Enhanced Anaerobic Biodegradation of Benzoate Under Sulfate-Reducing Conditions With Conductive Iron-Oxides in Sediment of Pearl River Estuary

Metagenomic-based discovery and comparison of the lignin degrading potential of microbiomes in aquatic and terrestrial ecosystems via the LCdb database

Lignin, as an abundant organic carbon, plays a vital role in the global carbon cycle. However, our understanding of the global lignin-degrading microbiome remains elusive. The greatest barrier has been absence of a comprehensive and accurate functional gene database. Here, we first developed a curated functional gene database (LCdb) for metagenomic profiling of lignin degrading microbial consortia. Via the LCdb, we draw a clear picture describing the global biogeography of communities with lignin-degrading potential. They exhibit clear niche differentiation at the levels of taxonomy and functional traits. The terrestrial microbiomes showed the highest diversity, yet the lowest correlations. In particular, there were few correlations between genes involved in aerobic and anaerobic degradation pathways, showing a clear functional redundancy property. In contrast, enhanced correlations, especially closer inter-connections between anaerobic and aerobic groups, were observed in aquatic consortia in response to the lower diversity. Specifically, dypB and dypA, are widespread on Earth, indicating their essential roles in lignin depolymerization. Estuarine and marine consortia featured the laccase and mnsod genes, respectively. Notably, the roles of archaea in lignin degradation were revealed in marine ecosystems. Environmental factors strongly influenced functional traits, but weakly shaped taxonomic groups. Null mode analysis further verified that composition of functional traits was deterministic, while taxonomic composition was highly stochastic, demonstrating that the environment selects functional genes rather than taxonomic groups. Our study not only develops a useful tool to study lignin degrading microbial communities via metagenome sequencing but also advances our understanding of ecological traits of these global microbiomes.

Chryseobacterium gotjawalense sp. nov. Isolated from Soil in the Volcanic Forest Gotjawal, Jeju Island

Strain wdc7T, a rod-shaped bacterium, was isolated from soil in the Gotjawal Forest on Jeju Island, South Korea. Strain wdc7T was Gram stain-negative, facultatively anaerobic, catalase- and oxidase positive, yellow pigmented, and non-flagellated. It grew at 4-37 °C and pH 5.0-8.0 in 0-3% (w/v) NaCl. 16S rRNA gene sequencing analysis revealed that strain wdc7T belonged to the genus Chryseobacterium and was most closely related to Chryseobacterium salivictor NBC 122T, with a sequence similarity of 98.51%. Menaquinone 6 was the sole respiratory quinone, and C15:0 anteiso, C15:0 iso, and summed feature 9 were the major fatty acids. The genome length was 3.30 Mbp, with a 37% G + C content. Average amino acid identity, average nucleotide identity, and digital DNA-DNA relatedness between strain wdc7T and C. salivictor NBC 122T were 93.52%, 92.80%, and 49.7%, respectively. Digital genomic and polyphasic analyses showed that strain wdc7T likely represented a new species of the genus Chryseobacterium. We proposed the name Chryseobacterium gotjawalense sp. nov., with wdc7T (= KCTC 92440T = JCM 35602T) as the type strain.

Connecting molecular biomarkers, mineralogical composition, and microbial diversity from Mars analog lava tubes

Lanzarote (Canary Islands, Spain) is one of the best terrestrial analogs to Martian volcanology. Particularly, Lanzarote lava tubes may offer access to recognizably preserved chemical and morphological biosignatures valuable for astrobiology. By combining microbiological, mineralogical, and organic geochemistry tools, an in-depth characterization of speleothems and associated microbial communities in lava tubes of Lanzarote is provided. The aim is to untangle the underlying factors influencing microbial colonization in Earth's subsurface to gain insight into the possibility of similar subsurface microbial habitats on Mars and to identify biosignatures preserved in lava tubes unequivocally. The microbial communities with relevant representativeness comprise chemoorganotrophic, halophiles, and/or halotolerant bacteria that have evolved as a result of the surrounding oceanic environmental conditions. Many of these bacteria have a fundamental role in reshaping cave deposits due to their carbonatogenic ability, leaving behind an organic record that can provide evidence of past or present life. Based on functional profiling, we infer that Crossiella is involved in fluorapatite precipitation via urea hydrolysis and propose its Ca-rich precipitates as compelling biosignatures valuable for astrobiology. In this sense, analytical pyrolysis, stable isotope analysis, and chemometrics were conducted to characterize the complex organic fraction preserved in the speleothems and find relationships among organic families, microbial taxa, and precipitated minerals. We relate organic compounds with subsurface microbial taxa, showing that organic families drive the microbiota of Lanzarote lava tubes. Our data indicate that bacterial communities are important contributors to biomarker records in volcanic-hosted speleothems. Within them, the lipid fraction primarily consists of low molecular weight n-alkanes, α-alkenes, and branched-alkenes, providing further evidence that microorganisms serve as the origin of organic matter in these formations. The ongoing research in Lanzarote's lava tubes will help develop protocols, routines, and predictive models that could provide guidance on choosing locations and methodologies for searching potential biosignatures on Mars.

Diverse hydrocarbon degradation genes, heavy metal resistome, and microbiome of a fluorene-enriched animal-charcoal polluted soil

Environmental compartments polluted with animal charcoal from the skin and hide cottage industries are rich in toxic heavy metals and diverse hydrocarbon classes, some of which are carcinogenic, mutagenic, and genotoxic, and thus require a bio-based eco-benign decommission strategies. A shotgun metagenomic approach was used to decipher the microbiome, hydrocarbon degradation genes, and heavy metal resistome of a microbial consortium (FN8) from an animal-charcoal polluted site enriched with fluorene. Structurally, the FN8 microbial consortium consists of 26 phyla, 53 classes, 119 orders, 245 families, 620 genera, and 1021 species. The dominant phylum, class, order, family, genus, and species in the consortium are Proteobacteria (51.37%), Gammaproteobacteria (39.01%), Bacillales (18.09%), Microbulbiferaceae (11.65%), Microbulbifer (12.21%), and Microbulbifer sp. A4B17 (19.65%), respectively. The microbial consortium degraded 57.56% (28.78 mg/L) and 87.14% (43.57 mg/L) of the initial fluorene concentration in 14 and 21 days. Functional annotation of the protein sequences (ORFs) of the FN8 metagenome using the KEGG GhostKOALA, KofamKOALA, NCBI's conserved domain database, and BacMet revealed the detection of hydrocarbon degradation genes for benzoate, aminobenzoate, polycyclic aromatic hydrocarbons (PAHs), chlorocyclohexane/chlorobenzene, chloroalkane/chloroalkene, toluene, xylene, styrene, naphthalene, nitrotoluene, and several others. The annotation also revealed putative genes for the transport, uptake, efflux, and regulation of heavy metals such as arsenic, cadmium, chromium, mercury, nickel, copper, zinc, and several others. Findings from this study have established that members of the FN8 consortium are well-adapted and imbued with requisite gene sets and could be a potential bioresource for on-site depuration of animal charcoal polluted sites.

Spatio-temporal variation of bacterial community structure in two intertidal sediment types of Jiaozhou Bay

The intertidal sediment environment is dynamic and the biofilm bacterial community within it must constantly adapt, but an understanding of the differences in the biofilm bacterial community within sediments of different types is still relatively limited. The semi-enclosed Jiaozhou Bay has a temperate monsoon climate, with strong currents at the mouth of the bay. In this study, the structure of the bacterial community in Jiaozhou Bay sediment biofilms are described using high-throughput 16 S rRNA gene sequencing and the effects of temporal change and different sediment environment types are discussed. Alpha diversity was significantly higher in sandy samples than in muddy samples. Sandy sediments with increased heterogeneity promote bacterial aggregation. Beta diversity analysis showed significant differences between sediment types and between stations. Proteobacteria and Acidobacteria were significantly more abundant at ZQ, while Campilobacterota was significantly more abundant at LC. The relative abundances of Bacteroidetes, Campilobacterota, Firmicutes, and Chloroflexi were significantly higher in the muddy samples, while Actinobacteria and Proteobacteria were higher in the sandy samples. There were different phylum-level biomarkers between sediment types at different stations. There were also different patterns of functional enrichment in biogeochemical cycles between sediment types and stations with the former having more gene families that differed significantly, highlighting their greater role in determining bacterial function. Bacterial amplicon sequence variant variation between months was less than KEGG ortholog variation between months, presumably the temporal change had an impact on shaping the intertidal sediment bacterial community, although this was less clear at the gene family level. Random forest prediction yielded a combination of 43 family-level features that responded well to temporal change, reflecting the influence of temporal change on sediment biofilm bacteria.

Electroactive microorganism-assisted remediation of groundwater contamination: Advances and challenges

Groundwater contamination has become increasingly prominent, therefore, the development of efficient remediation technology is crucial for improving groundwater quality. Bioremediation is cost-effective and environmentally friendly, while coexisting pollutant stress can affect microbial processes, and the heterogeneous character of groundwater medium can induce bioavailability limitations and electron donor/acceptor imbalances. Electroactive microorganisms (EAMs) are advantageous in contaminated groundwater because of their unique bidirectional electron transfer mechanism, which allows them to use solid electrodes as electron donors/acceptors. However, the relatively low-conductivity groundwater environment is unfavorable for electron transfer, which becomes a bottleneck problem that limits the remediation efficiency of EAMs. Therefore, this study reviews the recent advances and challenges of EAMs applied in the groundwater environment with complex coexisting ions, heterogeneity, and low conductivity and proposes corresponding future directions.

Multi-omics eco-surveillance of bacterial community function in legacy contaminated estuary sediments

Complex legacy contamination is a major issue for many estuaries, with toxicity affecting change in bacterial communities, and their provision of associated goods and services. Sequencing surveys of bacterial community composition provide inferred function; however, additional insights may be generated by measurement of realised metabolic phenotypes. We apply multi-omics (genomics, lipidomics, and metabolomics), with traditional sediment quality analyses, to characterise sediment-associated bacterial communities in an estuary subject to legacy metal contamination (Zn, Hg, As, Cd, Cu and Pb). Analyses of bacterial composition and inferred function (genomics) are coupled with measurements of realised bacterial phenotype (metabolomics and lipidomics) at multiple industrialised and reference sites. At sites with the highest sediment metal concentrations (NTB), we also observed increased abundances of hydrocarbon and sulphuric acid metabolites, indicating additional sediment contamination. Bacterial phyla across sampled sites were dominated by Proteobacteria and Desulfobacteria. NTB sites were enriched with metabolically versatile, cooperative and biofilm forming phyla including, Zixibacteria, Spirochaetota, SAR324 clade, Proteobacteria, Latescibacterota, Desulfobacterota, Deferrisomtota and Acidobateriota; with inferred functions characterised by sulphur metabolism, pathways associated with the degradation of complex organic molecules, and fermentation. Reference sites were characterised by enhanced vitamin biosynthesis, cell wall, cofactor and carbohydrate biosynthesis, and CO₂ fixation. Measured metabolic phenotypes at NTB sites supported predicted functions, with most consistent change observed to naphthalene and aminobenzoate degradation pathways and carbohydrate metabolism (galactose, amino and nucleotide sugar). Change in NTB metabolite profiles was most highly correlated with sediment Hg concentrations, indicative of toxic exposure and potential for Hg methylation. Lipid profiles generated further insight into potential functional (hydroxy fatty acids) and community level change (ceramide phosphoethanolamines, unsaturated glycerides). Multi-omics outputs provided insights into bacterial community functions, modes of contaminant toxicity and expressed mechanisms of adaptation, necessary to better inform management decisions and predictive models in increasingly human-influenced environments.

Ganga River sediments of India predominate with aerobic and chemo-heterotrophic bacteria majorly engaged in the degradation of xenobiotic compounds

Sediment provides a stagnant habitat to microbes that accumulate organic matter and other industrial pollutants from the upper layer of the water. The sediment of the Ganga River of India is overlooked for exploring the bacterial diversity despite their taxon richness over the water counterpart. To enrich the limited information on the bacterial diversity of the Ganga River sediment, the present study was planned that relies on amplicon-based bacterial diversity of the Ganga River sediment by using bacterial-specific 16S hypervariable region (V₃-V₄). The Illumina MiSeq2500 platform generated 1,769,226 raw reads from the metagenomes of various samples obtained from ten sites in five major cities of Uttar Pradesh and Uttarakhand regions traversing the Ganga River. Taxonomy level analysis assigned 58 phyla, 366 order, and 715 genera of bacterial type. The high values of various diversity indices (Chao1, Shannon, and Simpson) in Kanpur sediment indicate the high bacterial richness compared to the Rishikesh sediment. However, several other ecological parameters (Shannon index, Simpson index, enspie _vector, and Faith_pd) were comparatively higher in Rishikesh sediment which is a comparatively less disturbed region by human activities over the other sediments samples studied here. Ganga River sediment dominates with Gram-negative, chemo-heterotrophic, and aerobic bacteria that chiefly belong to Proteobacteria, Acidobacteria, Chloroflexi, and Bacteroidota. The abundance of Nitrospira, Hydrogenophaga, Thauera, Vicinamibacteraceae, and Latescibacterota in the Ganga River sediment could be considered as the ecological indicators that find a significant role in the degradation of xenobiotic compounds. The PICRUSt-based analysis showed that ~ 35% of genes were involved in benzoate and aminobenzoate degradation where a significant portion of genes belong to nitrotoluene degradation (14%). Thus, the study uncovers a new perspective in the lineage of bacterial communities and their functional characterization of the Ganga River sediment.

Iron Compounds in Anaerobic Degradation of Petroleum Hydrocarbons: A Review

Waste and wastewater containing hydrocarbons are produced worldwide by various oil-based industries, whose activities also contribute to the occurrence of oil spills throughout the globe, causing severe environmental contamination. Anaerobic microorganisms with the ability to biodegrade petroleum hydrocarbons are important in the treatment of contaminated matrices, both in situ in deep subsurfaces, or ex situ in bioreactors. In the latter, part of the energetic value of these compounds can be recovered in the form of biogas. Anaerobic degradation of petroleum hydrocarbons can be improved by various iron compounds, but different iron species exert distinct effects. For example, Fe(III) can be used as an electron acceptor in microbial hydrocarbon degradation, zero-valent iron can donate electrons for enhanced methanogenesis, and conductive iron oxides may facilitate electron transfers in methanogenic processes. Iron compounds can also act as hydrocarbon adsorbents, or be involved in secondary abiotic reactions, overall promoting hydrocarbon biodegradation. These multiple roles of iron are comprehensively reviewed in this paper and linked to key functional microorganisms involved in these processes, to the underlying mechanisms, and to the main influential factors. Recent research progress, future perspectives, and remaining challenges on the application of iron-assisted anaerobic hydrocarbon degradation are highlighted.

Transcriptome profiling reveals upregulation of benzoate degradation and related genes in Pseudomonas aeruginosa D6 during textile dye degradation

An upsurge in textile dye pollution has demanded immediate efforts to develop an optimum technology for their bioremediation. However, the molecular mechanism underpinning aerobic decolorization of dyes is still in its infancy. Thus, in the current work, the intricacies of aerobic remediation of textile dyes by Pseudomonas aeruginosa D6 were understood via a transcriptomic approach. The bacterium isolated from the sludge sample of a common effluent treatment plant was able to decolorize 54.42, 57.66, 50.84 and 65.86% of 100 mg L^-1 of four different dyes i.e., TD01, TD04, TD05, and TD06, respectively. The maximum decolorization was achieved within six days and thus, the first and sixth day of incubation were selected for transcriptome analysis at the early and late phase of the decolorization, respectively. The expression profiles of all samples were compared to gain insight into the dye-specific response of bacterium and it was found that it behaved most uniquely in the presence of the dye TD01. Several genes critical to core metabolic processes like the TCA cycle, glycolysis, pentose phosphate pathway, translation, cell motility etc. Were found to be overexpressed in the presence of dyes. Interestingly, in response to dyes, the benzoate degradation pathway was significantly upregulated in the bacterium as compared to control (i.e., bacterium without dye). Thus, seven genes contributing to the induction of the same were further studied by RT-qPCR analysis. Overall, the involvement of the benzoate pathway implies the appearance of aromatic intermediates during decolorization, which in turn infers dye degradation.

Natural Magnetite Minerals Enhance 1,2-Dichloroethane Reductive Dechlorination

Contamination of soil and groundwater by chlorinated solvents is an environmental issue of primary concern. Recently, electrically conductive iron particles have been proposed as a novel approach to accelerate anaerobic bioremediation processes. In fact, it was demonstrated that conductive particles facilitate the exchange of electrons between microorganisms via Direct Interspecies Electron Transfer (DIET) processes, thus enhancing the pollutant-degrading potential of the microbial community. However, the use of natural minerals in this context has not been reported so far. In this study, we applied, for the first time, natural magnetite and hematite to accelerate the reductive dechlorination of 1,2-dichloroethane by an enrichment culture in lab-scale anaerobic microcosms. After four feeding cycles, low magnetite-amended microcosms (13 mg/L) yielded the highest rate of 1,2-DCA reductive dechlorination and reduced methanogenic activity. By contrast, hematite did not display any apparent stimulatory effect. Surprisingly, in the presence of higher amounts of iron oxides, a weaker effect was obtained, probably because iron(III) present in the minerals competed for the electrons necessary for reductive dechlorination. For all microcosms, the concentration of the toxic byproduct vinyl chloride was negligible throughout the whole study. The SEM/EDS analysis confirmed the close interaction between the conductive iron oxide particles and the dechlorinating bacteria. This work opens the possibility of using natural conductive minerals for bioremediation applications as well as shedding light on the previously unrecognized role of such minerals in contaminated ecosystems.

The role of predicted chemotactic and hydrocarbon degrading taxa in natural source zone depletion at a legacy petroleum hydrocarbon site

Petroleum hydrocarbon contamination is a global problem which can cause long-term environmental damage and impacts water security. Natural source zone depletion (NSZD) is the natural degradation of such contaminants. Chemotaxis is an aspect of NSZD which is not fully understood, but one that grants microorganisms the ability to alter their motion in response to a chemical concentration gradient potentially enhancing petroleum NSZD mass removal rates. This study investigates the distribution of potentially chemotactic and hydrocarbon degrading microbes (CD) across the water table of a legacy petroleum hydrocarbon site near Perth, Western Australia in areas impacted by crude oil, diesel and jet fuel. Core samples were recovered and analysed for hydrocarbon contamination using gas chromatography. Predictive metagenomic profiling was undertaken to infer functionality using a combination of 16 S rRNA sequencing and PICRUSt2 analysis. Naphthalene contamination was found to significantly increase the occurrence of potential CD microbes, including members of the Comamonadaceae and Geobacteraceae families, which may enhance NSZD. Further work to explore and define this link is important for reliable estimation of biodegradation of petroleum hydrocarbon fuels. Furthermore, the outcomes suggest that the chemotactic parameter within existing NSZD models should be reviewed to accommodate CD accumulation in areas of naphthalene contamination, thereby providing a more accurate quantification of risk from petroleum impacts in subsurface environments, and the scale of risk mitigation due to NSZD.

Independent of direct interspecies electron transfer: Magnetite-mediated sulphur cycle for anaerobic degradation of benzoate under low-concentration sulphate conditions

The aim of this study was to investigate the primary mechanism of magnetite promoting anaerobic degradation of aromatic compounds under the low-concentration sulphate conditions. Under influent conditions of benzoate at 50 mM-chemical oxygen demand (COD) and sulphate at 15 mM, magnetite promoted benzoate degradation (77.1% vs 56.3%), while the effluent sulphate concentration was slightly higher than that without magnetite (1.6 mM vs 0.7 mM), inconsistent with functional gene prediction that both sulphate respiration and sulphur compound respiration were relatively more active in the presence of magnetite. Remarkably, X-ray diffraction showed that, signal related to Fe₃O₄ faded away and finally was replaced by FeSO₄ and FeS, indicating that magnetite participated in benzoate degradation coupled to sulphate reduction via dissimilatory Fe(III) reduction. Further X-ray photoelectron spectroscopy showed that, signal related to S⁰ was only detected with magnetite, suggesting the possibility of re-oxidation of sulphide to elemental sulphur coupled to Fe(III) reduction. This was further supported by the increase in abundance of Desulfuromonas acetexigens capable of growing on Fe(III). In addition, magnetite specially enriched the chemolithotrophic sulphur-disproportionating microbes, Desulfovibrio aminophilus, which might proceed the disproportionation of elemental sulphur to sulphate and sulphide to achieve a sulphur cycle for benzoate degradation.

Enhanced bio-reductive degradation of fluoroglucocorticoids in the groundwater fluctuation zone by external electron donors: Performance, microbial community, and functional genes

This study evaluated the effectiveness of external electron donors on the bio-reductive degradation enhancement of fluoroglucocorticoids (FGCs) in the groundwater fluctuation zone during the wet season when reverse upward fluctuation of the groundwater table occurs and the dry season after the groundwater table declines. The results showed that the external electron donors, provided by the addition of nano zero-valent iron-modified biochar (nZVI@BC), inhibited the migration and enhanced the reductive defluorination of triamcinolone acetonide (TA), a representative FGC. The accumulation rate constant with temporal fluctuation depth and the attenuation rate constant with vertical fluctuation depth were -2.55 × 10^-3 and 4.20 × 10^-2, respectively, in the groundwater of the natural groundwater fluctuation zone (N-FZ). In contrast, the accumulation and attenuation rate constants were, respectively, 35.6% and 2.64 times higher in the groundwater fluctuation zone amended with nZVI@BC (nZVI@BC-FZ) as compared with those observed in the N-FZ. Furthermore, the decay rate constant of the TA residue in the dry season was 0.843 × 10^-2 μg/d in N-FZ and was 2.19 times higher in nZVI@BC-FZ. This enhancement effect, caused by the addition of external electrons, was positively correlated with the evolution of the microbial community and the expression of functional genes. The microbes evolved into functional genera with reductive dehalogenation (Xylophilus and Hydrogenophaga) and iron-oxidizing (Lysobacter, Pseudoxanthomonas, and Sphingomonas) abilities in the nZVI@BC-FZ system, which increased dehalogenation and iron oxide genes by a 4-5 order of magnitude. The utilization proportion of external electrons for TA metabolism was 50.04%, of which 30.82%, 10.26%, and 8.96% were utilized for defluorination, hydrogenation, and ring-opening, respectively. This study provides an effective method to reduce pollutant diffusion and enhance the bio-reductive degradation caused by groundwater table fluctuation.

Deciphering mono/multivalent draw solute-induced microbial ecology and membrane fouling in anaerobic osmotic membrane bioreactor

Anaerobic osmotic membrane bioreactor (AnOMBR) attracted attention due to high quality effluent production with low energy demand, and draw solute has significant effect on the system performance. However, the mutual relationship between draw solute-induced salinity accumulation and microbial community had many unknown questions to be solved. This study purpose was to construct two AnOMBR to compare the impact of draw solutes of NaCl and MgCl2 on the dynamic change of microbial ecology and membrane fouling. The result indicated that the draw solute of MgCl2 caused less salinity and more membrane biofouling than that of the draw solute NaCl. Multiple microbiological analysis methods were applied to discover keystone species related to the conductivity change and membrane fouling, especially for the MgCl2-AnOMBR system. It was found that draw solute NaCl could benefit the growth of Proteobacteria to become the most abundant phylum to affect the membrane fouling, while Mg2+ introduction could stimulate the growth of NS9, Hydrogenphilaceae and Pedosphaeraceae to potentially cause the biofouling. Furthermore, phylogenetic molecular ecological networks (pMENs) deeply analyzed the microbial structure difference under Na+ and Mg2+ introduction, and indicated that the family Lentimicrobiaceae and Candidatus_Kaiserbacteria were the keystone species in NaCl-AnOMBR, while two genus Anaerolinea and SWB02, and two families Saprospiraceae and NS9 were discovered to have key effect in MgCl2-AnOMBR due to their strong extracellular polymeric substances (EPS) production ability for survival of other microorganisms. This study was significant to give microbial targets under the impact of various draw solutes, as the reference for the engineers to further investigate how to improve the microbial structure to enhance AnOMBR performance and inhibit the membrane biofouling.

Crystalline iron oxides stimulate methanogenic benzoate degradation in marine sediment-derived enrichment cultures

Elevated dissolved iron concentrations in the methanic zone are typical geochemical signatures of rapidly accumulating marine sediments. These sediments are often characterized by co-burial of iron oxides with recalcitrant aromatic organic matter of terrigenous origin. Thus far, iron oxides are predicted to either impede organic matter degradation, aiding its preservation, or identified to enhance organic carbon oxidation via direct electron transfer. Here, we investigated the effect of various iron oxide phases with differing crystallinity (magnetite, hematite, and lepidocrocite) during microbial degradation of the aromatic model compound benzoate in methanic sediments. In slurry incubations with magnetite or hematite, concurrent iron reduction, and methanogenesis were stimulated during accelerated benzoate degradation with methanogenesis as the dominant electron sink. In contrast, with lepidocrocite, benzoate degradation, and methanogenesis were inhibited. These observations were reproducible in sediment-free enrichments, even after five successive transfers. Genes involved in the complete degradation of benzoate were identified in multiple metagenome assembled genomes. Four previously unknown benzoate degraders of the genera Thermincola (Peptococcaceae, Firmicutes), Dethiobacter (Syntrophomonadaceae, Firmicutes), Deltaproteobacteria bacteria SG8_13 (Desulfosarcinaceae, Deltaproteobacteria), and Melioribacter (Melioribacteraceae, Chlorobi) were identified from the marine sediment-derived enrichments. Scanning electron microscopy (SEM) and catalyzed reporter deposition fluorescence in situ hybridization (CARD-FISH) images showed the ability of microorganisms to colonize and concurrently reduce magnetite likely stimulated by the observed methanogenic benzoate degradation. These findings explain the possible contribution of organoclastic reduction of iron oxides to the elevated dissolved Fe²⁺ pool typically observed in methanic zones of rapidly accumulating coastal and continental margin sediments.

Microbes trading electricity in consortia of environmental and biotechnological significance

Favorable interspecies associations prevail in natural microbial assemblages. Some of these favorable associations are co-metabolic dependent partnerships in which extracellular electrons are exchanged between species. For such electron exchange to occur, the cells must exhibit electroactive interfaces and get involved in direct cell-to-cell contact (Direct Interspecies Electron Transfer/DIET) or use available conductive mineral grains from their environment (Conductive-particle-mediated Interspecies Electron Transfer/CIET). This review will highlight recent discoveries and knowledge gaps regarding DIET and CIET interspecies associations in artificial co-cultures and consortia from natural and man-made environments and emphasize approaches to validate DIET and CIET. Additionally, we acknowledge the initiation of a movement towards applying electric syntrophies in biotechnology, bioremediation and geoengineering for natural attenuation of toxic compounds. Next, we have highlighted the urgent research needs that must be met to develop such technologies.

Organic matter stabilized Fe in drinking water treatment residue with implications for environmental remediation

Fe-based materials used to adsorb P are commonly considered to be limited by the increased Fe lability, while Fe in drinking water treatment residue (DWTR) shows stable P adsorption abilities. Accordingly, this study aimed to gain insight into Fe lability in DWTR as compared to FeCl₃ and Fe₂(SO₄)₃ using Fe fractionation, EXAFS, and high-throughput sequencing technologies. The results showed that compared to Fe₂(SO₄)₃ and FeCl₃, Fe was relatively stable in the DWTR under the effects of organic matter, sulfides, and anaerobic conditions. Typically, the addition of FeCl₃ and Fe₂(SO₄)₃ enhanced Fe mobility in sediment and overlying water, promoting the formation of Fe-humin acid and ferrous sulfides (FeS and FeS₂). However, the addition of DWTR, even at relatively high doses of Fe, has limited impact on Fe mobility. The addition remarkably increased oxidizable Fe in sediment (by approximately 63%), causing Fe to be dominated by oxidizable and residual fractions (like those in raw DWTR); EXAFS analysis also suggested that Fe-humin acid increased substantially with the addition of DWTR, becoming the main Fe species in sediment (with a relative abundance of 50.1%). Importantly, the Fe distributions were stable in sediment with DWTR added, which demonstrated that organic matter stabilized the Fe in the DWTR. Further analysis indicated that all materials promoted the enrichment of bacterial genera potentially related to Fe metabolism (e.g., Bacteroides, Dok59, and Methanosarcina). Fe₂O₃ in the FeCl₃ and Fe₂(SO₄)₃ groups and Fe-HA in the DWTR group were the key species affecting the microbial communities. Overall, the stabilizing effect of organic matter on Fe in DWTR could be used to develop Fe-based materials to enhance Fe stability for environmental remediation.

Inhibition mitigation of methanogenesis processes by conductive materials: A critical review

Methanogenesis can be promoted by the addition of conductive materials. Although stimulating effects of conductive materials on methane (CH₄) production has been extensively reported, the crucial roles on recovering methanogenic activities under inhibitory conditions have not been systematically discussed. This critical review presents the current findings on the effects of conductive materials in methanogenic systems under volatile fatty acids (VFAs), ammonia, sulfate, and nano-cytotoxicity stressed conditions. Conductive materials induce fast VFAs degradation, avoiding VFAs accumulation during anaerobic digestion. Under high ammonia concentrations, conductive materials may ensure sufficient energy conservation for methanogens to maintain intracellular pH and proton balance. When encountering the competition of sulfate-reducing bacteria, conductive materials can benefit electron competitive capability of methanogens, recovering CH₄ production activity. Conductive nanomaterials stimulate the excretion of extracellular polymeric substances, which can prevent cells from nano-cytotoxicity. Future perspectives about unraveling mitigation mechanisms induced by conductive materials in methanogenesis processes are further discussed.

Biodegradation of Polystyrene by Pseudomonas sp. Isolated from the Gut of Superworms (Larvae of Zophobas atratus)

Recently, various attempts have been made to solve plastic waste problems, such as development of biodegradation without producing pollution. Polystyrene (PS) is the fifth most used plastic in many industries; therefore, degrading PS becomes a critical global issue. Here, we reported Pseudomonas aeruginosa strain DSM 50071, initially isolated from the gut of the superworms, Zophobas atratus, and the PS degradation by Pseudomonas sp. DSM 50071. We examined PS degradation using electronic microscopy and measured changes in atomic composition and contact angles with water droplets on the PS surface that represents a chemical change from hydrophobicity to hydrophilicity. We have further examined chemical structural changes using X-ray photoelectron spectroscopy, Fourier-transform-infrared spectroscopy, and nuclear magnetic resonance (NMR) to confirm the formation of carbonyl groups (C═O) in the oxidation pathway during PS biodegradation. In reverse transcription quantitative polymerase chain reaction analysis, the gene expression level of serine hydrolase (SH) in Pseudomonas sp. DSM 50071 was highly increased during PS degradation, and the enzyme-mediated biodegradation of PS was further confirmed by the SH inhibitor treatment test. Thus, the significance of these findings goes beyond the discovery of a novel function of Pseudomonas sp. DSM 50071 in the gut of superworms, highlighting a potential solution for PS biodegradation.