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Kobayashi GS, Brito LA, Moreira DDP, Suzuki AM, Hsia GSP, Pimentel LF, de Paiva APB, Dias CR, Lourenço NCV, Oliveira BA, Manuli ER, Corral MA, Cavaçana N, Mitne-Neto M, Sales MM, Dell’ Aquila LP, Filho AR, Parrillo EF, Mendes-Corrêa MC, Sabino EC, Costa SF, Leal FE, Sgro GG, Farah CS, Zatz M, Passos-Bueno MR. A Novel Saliva RT-LAMP Workflow for Rapid Identification of COVID-19 Cases and Restraining Viral Spread. Diagnostics (Basel) 2021; 11:1400. [PMID: 34441334 PMCID: PMC8391450 DOI: 10.3390/diagnostics11081400] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2021] [Revised: 06/25/2021] [Accepted: 07/16/2021] [Indexed: 12/19/2022] Open
Abstract
Rapid diagnostics is pivotal to curb SARS-CoV-2 transmission, and saliva has emerged as a practical alternative to naso/oropharyngeal (NOP) specimens. We aimed to develop a direct RT-LAMP (reverse transcription loop-mediated isothermal amplification) workflow for viral detection in saliva, and to provide more information regarding its potential in curbing COVID-19 transmission. Clinical and contrived specimens were used to optimize formulations and sample processing protocols. Salivary viral load was determined in symptomatic patients to evaluate the clinical performance of the test and to characterize saliva based on age, gender and time from onset of symptoms. Our workflow achieved an overall sensitivity of 77.2% (n = 90), with 93.2% sensitivity, 97% specificity, and 0.895 Kappa for specimens containing >102 copies/μL (n = 77). Further analyses in saliva showed that viral load peaks in the first days of symptoms and decreases afterwards, and that viral load is ~10 times lower in females compared to males, and declines following symptom onset. NOP RT-PCR data did not yield relevant associations. This work suggests that saliva reflects the transmission dynamics better than NOP specimens, and reveals gender differences that may reflect higher transmission by males. This saliva RT-LAMP workflow can be applied to track viral spread and, to maximize detection, testing should be performed immediately after symptoms are presented, especially in females.
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Affiliation(s)
- Gerson Shigeru Kobayashi
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Luciano Abreu Brito
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Danielle de Paula Moreira
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Angela May Suzuki
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Gabriella Shih Ping Hsia
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Lylyan Fragoso Pimentel
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Ana Paula Barreto de Paiva
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Carolina Regoli Dias
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Naila Cristina Vilaça Lourenço
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Beatriz Araujo Oliveira
- Instituto de Medicina Tropical, Universidade de São Paulo (USP), São Paulo 05403-000, Brazil; (B.A.O.); (E.R.M.); (M.C.M.-C.); (E.C.S.); (S.F.C.)
| | - Erika Regina Manuli
- Instituto de Medicina Tropical, Universidade de São Paulo (USP), São Paulo 05403-000, Brazil; (B.A.O.); (E.R.M.); (M.C.M.-C.); (E.C.S.); (S.F.C.)
| | - Marcelo Andreetta Corral
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Natale Cavaçana
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Miguel Mitne-Neto
- Grupo Fleury, Research and Development, São Paulo 04344-070, Brazil;
| | - Maria Mirtes Sales
- Instituto de Ensino e Pesquisa Prevent Senior, São Paulo 04547-100, Brazil; (M.M.S.); (L.P.D.A.); (A.R.F.); (E.F.P.)
| | - Luiz Phellipe Dell’ Aquila
- Instituto de Ensino e Pesquisa Prevent Senior, São Paulo 04547-100, Brazil; (M.M.S.); (L.P.D.A.); (A.R.F.); (E.F.P.)
| | - Alvaro Razuk Filho
- Instituto de Ensino e Pesquisa Prevent Senior, São Paulo 04547-100, Brazil; (M.M.S.); (L.P.D.A.); (A.R.F.); (E.F.P.)
| | - Eduardo Fagundes Parrillo
- Instituto de Ensino e Pesquisa Prevent Senior, São Paulo 04547-100, Brazil; (M.M.S.); (L.P.D.A.); (A.R.F.); (E.F.P.)
| | - Maria Cássia Mendes-Corrêa
- Instituto de Medicina Tropical, Universidade de São Paulo (USP), São Paulo 05403-000, Brazil; (B.A.O.); (E.R.M.); (M.C.M.-C.); (E.C.S.); (S.F.C.)
| | - Ester Cerdeira Sabino
- Instituto de Medicina Tropical, Universidade de São Paulo (USP), São Paulo 05403-000, Brazil; (B.A.O.); (E.R.M.); (M.C.M.-C.); (E.C.S.); (S.F.C.)
| | - Silvia Figueiredo Costa
- Instituto de Medicina Tropical, Universidade de São Paulo (USP), São Paulo 05403-000, Brazil; (B.A.O.); (E.R.M.); (M.C.M.-C.); (E.C.S.); (S.F.C.)
| | - Fabio Eudes Leal
- Faculdade de Medicina, Universidade Municipal de São Caetano do Sul (USCS), São Paulo 09521-160, Brazil;
| | - Germán Gustavo Sgro
- Instituto de Química, Universidade de São Paulo (USP), São Paulo 05508-000, Brazil; (G.G.S.); (C.S.F.)
- Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo, Ribeirão Preto 14040-903, Brazil
| | - Chuck Shaker Farah
- Instituto de Química, Universidade de São Paulo (USP), São Paulo 05508-000, Brazil; (G.G.S.); (C.S.F.)
| | - Mayana Zatz
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
| | - Maria Rita Passos-Bueno
- Centro de Pesquisa Sobre o Genoma Humano e Células-Tronco (HUG-CELL), Instituto de Biociências, Universidade de São Paulo (USP), São Paulo 05508-090, Brazil; (L.A.B.); (D.d.P.M.); (A.M.S.); (G.S.P.H.); (L.F.P.); (A.P.B.d.P.); (C.R.D.); (N.C.V.L.); (M.A.C.); (N.C.); (M.Z.)
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Abstract
The permeation properties of a series of membranes of cellulose esters, presenting a wide range of characteristics, were studied and correlated to the structure of water in the pores, to the polymer hydrophilicity/hydrophobicity, and to the morphology of the surface of the active layer. Asymmetric membranes of cellulose acetate, cellulose acetate propionate, and cellulose acetate butyrate were prepared by the phase inversion method and their preferential permeation performance tested. The surface morphology and the structure of the water in the pores of the active layer were studied by atomic force microscopy (AFM) and attenuated total reflectance Fourier transform infrared (ATR-FTIR) spectroscopy, respectively. Results show that higher rejection to NaCl and low fluxes are generally associated with smaller clusters of water in the pores. On the other hand, the surface of the membranes presenting smaller clusters of water in the active layer show generally surfaces with lower roughness as measured by AFM.
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Affiliation(s)
- D F Stamatialis
- Department of Chemical Engineering, Instituto Superior Técnico, Av. Rovisco Pais, 1049-001 Lisbon, Portugal
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Silveira H, Dias CR, do Rosario VE. Single strand conformational polymorphism evaluation for the identification of TH3R alleles of the circumsporozoite protein gene of Plasmodium falciparum. Parassitologia 2001; 43:155-7. [PMID: 12402522] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Subscribe] [Scholar Register] [Indexed: 04/19/2023]
Abstract
Highly polymorphic regions of the circumsporozoite protein (CSP) of Plasmodium falciparum are associated with cellular immune responses. One of these regions, the TH3R polymorfic region of the csp gene codes for known T-cell epitopes. The present study tested the use of SSCP to determine sequence variations of the TH3R regions of four clones of P. falciparum (3D7, HB3, Dd2 and K1) which are known to have different TH3R regions. Single-strand conformation polymorphism (SSCP) technique was performed on amplified products labelled with fluorescent primer (both strands) and electrophoresed in an automated sequencer. Various gel compositions and electrophoresis conditions were tested. Even if some electrophoretogram differences were observed between clones, they could not distinguish between the alleles.
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Affiliation(s)
- H Silveira
- Centro de Malária e Outras Doenças Tropicais, UEI Malária, Instituto de Higiene e Medicina Tropical, Universidade Nova de Lisboa, Rua da Junqueira 96, 1349-008 Lisbon, Portugal.
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