To detect changes during the Late Holocene and historical periods in Guanabara Bay, the paleoecological and ecological parameters from nine cores were analysed using foraminiferal assemblages and bioindicators. Using radiocarbon dates and sedimentation rates in the cores, it was possible to detect the first Europeans’ arrival in the 16th century. Foraminiferal bioindicators of organic matter and human pollution were correlated with radiocarbon dates from the bottom and middle of the cores in each region and revealed an increase in pollution along the cores. The foraminiferal results were compared with total organic carbon (TOC) values before, during and after European settlement and showed a historical increase in organic matter.Pristine mangrove ecosystems are characterised by agglutinated species such as Ammotium salsum, and the presence of this organism also confirmed the extent of historical mangrove forests. Ammonia tepida, Buliminella elegantissima and Elphidium excavatum were the dominant species, but they presented distinct patterns over time. B. elegantissima was dominant before the European influence in older sediments with high organic matter content that were found at deeper intervals. A. tepida is dominant in younger sediments at upper intervals, as a bioindicator of human pollution.

The mercury (Hg) cycle in estuaries has been globally discussed, although Holocene deposition in mangrove sediments remains unknown. Herein, a sediment core from a mangrove system in southeastern Brazil was ¹⁴C-dated to evaluate millennial Hg deposition. The highest Hg concentrations (1010–2540 ng g⁻¹) in surface sediments were explained by emissions from a chlor-alkali industry (1964 CE). However, Hg levels were also high in pre-industrial periods, associated to fine grain-size and algal organic deposition. Less anomalous Hg concentrations in bottom sediments indicate Holocene ages (~1940–3324 cal yr BP), potentially associated to Serra do Mar mountains weathering. This study reveals the capacity of mangrove to retain Hg over millennial time scales, acting as significant and long-term Hg sinks. Therefore, the use of Hg as an Anthropocene marker must be considered cautiously in coastal systems that act as Hg sinks in times when environmental changes were not caused by human activities.

This review addresses the quantification of anthropogenic pollutants in lacustrine sediments by multidisciplinary analyses including: chronostratigraphy using radioisotopes (¹³⁷Cs) and radiocarbon dates (¹⁴C), trace metal analysis, faecal indicator analysis, as well as antibiotic-resistant genes by molecular analysis. Sediment cores from lakes Lucerne and Geneva that are located at a distance of 150 km from each other reveal a synchronous increase in anthropogenic trace metals (Pb, Cu, Zn, and Mn) following the industrial revolution in Europe about 1850. In both lakes, the peak of water pollution by toxic metals due to discharge of industrial wastewaters was reached in the middle of the twentieth century. During the second part of the twentieth century, both sites show a decrease in metal pollution following the implementation of wastewater treatment plants. On the contrary, the Vidy Bay of Lake Geneva where the treated wastewaters from the city of Lausanne are released since 1964 points out a dramatic increase in trace metal deposition. Later, a high increase in organic matter deposition, in bacteria (Escherichia coli and Enterococcus faecalis) activity as well as antibiotic-resistant genes and bacteria occurred into the bay, simultaneously with the eutrophication of the large and deep perialpine lakes in the 1970s due to excessive external nutrient loading.

Multiproxy approach based on textural, mineralogical, geochemical, and microfaunal analyses on a 176-cm-long core (SP8) has been applied to reconstruct the Holocene paleoenvironmental changes and disentangling natural vs. anthropogenic variability in Marambaia Cove of the Sepetiba Bay (SE Brazil). Sepetiba Bay became a lagoonal system due to the evolution and development of the Marambaia barrier island during the Holocene and the presence of an extensive river basin. Elemental concentrations from pre-anthropogenic layers from the nearby SP7 core have been used to estimate the baseline elemental concentrations for this region and to determine metals enrichment factors (EF), pollution load index (PLI), and sediment pollution index (SPI). Record of the core SP8 provides compelling evidence of the lagoon evolution differentiating the effects of potentially toxic elements (PTEs) under natural vs. anthropic forcing in the last ~ 9.5 ka BP. The study area was probably part of coastal sand ridges between ≈ 9.5 and 7.8 ka BP (radiocarbon date). Events of wash over deposited allochthonous material and organic matter between ≈ 8.6 and 7.8 ka. Climatic event 8.2 ka BP, in which the South American Summer Monsoon was intensified in Brazil causing higher rainfall and moisture was scored by an anoxic event. Accumulation of organic matter resulted in oxygen depletion and even anoxia in the sediment activating biogeochemical processes that resulted in the retention of potentially toxic elements (PTEs). After ≈ 7.8 ka BP at the onset of the Holocene sea-level rise, a marine incursion flooded the Marambaia Cove area (previously exposed to subaerial conditions). Environmental conditions became favorable for the colonization of benthic foraminifera. The Foram Stress Index (FSI) and Exp(H’bc) indicate that the environmental conditions turned from bad to more favorable since ≈ 7.8 ka BP, with maximum health reached at ≈ 5 ka BP, during the mid-Holocene relative sea-level highstand. Since then, the sedimentological and ecological proxies suggest that the system evolved to an increasing degree of confinement. Since ≈ 1975 AD, a sharp increase of silting, Cd, Zn, and organic matter also induced by anthropic activities caused major changes in foraminiferal assemblages with a significant increase of Ammonia/Elphidium Index (AEI), EF, and SPI values and decreasing of FSI and Exp(H’bc) (ecological indicators) demonstrating an evolution from “moderately polluted” to “heavily polluted” environment (bad ecological conditions), under variable suboxic conditions. Thus, core SP8 illustrates the most remarkable event of anthropogenic forcing on the geochemistry of the sediments and associated pollution loads and its negative effect on benthic organisms.