The paleoenvironmental and thermal histories of the Permian Irati formation shale in the paraná basin, Brazil: An integrated approach based on mineralogical and organic imprints

ABSTRACT: Mineralogical assemblages and organofacies are important sources of information to recover the paleoenvironmental and thermal histories of shale deposits. In this study, a detailed qualitative and quantitative characterization of the Permian Irati Formation (Assistência Member) shale is based on mineralogical (XRD and SEM-EDS) and organic components (TOC, Rock-Eval pyrolysis, organofacies, TAI, fluorescence and vitrinite reflectance measurements) and provides integrated data about sediment provenance, depositional environment, diagenesis, and thermal history, while supporting interpretations on the Paraná Basin (PB), Brazil, paleogeography and its correlation to the southwest Gondwana. The results revealed a prevailing type I/II kerogen, with type III kerogen being also present but mainly confined along the paleoshoreline of the PB. The dominance of fluorescent amorphous organic matter (AOM) combined with framboidal pyrite suggests microbial activity in an anoxic-dysoxic neritic-marine paleoenvironment. Additionally, common to abundant well-preserved phytoclasts, as well as the occurrence of Botryococcus braunii, indicates freshwater influx in a brackish marine depositional setting. Immature to early-oil window thermal maturities prevail across the PB, according to the organic maturation indicators. The combined analysis between the organic matter evolution with clay mineralogy, such as the occurrence of interstratified clays (e.g., I/S) and its positive correlation with depth suggest that burial diagenesis reached the transition to early catagenesis on the north, southeast, and south of the basin, attributing a shale oil potential for the Irati Formation on a regional scale. Local scale imprints of the Early Cretaceous Paraná-Etendeka Large Igneous Province (LIP), and its thermal effect in the Irati Formation shale components, are recorded as clay authigenesis (e.g., smectite webby texture and clay coating development), crystallization of minerals by low to high-grade of thermal alteration (e.g., corrensite, talc, lizardite and diopside), and by local scale gas-window maturities. Such thermal alteration, identified in the proximity to intruded sills and dykes, led to a heterogeneous organic maturation pattern with implications on shale gas and shale oil potential of the Irati Formation shale, demonstrating that these subjects in the Paraná Basin should be assessed locally.info:eu-repo/semantics/publishedVersio

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

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

The paleoenvironmental and thermal histories of the permian Irati formation shale in the Paraná Basin, Brazil: an integrated approach based on mineralogical and organic imprints

Mineralogical assemblages and organofacies are important sources of information to recover the paleoenvir-onmental and thermal histories of shale deposits. In this study, a detailed qualitative and quantitative charac-terization of the Permian Irati Formation (Assistencia Member) shale is based on mineralogical (XRD and SEM -EDS) and organic components (TOC, Rock-Eval pyrolysis, organofacies, TAI, fluorescence and vitrinite reflec-tance measurements) and provides integrated data about sediment provenance, depositional environment, diagenesis, and thermal history, while supporting interpretations on the Paran & PRIME;a Basin (PB), Brazil, paleogeog-raphy and its correlation to the southwest Gondwana. The results revealed a prevailing type I/II kerogen, with type III kerogen being also present but mainly confined along the paleoshoreline of the PB. The dominance of fluorescent amorphous organic matter (AOM) combined with framboidal pyrite suggests microbial activity in an anoxic-dysoxic neritic-marine paleoenvironment. Additionally, common to abundant well-preserved phytoclasts, as well as the occurrence of Botryococcus braunii, indicates freshwater influx in a brackish marine depositional setting. Immature to early-oil window thermal maturities prevail across the PB, according to the organic maturation indicators. The combined analysis between the organic matter evolution with clay mineralogy, such as the occurrence of interstratified clays (e.g., I/S) and its positive correlation with depth suggest that burial diagenesis reached the transition to early catagenesis on the north, southeast, and south of the basin, attributing a shale oil potential for the Irati Formation on a regional scale. Local scale imprints of the Early Cretaceous Paran & PRIME;a-Etendeka Large Igneous Province (LIP), and its thermal effect in the Irati Formation shale components, are recorded as clay authigenesis (e.g., smectite webby texture and clay coating development), crystallization of minerals by low to high-grade of thermal alteration (e.g., corrensite, talc, lizardite and diopside), and by local scale gas-window maturities. Such thermal alteration, identified in the proximity to intruded sills and dykes, led to a heterogeneous organic maturation pattern with implications on shale gas and shale oil potential of the Irati Formation shale, demonstrating that these subjects in the Paran & PRIME;a Basin should be assessed locally.info:eu-repo/semantics/publishedVersio