Marine biofilms: cyanobacteria factories for the global oceans.

Marine biofilms were newly revealed as a giant microbial diversity pool for global oceans. However, the cyanobacterial diversity in marine biofilms within the upper seawater column and its ecological and evolutionary implications remains undetermined. Here, we reconstructed a full picture of modern marine cyanobacteria habitats by re-analyzing 9.3 terabyte metagenomic data sets and 2,648 metagenome-assembled genomes (MAGs). The abundances of cyanobacteria lineages exclusively detected in marine biofilms were up to ninefold higher than those in seawater at similar sample size. Analyses revealed that cyanobacteria in marine biofilms are specialists with strong geographical and environmental constraints on their genome and functional adaption, which is in stark contrast to the generalistic features of seawater-derived cyanobacteria. Molecular dating suggests that the important diversifications in biofilm-forming cyanobacteria appear to coincide with the Great Oxidation Event (GOE), "boring billion" middle Proterozoic, and the Neoproterozoic Oxidation Event (NOE). These new insights suggest that marine biofilms are large and important cyanobacterial factories for the global oceans. IMPORTANCE: Cyanobacteria, highly diverse microbial organisms, play a crucial role in Earth's oxygenation and biogeochemical cycling. However, their connection to these processes remains unclear, partly due to incomplete surveys of oceanic niches. Our study uncovered significant cyanobacterial diversity in marine biofilms, showing distinct niche differentiation compared to seawater counterparts. These patterns reflect three key stages of marine cyanobacterial diversification, coinciding with major geological events in the Earth's history.

Porosity and pore structure evolution during the weathering of black shale.

Pore type and pore structure evolves systematically across continuous black shale weathering profile. However, the extend and process of pore structure change is still an enigma. In this study, we try to unveil the pore structure evolution during weathering process through studying Cambrian Hetang shales in southern China. Fourteen shale samples, from protolith zone (PZ), fractured and weathered shale zone (FWZ), and saprolite zone (SZ), were collected to elucidate how porosity and pore structure develop during black shale weathering under subtropical condition. Through low pressure argon (Ar) gas adsorption (LP-ArGA), high pressure mercury intrusion (HPMI), nuclear magnetic resonance(NMR) and field emission scanning electron microscope (FESEM) observation, the results reveal significant differences in physical properties and pore structures among the PZ, FWZ, and SZ samples. Specifically, compared to PZ, FWZ and SZ samples are characterized by higher clay mineral content, lower organic matter (OM), and the absence of carbonates and pyrite. Total porosity, determined through HPMI and NMR, exhibits a gradual increase from PZ (6.70 % and 6.41 %) to FWZ (20.47 % and 13.45 %) and SZ (23.22 % and 12.48 %). Ar adsorption isotherms indicate a change in pore type from predominantly ink-bottle and slit-shaped in the PZ to mainly slit-shaped in FWZ and SZ. Integrated analysis of LP-ArGA, HPMI, NMR and SEM observation suggests a substantial decrease in the contribution of micropores to total pore volume (PV) and a concurrent increase in larger pores (meso-macropores) with the increase of weathering intensity. This results in smoother surfaces of micro-transition pores but rougher surfaces of macropores. Changes in mineralogy composition during weathering play a crucial role in influencing pore structure of shales and further accelerating the release and migration of toxic elements in black shale. Our study provides the essential theoretical foundation for the remediation of soil and water environmental pollution caused by black shale weathering.

Rare Earth Element Adsorption to Clay Minerals: Mechanistic Insights and Implications for Recovery from Secondary Sources.

The energy transition will have significant mineral demands and there is growing interest in recovering critical metals, including rare earth elements (REE), from secondary sources in aqueous and sedimentary environments. However, the role of clays in REE transport and deposition in these settings remains understudied. This work investigated REE adsorption to the clay minerals illite and kaolinite through pH adsorption experiments and extended X-ray absorption fine structure (EXAFS). Clay type, pH, and ionic strength (IS) affected adsorption, with decreased adsorption under acidic pH and elevated IS. Illite had a higher adsorption capacity than kaolinite; however, >95% adsorption was achieved at pH ∼7.5 regardless of IS or clay. These results were used to develop a surface complexation model with the derived binding constants used to predict REE speciation in the presence of competing sorbents. This demonstrated that clays become increasingly important as pH increases, and EXAFS modeling showed that REE can exist as both inner- and outer-sphere complexes. Together, this indicated that clays can be an important control on the transport and enrichment of REE in sedimentary systems. These findings can be applied to identify settings to target for resource extraction or to predict REE transport and fate as a contaminant.

Identifying Organic Matter (OM) Types and Characterizing OM Pores in the Wufeng-Longmaxi Shales.

Organic matter (OM) pores are considered to be an important pore type in the Ordovician Wufeng-Silurian Longmaxi Formation shales in the Sichuan Basin, China, because they have a high capacity to store natural gas. However, to the best of our knowledge, research on the characterization and quantitation of different OM pore characteristics is insufficient. In this study, detailed optical microscope and scanning electron microscope (SEM) observations and the pores/particles and cracks analysis system (PCAS) were applied to identify the OM pores and obtain quantitative information on pores such as pore size, surface porosity, form factor, and probability entropy. Moreover, CO2 and N2 adsorption experiments were performed to study the properties of pores for samples with different TOC and mineral compositions. The results show the following. (1) Pyrobitumen and kerogen can be distinguished under an optical microscope and SEM; the former can be further divided into pyrobitumen without a fixed shape and pyrobitumen with a certain shape, and the latter contains algal fragments, bacteria-like aggregates, graptolite, and micrinite. The overwhelming number of SEM-visible OM pores are mainly observed in pyrobitumen without a fixed shape, whereas pores in other OM types are complex. A PCAS analysis showed that meso-macropores are developed in pyrobitumen without a fixed shape, whereas pores in algal fragments and bacterial-like aggregates are mainly mesopores. (2) Quartz-rich brittle shale will provide more visible SEM pores compared to clay-rich ductile shale, and carbonates are unfavorable for pore development because they can block the pore as cements. Moreover, the rigid mineral framework, including that constructed by quartz recrystallization and pyrite cementation, and the pore-fluid pressure are favorable for the development of OM pores. (3) Adsorption experiments showed that pyrobitumen makes a great contribution to pore development, including micropores and meso-/macropores. Finally, we propose that the pore parameters (e.g., pore diameter, pore form factor, and deformation) of pyrobitumen without a fixed shape may characterize the enrichment condition of shale gas.

Biofilms as agents of Ediacara-style fossilization.

Earth's earliest fossils of complex macroscopic life are recorded in Ediacaran-aged siliciclastic deposits as exceptionally well-preserved three-dimensional casts and molds, known as "Ediacara-style" preservation. Ediacara-style fossil assemblages commonly include both macrofossils of the enigmatic Ediacara Biota and associated textural impressions attributed to microbial matgrounds that were integral to the ecology of Ediacara communities. Here, we use an experimental approach to interrogate to what extent the presence of mat-forming microorganisms was likewise critical to the Ediacara-style fossilization of these soft-bodied organisms. We find evidence that biofilms can play an instrumental role in fostering fossilization. Rapid silica precipitation associated with macroorganism tissues is enhanced in the presence of mat- and biofilm-forming microorganisms. These results indicate that the occurrence of microbial mats and biofilms may have strongly shaped the preservational window for Ediacara-style fossils associated with early diagenetic silica cements, and therefore influenced the distribution and palaeoecological interpretation of the Ediacara Biota fossil record.

The dissolution of fluorapatite by phosphate-solubilizing fungi: a balance between enhanced phosphorous supply and fluorine toxicity.

Fluorapatite (FAp) is the largest phosphorous (P) reservoir on Earth. However, due to its low solubility, dissolved P is severely deficient in the pedosphere. Fungi play a significant role in P dissolution via excretion of organic acids, and in this regard, it is important to understand their impact on P cycling. The object of this study was to elucidate the balance between P release and F toxicity during FAp dissolution. The bioweathering of FAp was assisted by a typical phosphate-solubilizing fungus, Aspergillus niger. The release of elements and microbial activities were monitored during 5-day incubation. We found that the release of fluorine (F) was activated after day 1 (~90 mg/L), which significantly lowered the phosphate-solubilizing process by day 2. Despite P release from FAp being enhanced over the following 3 days, decreases in both the amount of biomass (52% decline) and the respiration rate (81% decline) suggest the strong inhibitory effect of F on the fungus. We thus concluded that F toxicity outweighs P supply, which in turn inhibits fungi growth and prevents further dissolution of FAp. This mechanism might reflect an underappreciated cause for P deficiency in soils.

Lead (Pb) sorption to hydrophobic and hydrophilic zeolites in the presence and absence of MTBE.

The co-contamination of the environment by metals and organic pollutants is a significant concern, and one such example is lead (Pb) and methyl tert-butyl ether (MTBE) due to their historic use as fuel additives. Clinoptilolite is an abundant and efficient zeolite for metal removal, but the potential interference of co-existing organic pollutants on metal removal, such as MTBE, have rarely been discussed. In this study, a combination of batch sorption tests and synchrotron-based X-ray absorption spectroscopic analyses were employed to investigate Pb sorption mechanism(s) onto clinoptilolite in the presence and absence of MTBE. A comparison was made to synthetic ZSM-5 zeolite to gain insights into differences in Pb binding mechanisms between hydrophilic (clinoptilolite) and hydrophobic (ZSM-5) zeolites. Site occupancy and surface precipitation contributed equally to Pb removal by clinoptilolite, while surface precipitation was the main Pb removal mechanism for ZSM-5 followed by site occupancy. Despite the negligible effect of 100 mg/L MTBE on observed Pb removal from solution by both zeolites, a surface-embedded Pb removal mechanism, through the Mg site on clinoptilolite surface, arises when MTBE is present. This study provides an understanding of atomic-level Pb uptake mechanisms on zeolites, with and without co-contaminating MTBE, which aids in their application in water treatment at co-contaminated sites.

The kaolinite shuttle links the Great Oxidation and Lomagundi events.

The ~2.22-2.06 Ga Lomagundi Event was the longest positive carbon isotope excursion in Earth's history and is commonly interpreted to reflect perturbations in continental weathering and the phosphorous cycle. Previous models have focused on mechanisms of increasing phosphorous solubilization during weathering without focusing on transport to the oceans and its dispersion in seawater. Building from new experimental results, here we report kaolinite readily absorbs phosphorous under acidic freshwater conditions, but quantitatively releases phosphorous under seawater conditions where it becomes bioavailable to phytoplankton. The strong likelihood of high weathering intensities and associated high kaolinite content in post-Great-Oxidation-Event paleosols suggests there would have been enhanced phosphorus shuttling from the continents into marine environments. A kaolinite phosphorous shuttle introduces the potential for nonlinearity in the fluxes of phosphorous to the oceans with increases in chemical weathering intensity.

Deriving Soil Quality Criteria of Chromium Based on Species Sensitivity Distribution Methodology.

Chromium (Cr) is one of the most severe heavy metal contaminants in soil, and it seriously threatens ecosystems and human health through the food chain. It is fundamental to collect toxicity data of Cr before developing soil quality criteria/standards in order to efficiently prevent health risks. In this work, the short-term toxic effects of Cr(VI) and Cr(III) on the root growth of eleven terrestrial plants were investigated. The corresponding fifth percentile hazardous concentrations (HC5) by the best fitting species sensitivity distribution (SSD) curves based on the tenth percentile effect concentrations (EC10) were determined to be 0.60 and 4.51 mg/kg for Cr (VI) and Cr (III), respectively. Compared to the screening level values worldwide, the HC5 values in this study were higher for Cr(VI) and lower for Cr(III) to some extent. The results provide useful toxicity data for deriving national or local soil quality criteria for trivalent and hexavalent Cr.

Clay minerals as a source of cadmium to estuaries.

Given the high surface reactivity of clay minerals, it is assumed that flocculation will lead to metal accumulation in marginal marine settings. However, the degree of metal sorption to clays is impacted by solution pH and ionic strength, and it remains unknown whether riverine clays indeed serve as a metal sink once they encounter seawater where pH and ionic strength markedly increase. Here, we conducted cadmium (Cd) adsorption experiments to three types of common clay minerals - kaolinite, illite and montmorillonite. We found that 20-30% of Cd from illite and montmorillonite surfaces were desorbed when transitioning from freshwater to seawater pH and ionic strength conditions, while kaolinite showed no discernible differences. Synchrotron X-ray adsorption spectroscopy confirmed that Cd release corresponded to a change in bonding from outer- to inner-sphere complexes when clays encountered seawater pH and ionic strength conditions. If other trace nutrients (such as Cu, Zn, Co) adsorbed onto riverine clay minerals behave in a similar manner to Cd, we speculate that their desorption in marginal marine settings should exert a significant impact on the productivity of the biosphere.