PUBLICATIONS SPOTLIGHT

PUBLICATIONS

Investing in Africa's scientific future

de Oliveira T, Baxter C, Science (2024), ;383(6678):eadn4168. doi: 10.1126/science.adn4168:

Insights into SARS?CoV?2 in Angola during the COVID?19 peak: Molecular epidemiology and genome surveillance

Francisco N, van Wyk S, Moir M, San J, Sebastião C, Tegally H, Xavier J, Maharaj A, Neto Z, Afonso P, Jandondo D, Paixão J, Miranda J, David K, Inglês L, Pereira A, Paulo A, Carralero R, Freitas H, Mufinda F, Lutucuta S, Ghafari M, Giovanetti M, Giandhari J, Pillay S, Naidoo Y, Singh L, Tshiabuila D, Martin D, Chabuka L, Choga W, Wanjohi D, Mwangi S, Pillay Y, Kebede Y, Shumba E, Ondoa P, Baxter C, Wilkinson E, Tessema S, Katzourakis A, Lessells R, de Oliveira T, Morais J, Influenza and Other Respiratory Viruses (2023), 17:e13198

Global SARS-CoV-2 genomic surveillance: What we have learned (so far)

Tosta S, Moreno K, Schuab G, Fonseca V, Segovia F, Kashima S, Elias M, Sampaio S, Ciccozzi M, Alcantara L, Slavov S, Lourenço J, Cella E, Giovanetti M, Infection, Genetics and Evolution (2023), 108():105405. doi: 10.1016/j.meegid.2023.105405.:

SARS-CoV-2 Spillback to Wild Coatis in Sylvatic–Urban Hotspot, Brazil

Stoffella-Dutra A, de Campos B, Bastos e Silva P, Dias K, da Silva Domingos I, Hemetrio N, Xavier J, Iani F, Fonseca V, Giovanetti M, de Oliveira L, Teixeira M, Lobato Z, Ferreira H, Arns C, Durigon E, Drumond B, Alcantara L, de Carvalho M, de Souza Trindade G, Emerging Infectious Diseases (2023), 29(3):664-667. doi: 10.3201/eid2903.221339.:

Phylogenetic Reconstructions Reveal the Circulation of a Novel Dengue Virus-1V Clade and the Persistence of a Dengue Virus-2 III Genotype in Northeast Brazil

Fritsch H, Moreno K, Lima I, Santos C, Costa B, de Almeida B, dos Santos R, Francisco M, Sampaio M, de Lima M, Pereira F, Fonseca V, Tosta S, Xavier J, de Oliveira C, Adelino T, de Mello A, Gräf T, Alcantara L, Giovanetti M, de Siqueira I, Viruses (2023), 15(5):1073. doi: 10.3390/v15051073.:

Genomic Surveillance of Monkeypox Virus, Minas Gerais, Brazil, 2022

Guimarães N, Tomé L, Lamounier L, Silva M, Lima M, da Costa A, Luiz K, de Jesus R, Trindade G, Oliveira D, da Fonseca F, Fernandes A, de Oliveira J, Moura J, Kroon E, Giovanetti M, Fonseca V, Alcantara L, Adelino T, de Milo Iani F, Emerging Infectious Diseases (2023), 29(6):. doi: 10.3201/eid2906.230113.:

Retrospective Spatio-Temporal Dynamics of Dengue Virus 1, 2 and 4 in Paraguay

Vazquez C, Alcantara L, Fonseca V, Lima M, Xavier J, Adelino T, Fritsch H, Castro E, de Oliveira C, Schuab G, Lima A, Villalba S, Gomez de la Fuente A, Rojas A, Cantero C, Fleitas F, Aquino C, Ojeda A, Sequera G, Torales J, Barrios J, Elias M, Iani F, Ortega M, Gamarra M, Montoya R, Rodrigues E, Kashima S, Sampaio S, Coluchi N, Leite J, Gresh L, Franco L, Lourenço J, Rico J, Bispo de Filippis A, Giovanetti M, Viruses (2023), 15(6):1275. doi: 10.3390/v15061275.:

Potential use of high-resolution melting analyses for SARS-CoV-2 genomic surveillance

de Souza Andrade A, Freitas E, de Castro Barbosa E, Guimarães N, de Melo Iani F, da Costa A, Bernardes A, Adelino T, Ataide A, Gregianini T, Nunes J, Stringari L, Riediger I, Fernandes S, de Jesus R, Fonseca V, Caldas S, Journal of Virological Methods (2023), 317():114742. doi: 10.1016/j.jviromet.2023.114742.:

The Importance of Entomo-Virological Investigation of Yellow Fever Virus to Strengthen Surveillance in Brazil

Cruz A, Hernández L, Aragão C, da Paz T, da Silva S, da Silva F, de Aquino A, Cereja G, Nascimento B, Rosa Junior J, Elias C, Nogueira C, Ramos D, Fonseca V, Giovanetti M, Alcantara L, Nunes B, Vasconcelos P, Martins L, Nunes-Neto J, Tropical Medicine and Infectious Disease (2023), 8(6):329. doi: 10.3390/tropicalmed8060329.:

Molecular Characterization of Salmonella Phage Wara Isolated from River Water in Brazil

Romero-Calle D, Pedrosa-Silva F, Ribeiro Tomé L, Fonseca V, Guimarães Benevides R, de Oliveira Santos L, de Oliveira T, da Costa M, Alcantara L, de Carvalho Azevedo V, Brenig B, Venancio T, Billington C, Góes-Neto A, Microorganisms (2023), 11(7):1837. doi: 10.3390/microorganisms11071837.:

Increased interregional virus exchange and nucleotide diversity outline the expansion of chikungunya virus in Brazil

Xavier J, Alcantara L, Fonseca V, Lima M, Castro E, Fritsch H, Oliveira C, Guimarães N, Adelino T, Evaristo M, Rodrigues E, Santos E, de La-Roque D, de Moraes L, Tosta S, Neto A, Rosewell A, Mendonça A, Leite A, Vasconcelos A, Silva de Mello A, Vasconcelos B, Montalbano C, Zanluca C, Freitas C, de Albuquerque C, Duarte dos Santos C, Santos C, dos Santos C, Gonçalves C, Teixeira D, Neto D, Cabral D, de Oliveira E, Noia Maciel E, Pereira F, Iani F, de Carvalho F, Andrade G, Bezerra G, de Castro Lichs G, Pereira G, Barroso H, Franz H, Ferreira H, Gomes I, Riediger I, Rodrigues I, de Siqueira I, Silva J, Rico J, Lima J, Abrantes J, do Nascimento J, Wasserheit J, Pastor J, de Magalhães J, Luz K, Lima Neto L, Frutuoso L, da Silva L, Sena L, de Sousa L, Pereira L, Demarchi L, Câmara M, Astete M, Almiron M, Lima M, Umaki Zardin M, Presibella M, Falcão M, Gale M, Freire N, Marques N, de Moura N, Almeida Da Silva P, Rabinowitz P, da Cunha R, Trinta K, do Carmo Said R, Kato R, Stabeli R, de Jesus R, Hans Santos R, Kashima S, Slavov S, Andrade T, Rocha T, Carneiro T, Nardy V, da Silva V, Carvalho W, Van Voorhis W, Araujo W, de Filippis A, Giovanetti M, Nature Communications (2023), 14(1):. doi: 10.1038/s41467-023-40099-y.:

Unveiling the Impact of the Omicron Variant: Insights from Genomic Surveillance in Mato Grosso do Sul, Midwest Brazil

de Mello Almeida Maziero L, Giovanetti M, Fonseca V, Zardin M, de Castro Lichs G, de Rezende Romera G, Tsuha D, Frias D, Escandolhero V, Demarchi L, Domingues Castilho L, Barbosa K, Tebet D, Xavier J, Fritsch H, Lima M, de Oliveira C, Santos E, Kashima S, Said R, Rosewell A, Croda J, Alcantara L, Cavalheiro Maymone Gonçalves C, Viruses (2023), 15(7):1604. doi: 10.3390/v15071604.:

Case report: Urbanized non-human primates as sentinels for human zoonotic diseases: a case of acute fatal toxoplasmosis in a free-ranging marmoset in coinfection with yellow fever virus

Sousa D, Wilson T, Macêdo I, Romano A, Ramos D, Passos P, Costa G, Fonseca V, Mares-Guia M, Giovanetti M, Alcantara L, de Filippis A, Paludo G, Melo C, Castro M, Frontiers in Public Health (2023), 11():. doi: 10.3389/fpubh.2023.1236384.:

Rapid Epidemic Expansion of Chikungunya Virus East/Central/South African Lineage, Paraguay

Giovanetti M, Vazquez C, Lima M, Castro E, Rojas A, Gomez de la Fuente A, Aquino C, Cantero C, Fleitas F, Torales J, Barrios J, Ortega M, Gamarra M, Villalba S, Alfonzo T, Xavier J, Adelino T, Fritsch H, Iani F, Pereira G, de Oliveira C, Schuab G, Rodrigues E, Kashima S, Leite J, Gresh L, Franco L, Tegally H, Van Voorhis W, Lessels R, de Filippis A, Ojeda A, Sequera G, Montoya R, Holmes E, de Oliveira T, Rico J, Lourenço J, Fonseca V, Alcantara L, Emerging Infectious Diseases (2023), 29(9):. doi: 10.3201/eid2909.230523.:

Dengue Fever Surveillance in Mato Grosso do Sul: Insights from Genomic Analysis and Implications for Public Health Strategies

Castilho de Arruda L, Giovanetti M, Fonseca V, Zardin M, Lichs G, Asato S, Esposito A, Tokeshi Müller M, Xavier J, Fritsch H, Lima M, de Oliveira C, Santos E, Maziero L, Frias D, Ahad das Neves D, Ferreira da Silva L, Rodrigues Barretos E, Tsuha Oshiro P, Modafari Goday B, Lemos dos Santos J, Kashima S, Albuquerque C, Said R, Rosewell A, Demarchi L, Croda J, Alcantara L, Cavalheiro Maymone Gonçalves C, Viruses (2023), 15(9):1790. doi: 10.3390/v15091790.:

Technology transfer during the COVID-19 pandemic: report on the first face-to-face practical training course in Brazil

Barreto F, Santos L, Giovanetti M, Fonseca V, Aburjaile F, Silva J, Freitas C, Peterka C, Rico J, Almiron M, Melo C, Alcântara L, Epidemiologia e Serviços de Saúde (2023), 32(2):. doi: 10.1590/s2237-96222023000200017.:

Genomic Epidemiology and Lineage Dynamics of SARS-CoV-2 in Bulgaria: Insights from a Three-Year Pandemic Analysis

Giovanetti M, Cella E, Ivanov I, Grigorova L, Stoikov I, Donchev D, Dimitrova R, Slavov S, Mavian C, Fonseca V, Scarpa F, Borsetti A, Korsun N, Trifonova I, Dobrinov V, Kantardjiev T, Christova I, Ciccozzi M, Alexiev I, Viruses (2023), 15(9):1924. doi: 10.3390/v15091924.:

Genomic characterization of SARS-CoV-2 from an indigenous reserve in Mato Grosso do Sul, Brazil

de Oliveira L, de Rezende I, Navarini V, Marchioro S, Torres A, Croda J, Croda M, Gonçalves C, Xavier J, de Castro E, Lima M, Iani F, Adelino T, Aburjaile F, Ferraz Demarchi L, Taira D, Zardin M, Fonseca V, Giovanetti M, Andrews J, Alcantara L, Simionatto S, Frontiers in Public Health (2023), 11():. doi: 10.3389/fpubh.2023.1195779.:

Strengthening Genomic Surveillance Capacity for Epidemic-Prone Pathogens by Training Personnel From Public Health Laboratories in Brazil and Paraguay

Giovanetti M, Fonseca V, Navegantes W, Abreu AL, Stabeli R, Vazquez CC, Albuquerque CFC, Rico JM, Galiano SG, Almiron M, Alcantara LCJ, Weekly Epidemiological Record (2023), v. 98, p. 63-68:

A Multiplex Nanopore Sequencing Approach for the Detection of Multiple Arboviral Species

Xavier J, Fonseca V, Adelino T, Iani F, Pereira G, Duarte M, Lima M, Castro E, Oliveira C, Fritsch H, Guimarães N, Lamounier L, Barreto F, Braga de Oliveira C, Maymone Gonçalves C, Malta Lima D, de Oliveira E, de Castro Lichs G, Gomes I, Mazaro J, Rodrigues J, Abrantes J, Colares J, Luz K, Barbosa da Silva L, Demarchi L, Câmara M, Umaki Zardin M, Sabatini Mello Pinheiro R, Barbosa Souza R, Haddad S, Figueiredo da Silva S, Slavov S, Rocha T, Morel N, Chiparelli H, Burgueño A, Bórmida V, Cortinas M, Martín R, Pereira A, dos Santos M, André Júnior W, Mendez Rico J, Franco L, Rosewell A, do Carmo Said R, de Albuquerque C, Noia Maciel E, Santini de Oliveira M, Venâncio da Cunha R, Vinhal Frutuoso L, de Filippis A, Giovanetti M, Carlos Junior Alcantara L, Viruses (2023), 16(1):23. doi: 10.3390/v16010023.:

Climate Change and Epidemics 2023 Synthesis Report

de Oliveira T, Baxter C, for the CLIMADE consortium , (2023), CLIMADE, Stellenbosch, South Africa. pp1-23, doi 10.25413/sun.24599043:

NEJM Case 40-2023: A 70-Year-Old Woman with Cough and Shortness of Breath

Gandhi RT, Castle AC, de Oliveira T, Lessells RJ, New England Journal of Medicine (2023), 389(26):2468-2476. doi: 10.1056/NEJMcpc2300910:

Evolution and neutralization escape of the SARS-CoV-2 BA.2.86 subvariant

Khan K, Lustig G, Römer C, Reedoy K, Jule Z, Karim F, Ganga Y, Bernstein M, Baig Z, Jackson L, Mahlangu B, Mnguni A, Nzimande A, Stock N, Kekana D, Ntozini B, van Deventer C, Marshall T, Manickchund N, Gosnell BI, Lessells RJ, Karim QA, Abdool Karim SS, Moosa MS, de Oliveira T, von Gottberg A, Wolter N, Neher RA, Sigal A., Nature Communications (2023), 14(1):8078. doi: 10.1038/s41467-023-43703-3:

Rapid dynamic changes of FL.2 variant: A case report of COVID-19 breakthrough infection.

Choga WT, Kurusa Gasenna GK, San JE, Ookame T, Gobe I, Chand M, Phafane B, Seru K, Matshosi P, Zuze B, Ndlovu N, Matsuru T, Maruapula D, Bareng OT, Macheke K, Kuate-Lere L, Tlale L, Lesetedi O, Tau M, Mbulawa MB, Smith-Lawrence P, Matshaba M, Shapiro R, Makhema J, Martin DP, de Oliveira T, Lessells RJ, Lockman S, Gaseitsiwe S, Moyo S, Int J Infect Dis. (2023), 138:91-96. doi: 10.1016/j.ijid.2023.11.011:

An emerging clade of Chikungunya West African genotype discovered in real-time during 2023 outbreak in Senegal

Padane A, Tegally H, Ramphal Y, Ndiaye S, Sarr M, Diop M, Diedhiou CK, Mboup A, Diouf N, Souare A, Diagne ND, Aza-Gnandji M, Dabo NA, Dia YA, Diaw NA, Leye N, Diaw PA, Ambroise A, Cisse B, Diallo AS, Diop O, Diallo AA, Ndoye S, Sanko TJ, Baxter C, Wilkinson E, James SE, Tshiabuila D, Naidoo Y, Pillay S, Lessells R, Cisse K, Leye A, Mbaye A, Kania D, Traore I, Kagone ST, Tinto B, Ouedraogo A, Lourenco J, Giovanetti M, Giandhari J, de Oliveira T, Mboup S, medrxiv (2023), MEDRXIV-2023-298527v1:

Genomic epidemiology unveils the dynamics and spatial corridor behind the Yellow Fever virus outbreak in Southern Brazil

Giovanetti M, Pinotti F, Zanluca C, Fonseca V, Nakase T, Koishi AC, Tscha M, Soares G, Dorl GG, Marques AEML, Sousa R, Adelino TER, Xavier J, de Oliveira C, Patroca S, Guimaraes NR, Fritsch H, Mares-Guia MA, Levy F, Passos PH, da Silva VL, Pereira LA, Mendonça AF, de Macêdo IL, Ribeiro de Sousa DE, Rodrigues de Toledo Costa G, Botelho de Castro M, de Souza Andrade M, de Abreu FVS, Campos FS, Iani FCM, Pereira MA, Cavalcante KRLJ, de Freitas ARR, Campelo de Albuquerque CF, Macário EM, Dos Anjos MPD, Ramos RC, Campos AAS, Pinter A, Chame M, Abdalla L, Riediger IN, Ribeiro SP, Bento AI, de Oliveira T, Freitas C, Oliveira de Moura NF, Fabri A, Dos Santos Rodrigues CD, Dos Santos CC, Barreto de Almeida MA, Dos Santos E, Cardoso J, Augusto DA, Krempser E, Mucci LF, Gatti RR, Cardoso SF, Fuck JAB, Lopes MGD, Belmonte IL, Mayoral Pedroso da Silva G, Soares MRF, de Castilhos MMS, de Souza E Silva JC, Bisetto Junior A, Pouzato EG, Tanabe LS, Arita DA, Matsuo R, Dos Santos Raymundo J, Silva PCL, Santana Araújo Ferreira Silva A, Samila S, Carvalho G, Stabeli R, Navegantes W, Moreira LA, Ferreira AGA, Pinheiro GG, Nunes BTD, de Almeida Medeiros DB, Cruz ACR, Venâncio da Cunha R, Van Voorhis W, Bispo de Filippis AM, Almiron M, Holmes EC, Ramos DG, Romano A, Lourenço J, Alcantara LCJ, Duarte Dos Santos CN, Science Advances (2023), 9(35):eadg9204. doi: 10.1126/sciadv.adg9204:

Will climate change amplify epidemics and give rise to pandemics?

de Oliveira T, Tegally H, Science (2023), 381,6660, DOI: 10.1126/science.adk4500:

Genomic epidemiology of the cholera outbreak in Malawi 2022-2023

Chabuka L, Choga WT, Mavian CN, Moir M, Tegally H, Wilkinson E, Naidoo Y, Inward R, Morgenstern C, Bhatt S, Wint WGR, Khan K, Bogoch II, Kraemer MUG, Baxter C, Tagliamonte M, Salemi M, Lessells RJ, Mitambo C, Chitatanga R, Bango JB, Chiwaula M, Chavula Y, Bukhu M, Manda H, Chitenje M, Malolo I, Mwanyongo A, Mvula B, Nyenje M, de Oliveira T, Kagoli M, medRxiv (2023), https://doi.org/10.1101/2023.08.22.23294324:

Dispersal patterns and influence of air travel during the global expansion of SARS-CoV-2 variants of concern

Tegally H, Wilkinson E, Tsui JL, Moir M, Martin D, Brito AF, Giovanetti M, Khan K, Huber C, Bogoch II, San JE, Poongavanan J, Xavier JS, Candido DDS, Romero F, Baxter C, Pybus OG, Lessells RJ, Faria NR, Kraemer MUG, de Oliveira T, Cell (2023), S0092-8674(23)00641-4. doi: 10.1016/j.cell.2023.06.001:

Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1

Tsui JL, McCrone JT, Lambert B, Bajaj S, Inward RPD, Bosetti P, Pena RE, Tegally H, Hill V, Zarebski AE, Peacock TP, Liu L, Wu N, Davis M, Bogoch II, Khan K, Kall M, Abdul Aziz NIB, Colquhoun R, O'Toole Á, Jackson B, Dasgupta A, Wilkinson E, de Oliveira T, COVID-19 Genomics UK (COG-UK) consortium¶, Connor TR, Loman NJ, Colizza V, Fraser C, Volz E, Ji X, Gutierrez B, Chand M, Dellicour S, Cauchemez S, Raghwani J, Suchard MA, Lemey P, Rambaut A, Pybus OG, Kraemer MUG, Science (2023), 381(6655):336-343. doi: 10.1126/science.adg6605.: