12 research outputs found

    The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance

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    INTRODUCTION Investment in Africa over the past year with regard to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) sequencing has led to a massive increase in the number of sequences, which, to date, exceeds 100,000 sequences generated to track the pandemic on the continent. These sequences have profoundly affected how public health officials in Africa have navigated the COVID-19 pandemic. RATIONALE We demonstrate how the first 100,000 SARS-CoV-2 sequences from Africa have helped monitor the epidemic on the continent, how genomic surveillance expanded over the course of the pandemic, and how we adapted our sequencing methods to deal with an evolving virus. Finally, we also examine how viral lineages have spread across the continent in a phylogeographic framework to gain insights into the underlying temporal and spatial transmission dynamics for several variants of concern (VOCs). RESULTS Our results indicate that the number of countries in Africa that can sequence the virus within their own borders is growing and that this is coupled with a shorter turnaround time from the time of sampling to sequence submission. Ongoing evolution necessitated the continual updating of primer sets, and, as a result, eight primer sets were designed in tandem with viral evolution and used to ensure effective sequencing of the virus. The pandemic unfolded through multiple waves of infection that were each driven by distinct genetic lineages, with B.1-like ancestral strains associated with the first pandemic wave of infections in 2020. Successive waves on the continent were fueled by different VOCs, with Alpha and Beta cocirculating in distinct spatial patterns during the second wave and Delta and Omicron affecting the whole continent during the third and fourth waves, respectively. Phylogeographic reconstruction points toward distinct differences in viral importation and exportation patterns associated with the Alpha, Beta, Delta, and Omicron variants and subvariants, when considering both Africa versus the rest of the world and viral dissemination within the continent. Our epidemiological and phylogenetic inferences therefore underscore the heterogeneous nature of the pandemic on the continent and highlight key insights and challenges, for instance, recognizing the limitations of low testing proportions. We also highlight the early warning capacity that genomic surveillance in Africa has had for the rest of the world with the detection of new lineages and variants, the most recent being the characterization of various Omicron subvariants. CONCLUSION Sustained investment for diagnostics and genomic surveillance in Africa is needed as the virus continues to evolve. This is important not only to help combat SARS-CoV-2 on the continent but also because it can be used as a platform to help address the many emerging and reemerging infectious disease threats in Africa. In particular, capacity building for local sequencing within countries or within the continent should be prioritized because this is generally associated with shorter turnaround times, providing the most benefit to local public health authorities tasked with pandemic response and mitigation and allowing for the fastest reaction to localized outbreaks. These investments are crucial for pandemic preparedness and response and will serve the health of the continent well into the 21st century

    Barriers and enablers for implementation of digital-linked diagnostics models at point-of-care in South Africa: stakeholder engagement

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    Abstract The integration of digital technologies holds significant promise in enhancing accessibility to disease diagnosis and treatment at point-of-care (POC) settings. Effective implementation of such interventions necessitates comprehensive stakeholder engagements. This study presents the outcomes of a workshop conducted with key stakeholders, aiming to discern barriers and enablers in implementing digital-connected POC diagnostic models in South Africa. The workshop, a component of the 2022 REASSURED Diagnostics symposium, employed the nominal group technique (NGT) and comprised two phases: Phase 1 focused on identifying barriers, while Phase 2 centered on enablers for the implementation of digital-linked POC diagnostic models. Stakeholders identified limited connectivity, restricted offline functionality, and challenges related to load shedding or rolling electricity blackouts as primary barriers. Conversely, ease of use, subsidies provided by the National Health Insurance, and 24-h assistance emerged as crucial enablers for the implementation of digital-linked POC diagnostic models. The NGT workshop proved to be an effective platform for elucidating key barriers and enablers in implementing digital-linked POC diagnostic models. Subsequent research endeavors should concentrate on identifying optimal strategies for implementing these advanced diagnostic models in underserved populations

    International Ignatian Reconciliation Conference: From crisis and confrontation to healing and forgiveness, how is reconciliation possible?

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    El compromiso de la Compañía de Jesús en el quehacer universitario se expresa en el deseo de contribuir efectivamente a hacer posible una vida digna, plena, para todos y cada uno de los seres humanos, en el presente y en el futuro. Para lograr una vida digna, una vida plena, se requiere la reconciliación. Por ello, la Universidad jesuita debe ser una fuente de vida, comprometida a fondo en los procesos de reconciliación. La Universidad Pontificia Comillas y la Pontificia Universidad Javeriana trabajaron bajo la orientación y el estímulo del padre Michael J. Garanzini, S. J. en la organización de la Conferencia Internacional de Reconciliación Ignaciana de la Crisis y el Enfrentamiento a la Sanación y el Perdón: ¿Cómo es Posible la Reconciliación?, que se realizó del 10 al 12 de mayo de 2021, en modalidad combinada (presencial y remota), desde Madrid. En esta, además de abordajes conceptuales sobre la reconciliación, se presentaron experiencias consolidadas en territorios o con comunidades específicas de construcción de paz y reconciliación de instituciones vinculadas a la Compañía de Jesús. Las memorias de la Conferencia que aquí presentamos tienen el fin de contribuir a que las conversaciones de perdón se den y se multipliquen, de modo que la reconstrucción del tejido social deje de ser una utopía para convertirse en una posibilidad palpable. Sin más, esta Conferencia fue el resultado de esa unión por la que tanto propende la reconciliación, pues no debemos olvidar que parte del proceso para llegar a ella nace del amor y de una meta por trascender todo aquello que nos divide y que, en este caso, se hace desde unas universidades comprometidas y de la mano del legado espiritual de san Ignacio.The commitment of the Society of Jesus in university work is expressed in the desire to effectively contribute to making possible a dignified, full life for each and every one of the human beings, in the present and in the future. To achieve a dignified life, a full life, reconciliation is required. For this reason, the Jesuit University must be a source of life, fully committed to reconciliation processes. Comillas Pontifical University and Javeriana Pontifical University worked under the guidance and encouragement of Father Michael J. Garanzini, S.J. in organizing the International Conference on Ignatian Reconciliation from Crisis and Confrontation to Healing and Forgiveness: How is Possible Reconciliation?, which took place from May 10 to 12, 2021, in a combined modality (face-to-face and remote), from Madrid. In this, in addition to conceptual approaches on reconciliation, consolidated experiences in territories or with specific communities of peacebuilding and reconciliation of institutions linked to the Society of Jesus were presented. The Conference proceedings that we present here have the purpose of contributing to the conversations of forgiveness occurring and multiplying, so that the reconstruction of the social fabric ceases to be a utopia and becomes a palpable possibility. Without further ado, this Conference was the result of that union for which reconciliation tends so much, because we must not forget that part of the process to reach it is born of love and of a goal to transcend everything that divides us and that, in this case, it is done from committed universities and hand in hand with the spiritual legacy of Saint Ignatius.Madri
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