A quantitative reverse transcription-polymerase chain reaction for detection of Getah virus
Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV infection is essential for timely implementation of disease prevention and control interventions. Thus, a rapid and accurate nucleic acid detection...
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Published in | Scientific reports Vol. 8; no. 1; pp. 17632 - 7 |
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Main Authors | , , , , , , , , |
Format | Journal Article |
Language | English |
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Nature Publishing Group UK
05.12.2018
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Abstract | Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV infection is essential for timely implementation of disease prevention and control interventions. Thus, a rapid and accurate nucleic acid detection method for GETV is highly needed. Here, two TaqMan minor groove binding (MGB) probe-based quantitative reverse transcription-polymerase chain reaction (qRT-PCR) assays were developed. The qRT-PCR primers and TaqMan MGB probe were designed based on the conserved region of nsP1 and nsP2 genes of 23 GETV genome sequences retrieved from GenBank. Only the qRT-PCR assay using nsP2-specific primers and probe detected all two Malaysia GETV strains (MM2021 and B254) without cross-reacting with other closely related arboviruses. The qRT-PCR assay detected as few as 10 copies of GETV RNA, but its detection limit at the 95% probability level was 63.25 GETV genome copies (probit analysis,
P
≤ 0.05). Further validation of the qRT-PCR assay using 16 spiked simulated clinical specimens showed 100% for both sensitivity and specificity. In conclusion, the qRT-PCR assay developed in this study is useful for rapid, sensitive and specific detection and quantification of GETV. |
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AbstractList | Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV infection is essential for timely implementation of disease prevention and control interventions. Thus, a rapid and accurate nucleic acid detection method for GETV is highly needed. Here, two TaqMan minor groove binding (MGB) probe-based quantitative reverse transcription-polymerase chain reaction (qRT-PCR) assays were developed. The qRT-PCR primers and TaqMan MGB probe were designed based on the conserved region of nsP1 and nsP2 genes of 23 GETV genome sequences retrieved from GenBank. Only the qRT-PCR assay using nsP2-specific primers and probe detected all two Malaysia GETV strains (MM2021 and B254) without cross-reacting with other closely related arboviruses. The qRT-PCR assay detected as few as 10 copies of GETV RNA, but its detection limit at the 95% probability level was 63.25 GETV genome copies (probit analysis, P ≤ 0.05). Further validation of the qRT-PCR assay using 16 spiked simulated clinical specimens showed 100% for both sensitivity and specificity. In conclusion, the qRT-PCR assay developed in this study is useful for rapid, sensitive and specific detection and quantification of GETV. Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV infection is essential for timely implementation of disease prevention and control interventions. Thus, a rapid and accurate nucleic acid detection method for GETV is highly needed. Here, two TaqMan minor groove binding (MGB) probe-based quantitative reverse transcription-polymerase chain reaction (qRT-PCR) assays were developed. The qRT-PCR primers and TaqMan MGB probe were designed based on the conserved region of nsP1 and nsP2 genes of 23 GETV genome sequences retrieved from GenBank. Only the qRT-PCR assay using nsP2-specific primers and probe detected all two Malaysia GETV strains (MM2021 and B254) without cross-reacting with other closely related arboviruses. The qRT-PCR assay detected as few as 10 copies of GETV RNA, but its detection limit at the 95% probability level was 63.25 GETV genome copies (probit analysis, P ≤ 0.05). Further validation of the qRT-PCR assay using 16 spiked simulated clinical specimens showed 100% for both sensitivity and specificity. In conclusion, the qRT-PCR assay developed in this study is useful for rapid, sensitive and specific detection and quantification of GETV.Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV infection is essential for timely implementation of disease prevention and control interventions. Thus, a rapid and accurate nucleic acid detection method for GETV is highly needed. Here, two TaqMan minor groove binding (MGB) probe-based quantitative reverse transcription-polymerase chain reaction (qRT-PCR) assays were developed. The qRT-PCR primers and TaqMan MGB probe were designed based on the conserved region of nsP1 and nsP2 genes of 23 GETV genome sequences retrieved from GenBank. Only the qRT-PCR assay using nsP2-specific primers and probe detected all two Malaysia GETV strains (MM2021 and B254) without cross-reacting with other closely related arboviruses. The qRT-PCR assay detected as few as 10 copies of GETV RNA, but its detection limit at the 95% probability level was 63.25 GETV genome copies (probit analysis, P ≤ 0.05). Further validation of the qRT-PCR assay using 16 spiked simulated clinical specimens showed 100% for both sensitivity and specificity. In conclusion, the qRT-PCR assay developed in this study is useful for rapid, sensitive and specific detection and quantification of GETV. Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV infection is essential for timely implementation of disease prevention and control interventions. Thus, a rapid and accurate nucleic acid detection method for GETV is highly needed. Here, two TaqMan minor groove binding (MGB) probe-based quantitative reverse transcription-polymerase chain reaction (qRT-PCR) assays were developed. The qRT-PCR primers and TaqMan MGB probe were designed based on the conserved region of nsP1 and nsP2 genes of 23 GETV genome sequences retrieved from GenBank. Only the qRT-PCR assay using nsP2-specific primers and probe detected all two Malaysia GETV strains (MM2021 and B254) without cross-reacting with other closely related arboviruses. The qRT-PCR assay detected as few as 10 copies of GETV RNA, but its detection limit at the 95% probability level was 63.25 GETV genome copies (probit analysis, P ≤ 0.05). Further validation of the qRT-PCR assay using 16 spiked simulated clinical specimens showed 100% for both sensitivity and specificity. In conclusion, the qRT-PCR assay developed in this study is useful for rapid, sensitive and specific detection and quantification of GETV. |
ArticleNumber | 17632 |
Author | Mohamed-Romai-Noor, Noor-Adila Teoh, Boon-Teong AbuBakar, Sazaly Sam, Sing-Sin Abd-Jamil, Juraina Tan, Kim-Kee Khor, Chee-Sieng Chee, Cheah-Mun Loong, Shih-Keng |
Author_xml | – sequence: 1 givenname: Sing-Sin surname: Sam fullname: Sam, Sing-Sin organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 2 givenname: Boon-Teong surname: Teoh fullname: Teoh, Boon-Teong organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 3 givenname: Cheah-Mun surname: Chee fullname: Chee, Cheah-Mun organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 4 givenname: Noor-Adila surname: Mohamed-Romai-Noor fullname: Mohamed-Romai-Noor, Noor-Adila organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 5 givenname: Juraina surname: Abd-Jamil fullname: Abd-Jamil, Juraina organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 6 givenname: Shih-Keng surname: Loong fullname: Loong, Shih-Keng organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 7 givenname: Chee-Sieng surname: Khor fullname: Khor, Chee-Sieng organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 8 givenname: Kim-Kee orcidid: 0000-0002-5816-9146 surname: Tan fullname: Tan, Kim-Kee organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya – sequence: 9 givenname: Sazaly surname: AbuBakar fullname: AbuBakar, Sazaly email: sazaly@um.edu.my organization: Tropical Infectious Diseases Research and Education Centre (TIDREC), University of Malaya, Department of Medical Microbiology, Faculty of Medicine, University of Malaya |
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CitedBy_id | crossref_primary_10_1186_s12879_020_05585_4 crossref_primary_10_1007_s00705_022_05631_3 crossref_primary_10_1261_rna_079323_122 crossref_primary_10_1089_vbz_2018_2434 crossref_primary_10_1016_j_talanta_2022_123714 crossref_primary_10_1016_j_onehlt_2020_100134 crossref_primary_10_1128_jvi_01751_21 crossref_primary_10_1038_s41598_021_99734_7 crossref_primary_10_1016_j_mcp_2021_101730 crossref_primary_10_1016_j_heliyon_2024_e33432 crossref_primary_10_3389_fvets_2022_839443 crossref_primary_10_3390_ani14162309 crossref_primary_10_1128_jvi_00591_23 crossref_primary_10_3389_fmicb_2022_1009610 crossref_primary_10_3390_v14050942 |
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Keywords | Plaque Forming Units Per Ml (PFU/ml) Alphavirus Simulated Clinical Samples Getah Virus (GETV) Nsp2 Gene |
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Serological evidence of human infectionSoutheast Asian J Trop Med Public Health19801114231:STN:280:DyaL3c3lvVOnsw%3D%3D7403943 ShiNingLiuHaoLiLi-xiaHuBoZhangLeiZhaoChuan-fangDengXiao-yuLiXin-tongXueXiang-hongBaiXueZhangHai-lingLuRong-guangLianShi-zhenWangYangYanMing-haoYanXi-junDevelopment of a TaqMan probe-based quantitative reverse transcription PCR assay for detection of Getah virus RNAArchives of Virology201816310287728811:CAS:528:DC%2BC1cXhtlSru7bL10.1007/s00705-018-3927-2 SentsuiHKonoYAn epidemic of Getah virus infection among racehorses: isolation of the virusRes Vet Sci1980291571611:STN:280:DyaL3M7isFGgtg%3D%3D10.1016/S0034-5288(18)32657-2 KamadaMIntranasal infection of Getah virus in experimental horsesJ Vet Med Sci1991538558581:STN:280:DyaK38%2FovFaktg%3D%3D10.1292/jvms.53.855 SentsuiHKonoYReappearance of Getah virus infection among horses in JapanNihon Juigaku Zasshi1985473333351:STN:280:DyaL2M3jvVCrtw%3D%3D10.1292/jvms1939.47.333 NJ Marchette (36043_CR11) 1978; 9 CM Brown (36043_CR15) 1998; 30 36043_CR1 NJ Marchette (36043_CR10) 1980; 11 YY Li (36043_CR6) 2017; 30 H Bannai (36043_CR18) 2015; 53 H Imagawa (36043_CR17) 1981; 43 M Nemoto (36043_CR20) 2015; 21 Y Fukunaga (36043_CR23) 2000; 16 H Sentsui (36043_CR14) 1985; 47 R Wada (36043_CR24) 1982; 44 Y Kono (36043_CR12) 1980; 29 H Kawamura (36043_CR21) 1987; 49 H Bannai (36043_CR19) 2016; 12 C Chastel (36043_CR2) 1966; 26 Y Yao (36043_CR31) 2006; 20 H Bannai (36043_CR26) 2017; 13 SN Wekesa (36043_CR29) 2001; 83 SH Lee (36043_CR28) 2017; 57 XD Li (36043_CR9) 1992; 23 T Yang (36043_CR22) 2018; 65 M Kamada (36043_CR25) 1991; 53 TG Ksiazek (36043_CR4) 1981; 75 D Dong (36043_CR27) 2012; 27 HJ Seo (36043_CR7) 2012; 56 M Kamada (36043_CR16) 1980; 29 IV Kutyavin (36043_CR30) 2000; 28 H Sentsui (36043_CR13) 1980; 29 DI Simpson (36043_CR8) 1975; 69 Y Feng (36043_CR3) 2012; 65 T Kumanomido (36043_CR5) 1986; 48 Ning Shi (36043_CR32) 2018; 163 22627302 - Jpn J Infect Dis. 2012;65(3):215-21 11557154 - Vet Microbiol. 2001 Nov 8;83(2):137-46 34888 - Southeast Asian J Trop Med Public Health. 1978 Sep;9(3):317-29 6254385 - Am J Trop Med Hyg. 1980 Sep;29(5):984-8 238314 - Trans R Soc Trop Med Hyg. 1975;69(1):35-8 22684472 - Virol Sin. 2012 Jun;27(3):179-86 29987379 - Arch Virol. 2018 Jul 9;:null 23043609 - Acta Virol. 2012;56(3):265-7 29575687 - Transbound Emerg Dis. 2018 Jun;65(3):632-637 1661175 - J Vet Med Sci. 1991 Oct;53(5):855-8 10606668 - Nucleic Acids Res. 2000 Jan 15;28(2):655-61 28629406 - BMC Vet Res. 2017 Jun 19;13(1):187 1338481 - Southeast Asian J Trop Med Public Health. 1992 Dec;23(4):730-4 5919700 - Med Trop (Mars). 1966 Jul-Aug;26(4):391-400 2828730 - Nihon Juigaku Zasshi. 1987 Dec;49(6):1003-7 28427491 - Biomed Environ Sci. 2017 Mar;30(3):210-214 25898181 - Emerg Infect Dis. 2015 May;21(5):883-5 16704921 - Mol Cell Probes. 2006 Oct;20(5):311-6 6258205 - Res Vet Sci. 1980 Sep;29(2):162-7 9760716 - Trop Anim Health Prod. 1998 Aug;30(4):241-52 7403943 - Southeast Asian J Trop Med Public Health. 1980 Mar;11(1):14-23 25972425 - J Clin Microbiol. 2015 Jul;53(7):2286-91 6117960 - Trans R Soc Trop Med Hyg. 1981;75(2):312-3 6258204 - Res Vet Sci. 1980 Sep;29(2):157-61 11219353 - Vet Clin North Am Equine Pract. 2000 Dec;16(3):605-17 2989599 - Nihon Juigaku Zasshi. 1985 Apr;47(2):333-5 2881021 - Nihon Juigaku Zasshi. 1986 Dec;48(6):1191-7 6290732 - Nihon Juigaku Zasshi. 1982 Jun;44(3):411-8 6283217 - Nihon Juigaku Zasshi. 1981 Dec;43(6):797-802 27286658 - BMC Vet Res. 2016 Jun 10;12:98 |
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Snippet | Getah virus (GETV), a mosquito-borne alphavirus, is an emerging animal pathogen causing outbreaks among racehorses and pigs. Early detection of the GETV... |
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SubjectTerms | 13 13/106 45/90 631/326/2521 631/326/596/1282 Genomes Humanities and Social Sciences multidisciplinary Nucleic acids Outbreaks Polymerase chain reaction Primers Reverse transcription Ribonucleic acid RNA Science Science (multidisciplinary) |
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Title | A quantitative reverse transcription-polymerase chain reaction for detection of Getah virus |
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