Skin microbiome disturbance linked to drought-associated amphibian disease.

The onset of global climate change has led to abnormal rainfall patterns, disrupting associations between wildlife and their symbiotic microorganisms. We monitored a population of pumpkin toadlets and their skin bacteria in the Brazilian Atlantic Forest during a drought. Given the recognized ability of some amphibian skin bacteria to inhibit the widespread fungal pathogen Batrachochytrium dendrobatidis (Bd), we investigated links between skin microbiome health, susceptibility to Bd and host mortality during a die-off event. We found that rainfall deficit was an indirect predictor of Bd loads through microbiome disruption, while its direct effect on Bd was weak. The microbiome was characterized by fewer putative Bd-inhibitory bacteria following the drought, which points to a one-month lagged effect of drought on the microbiome that may have increased toadlet susceptibility to Bd. Our study underscores the capacity of rainfall variability to disturb complex host-microbiome interactions and alter wildlife disease dynamics.

Climate change in the Central Amazon and its impacts on frog populations.

Frog population declines have already been observed in the central Amazon even for common species that are considered not to be in danger of extinction. The Amazon is close to its limit of tolerated deforestation, and parts of the forest have already been modified by climate change, which raises questions about how the fauna in these areas would adapt to climate changes by the middle and the end of this century. In this study we used population density data on seven species of Amazonian frogs and analyzed the relationship between the activity of these species and temperature, precipitation, and relative humidity. We also used the least-squares method with logarithmic models to assess whether climate change projected by the Intergovernmental Panel on Climate Change (IPCC) would be an indicator of the population dynamics of these species. Our results suggest that even common species may be may experience population declines and extinction in the next decades due to climate changes.

Brazil's Amazon Oxygen Crisis: How Lives and Health Were Sacrificed During the Peak of COVID-19 to Promote an Agenda with Long-Term Consequences for the Environment, Indigenous Peoples, and Health.

In January 2021, oxygen supplies in the Amazon region's largest city were allowed to run out at the peak of the second wave of the COVID-19 epidemic, shocking the world as hospital patients expired for lack of this basic medical resource in Manaus, which during the first COVID-19 wave had become the world's first city to bury its dead in mass graves. Brazil's authorities used this tragedy to further a political agenda that implies enormous environmental and human-rights consequences. Transport of oxygen was used to promote building a road that, together with its planned side roads, would give deforesters access to much of what remains of Brazil's Amazon Forest. Here, we demonstrate that the logistical strategy adopted by the Jair Bolsonaro administration's Ministries of Health and Infrastructure to bring oxygen to Manaus was the worst possible choice, and the foreseeable delay in the arrival of oxygen cost hundreds of lives. Rather than sending trucks to carry oxygen on the nearly impassible Highway BR-319 during the rainy season, the most appropriate transport option was barges on the Madeira River. As oxygen supplies dwindled in Manaus, the families of wealthier COVID-19 victims scrambled to buy the few remaining cylinders at prices out of reach for those in poorer (and often ethnically distinct) economic strata. Ethnic health disparities are aggravated by both the direct consequences of the oxygen crisis and, on the longer term, by the consequences of the highway project that political use of the crisis materially advanced.

Misinformation Caused Increased Urban Mobility and the End of Social Confinement Before the Second Wave of COVID-19 in Amazonia.

Tendentious projections about COVID-19 in Brazil provided an appealing excuse for individuals and decision-makers to justify poor choices during a critical phase of the pandemic. The erroneous results likely contributed to premature resumption of in-person school classes and easing of restrictions on social contact, favoring the resurgence of COVID-19. In Manaus, the largest city in the Amazon region, the COVID-19 pandemic did not end in 2020 of its own accord, but rather rebounded in a disastrous second wave of the disease.

Effects of Amazonian flying rivers on frog biodiversity and populations in the Atlantic rainforest.

Given the speed at which humans are changing the climate, species with high degrees of endemism may not have time to avoid extinction through adaptation. We investigated through teleconnection analysis the origin of rainfall that determines the phylogenetic diversity of rainforest frogs and the effects of microclimate differences in shaping the morphological traits of isolated populations (which contribute to greater phylogenetic diversity and speciation). We also investigated through teleconnection analysis how deforestation in Amazonia can affect ecosystem services that are fundamental to maintaining the climate of the Atlantic rainforest biodiversity hotspot. Seasonal winds known as flying rivers carry water vapor from Amazonia to the Atlantic Forest, and the breaking of this ecosystem service could lead Atlantic Forest species to population decline and extinction in the short term. Our results suggest that the selection of morphological traits that shape Atlantic Forest frog diversity and their population dynamics are influenced by the Amazonian flying rivers. Our results also suggest that the increases of temperature anomalies in the Atlantic Ocean due to global warming and in the Amazon forest due to deforestation are already breaking this cycle and threaten the biodiversity of the Atlantic Forest hotspot.

Efectos de los ríos voladores de la Amazonía sobre la diversidad y las poblaciones de ranas en la Mata Atlántica Resumen Con la velocidad a la que la humanidad está alterando el clima, puede que las especies con un nivel elevado de endemismo no cuenten con tiempo suficiente para adaptarse y evitar la extinción. Usamos un análisis de teleconexión para investigar el origen de las precipitaciones que determinan la diversidad filogenética de las ranas selváticas y los efectos de las diferencias microclimáticas sobre la determinación de las características morfológicas de las poblaciones aisladas, las cuales contribuyen a una mayor especiación y diversidad filogenética. También utilizamos este análisis para investigar cómo la deforestación en la Amazonía puede afectar los servicios ambientales que son fundamentales para mantener el punto caliente de biodiversidad que es la Mata Atlántica. Los ríos voladores son vientos estacionales que transportan vapor de agua desde la Amazonía hasta la Mata Atlántica; la interrupción de este servicio ambiental podría derivar en la declinación poblacional y la extinción a corto plazo de las especies en este ecosistema. Nuestros resultados sugieren que los ríos voladores de la Amazonía influyen sobre la selección de las características morfológicas que determinan la diversidad de ranas y sus dinámicas poblacionales en la Mata Atlántica. Nuestros resultados también sugieren que el incremento de anomalías térmicas en el Océano Atlántico, causadas por el calentamiento global, y en la Amazonía, causadas por la deforestación, ya están interrumpiendo este ciclo y son una amenaza para la biodiversidad del punto caliente que es la Mata Atlántica.

Misinformation caused increased urban mobility and the end of social confinement before the second wave of COVID-19 in Amazonia

Tendentious projections about COVID-19 in Brazil provided an appealing excuse for individuals and decision-makers to justify poor choices during a critical phase of the pandemic. The erroneous results likely contributed to premature resumption of in-person school classes and easing of restrictions on social contact, favoring the resurgence of COVID-19. In Manaus, the largest city in the Amazon region, the COVID-19 pandemic did not end in 2020 of its own accord, but rather rebounded in a disastrous second wave of the disease.

We're building it up to burn it down: fire occurrence and fire-related climatic patterns in Brazilian biomes.

Background: Terrestrial biomes in South America are likely to experience a persistent increase in environmental temperature, possibly combined with moisture reduction due to climate change. In addition, natural fire ignition sources, such as lightning, can become more frequent under climate change scenarios since favourable environmental conditions are likely to occur more often. In this sense, changes in the frequency and magnitude of natural fires can impose novel stressors on different ecosystems according to their adaptation to fires. By focusing on Brazilian biomes, we use an innovative combination of techniques to quantify fire persistence and occurrence patterns over time and evaluate climate risk by considering key fire-related climatic characteristics. Then, we tested four major hypotheses considering the overall characteristics of fire-dependent, fire-independent, and fire-sensitive biomes concerning (1) fire persistence over time; (2) the relationship between climate and fire occurrence; (3) future predictions of climate change and its potential impacts on fire occurrence; and (4) climate risk faced by biomes. Methods: We performed a Detrended Fluctuation Analysis to test whether fires in Brazilian biomes are persistent over time. We considered four bioclimatic variables whose links to fire frequency and intensity are well-established to assess the relationship between climate and fire occurrence by confronting these climate predictors with a fire occurrence dataset through correlative models. To assess climate risk, we calculated the climate hazard, sensitivity, resilience, and vulnerability of Brazilian biomes, and then we multiplied the Biomes' vulnerability index by the hazards. Results: Our results indicate a persistent behaviour of fires in all Brazilian biomes at almost the same rates, which could represent human-induced patterns of fire persistence. We also corroborated our second hypothesis by showing that most fire-dependent biomes presented high thermal suitability to fire, while the fire-independent biome presented intermediate suitability and fire-sensitive biomes are the least suitable for fire occurrence. The third hypothesis was partially corroborated since fire-dependent and independent biomes are likely to increase their thermal suitability to fire, while fire-sensitive biomes are likely to present stable-to-decreasing thermal suitability in the future. Finally, our fourth hypothesis was partially corroborated since most fire-dependent biomes presented low climate risk, while the fire-independent biome presented a high risk and the fire-sensitive biomes presented opposite trends. In summary, while the patterns of fire persistence and fire occurrence over time are more likely to be related to human-induced fires, key drivers of burned areas are likely to be intensified across Brazilian biomes in the future, potentially increasing the magnitude of the fires and harming the biomes' integrity.

Dynamics of COVID-19 in Amazonia: A history of government denialism and the risk of a third wave.

The city of Manaus (the capital of Brazil's state of Amazonas) has become a key location for understanding the dynamics of the global pandemic of COVID-19. Different groups of scientists have foreseen different scenarios, such as the second wave or that Manaus could escape such a wave by having reached herd immunity. Here we test five hypotheses that explain the second wave of COVID-19 in Manaus: 1) The greater transmissibility of the Amazonian (gamma or P.1) variant is responsible for the second wave; 2) SARS-CoV-2 infection levels during the first wave were overestimated by those foreseeing herd immunity, and the population remained below this threshold when the second wave began at the beginning of December 2020; 3) Antibodies acquired from infection by one lineage do not confer immunity against other lineages; 4) Loss of immunity has generated a feedback phenomenon among infected people, which could generate future waves, and 5) A combination of the foregoing hypotheses. We also evaluated the possibility of a third wave in Manaus despite advances in vaccination, the new wave being due to the introduction of the delta variant in the region and the loss of immunity from natural contact with the virus. We developed a multi-strain SEIRS (Susceptible-Exposed-Infected-Removed-Susceptible) model and fed it with data for Manaus on mobility, COVID-19 hospitalizations, numbers of cases and deaths. Our model contemplated the current vaccination rates for all vaccines applied in Manaus and the individual protection rates already known for each vaccine. Our results indicate that the SARS-CoV-2 gamma (P.1) strain that originated in the Amazon region is not the cause of the second wave of COVID-19 in Manaus, but rather this strain originated during the second wave and became predominant in January 2021. Our multi-strain SEIRS model indicates that neither the doubled transmission rate of the gamma variant nor the loss of immunity alone is sufficient to explain the sudden rise of hospitalizations in late December 2020. Our results also indicate that the most plausible explanation for the current second wave is a SARS-CoV-2 infection level at around 50% of the population in early December 2020, together with loss of population immunity and early relaxation of restrictive measures. The most-plausible model indicates that contact with one strain does not provide protection against other strains and that the gamma variant has a transmissibility rate twice that of the original SARS-CoV-2 strain. Our model also shows that, despite the advance of vaccination, and even if future vaccination advances at a steady pace, the introduction of the delta variant or other new variants could cause a new wave of COVID-19.

Brazil's COVID-19 Epicenter in Manaus: How Much of the Population Has Already Been Exposed and Are Vulnerable to SARS-CoV-2?

Is Brazil's COVID-19 epicenter really approaching herd immunity? A recent study estimated that in October 2020 three-quarters of the population of Manaus (the capital of the largest state in the Brazilian Amazon) had contact with SARS-CoV-2. We show that 46% of the Manaus population having had contact with SARS-CoV-2 at that time is a more plausible estimate, and that Amazonia is still far from herd immunity. The second wave of COVID-19 is now evident in Manaus. We predict that the pandemic of COVID-19 will continue throughout 2021, given the duration of naturally acquired immunity of only 240 days and the slow pace of vaccination. Manaus has a large percentage of the population that is susceptible (35 to 45% as of May 17, 2021). Against this backdrop, measures to restrict urban mobility and social isolation are still necessary, such as the closure of schools and universities, since the resumption of these activities in 2020 due to the low attack rates of SARS-CoV-2 was the main trigger for the second wave in Manaus.

Dynamics of COVID-19 in Amazonia: a history of government denialism and the risk of a third wave

The city of Manaus (the capital of Brazil’s state of Amazonas) has become a key location for understanding the dynamics of the global pandemic of COVID-19. Different groups of scientists have foreseen different scenarios, such as the second wave or that Manaus could escape such a wave by having reached herd immunity. Here we test five hypotheses that explain the second wave of COVID-19 in Manaus: 1) The greater transmissibility of the Amazonian (gamma or P.1) variant is responsible for the second wave; 2) SARS-CoV-2 infection levels during the first wave were overestimated by those foreseeing herd immunity, and the population remained below this threshold when the second wave began at the beginning of December 2020; 3) Antibodies acquired from infection by one lineage do not confer immunity against other lineages; 4) Loss of immunity has generated a feedback phenomenon among infected people, which could generate future waves, and 5) A combination of the foregoing hypotheses. We also evaluated the possibility of a third wave in Manaus despite advances in vaccination, the new wave being due to the introduction of the delta variant in the region and the loss of immunity from natural contact with the virus. We developed a multi-strain SEIRS (Susceptible-Exposed-Infected-Removed-Susceptible) model and fed it with data for Manaus on mobility, COVID-19 hospitalizations, numbers of cases and deaths. Our model contemplated the current vaccination rates for all vaccines applied in Manaus and the individual protection rates already known for each vaccine. Our results indicate that the SARS-CoV-2 gamma (P.1) strain that originated in the Amazon region is not the cause of the second wave of COVID-19 in Manaus, but rather this strain originated during the second wave and became predominant in January 2021. Our multi-strain SEIRS model indicates that neither the doubled transmission rate of the gamma variant nor the loss of immunity alone is sufficient to explain the sudden rise of hospitalizations in late December 2020. Our results also indicate that the most plausible explanation for the current second wave is a SARS-CoV-2 infection level at around 50% of the population in early December 2020, together with loss of population immunity and early relaxation of restrictive measures. The most-plausible model indicates that contact with one strain does not provide protection against other strains and that the gamma variant has a transmissibility rate twice that of the original SARS-CoV-2 strain. Our model also shows that, despite the advance of vaccination, and even if future vaccination advances at a steady pace, the introduction of the delta variant or other new variants could cause a new wave of COVID-19.