Establishment of a porcine parvovirus (PPV) LAMP visual rapid detection method
JOURNAL OF VIROLOGICAL METHODS
Authors: Zhao, Kai; Hu, Ruili; Ni, Jianping; Liang, Jieling; He, Xizhong; Du, Yanan; Xu, Yan; Zhao, Binan; Zhang, Qi; Li, Chunhua
Abstract
Porcine parvovirus (PPV) is one of the major causes of reproductive pig disease. Due to its serious nature, wide spread and consequent great damage to the swine industry, an effective, rapid and convenient method for its detection is needed. A loop-mediated isothermal amplification (LAMP) assay was established to detect PPV infection. Two pairs of primers were specifically designed to recognize the six different sequences of open reading frame1 (ORF1) gene. The optimized LAMP program was as follows: 50 min at 59 degrees C followed by 3 min at 80 degrees C.The amplified products were analyzed both by visual inspection after staining with SYBR Green I dye and by conventional agarose gel electrophoresis. Both methods showed the same sensitivity. The limit of detection (LOD) for PPV by LAMP was 10 copies, which is 100-fold lower than conventional PCR. Our LAMP assay did not cross-react with other viruses. We used the established LAMP system to test 1100 field samples and detected 660 positives. The LAMP detection method for PPV represents a visual, sensitive and rapid assay which can detect the virus in the field, offering an attractive alternative for the PPV detection methods currently in use.
Machine assisted classification of chicken, beef and mutton tissues using optical polarimetry and Bagging model
PHOTODIAGNOSIS AND PHOTODYNAMIC THERAPY
Authors: Yousaf, Muhammad Sajid; Ahmad, Iftikhar; Khurshid, Ahmat; Ikram, Masroor
Abstract
Optical polarimetry has been used to characterize muscle tissue samples of chicken, beef and mutton, exhibiting statistically significant (p < 0.01) differences in total depolarization and retardance of three tissue groups. Herein, the total depolarization and retardance were utilized to differentiate and classify the three tissue groups. Specifically, the Bagging classification algorithm was employed for this multi-class differentiation. The performance of the optical polarimetry in tandem with the Bagging model for machine-assisted classification of the three tissue groups was assessed in terms of a comprehensive set of evaluation metrics. The Bagging model correctly classified 47/48, 19/20 and 15/18, whereas the sensitivity (Sn = 97.9 %, 82.6 %, 100 %), specificity (Sp = 97.4 %, 98.4 %, 95.8 %), positive predictive values (PPV = 0.97, 0.95, 0.83) and negative predictive values (NPV = 0.97, 0.94, 1.0) were calculated for the chicken, beef and mutton tissue samples, respectively. This automatic classification of the three tissue samples indicates a novel application of the optical polarimetry in the meat industry.