Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex

The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasoph...
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Autor*in:	Barros, Flavia R.O. [verfasserIn] Leite, Deborah C.A. [verfasserIn] Guimarães, Larissa J. [verfasserIn] Lopes, Juliana M.H. [verfasserIn] Vasconcelos, Marina W. [verfasserIn] Ferreira, Luciane X. [verfasserIn] Gonçalves, Sandrieli [verfasserIn] Pastre, Victor G.F. [verfasserIn] Pereira, Gabriela [verfasserIn] Trentin, Alex B. [verfasserIn] Gabiatti, Naiana C. [verfasserIn] Kuhn, Betty C. [verfasserIn] Perseguini, Juliana M.K.C. [verfasserIn] Wendt, Simone N. [verfasserIn] Ghisi, Nédia C. [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2021

Schlagwörter:	Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19

Übergeordnetes Werk:	Enthalten in: Journal of virological methods - Amsterdam [u.a.] : Elsevier Science, 1980, 300
Übergeordnetes Werk:	volume:300

DOI / URN:	10.1016/j.jviromet.2021.114429

Katalog-ID:	ELV009878270

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520			\|a The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples.
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650		4	\|a Real time PCR
650		4	\|a Molecular diagnostics
650		4	\|a Ct cut-off
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700	1		\|a Leite, Deborah C.A. \|e verfasserin \|4 aut
700	1		\|a Guimarães, Larissa J. \|e verfasserin \|0 (orcid)0000-0003-0450-1673 \|4 aut
700	1		\|a Lopes, Juliana M.H. \|e verfasserin \|4 aut
700	1		\|a Vasconcelos, Marina W. \|e verfasserin \|4 aut
700	1		\|a Ferreira, Luciane X. \|e verfasserin \|4 aut
700	1		\|a Gonçalves, Sandrieli \|e verfasserin \|4 aut
700	1		\|a Pastre, Victor G.F. \|e verfasserin \|4 aut
700	1		\|a Pereira, Gabriela \|e verfasserin \|4 aut
700	1		\|a Trentin, Alex B. \|e verfasserin \|4 aut
700	1		\|a Gabiatti, Naiana C. \|e verfasserin \|4 aut
700	1		\|a Kuhn, Betty C. \|e verfasserin \|4 aut
700	1		\|a Perseguini, Juliana M.K.C. \|e verfasserin \|4 aut
700	1		\|a Wendt, Simone N. \|e verfasserin \|4 aut
700	1		\|a Ghisi, Nédia C. \|e verfasserin \|0 (orcid)0000-0001-7616-1618 \|4 aut
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912			\|a GBV_ILN_23
912			\|a GBV_ILN_24
912			\|a GBV_ILN_31
912			\|a GBV_ILN_32
912			\|a GBV_ILN_40
912			\|a GBV_ILN_60
912			\|a GBV_ILN_62
912			\|a GBV_ILN_63
912			\|a GBV_ILN_65
912			\|a GBV_ILN_69
912			\|a GBV_ILN_70
912			\|a GBV_ILN_73
912			\|a GBV_ILN_74
912			\|a GBV_ILN_90
912			\|a GBV_ILN_95
912			\|a GBV_ILN_100
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912			\|a GBV_ILN_110
912			\|a GBV_ILN_151
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912			\|a GBV_ILN_252
912			\|a GBV_ILN_370
912			\|a GBV_ILN_602
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912			\|a GBV_ILN_2003
912			\|a GBV_ILN_2004
912			\|a GBV_ILN_2005
912			\|a GBV_ILN_2011
912			\|a GBV_ILN_2014
912			\|a GBV_ILN_2015
912			\|a GBV_ILN_2020
912			\|a GBV_ILN_2021
912			\|a GBV_ILN_2025
912			\|a GBV_ILN_2027
912			\|a GBV_ILN_2034
912			\|a GBV_ILN_2038
912			\|a GBV_ILN_2044
912			\|a GBV_ILN_2048
912			\|a GBV_ILN_2049
912			\|a GBV_ILN_2050
912			\|a GBV_ILN_2056
912			\|a GBV_ILN_2059
912			\|a GBV_ILN_2061
912			\|a GBV_ILN_2064
912			\|a GBV_ILN_2065
912			\|a GBV_ILN_2068
912			\|a GBV_ILN_2111
912			\|a GBV_ILN_2112
912			\|a GBV_ILN_2113
912			\|a GBV_ILN_2118
912			\|a GBV_ILN_2122
912			\|a GBV_ILN_2129
912			\|a GBV_ILN_2143
912			\|a GBV_ILN_2147
912			\|a GBV_ILN_2148
912			\|a GBV_ILN_2152
912			\|a GBV_ILN_2153
912			\|a GBV_ILN_2190
912			\|a GBV_ILN_2336
912			\|a GBV_ILN_2507
912			\|a GBV_ILN_2522
912			\|a GBV_ILN_4035
912			\|a GBV_ILN_4037
912			\|a GBV_ILN_4112
912			\|a GBV_ILN_4125
912			\|a GBV_ILN_4126
912			\|a GBV_ILN_4242
912			\|a GBV_ILN_4251
912			\|a GBV_ILN_4305
912			\|a GBV_ILN_4313
912			\|a GBV_ILN_4323
912			\|a GBV_ILN_4324
912			\|a GBV_ILN_4325
912			\|a GBV_ILN_4326
912			\|a GBV_ILN_4333
912			\|a GBV_ILN_4334
912			\|a GBV_ILN_4335
912			\|a GBV_ILN_4338
912			\|a GBV_ILN_4393
936	b	k	\|a 44.43 \|j Medizinische Mikrobiologie \|q VZ
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publishDate	2021
allfields	10.1016/j.jviromet.2021.114429 doi (DE-627)ELV009878270 (ELSEVIER)S0166-0934(21)00368-2 DE-627 ger DE-627 rda eng 610 VZ 44.43 bkl Barros, Flavia R.O. verfasserin (orcid)0000-0003-0011-7631 aut Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex 2021 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples. Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19 Leite, Deborah C.A. verfasserin aut Guimarães, Larissa J. verfasserin (orcid)0000-0003-0450-1673 aut Lopes, Juliana M.H. verfasserin aut Vasconcelos, Marina W. verfasserin aut Ferreira, Luciane X. verfasserin aut Gonçalves, Sandrieli verfasserin aut Pastre, Victor G.F. verfasserin aut Pereira, Gabriela verfasserin aut Trentin, Alex B. verfasserin aut Gabiatti, Naiana C. verfasserin aut Kuhn, Betty C. verfasserin aut Perseguini, Juliana M.K.C. verfasserin aut Wendt, Simone N. verfasserin aut Ghisi, Nédia C. verfasserin (orcid)0000-0001-7616-1618 aut Enthalten in Journal of virological methods Amsterdam [u.a.] : Elsevier Science, 1980 300 Online-Ressource (DE-627)320466299 (DE-600)2007929-1 (DE-576)120883554 1879-0984 nnns volume:300 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_252 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 44.43 Medizinische Mikrobiologie VZ AR 300
spelling	10.1016/j.jviromet.2021.114429 doi (DE-627)ELV009878270 (ELSEVIER)S0166-0934(21)00368-2 DE-627 ger DE-627 rda eng 610 VZ 44.43 bkl Barros, Flavia R.O. verfasserin (orcid)0000-0003-0011-7631 aut Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex 2021 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples. Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19 Leite, Deborah C.A. verfasserin aut Guimarães, Larissa J. verfasserin (orcid)0000-0003-0450-1673 aut Lopes, Juliana M.H. verfasserin aut Vasconcelos, Marina W. verfasserin aut Ferreira, Luciane X. verfasserin aut Gonçalves, Sandrieli verfasserin aut Pastre, Victor G.F. verfasserin aut Pereira, Gabriela verfasserin aut Trentin, Alex B. verfasserin aut Gabiatti, Naiana C. verfasserin aut Kuhn, Betty C. verfasserin aut Perseguini, Juliana M.K.C. verfasserin aut Wendt, Simone N. verfasserin aut Ghisi, Nédia C. verfasserin (orcid)0000-0001-7616-1618 aut Enthalten in Journal of virological methods Amsterdam [u.a.] : Elsevier Science, 1980 300 Online-Ressource (DE-627)320466299 (DE-600)2007929-1 (DE-576)120883554 1879-0984 nnns volume:300 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_252 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 44.43 Medizinische Mikrobiologie VZ AR 300
allfields_unstemmed	10.1016/j.jviromet.2021.114429 doi (DE-627)ELV009878270 (ELSEVIER)S0166-0934(21)00368-2 DE-627 ger DE-627 rda eng 610 VZ 44.43 bkl Barros, Flavia R.O. verfasserin (orcid)0000-0003-0011-7631 aut Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex 2021 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples. Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19 Leite, Deborah C.A. verfasserin aut Guimarães, Larissa J. verfasserin (orcid)0000-0003-0450-1673 aut Lopes, Juliana M.H. verfasserin aut Vasconcelos, Marina W. verfasserin aut Ferreira, Luciane X. verfasserin aut Gonçalves, Sandrieli verfasserin aut Pastre, Victor G.F. verfasserin aut Pereira, Gabriela verfasserin aut Trentin, Alex B. verfasserin aut Gabiatti, Naiana C. verfasserin aut Kuhn, Betty C. verfasserin aut Perseguini, Juliana M.K.C. verfasserin aut Wendt, Simone N. verfasserin aut Ghisi, Nédia C. verfasserin (orcid)0000-0001-7616-1618 aut Enthalten in Journal of virological methods Amsterdam [u.a.] : Elsevier Science, 1980 300 Online-Ressource (DE-627)320466299 (DE-600)2007929-1 (DE-576)120883554 1879-0984 nnns volume:300 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_252 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 44.43 Medizinische Mikrobiologie VZ AR 300
allfieldsGer	10.1016/j.jviromet.2021.114429 doi (DE-627)ELV009878270 (ELSEVIER)S0166-0934(21)00368-2 DE-627 ger DE-627 rda eng 610 VZ 44.43 bkl Barros, Flavia R.O. verfasserin (orcid)0000-0003-0011-7631 aut Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex 2021 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples. Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19 Leite, Deborah C.A. verfasserin aut Guimarães, Larissa J. verfasserin (orcid)0000-0003-0450-1673 aut Lopes, Juliana M.H. verfasserin aut Vasconcelos, Marina W. verfasserin aut Ferreira, Luciane X. verfasserin aut Gonçalves, Sandrieli verfasserin aut Pastre, Victor G.F. verfasserin aut Pereira, Gabriela verfasserin aut Trentin, Alex B. verfasserin aut Gabiatti, Naiana C. verfasserin aut Kuhn, Betty C. verfasserin aut Perseguini, Juliana M.K.C. verfasserin aut Wendt, Simone N. verfasserin aut Ghisi, Nédia C. verfasserin (orcid)0000-0001-7616-1618 aut Enthalten in Journal of virological methods Amsterdam [u.a.] : Elsevier Science, 1980 300 Online-Ressource (DE-627)320466299 (DE-600)2007929-1 (DE-576)120883554 1879-0984 nnns volume:300 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_252 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 44.43 Medizinische Mikrobiologie VZ AR 300
allfieldsSound	10.1016/j.jviromet.2021.114429 doi (DE-627)ELV009878270 (ELSEVIER)S0166-0934(21)00368-2 DE-627 ger DE-627 rda eng 610 VZ 44.43 bkl Barros, Flavia R.O. verfasserin (orcid)0000-0003-0011-7631 aut Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex 2021 nicht spezifiziert zzz rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples. Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19 Leite, Deborah C.A. verfasserin aut Guimarães, Larissa J. verfasserin (orcid)0000-0003-0450-1673 aut Lopes, Juliana M.H. verfasserin aut Vasconcelos, Marina W. verfasserin aut Ferreira, Luciane X. verfasserin aut Gonçalves, Sandrieli verfasserin aut Pastre, Victor G.F. verfasserin aut Pereira, Gabriela verfasserin aut Trentin, Alex B. verfasserin aut Gabiatti, Naiana C. verfasserin aut Kuhn, Betty C. verfasserin aut Perseguini, Juliana M.K.C. verfasserin aut Wendt, Simone N. verfasserin aut Ghisi, Nédia C. verfasserin (orcid)0000-0001-7616-1618 aut Enthalten in Journal of virological methods Amsterdam [u.a.] : Elsevier Science, 1980 300 Online-Ressource (DE-627)320466299 (DE-600)2007929-1 (DE-576)120883554 1879-0984 nnns volume:300 GBV_USEFLAG_U SYSFLAG_U GBV_ELV SSG-OLC-PHA GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_32 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_90 GBV_ILN_95 GBV_ILN_100 GBV_ILN_101 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_224 GBV_ILN_252 GBV_ILN_370 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2056 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2065 GBV_ILN_2068 GBV_ILN_2111 GBV_ILN_2112 GBV_ILN_2113 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2336 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4242 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4313 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4338 GBV_ILN_4393 44.43 Medizinische Mikrobiologie VZ AR 300
language	English
source	Enthalten in Journal of virological methods 300 volume:300
sourceStr	Enthalten in Journal of virological methods 300 volume:300
format_phy_str_mv	Article
bklname	Medizinische Mikrobiologie
institution	findex.gbv.de
topic_facet	Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19
dewey-raw	610
isfreeaccess_bool	false
container_title	Journal of virological methods
authorswithroles_txt_mv	Barros, Flavia R.O. @@aut@@ Leite, Deborah C.A. @@aut@@ Guimarães, Larissa J. @@aut@@ Lopes, Juliana M.H. @@aut@@ Vasconcelos, Marina W. @@aut@@ Ferreira, Luciane X. @@aut@@ Gonçalves, Sandrieli @@aut@@ Pastre, Victor G.F. @@aut@@ Pereira, Gabriela @@aut@@ Trentin, Alex B. @@aut@@ Gabiatti, Naiana C. @@aut@@ Kuhn, Betty C. @@aut@@ Perseguini, Juliana M.K.C. @@aut@@ Wendt, Simone N. @@aut@@ Ghisi, Nédia C. @@aut@@
publishDateDaySort_date	2021-01-01T00:00:00Z
hierarchy_top_id	320466299
dewey-sort	3610
id	ELV009878270
language_de	englisch
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author	Barros, Flavia R.O.
spellingShingle	Barros, Flavia R.O. ddc 610 bkl 44.43 misc Coronavirus misc Real time PCR misc Molecular diagnostics misc Ct cut-off misc COVID-19 Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex
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topic_title	610 VZ 44.43 bkl Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex Coronavirus Real time PCR Molecular diagnostics Ct cut-off COVID-19
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title	Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex
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title_full	Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex
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author_browse	Barros, Flavia R.O. Leite, Deborah C.A. Guimarães, Larissa J. Lopes, Juliana M.H. Vasconcelos, Marina W. Ferreira, Luciane X. Gonçalves, Sandrieli Pastre, Victor G.F. Pereira, Gabriela Trentin, Alex B. Gabiatti, Naiana C. Kuhn, Betty C. Perseguini, Juliana M.K.C. Wendt, Simone N. Ghisi, Nédia C.
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title_sort	performance of rt-qpcr detection of sars-cov-2 in unextracted nasopharyngeal samples using the seegene allplex
title_auth	Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex
abstract	The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples.
abstractGer	The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples.
abstract_unstemmed	The rapid spread of the Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) has led the world to a pandemic. Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). This study demonstrates that the Seegene Allplex™ 2019-nCoV protocol skipping the viral RNA extraction step using the Ct cut-off of 35 is a rapid and efficient method to detect SARS-CoV-2 in nasopharyngeal samples.
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title_short	Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex
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author2	Leite, Deborah C.A. Guimarães, Larissa J. Lopes, Juliana M.H. Vasconcelos, Marina W. Ferreira, Luciane X. Gonçalves, Sandrieli Pastre, Victor G.F. Pereira, Gabriela Trentin, Alex B. Gabiatti, Naiana C. Kuhn, Betty C. Perseguini, Juliana M.K.C. Wendt, Simone N. Ghisi, Nédia C.
author2Str	Leite, Deborah C.A. Guimarães, Larissa J. Lopes, Juliana M.H. Vasconcelos, Marina W. Ferreira, Luciane X. Gonçalves, Sandrieli Pastre, Victor G.F. Pereira, Gabriela Trentin, Alex B. Gabiatti, Naiana C. Kuhn, Betty C. Perseguini, Juliana M.K.C. Wendt, Simone N. Ghisi, Nédia C.
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up_date	2024-07-07T00:39:58.533Z
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Therefore, rapid, sensitive, and reproducible diagnostic tests are essential to indicate which measures should be taken during pandemics. We retrospectively tested unextracted nasopharyngeal samples from consecutive patients with suspected SARS-CoV-2 infection (n = 334), and compared two different Ct cut-off values for interpretation of results using a modified Allplex protocol. Its performance was evaluated using the USA Centers for Disease Control and Prevention (CDC) as reference. The reduction on Ct cut-off to 35 increased the test NPA from 79.65 to 88.00 %, reducing the number of false positives, from 10.48 to 6.29 %, resulting in an almost perfect agreement between the Allplex and the CDC protocol (Cohen’s Kappa coefficient = 0.830 ± 0.032). 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Performance of RT-qPCR detection of SARS-CoV-2 in unextracted nasopharyngeal samples using the Seegene Allplex

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