Insights into the response of mangrove sediment microbiomes to heavy metal pollution: Ecological risk assessment and metagenomics perspectives

Nano zerovalent Fe did not reduce metal(loid) leaching and ecotoxicity further than conventional Fe grit in contrasting smelter impacted soils: A 1-year field study

The majority of the studies on nanoscale zero-valent iron (nZVI) are conducted at a laboratory-scale, while field-scale evidence is scarce. The objective of this study was to compare the metal(loid) immobilization efficiency of selected Fe-based materials under field conditions for a period of one year. Two contrasting metal(loid) (As, Cd, Pb, Zn) enriched soils from a smelter-contaminated area were amended with sulfidized nZVI (S-nZVI) solely or combined with thermally stabilized sewage sludge and compared to amendment with microscale iron grit. In the soil with higher pH (7.5) and organic matter content (TOC = 12.7 %), the application of amendments resulted in a moderate increase in pH and reduced As, Cd, Pb, and Zn leaching after 1-year, with S-nZVI and sludge combined being the most efficient, followed by iron grit and S-nZVI alone. However, the amendments had adverse impacts on microbial biomass quantity, S-nZVI being the least damaging. In the soil with a lower pH (6.0) and organic matter content (TOC = 2.3 %), the results were mixed; 0.01 M CaCl2 extraction data showed only S-nZVI with sludge as remaining effective in reducing extractable concentrations of metals; on the other hand, Cd and Zn concentrations were increased in the extracted soil pore water solutions, in contrast to the two conventional amendments. Despite that, S-nZVI with sludge enhanced the quantity of microbial biomass in this soil. Additional earthworm avoidance data indicated that they generally avoided soil treated with all Fe-based materials, but the presence of sludge impacted their preferences somewhat. In summary, no significant differences between S-nZVI and iron grit were observed for metal(loid) immobilization, though sludge significantly improved the performance of S-nZVI in terms of soil health indicators. Therefore, this study indicates that S-nZVI amendment of soils alone should be avoided, though further field evidence from a broader range of soils is now required.

Taxonomic Diversity and Functional Traits of Soil Bacterial Communities under Radioactive Contamination: A Review

Studies investigating the taxonomic diversity and structure of soil bacteria in areas with enhanced radioactive backgrounds have been ongoing for three decades. An analysis of data published from 1996 to 2024 reveals changes in the taxonomic structure of radioactively contaminated soils compared to the reference, showing that these changes are not exclusively dependent on contamination rates or pollutant compositions. High levels of radioactive exposure from external irradiation and a high radionuclide content lead to a decrease in the alpha diversity of soil bacterial communities, both in laboratory settings and environmental conditions. The effects of low or moderate exposure are not consistently pronounced or unidirectional. Functional differences among taxonomic groups that dominate in contaminated soil indicate a variety of adaptation strategies. Bacteria identified as multiple-stress tolerant; exhibiting tolerance to metals and antibiotics; producing antioxidant enzymes, low-molecular antioxidants, and radioprotectors; participating in redox reactions; and possessing thermophilic characteristics play a significant role. Changes in the taxonomic and functional structure, resulting from increased soil radionuclide content, are influenced by the combined effects of ionizing radiation, the chemical toxicity of radionuclides and co-contaminants, as well as the physical and chemical properties of the soil and the initial bacterial community composition. Currently, the quantification of the differential contributions of these factors based on the existing published studies presents a challenge.

Ammonium loss microbiologically mediated by Fe(III) and Mn(IV) reduction along a coastal lagoon system

Anaerobic ammonium oxidation, associated with both iron (Feammox) and manganese (Mnammox) reduction, is a microbial nitrogen (N) removal mechanism recently identified in natural ecosystems. Nevertheless, the spatial distributions of these non-canonical Anammox (NC-Anammox) pathways and their environmental drivers in subtidal coastal sediments are still unknown. Here, we determined the potential NC-Anammox rates and abundance of dissimilatory metal-reducing bacteria (Acidomicrobiaceae A6 and Geobacteraceae) at different horizons (0-20 cm at 5 cm intervals) of subtidal coastal sediments using the 15N isotope-tracing technique and molecular analyses. Sediments were collected across three sectors (inlet, transition, and inner) in a coastal lagoon system (Bahia de San Quintin, Mexico) dominated by seagrass meadows. The positive relationship between 30N2 production rates and dissimilatory Fe and Mn reduction provided evidence for Feammox's and Mnammox's co-occurrence. N loss through NC-Anammox was detected in subtidal sediments, with potential rates of 0.07-0.62 μg N g-1 day-1. NC-Anammox process in vegetated sediments tended to be higher than those in adjacent unvegetated ones. NC-Anammox rates showed a subsurface peak (between 5 and 15 cm) in the vegetated sediments but decreased consistently with depth in the adjacent bare bottoms. Thus, the presence/absence of seagrasses and sediment characteristics, particularly the availability of organic carbon and microbiologically reducible Fe(III) and Mn(IV), affected the abundance of dissimilatory metal-reducing bacteria, which mediated NC-Anammox activity and the associated N removal. An annual loss of 32.31 ± 3.57 t N was estimated to be associated with Feammox and Mnammox within the investigated area, accounting for 2.8-4.7% of the gross total import of reactive N from the ocean into the Bahia de San Quintin. Taken as a whole, this study reveals the distribution patterns and controlling factors of the NC-Anammox pathways along a coastal lagoon system. It improves our understanding of the coupling between N and trace metal cycles in coastal environments.

Elemental composition and metal pollution in Egyptian Red Sea mangrove sediments: Characterization and origin

The present work was conducted to characterize the mangrove sediments along the Egyptian Red Sea in terms of elemental composition and to assess the extent of pollution and its sources. A total of 26 samples of mangrove sediments were collected from three different areas: Sharm El Madfea, Sowmaa Mangrove and Abu Fasi. The samples were analyzed using the inductively coupled plasma - mass spectrometry ICP-MS and atomic-emission spectrometry ICP-AES. Mass fractions of a total of 58 major and trace elements were determined in the mangrove samples. Univariate and multivariate statistical analyses were performed to determine the origin of trace and major elements in the mangrove sediments. The normalized values show that the elements above the background can be indicated in descending order as follows: P > Cd > Sr > Ca > U > Se > As > Sn > Cu > Sb > Pb > Mo > Ag. Several pollution indices were also calculated. Principal component analysis revealed three clusters of the studied sediment samples. The analysis of the ratio indicators shows that the origin of the sediments mostly falls near continental island arcs (CIA). The pollution indices show remarkable pollution levels and enriched elements. The data obtained can serve as baseline data for the sediments of the mangrove environment and can be used to study possible changes in the future.

Occurrence and patterns of metals in mangrove forests from the Oman Sea, Iran

Concentrations of selected metals were investigated in roots, stems, leaves and sediments from mangrove forests situated along the coast of the Oman Sea, Iran. Results showed that the overall average concentrations of lead, nickel, copper, and zinc in sediments were 47.90, 54.12, 42.13 and 44 μg/g dry weight (dw) and 3.81, 16.41, 29.23 and 25 μg/g dw in plant tissues, respectively. In addition, the bioconcentration factors (BCFs) of root, stem and leaf ranged from 0.5 to 1.7, 0.2 to 1.5, and 0.4 to 1.3, respectively. Pollution indices showed that all investigated sites were in the category of low to moderate pollution (pollution load index: 1.5-0.11), with a 21 % probability of biological toxicity.

Remediation of the microecological environment of heavy metal-contaminated soil with fulvic acid, improves the quality and yield of apple

The excessive application of chemical fertilizers and pesticides in apple orchards is responsible for high levels of manganese and copper in soil, and this poses a serious threat to soil health. We conducted a three-year field experiment to study the remediation effect and mechanism of fulvic acid on soil with excess manganese and copper. The exogenous application of fulvic acid significantly reduced the content of manganese and copper in soil and plants; increased the content of calcium; promoted the growth of apple plants; improved the fruit quality and yield of apple; increased the content of chlorophyll; increased the activity of superoxide dismutase, peroxidase, and catalase; and reduced the content of malondialdehyde. The number of soil culturable microorganisms, soil enzyme activity, soil microbial community diversity, and relative abundance of functional bacteria were increased, and the detoxification of the glutathione metabolism function was enhanced. The results of this study provide new insights that will aid the remediation of soil with excess manganese and copper using fulvic acid.

Deciphering the dynamics of metal and antibiotic resistome profiles under different metal(loid) contamination levels

Metal(loid) contaminations pose considerable threats to ecological security and public health, yet little is known about the dynamics of metal resistance genes (MRGs) and antibiotic resistance genes (ARGs) under different metal(loid) contamination levels. Here, we provided a systematic investigation of MRGs and ARGs in three zones (Zones I, II, and III) with different metal(loid) contamination levels across an abandoned sewage reservoir. More diverse MRGs and ARGs were detected from the high-contaminated Zone I and the moderate-contaminated Zone II, while the abundant MGEs (mobile genetic elements) potentially enhanced the horizontal gene transfer potential and the resistome diversity in Zone I. Particularly, resistome hosts represented by Thiobacillus, Ramlibacter, and Dyella were prevalent in Zone II, promoting the vertical gene transfer of MRGs and ARGs. The highest health risk of ARGs was predicted for Zone I (about 7.58% and 0.48% of ARGs classified into Rank I and Rank II, respectively), followed by Zone II (2.11% and 0%) and Zone III (0% and 0%). However, the ARGs co-occurring with MRGs might exhibit low proportions and low health risks (all were Rank IV) in the three zones. Overall, these findings uncovered the dynamic responses of resistomes and their hosts to different metal(loid) contamination levels, contributing to formulating accurate management and bioremediation countermeasures for various metal(loid) contaminated environments.

Flavobacterium potami sp. nov., a multi-metal resistance genes harbouring bacterium isolated from shallow river silt

Environmental pollution by heavy metals is becoming an increasing problem and has become a matter of great concern due to the adverse effects worldwide. In this study, we report a novel strain of multi-metal resistant bacteria. A Gram-stain-negative, strictly aerobic, non-motile, yellow, rod-shaped strain 17A^T, was isolated from the shallow silt of Fuyang River located in Longdian town, Hengshui city, Hebei province, China. Strain 17A^T grew at 20-35 °C (optimum, 30 °C), pH 5-10 (optimum, pH 7) and 0-2% (w/v) NaCl (optimum, 1%). Phylogenetic analyses of 16S rRNA gene sequences showed that strain 17A^T was closely related to members of the genus Flavobacterium, and had the highest 16S rRNA gene sequence similarity with 'Flavobacterium panacis' DCY106^T (97.5%), followed by Flavobacterium johnsoniae subsp. johnsoniae UW101^T (97.3%), Flavobacterium cutihirudinis E89^T (97.2%), Flavobacterium limi THG-AG6.4^T (97.2%), Flavobacterium hibisci THG-HG1.4^T (97.2%) and Flavobacterium johnsoniae subsp. aurantiacum DSM 6792^T (97.1%). The genome size of strain 17A^T was 5.4 Mb and the DNA G + C content was 34.0%. The average nucleotide identity, digital DNA-DNA hybridization and average amino acid identity values among strain 17A^T and reference strains were in the ranges of 79.8-86.1%, 24.1-31.4% and 80.5-88.6%, respectively, lower than the threshold values for species delineation. Strain 17A^T contained iso-C_15:0 and C_16:0 3-OH as the predominant fatty acids (≥ 10%). The main isoprenoid quinone of strain 17A^T was identified as MK-6. The polar lipids consisted of phosphatidylethanolamine, three unidentified aminolipids, two unidentified aminophospholipids and six unidentified lipids. Comparative genomics analysis between strain 17A^T and its reference type strains revealed that there are a number of metal-resistant genes in strain 17A^T, which are located in 15 gene clusters responsible for the copper homeostasis, cobalt-zinc-cadmium resistance, copper resistance, and arsenic/antimony resistance, with the copper resistance protein NlpE being unique to 17A^T. Combined data from phenotypic, phylogenetic and chemotaxonomic studies demonstrated that strain 17A^T is a representative of a novel species within the genus Flavobacterium, for which the name Flavobacterium potami sp. nov. is proposed. The type strain is 17A^T (= GDMCC 1.2723^T = JCM 34833^T).

Bacterial diversity in the aquatic system in India based on metagenome analysis-a critical review

Microbial analysis has become one of the most critical areas in aquatic ecology and a crucial component for assessing the contribution of microbes in food web dynamics and biogeochemical processes. Initial research was focused on estimating the abundance and distribution of the microbes using microscopy and culture-based analysis, which are undoubtedly complex tasks. Over the past few decades, microbiologists have endeavored to apply and extend molecular techniques to address pertinent questions related to the function and metabolism of microbes in aquatic ecology. Metagenomics analysis has revolutionized aquatic ecology studies involving the investigation of the genome of a mixed community of organisms in an ecosystem to identify microorganisms, their functionality, and the discovery of novel proteins. This review discusses the metagenomics analysis of bacterial diversity in and around different aquatic systems in India.

Biogeochemical behaviour of cadmium in sediments and potential biological impact on mangroves under anthropogenic influence: A baseline survey from a protected nature reserve

Cadmium is a toxic element and its effects are well understood for human health, but its biogeochemical behaviour is still poorly studied and understood in natural ecosystems. This work addresses knowledge gaps concerning its presence, biogeochemical behaviour and impacts in mangrove ecosystems. Through geochemical data and multivariate analysis (i.e., factor and cluster analysis) of data from mangroves of Isla del Carmen, one of the largest extents in Mexico we explored the biogeochemical behaviour of Cd, a potentially toxic element, to identify its anthropogenic sources and interactions with sediments. Pollution indices, including enrichment factor (EF), geo-accumulation index (Igeo), sediment quality guidelines (SQG) and toxicological studies were used to assess the biological impacts of Cd and infer the natural levels tolerated by mangrove trees that form the basis of this natural ecosystem. Our results highlighted that Cd accumulation is driven by interactions between organic matter (OM), sulphur and fine particles; whereas enrichment factor showed values of 6.9 (EF) and 3.5 (EF) associated with point sources and ranged between 2 and 2.9 (EF) in relation to non-point sources. Finally, our geochemical approach revealed that Cd enrichment originates from urban activities and from the poor management of urban residuals.

Response of bacterial diversity and community structure to metals in mangrove sediments from South China

Human activities have given rise to metal contamination in the constituents of mangrove ecosystems, posing a critical threat to sediment microorganisms; hence, it is of great importance to comprehend the effects of metals on the microbial communities in mangrove sediments. This study was the first to explore the response of the bacterial diversity and community structure to nine metals (As, Co, Cr, Cu, Mn, Ni, Pb, V and Zn) and organic matter fractions (including total organic carbon (TOC), total nitrogen (TN), and total sulfur (TS)) in mangrove wetlands from Zhanjiang, China, using 16S rRNA high-throughput sequencing technology and Spearman correlation analysis. The results showed that these nine metals were scattered differently in different mangrove sediments, and the metals and organic matter fractions jointly affected the bacterial communities in the sediments. Several metals displayed significant positive correlations with the abundances of the phylum Bacteroidetes and the genera Actibacter and Sphingobacterium but significant negative correlations with the abundances of two genera Holophaga and Caldithrix. Furthermore, the abundances of the phylum Actinobacteria and many bacterial genera showed significant positive or negative responses to the levels of the three organic matter fractions. Interestingly, the levels of a number of bacterial genera that exhibited increased abundance with high levels of metals and TS might be reduced with high TOC and TN, and vice versa: the levels of genera that exhibited decreased abundance with high levels of metals and TS might be increased with high TOC and TN. Overall, many bacterial groups showed different response patterns to each metal or organic matter fraction, and these metals together with organic matter fractions influenced the bacterial diversity and community structure in mangrove sediments.

Solid-Phase Synthesis of Red Fluorescent Carbon Dots for the Dual-Mode Detection of Hexavalent Chromium and Cell Imaging

The excellent optical properties and biocompatibility of red fluorescence carbon dots (R-CDs) provide a new approach for the effective analysis of hexavalent chromium Cr(VI) in environmental and biological samples. However, the application of R-CDs is still limited by low yield and unfriendly synthesis route. In this study, we developed a new type of R-CDs based on a simple and green solid-phase preparation strategy. The synthesized R-CDs can emit bright red fluorescence with an emission wavelength of 625 nm and also have an obvious visible light absorption capacity. Furthermore, the absorption and fluorescence signals of the R-CDs aqueous solution are sensitive to Cr(VI), which is reflected in color change and fluorescence quenching. Based on that, a scanometric and fluorescent dual-mode analysis system for the rapid and accurate detection of Cr(VI) was established well within the limit of detection at 80 nM and 9.1 nM, respectively. The proposed methods also possess high specificity and were applied for the detection of Cr(VI) in real water samples. More importantly, the synthesized R-CDs with good biocompatibility were further successfully applied for visualizing intracellular Cr(VI) in Hela cells.

Bibliometric Analysis of the Influencing Factors, Derivation, and Application of Heavy Metal Thresholds in Soil

The study of threshold levels of heavy metals in soil is essential for the assessment and management of soil environmental quality. This study reviewed the influencing factors, the derivation, and application aspects of heavy metals' threshold values comprehensively by a combination of bibliometric analysis and scientific knowledge mapping. A total of 1106 related studies were comprehensively extracted from the Web of Science database during the period from 2001 to 2020. The results showed that the publication output has been growing strongly. An analysis on the subject, journal, country, and institution was carried out to demonstrate the development and evolution of this research branch during the two decades. According to high-frequency keywords analysis, external factors (e.g., soil physicochemical properties) and internal factors (e.g., crop genotype) can affect heavy metal threshold values in the soil-crop system. The current methods mainly include the Point model (e.g., evaluation factor method), the Probability model (e.g., species sensitivity distribution method), and the Empirical model (e.g., ecological environment effect method). A threshold study can be applicable to the risk assessment for soil heavy metal contamination in order to determinate the soil pollution degree and its spatial and temporal distribution characteristics. Moreover, challenges and prospects of the study of heavy metal threshold values are proposed, indicating that research should focus on the relationships between human health risks and the established threshold values of heavy metals in the soil, long-term field trials and bioavailability of heavy metals for the derivation of the thresholds, and the establishment of more scientific and rational soil environmental benchmarks.

Geochemical Behavior of Sedimentary Phosphorus Species in Northernmost Artificial Mangroves in China

Mangroves are typically found in tropical coastal areas, and these ecosystems face deterioration and loss due to threats from climate and human factors. In this study, sediment cores were collected from human-planted mangroves in sub-tropical Ximen Island, China, and were determined for sedimentary phosphorus (P) species. The objective was to investigate the ability of mangroves planted in a zone bordering their temperature limit to preserve and regulate P. Our results showed that bioavailable P (BAP), which includes exchangeable-P (Ex-P), iron-bound P (Fe-P), and organic P (OP), accounted for approximately 64% of total P (TP). Apatite P (Ca-P), which accounted for 24% of TP, most likely originated from aquaculture activities surrounding the island. The vertical distribution of sedimentary P species along the sediment cores showed a rather constant trend along the salt marsh stand but considerable fluctuations for the mangroves and bare mudflat. These results indicate that mangroves accumulated P when there was a high P discharge event, and that this P was eventually released during organic matter decomposition and contributed to Ca-P formation. Nevertheless, old and young mangroves accumulated higher sedimentary P species, OP, and BAP compared to the salt marsh stand and bare mudflat areas. This study showed the potential of mangroves planted outside their suitable climate zone to preserve and regulate P.

Distribution, ecological risk assessment and source identification of pollutants in soils of different land-use types in degraded wetlands

BACKGROUND

Urbanization and global warming are generating ecological degradation and land pattern alteration problems in natural wetlands. These changes are greatly affecting the ecological services of wetlands. Therefore, there is an urgent need to explore the relationship between pollutants and land-use type for wetland restoration purposes. Zaozhadian Lake is a freshwater wetland in the North China Plain, which is facing degradation and land-use types changes. An experiment for analyzing soil pollutants was conducted in three land-use types of farmland, lake, and ditch in the Zaozhadian Lake. The aims of this study were to identify the distribution, pollution degree, and sources of pollutants in different land-use types, and to explore the influence of land-use type changes on contamination.

METHODS

In this study, surface sediments (0-10 cm) of three land types (farmland, lake, and ditch) in Zaozhadian Lake were collected, and heavy metals (Cu, Ni, Zn, Pb, Cd, Cr, Hg), As, total nitrogen (TN), total phosphorus (TP) and organic matter (OM) were determined. Kriging interpolation was used to visualize the pollutants distribution. The pollution degree of TN and TP was evaluated by the Nemerow pollution index. The pollution of heavy metals and As was evaluated by the geological accumulation index (I_geo ) and the potential ecological risk index (RI). Then, dual hierarchical clustering analysis and the principal component analysis were performed to further analyze the impact of land type changes on pollutants.

RESULTS

The heavy metal contents in the farmland were higher than other areas, while the TN (3.71 ± 1.03 g kg^-1) and OM (57.17 ± 15.16 g kg^-1) in lake sediments were higher than that in other regions. Farmland, lake, and ditches had low ecological risks, with RI values of 84.21, 71.34, and 50.78, respectively. The primary heavy metal pollutants are Pb, Cu, and Ni. Furthermore, Cu, As, Ni, Pb, and Zn were primarily derived from agriculture pollution, the source of Cd was the industrial pollution, and Cr mainly originated from natural sources. Nutrients primarily came from the decomposition of aquatic animals, plants, and human-related activities. When the lake area was converted into farmland, the heavy metal concentrations in the soils increased and the TN and OM decreased. Based on the results, this study put forward key strategies including the adjustment of the land-use type and restriction of the entry of pollutants into the wetland ecosystems in the Zaozhadian Lake. More attention should be paid to the impact of land-use type change on pollutants in wetlands.