively, and the use of GC analysis as the final step yielded accurate results for the production types and yields of PHAs. When the number of screening samples was up to 102, connecting all three inspection methods in tandem generated economic benefits. When up to 105 samples were screened, the use of all three detection methods reduced the cost to 3% of the cost and the time consumed 6% of using just Nile red plus GC or PCR plus GC. However, when the sum of samples exceeded 108, the cost of combining the three methods exceeds 1 million US dollars and was excessive; here, the combination of Nile red plus PCR could be considered, even though the true positive rate was only 30.7%.

Keywords: GC analysis; Nile red; Polyhydroxyalkanoates; phaC gene.

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