1
|
Lin HY, Yen SC, Tsai SK, Shen F, Lin JHY, Lin HJ. Combining Direct PCR Technology and Capillary Electrophoresis for an Easy-to-Operate and Highly Sensitive Infectious Disease Detection System for Shrimp. Life (Basel) 2022; 12:life12020276. [PMID: 35207563 PMCID: PMC8879573 DOI: 10.3390/life12020276] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2022] [Revised: 02/09/2022] [Accepted: 02/09/2022] [Indexed: 11/30/2022] Open
Abstract
Infectious diseases are considered the greatest threat to the modern high-density shrimp aquaculture industry. Specificity, rapidity, and sensitivity of molecular diagnostic methods for the detection of asymptomatic infected shrimp allows preventive measures to be taken before disease outbreaks. Routine molecular detection of pathogens in infected shrimp can be made easier with the use of a direct polymerase chain reaction (PCR). In this study, four direct PCR reagent brands were tested, and results showed that the detection signal of direct PCR in hepatopancreatic tissue was more severely affected. In addition, portable capillary electrophoresis was applied to improve sensitivity and specificity, resulting in a pathogen detection limit of 25 copies/PCR-reaction. Juvenile shrimp from five different aquaculture ponds were tested for white spot syndrome virus infection, and the results were consistent with the Organization for Animal Health’s certified standard method. Furthermore, this methodology could be used to examine single post larvae shrimp. The overall detection time was reduced by more than 58.2%. Therefore, the combination of direct PCR and capillary electrophoresis for on-site examination is valuable and has potential as a suitable tool for diagnostic, epidemiological, and pathological studies of shrimp aquaculture.
Collapse
Affiliation(s)
- Hung-Yun Lin
- Center of Excellence for the Oceans, National Taiwan Ocean University, Keelung 20224, Taiwan;
| | - Shao-Chieh Yen
- Department of Bioscience and Biotechnology, National Taiwan Ocean University, Keelung 20224, Taiwan;
- BiOptic Inc., New Taipei City 23141, Taiwan;
| | | | - Fan Shen
- Giant Bio Technology Inc., New Taipei City 22101, Taiwan;
| | - John Han-You Lin
- School of Veterinary Medicine, National Taiwan University, Taipei, 10617, Taiwan
- Correspondence: (J.H.-Y.L.); (H.-J.L.)
| | - Han-Jia Lin
- Center of Excellence for the Oceans, National Taiwan Ocean University, Keelung 20224, Taiwan;
- Department of Bioscience and Biotechnology, National Taiwan Ocean University, Keelung 20224, Taiwan;
- Correspondence: (J.H.-Y.L.); (H.-J.L.)
| |
Collapse
|
2
|
Calcium mediated DNA binding in non-lamellar structures formed by DOPG/glycerol monooleate. Chem Phys Lipids 2021; 239:105118. [PMID: 34280362 DOI: 10.1016/j.chemphyslip.2021.105118] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 05/28/2021] [Accepted: 07/14/2021] [Indexed: 11/21/2022]
Abstract
In order to test an encapsulation method of short fragmented DNA (∼ 20-300 bp), we study the solubilisation in 150 mM solution of NaCl of a cubic phase formed by glycerol monooleate (GMO) with negatively charged dioleoylphosphatidylglycerol (DOPG) up to the level of unilamellar vesicles and, subsequently, the restoration of the cubic phase using Ca2+ cations. We performed small angle X-ray and neutron scattering (SAXS and SANS) to follow structural changes in DOPG/GMO mixtures induced by increasing DOPG content. The cubic phase (Pn3m space group) is preserved up to ∼ 11 mol% of DOPG in DOPG/GMO. Above 20 mol%, the SANS curves are typical of unilamellar vesicles. The thickness of the DOPG/GMO lipid bilayer (dL) decreases slightly with increasing fraction of DOPG. The addition of 15 mM of CaCl2 solution shields the electrostatic repulsions of DOPG molecules, increases slightly dL and restores the cubic structures in the mixtures up to ∼ 37 mol% of DOPG. Zeta potential shows negative surface charge. The analysis of the data provides the radius of the water nano-channels of the formed non-lamellar structures. We discuss their dimensions with respect to DNA binding. In addition, Ca2+ mediates DNA - DOPG/GMO binding. The formed hexagonal phase, HII, binds less of DNA in comparison with cubic phases (∼ 6 wt% and ∼ 20 wt% of the total amount, respectively). The studied system can be utilized as anionic QII delivery vector for genetic material.
Collapse
|
3
|
Tsai SK, Chen CC, Lin HJ, Lin HY, Chen TT, Wang LC. Combination of multiplex reverse transcription recombinase polymerase amplification assay and capillary electrophoresis provides high sensitive and high-throughput simultaneous detection of avian influenza virus subtypes. J Vet Sci 2020; 21:e24. [PMID: 32233132 PMCID: PMC7113572 DOI: 10.4142/jvs.2020.21.e24] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Revised: 10/25/2019] [Accepted: 12/30/2019] [Indexed: 11/20/2022] Open
Abstract
The pandemic of avian influenza viruses (AIVs) in Asia has caused enormous economic loss in poultry industry and human health threat, especially clade 2.3.4.4 H5 and H7 subtypes in recent years. The endemic chicken H6 virus in Taiwan has also brought about human and dog infections. Since wild waterfowls is the major AIV reservoir, it is important to monitor the diversified subtypes in wildfowl flocks in early stage to prevent viral reassortment and transmission. To develop a more efficient and sensitive approach is a key issue in epidemic control. In this study, we integrate multiplex reverse transcription recombinase polymerase amplification (RT-RPA) and capillary electrophoresis (CE) for high-throughput detection and differentiation of AIVs in wild waterfowls in Taiwan. Four viral genes were detected simultaneously, including nucleoprotein (NP) gene of all AIVs, hemagglutinin (HA) gene of clade 2.3.4.4 H5, H6 and H7 subtypes. The detection limit of the developed detection system could achieve as low as one copy number for each of the four viral gene targets. Sixty wild waterfowl field samples were tested and all of the four gene signals were unambiguously identified within 6 h, including the initial sample processing and the final CE data analysis. The results indicated that multiplex RT-RPA combined with CE was an excellent alternative for instant simultaneous AIV detection and subtype differentiation. The high efficiency and sensitivity of the proposed method could greatly assist in wild bird monitoring and epidemic control of poultry.
Collapse
Affiliation(s)
- Shou Kuan Tsai
- Department of Bioscience and Biotechnology, National Taiwan Ocean University, Keelung 20224, Taiwan
| | - Chen Chih Chen
- Institute of Wildlife Conservation, College of Veterinary Medicine, National Pingtung University of Science and Technology, Pingtung 91201, Taiwan.,Animal Biologics Pilot Production Center, National Pingtung University of Science and Technology, Pingtung 91201, Taiwan
| | - Han Jia Lin
- Department of Bioscience and Biotechnology, National Taiwan Ocean University, Keelung 20224, Taiwan
| | - Han You Lin
- School of Veterinary Medicine, National Taiwan University, Taipei 10617, Taiwan
| | - Ting Tzu Chen
- School of Veterinary Medicine, National Taiwan University, Taipei 10617, Taiwan
| | - Lih Chiann Wang
- School of Veterinary Medicine, National Taiwan University, Taipei 10617, Taiwan.
| |
Collapse
|
4
|
Jian MJ, Perng CL, Sun JR, Cheng YH, Chung HY, Cheng YH, Lee SY, Kuo SC, Shang HS. Multicentre MDR Elizabethkingia anophelis isolates: Novel random amplified polymorphic DNA with capillary electrophoresis systems to rapid molecular typing compared to genomic epidemiology analysis. Sci Rep 2019; 9:1806. [PMID: 30755714 PMCID: PMC6372666 DOI: 10.1038/s41598-019-38819-w] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2018] [Accepted: 01/08/2019] [Indexed: 11/25/2022] Open
Abstract
Elizabethkingia species are ubiquitous bacteria that uncommonly cause human infection. Elizabethkingia anophelis was first identified in 2011 from the mosquito Anopheles gambiae. The currently available bacterial typing systems vary greatly with respect to labour, cost, reliability, and ability to discriminate among bacterial strains. Polymerase chain reaction (PCR)-based fingerprinting using random amplified polymorphic DNA (RAPD) is commonly used to identify genetic markers. To our knowledge, no system coupling RAPD-PCR and capillary gel electrophoresis (CGE) has been utilized for the epidemiological typing of E. anophelis. Thus, the aim of the present study was to establish a reliable and reproducible molecular typing technique for E. anophelis isolates based on a multi-centre assessment of bacteraemia patients. Here, we used a rapid CGE-light-emitting diode-induced fluorescence (LEDIF)-based method in conjunction with RAPD-PCR to genotype E. anophelis with a high level of discrimination. All clinical isolates of E. anophelis were found to be typeable, and isolates from two hospitals formed two distinct clusters. The results demonstrated the potential of coupling RAPD and CGE as a rapid and efficient molecular typing tool, providing a reliable method for surveillance and epidemiological investigations of bacterial infections. The proposed method shows promise as a novel, cost-effective, high-throughput, first-pass typing method.
Collapse
Affiliation(s)
- Ming-Jr Jian
- Graduate Institute of Medical Science, National Defense Medical Center, Taipei, Taiwan.,Division of Clinical Pathology, Department of Pathology, Tri-Service General Hospital, National Defense Medical Center, Taipei, Taiwan
| | - Cherng-Lih Perng
- Graduate Institute of Medical Science, National Defense Medical Center, Taipei, Taiwan.,Division of Clinical Pathology, Department of Pathology, Tri-Service General Hospital, National Defense Medical Center, Taipei, Taiwan
| | - Jun-Ren Sun
- Institute of Preventive Medicine, National Defense Medical Center, Taipei, Taiwan
| | - Yun-Hsiang Cheng
- Graduate Institute of Medical Science, National Defense Medical Center, Taipei, Taiwan.,Division of Clinical Pathology, Department of Pathology, Tri-Service General Hospital, National Defense Medical Center, Taipei, Taiwan
| | - Hsing-Yi Chung
- Division of Clinical Pathology, Department of Pathology, Tri-Service General Hospital, National Defense Medical Center, Taipei, Taiwan
| | - Yu-Hsuan Cheng
- Division of Clinical Pathology, Department of Pathology, Tri-Service General Hospital, National Defense Medical Center, Taipei, Taiwan
| | - Shih-Yi Lee
- Division of Clinical Microbiology, Department of Pathology and Laboratory Medicine, Taipei Veterans General Hospital, Taipei, Taiwan
| | - Shu-Chen Kuo
- National Institute of Infectious Diseases and Vaccinology, National Health Research Institutes, Zhunan, Taiwan
| | - Hung-Sheng Shang
- Graduate Institute of Medical Science, National Defense Medical Center, Taipei, Taiwan. .,Division of Clinical Pathology, Department of Pathology, Tri-Service General Hospital, National Defense Medical Center, Taipei, Taiwan.
| |
Collapse
|
5
|
Macka M, Piasecki T, Dasgupta PK. Light-emitting diodes for analytical chemistry. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2014; 7:183-207. [PMID: 24818811 DOI: 10.1146/annurev-anchem-071213-020059] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Light-emitting diodes (LEDs) are playing increasingly important roles in analytical chemistry, from the final analysis stage to photoreactors for analyte conversion to actual fabrication of and incorporation in microdevices for analytical use. The extremely fast turn-on/off rates of LEDs have made possible simple approaches to fluorescence lifetime measurement. Although they are increasingly being used as detectors, their wavelength selectivity as detectors has rarely been exploited. From their first proposed use for absorbance measurement in 1970, LEDs have been used in analytical chemistry in too many ways to make a comprehensive review possible. Hence, we critically review here the more recent literature on their use in optical detection and measurement systems. Cloudy as our crystal ball may be, we express our views on the future applications of LEDs in analytical chemistry: The horizon will certainly become wider as LEDs in the deep UV with sufficient intensity become available.
Collapse
Affiliation(s)
- Mirek Macka
- Australian Center for Research on Separation Science and School of Chemistry, University of Tasmania, Hobart, Tasmania 7001, Australia
| | | | | |
Collapse
|
6
|
Németh N, Kerékgyártó M, Sasvári-Székely M, Rónai Z, Guttman A. Rapid identification of human SNAP-25 transcript variants by a miniaturized capillary electrophoresis system. Electrophoresis 2013; 35:379-84. [DOI: 10.1002/elps.201300221] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2013] [Revised: 05/28/2013] [Accepted: 05/29/2013] [Indexed: 12/25/2022]
Affiliation(s)
- Nóra Németh
- Department of Medical Chemistry; Molecular Biology and Pathobiochemistry, Semmelweis University; Budapest Hungary
| | - Márta Kerékgyártó
- Horváth Laboratory of Bioseparation Sciences; University of Debrecen; Debrecen Hungary
| | - Mária Sasvári-Székely
- Department of Medical Chemistry; Molecular Biology and Pathobiochemistry, Semmelweis University; Budapest Hungary
| | - Zsolt Rónai
- Department of Medical Chemistry; Molecular Biology and Pathobiochemistry, Semmelweis University; Budapest Hungary
| | - András Guttman
- Horváth Laboratory of Bioseparation Sciences; University of Debrecen; Debrecen Hungary
- MTA-PE Translational Glycomics Group; University of Pannonia; Veszprém Hungary
| |
Collapse
|
7
|
Ji H, Li M, Guo L, Yuan H, Wang C, Xiao D. Design and evaluation of capillary coupled with optical fiber light-emitting diode induced fluorescence detection for capillary electrophoresis. Electrophoresis 2013; 34:2546-52. [DOI: 10.1002/elps.201300125] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2012] [Revised: 05/06/2013] [Accepted: 05/30/2013] [Indexed: 12/17/2022]
Affiliation(s)
- Hongyun Ji
- College of Chemistry; Sichuan University; Chengdu P. R. China
| | - Meng Li
- College of Chemistry; Sichuan University; Chengdu P. R. China
| | - Lihong Guo
- College of Chemistry; Sichuan University; Chengdu P. R. China
| | - Hongyan Yuan
- College of Chemical Engineering; Sichuan University; Chengdu P. R. China
| | - Chunling Wang
- College of Chemical Engineering; Sichuan University; Chengdu P. R. China
| | - Dan Xiao
- College of Chemistry; Sichuan University; Chengdu P. R. China
- College of Chemical Engineering; Sichuan University; Chengdu P. R. China
| |
Collapse
|
8
|
Kerékgyártó M, Németh N, Kerekes T, Rónai Z, Guttman A. Ultrafast haplotyping of putative microRNA-binding sites in the WFS1 gene by multiplex polymerase chain reaction and capillary gel electrophoresis. J Chromatogr A 2013; 1286:229-34. [DOI: 10.1016/j.chroma.2013.02.062] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/18/2013] [Revised: 02/19/2013] [Accepted: 02/19/2013] [Indexed: 10/27/2022]
|