Candido, Darlan S.1; Claro, Ingra M.2, 3; de Jesus, Jaqueline G.4, 5; Souza, William M.6, 7; Moreira, Filipe R. R.8, 9; Dellicour, Simon10, 11; Mellan, Thomas A.12, 13; du Plessis, Louis14, 15; Pereira, Rafael H. M.16, 17; Sales, Flavia C. S.18, 19; Manuli, Erika R.20, 21; Thézé, Julien22, 23; Almeida, Luiz24, 25; Menezes, Mariane T.26, 27; Voloch, Carolina M.28, 29; Fumagalli, Marcilio J.30, 31; Coletti, Thaís M.32, 33; da Silva, Camila A. M.34, 35; Ramundo, Mariana S.36, 37; Amorim, Mariene R.38, 39; Hoeltgebaum, Henrique H.40, 41; Mishra, Swapnil42, 43; Gill, Mandev S.44, 45; Carvalho, Luiz M.46, 47; Buss, Lewis F.48, 49; Prete, Carlos A.50, 51; Ashworth, Jordan52, 53; Nakaya, Helder I.54, 55; Peixoto, Pedro S.56, 57; Brady, Oliver J.58, 59; Nicholls, Samuel M.60, 61; Tanuri, Amilcar62; Rossi, Átila D.63; Braga, Carlos K.V.64; Gerber, Alexandra L.65; de C. Guimarães, Ana Paula66; Gaburo, Nelson67; Alencar, Cecila Salete68; Ferreira, Alessandro C.S.69; Lima, Cristiano X.70; Levi, José Eduardo71; Granato, Celso72; Ferreira, Giulia M.73; Francisco, Ronaldo S.74; Granja, Fabiana75; Garcia, Marcia T.76; Moretti, Maria Luiza77; Tanuri, Amilcar78; Perroud, Mauricio W.79; Rossi, Átila D.80; Braga, Carlos K.V.81; Gerber, Alexandra L.82; Castiñeiras, Terezinha M. P. P.83; de C. Guimarães, Ana Paula84; Gaburo, Nelson85; Lazari, Carolina S.86; Alencar, Cecila Salete87; Ferreira, Alessandro C.S.88; Lima, Cristiano X.89; Hill, Sarah C.90; Levi, José Eduardo91; de Souza Santos, Andreza Aruska92; Granato, Celso93; Ferreira, Giulia M.94; Francisco, Ronaldo S.95; Simeoni, Camila L.96; Granja, Fabiana97; Forato, Julia98; Garcia, Marcia T.99; Sposito, Andrei C.100; Moretti, Maria Luiza101; Perroud, Mauricio W.102; Schreiber, Angelica Z.103; Castiñeiras, Terezinha M. P. P.104; Lazari, Carolina S.105; Hill, Sarah C.106; Santos, Magnun N. N.107; de Souza Santos, Andreza Aruska108; de Sá, Camila Zolini109; Simeoni, Camila L.110; Forato, Julia111; Sposito, Andrei C.112; Souza, Renan P.113; Schreiber, Angelica Z.114; Resende-Moreira, Luciana C.115; Santos, Magnun N. N.116; de Sá, Camila Zolini117; Souza, Renan P.118; Resende-Moreira, Luciana C.119; Teixeira, Mauro M.120; Hubner, Josy121; Leme, Patricia A. F.122; Moreira, Rennan G123; Nogueira, Maurício L.124; Ferguson, Neil M125; Costa, Silvia F.126; Proenca-Modena, José Luiz127; Vasconcelos, Ana Tereza R.128; Bhatt, Samir129; Lemey, Philippe130; Wu, Chieh-Hsi131; Rambaut, Andrew132; Loman, Nick J.133; Aguiar, Renato S.134; Pybus, Oliver G.135; Sabino, Ester C.136; Faria, Nuno R.137
Published Aug 05, 2020
on Dryad.
https://doi.org/10.5061/dryad.rxwdbrv5z
Please see Materials and Methods section in Supplementary Materials.
This REPOSITORY contains the data used for the main figures of the manuscript.
Data for main figures:
Figure 1
Fig1a: Cumulative number of Covid-19 confirmed cases and deaths until the 30th of April 2020, as provided by the Brazilian ministry of Health at https://covid.saude.gov.br/;
Fig1b: number of Covid-19 confirmed cases and deaths until the 30th of April 2020, as provided by the Brazilian ministry of Health at https://covid.saude.gov.br/;
Fig1c: reproduction number (Rt) estimates and confidence intervals for São Paulo city.
Fig1d: reproduction number (Rt) estimates and confidence intervals for Rio de Janeiro city.
Figue 2
Fig2a: Dates of first confirmed Covid-19 case and death for each Brazilian state. Dates and states of collection of all 427 sequences generated in this study.
Fig2b: Number of SARI Covid-19 confirmed cases and number of novel genomes generated in this study per Brazilian state.
Fig3c: Number of samples per lag time (in days) between symptom onset and collection date.
Figure 3
Fig3a: Maximum Clade Credibility (MCC) tree of 1,182 SARS-CoV-2 genomes, including 427 novel genomes for Brazil. For details, see supplementary data.
Fig3c: Number of national and international air passengers in Brazil per flight and per day from January to 30th April 2020.
Figue 4
Fig4a: Continuous phylogeography
Fig4b: Discrete phylogeography
Fig4c: Average distance of air travel in Brazil