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The rates of oxygenic and anoxygenic photosynthesis, the microorganisms responsible for these processes, and the hydrochemical characteristics of the sulfide-containing karst lakes, Black Kichier and Big Kichier (Mari El Republic), were investigated. In these lakes, a plate of anoxygenic phototrophic bacteria (APB) is formed at the upper boundary of sulfide occurrence in the water. The phototrophic community of the chemocline zone was analyzed using a combination of high-throughput sequencing of the 16S rRNA gene fragments and light and electron microscopic techniques. Green-colored Chlorobium clathratiforme were absolutely predominant in both lakes. The minor components included green sulfur bacteria (GSB) Chlorobium spp., symbiotic consortia Chlorochromatium magnum and Pelochromatium roseum, purple sulfur bacteria (PSB) Chromatium okenii, and unidentified phylotypes of the family Chromatiaceae, as well as members of the Chloroflexota: Chloronema sp. and Oscillochloris sp. Based on the results of the molecular analysis, the taxonomic status of Ancalochloris perfilievii and other prosthecate GSB, as well as of the PSB Thiopedia rosea, which were visually revealed in the studied freshwater lakes, is discussed. [ABSTRACT FROM AUTHOR]

Autotrophic denitrification, recognized as a biological denitrification method, has garnered increasing interest in the field of ecological water environment denitrification technology. This study focuses on the utilization of the sulfur autotrophic denitrification process for the deep denitrification treatment of wastewater. Furthermore, it investigates the impact of phosphorus on nitrogen removal efficiency and bacterial community structure of sulfur autotrophic denitrification. In the experiment, a column containing an autotrophic denitrification filter with a carbon-sulfur filler was constructed. This study aimed to examine the impact of phosphorus on the initiation and denitrification efficiency of the autotrophic denitrification filter column. High-throughput sequencing was used to examine alterations in the structure of the bacterial community. The experimental findings indicated that the absence of phosphorus in the influent considerably extended the initiation period of the autotrophic denitrification filter column. The average Total Inorganic Nitrogen (TIN) removal rate was determined to be 80.26%, while the effluent exhibited an accumulation concentration of NO2- -N ranging from 7 to 11 mg/L. After the addition of phosphate, the removal rate of NO3- -N in the autotrophic denitrification process increased to more than 97%, with no2- -N accumulation. As the influent phosphorus concentration increased, the ability of the sulfur autotrophic denitrification filter column to resist hydraulic impact load improved. At a NO3- -N concentration of 30 mg/L and Hydraulic Retention Time (HRT) = 2 h, the mean NO3- -N removal rate increased from 73.22% to 81.71%. The concentration of phosphorus affected the quantity and variety of primary bacteria in the sulfur autotrophic denitrification system, as their domination changed from Pseudomonas to Ferritrophicum and Thiobacillus, and from a mixed culture to complete autotrophy. [ABSTRACT FROM AUTHOR]

This study aimed to isolate and characterize sulfur reducing bacteria from industrial wastewater and soil to remove sulfate. A total of 14 sulfate reducing bacterial (SRB) isolates were recovered from industrial wastewater and contaminated soil. Interestingly, bacterial isolate emr69 was selected as the highest sulfate reducer. Correspondingly, emr69 was characterized phenotypically and identified genotypically based on 16S rRNA gene sequencing as Enterobacter cloacae and deposited in Gen Bank database under accession number OR472728. The maximum sulfate reduction by E. cloacae emr69 against 2000 ppm (SO4-2) was 95% which obtained by adjusting the medium at pH 7 and growing the bacterium at 37°C under anaerobic conditions. The study suggests using of E. cloacae mr69 as a promising SRB for bioreduction of sulfate in industrial wastewater treatment. [ABSTRACT FROM AUTHOR]

Introduction: Bioconvection, a phenomenon characterized by the collective upward swimming of motile microorganisms, has mainly been investigated within controlled laboratory settings, leaving a knowledge gap regarding its ecological implications in natural aquatic environments. This study aims to address this question by investigating the influence of bioconvection on the eco-physiology of the anoxygenic phototrophic sulfur bacteria community of meromictic Lake Cadagno. Methods: Here we comprehensively explore its effects by comparing the physicochemical profiles of the water column and the physiological traits of the main populations of the bacterial layer (BL). The search for eco-physiological effects of bioconvection involved a comparative analysis between two time points during the warm season, one featuring bioconvection (July) and the other without it (September). Results: A prominent distinction in the physicochemical profiles of the water column centers on light availability, which is significantly higher in July. This minimum threshold of light intensity is essential for sustaining the physiological CO2 fixation activity of Chromatium okenii, the microorganism responsible for bioconvection. Furthermore, the turbulence generated by bioconvection redistributes sulfides to the upper region of the BL and displaces other microorganisms from their optimal ecological niches. Conclusion: The findings underscore the influence of bioconvection on the physiology of C. okenii and demonstrate its functional role in improving its metabolic advantage over coexisting phototrophic sulfur bacteria. However, additional research is necessary to confirm these results and to unravel the multiscale processes activated by C. okenii’s motility mechanisms. [ABSTRACT FROM AUTHOR]

The primary processes of photosynthesis for purple photosynthesising bacteria occur in light-harvesting (LH) complexes. The LH2 complex contains polypeptides; bacteriochlorophyll; and, in most cases, carotenoids. There are three known spatial structures of LH2 complexes from purple nonsulfur bacteria; however, high-resolution structures have not been established for purple sulfur bacteria. The results of the structural study of two light-harvesting complexes LH2 from purple sulfur bacteria Ectothiorhodospira haloalkaliphila by cryoelectronic microscopy are reported. Images of carotenoid-containing (LH2+) and carotenoidless (LH2–) variants of the complex, demonstrating a characteristic architecture of the objects of this type, are obtained. A 3D reconstruction of LH2+ is performed with a resolution of 4.5 Å; it coincides with the previously established crystal structure. The presence of particles of different morphology is shown for LH2–. [ABSTRACT FROM AUTHOR]

Formation of the Kanda Bay resulted from construction of a railway dam (1916) and subsequent isolation of the sea lagoon from the main basin of the Kandalaksha Gulf, White Sea. Decreased action of tidal flows, which mix the water column of the lagoon, altered the hydrological regime of the basin. Decreased water exchange resulted in formation of oxygen-depleted near-bottom water and to sulfide contamination. A freshwater lake was, however, preserved in the southern part of the Kanda Bay. The composition of microbial communities was studied for the near-bottom water horizons at different sides of the Kanda Bay. The oxygen regime in this layer was found to change, with increasing concentrations of sulfide and methane and active processes of sulfate reduction and methane oxidation. The composition of the microbial community changed noticeably, with lower abundance of true marine and freshwater microorganisms and development of bacteria and archaea predominant in microbial communities of anoxic water in meromictic basins. Among the microbial diversity, indicator species with increased abundance were revealed. These are archaea of the genera Methanoregula and Methanosaeta (phylum Halobacterota). The sulfur cycle microorganisms, which were the indicators of stagnant marine water, included anoxygenic phototrophic bacteria of the class Chlorobia, (Chlorobium phaeovibrioides, Pelodictyon phaeoclathratiforme), Chloroflexi of the genus Chloronema, nonsulfur purple bacteria related to the genus Rhodoferax, colorless sulfur bacteria of the family Beggiatoaceae, and sulfur oxidizers of the genus Thiobacillus. Archaea of the genus Nitrosopumilus (phylum Crenarchaeota) and bacteria of the genus Woeseia may be considered opposites to the indicator microorganisms, since they were found only in the open sea water. In our opinion, stable water exchange through the dam will result in the stable composition of the Kanda Bay microbial community, with only seasonal variations and year-to-year fluctuations. The negative scenario supports prediction of conversion of the Kanda Bay into a stratified basin with anoxic near-bottom water and the microbial community similar to that found in meromictic lakes. [ABSTRACT FROM AUTHOR]

Three strains of thermophilic green sulfur bacteria (GSB) are known; all are from microbial mats in hot springs in Rotorua, New Zealand (NZ) and belong to the species Chlorobaculum tepidum. Here, we describe diverse populations of GSB inhabiting Travel Lodge Spring (TLS) (NZ) and hot springs ranging from 36.1 °C to 51.1 °C in the Republic of the Philippines (PHL) and Yellowstone National Park (YNP), Wyoming, USA. Using targeted amplification and restriction fragment length polymorphism analysis, GSB 16S rRNA sequences were detected in mats in TLS, one PHL site, and three regions of YNP. GSB enrichments from YNP and PHL mats contained small, green, nonmotile rods possessing chlorosomes, chlorobactene, and bacteriochlorophyll c. Partial 16S rRNA gene sequences from YNP, NZ, and PHL mats and enrichments from YNP and PHL samples formed distinct phylogenetic clades, suggesting geographic isolation, and were associated with samples differing in temperature and pH, suggesting adaptations to these parameters. Sequences from enrichments and corresponding mats formed clades that were sometimes distinct, increasing the diversity detected. Sequence differences, monophyly, distribution patterns, and evolutionary simulation modeling support our discovery of at least four new putative moderately thermophilic Chlorobaculum species that grew rapidly at 40 °C to 44 °C. [ABSTRACT FROM AUTHOR]

Selenite biotransformation by microorganisms is an effective detoxification and assimilation process. However, current knowledge of the molecular mechanisms of selenite reduction remains circumscribed. Here, the reduction of Se(IV) by a highly selenite-resistant Bacillus sp. SL (up to 50 mM) was systematically analyzed, and the molecular mechanisms of selenite reduction were investigated. Remarkably, 10 mM selenite was entirely transformed by the strain SL within 20 h, demonstrating a faster conversion rate compared to other microorganisms. Furthermore, glutathione (GSH) and exopolysaccharides (EPS) changes were also monitored during the process. Transcriptomic analysis revealed that the genes of ferredoxin-sulfite oxidoreductase (6.82) and sulfate adenylyltransferase (6.32) were significantly upregulated, indicating that the sulfur assimilation pathway is the primary reducing pathway involved in selenite reduction by strain SL. Moreover, key genes associated with NAD(P)/FAD-dependent oxidoreductases and thioredoxin were significantly upregulated. The reduction of Se(IV) was mediated by multiple pathways in strain SL. To our knowledge, this is the initial report to identify the involvement of sulfur assimilation pathway in selenite reduction for bacillus, which is rare in aerobic bacteria. [ABSTRACT FROM AUTHOR]

The intermolecular contribution to the spectral density of the exciton-vibrational coupling of the homotrimeric Fenna–Matthews–Olson (FMO) light-harvesting protein of green sulfur bacteria P. aestuarii is analyzed by combining a normal mode analysis of the protein with the charge density coupling method for the calculation of local transition energies of the pigments. Correlations in site energy fluctuations across the whole FMO trimer are found at low vibrational frequencies. Including, additionally, the high-frequency intrapigment part of the spectral density, extracted from line-narrowing spectra, we study intra- and intermonomer exciton transfer. Whereas the intrapigment part of the spectral density is important for fast intramonomer exciton relaxation, the intermolecular contributions (due to pigment-environment coupling) determine the intermonomer exciton transfer. Neither the variations of the local Huang–Rhys factors nor the correlations in site energy fluctuations have a critical influence on energy transfer. At room temperature, the intermonomer transfer in the FMO protein occurs on a 10 ps time scale, whereas intramonomer exciton equilibration is roughly two orders of magnitude faster. At cryogenic temperatures, intermonomer transfer limits the lifetimes of the lowest exciton band. The lifetimes are found to increase between 20 ps in the center of this band up to 100 ps toward lower energies, which is in very good agreement with the estimates from hole burning data. Interestingly, exciton delocalization in the FMO monomers is found to slow down intermonomer energy transfer, at both physiological and cryogenic temperatures. [ABSTRACT FROM AUTHOR]

IntroductionBioconvection, a phenomenon characterized by the collective upward swimming of motile microorganisms, has mainly been investigated within controlled laboratory settings, leaving a knowledge gap regarding its ecological implications in natural aquatic environments. This study aims to address this question by investigating the influence of bioconvection on the eco-physiology of the anoxygenic phototrophic sulfur bacteria community of meromictic Lake Cadagno.MethodsHere we comprehensively explore its effects by comparing the physicochemical profiles of the water column and the physiological traits of the main populations of the bacterial layer (BL). The search for eco-physiological effects of bioconvection involved a comparative analysis between two time points during the warm season, one featuring bioconvection (July) and the other without it (September).ResultsA prominent distinction in the physicochemical profiles of the water column centers on light availability, which is significantly higher in July. This minimum threshold of light intensity is essential for sustaining the physiological CO2 fixation activity of Chromatium okenii, the microorganism responsible for bioconvection. Furthermore, the turbulence generated by bioconvection redistributes sulfides to the upper region of the BL and displaces other microorganisms from their optimal ecological niches.ConclusionThe findings underscore the influence of bioconvection on the physiology of C. okenii and demonstrate its functional role in improving its metabolic advantage over coexisting phototrophic sulfur bacteria. However, additional research is necessary to confirm these results and to unravel the multiscale processes activated by C. okenii’s motility mechanisms.

Studies based on the bacterial diversity present in Mansonia spp. are limited; therefore, the aim of this study was to investigate the bacterial diversity in females and larvae of Mansonia spp., describe the differences between the groups identified, and compare the microbiota of larvae from different collection sites. Sequences of the 16S rRNA region from the larvae and females of Mansonia spp. were analyzed. Diversity analyzes were performed to verify the possible bacterial differences between the groups and the collection sites. The results showed Pseudomonas was the most abundant genus in both females and larvae, followed by Wolbachia in females and Rikenellaceae and Desulfovibrio in larvae. Desulfovibrio and Sulfurospirillum, sulfate- and sulfur-reducing bacteria, respectively, were abundant on the larvae. Aminomonas, an amino acid-degrading bacterium, was found only in larvae, whereas Rickettsia was identified in females. Bacterial diversity was observed between females and larvae of Mansonia and between larvae from different collection sites. In addition, the results suggest that the environment influenced bacterial diversity. [ABSTRACT FROM AUTHOR]

Simple Summary: The lower termite Coptotermes gestroi is widely distributed in Northern Vietnam and is an important urban pest that destroys wooden constructions such as pagodas, temples, and furniture. Although the metagenomic DNA of prokaryotes freely living in the termite gut has been sequenced and analyzed, the overall picture of the prokaryotic diversity, including archaea and their function, has not been investigated. The present study, for the first time, revealed the differences in the structure and function of free-living prokaryotes in the termite gut. The bacterial community was formed and adapted to aid the hosts' survival and development even in the presence of pesticides. Beyond the potential function of the bacteria towards lignocellulose digestion, free-living bacteria and archaea also harbor diverse genes coding for the enzymes/proteins involved in reductive acetogenesis, methanogenesis, methane and sulfur metabolism, and nitrogen fixation and recycling to supply energy for the host; the synthesis of antibiotics for host defense; and the detoxification of aromatic compounds. The present study provides a valuable scientific basis for the mining of novel bacterial genes and the isolation of bacteria from the termite gut for agricultural, environmental, pharmaceutical, and medical applications. Termites' digestive systems, particularly in lower termites with the presence of protozoa, are unique ecological niches that shelter a diverse microbiota with a variety of functions for the host and the environment. In 2012, the metagenomic DNA (5.4 Gb) of the prokaryotes that freely live in the gut of the lower termite Coptotermes gestroi were sequenced. A total of 125,431 genes were predicted and analyzed in order to mine lignocellulolytic genes. however, the overall picture of the structure, diversity, and function of the prokaryotic gut microbiota was not investigated. In the present study, these 125,431 genes were taxonomically classified by MEGAN and functionally annotated by the Kyoto Encyclopedia of Genes and Genomes (KEGG) and by the Carbohydrate-Active enZYmes (CAZy) and HMMER databases. As a result, 95,751 bacterial genes were classified into 35 phyla. The structure of the bacteria, typified by a high ratio of Firmicutes to Bacterioidetes, was distinct from the structure of the entirety of the bacteria in the lower or higher termites' guts. The archaea (533 genes) were distributed into 4 phyla, 10 classes, 15 orders, 21 families, 47 genera, and 61 species. Although freely living in the guts, the prokaryotic community was formed, developed, and adapted to exhibit unique interactions in order to perform mutual roles of benefit to their hosts. Methanobacteriales, accounting for 61% of the archaea symbionts, seem to play an important role in methanogenesis. Concomitantly, bacterial methanotrophs in the gut utilize methane and combine with other bacterial groups, including potential lignocellulolytic degraders, acetogens, sulfur bacteria, and nitrogen-recycling bacteria, to efficiently convert wood with little nitrogen into acetates via certain pathway modules specified by prokaryotes that freely live in the gut. This forms an important energy source for the termites. Furthermore, bacteria carry 2223 genes involved in the biosynthesis of 17 antibiotic groups. The gut bacteria also possess genes for the degradation of 18 toxic aromatic compounds, of which four are commercial pesticides against termites commonly used for the preservation of wooden constructions. Eight of the eighteen pathways were the first to be reported from the termite gut. Overall, this study sheds light on the roles of the freely living bacteria and archaea in the C. gestroi gut, providing evidence that the gut microbiome acts as the second host genome, contributing both nutrients and immunity to support the host's existence, growth, and development. [ABSTRACT FROM AUTHOR]

The metabolic versatility and potential of microbes enables their survival and growth in harsh condition such as sites ravaged by mining activities. The Kapurdi lignite deposit of the Barmer Basin is one of the important Tertiary lignite deposits underlying the Great Indian Thar desert in the north-western part of Rajasthan. The diversity of culturable sulfur oxidizing bacteria (SOB) in Kapurdi and Jalipa lignite mine site, Barmer, Rajasthan was assessed in this study. Bacteria were isolated by plating on selective thiosulfate mineral media, and dominant isolates were identified from their physiological characteristics and 16S rRNA gene sequences. The obligate chemolithotrophic SOB were identified as Thermithiobacillus sp. strain KO11, KO12, KO13 (OP788122, OP788123, OP788124). Whereas heterotrophic SOB was identified as Bacillus sp.strain KO1 (OP788112), Bacillus sp. strain KO2 (OP788113), Bacillus sp.strain KO3 (OP788114), Enterobacter sp.strain KO4, KO5, KO6, KO9 (OP788115, OP788116, OP788117, OP788120), Leclercia sp. Strain KO7(OP788118), Pantoea sp. strain KO8(OP788119), and Rhodococcussp.strain KO10 (OP788121). The culture condition was optimized for the two most potential SOB i.e., Thermithiobacillus sp. strain KO11 and Leclercia sp. strain KO7. Both the isolates grew well and produced maximum amount of sulfate in thiosulfate mineral media at pH 8.0 and with 40 mM of thiosulfate substrate. Thermithiobacillus sp. strain KO11 had the optimum growth at 45°C indicating its thermophillic nature whereas, Leclercia sp. strain KO7 had optimum growth at 35°C. This study significantly enhances our knowledge of native bacteria in mining impacted environments and their role in biogeochemical cycling of sulfur. [ABSTRACT FROM AUTHOR]

Sulfur-cycling microbial communities in salt marsh rhizosphere sediments mediate a recycling and detoxification system central to plant productivity. Despite the importance of sulfur-cycling microbes, their biogeographic, phylogenetic, and functional diversity remain poorly understood. Here, we use metagenomic data sets from Massachusetts (MA) and Alabama (AL) salt marshes to examine the distribution and genomic diversity of sulfur-cycling plant-associated microbes. Samples were collected from sediments under Sporobolus alterniflorus and Sporobolus pumilus in separate MA vegetation zones, and under S. alterniflorus and Juncus roemerianus co-occuring in AL. We grouped metagenomic data by plant species and site and identified 38 MAGs that included pathways for sulfate reduction or sulfur oxidation. Phylogenetic analyses indicated that 29 of the 38 were affiliated with uncultivated lineages. We showed differentiation in the distribution of MAGs between AL and MA, between S. alt erniflorus and S. pumilus vegetation zones in MA, but no differentiation between S. alt erniflorus and J. roemerianus in AL. Pangenomic analyses of eight ubiquitous MAGs also detected site- and vegetation-specific genomic features, including varied sulfur-cycling operons, carbon fixation pathways, fixed single-nucleotide variants, and active diversity-generating retroelements. This genetic diversity, detected at multiple scales, suggests evolutionary relationships affected by distance and local environment, and demonstrates differential microbial capacities for sulfur and carbon cycling in salt marsh sediments. IMPORTANCE Salt marshes are known for their significant carbon storage capacity, and sulfur cycling is closely linked with the ecosystem-scale carbon cycling in these ecosystems. Sulfate reducers are key for the decomposition of organic matter, and sulfur oxidizers remove toxic sulfide, supporting the productivity of marsh plants. To date, the complexity of coastal environments, heterogeneity of the rhizosphere, high microbial diversity, and uncultured majority hindered our understanding of the genomic diversity of sulfur-cycling microbes in salt marshes. Here, we use comparative genomics to overcome these challenges and provide an in-depth characterization of sulfur-cycling microbial diversity in salt marshes. We characterize communities across distinct sites and plant species and uncover extensive genomic diversity at the taxon level and specific genomic features present in MAGs affiliated with uncultivated sulfur-cycling lineages. Our work provides insights into the partnerships in salt marshes and a roadmap for multiscale analyses of diversity in complex biological systems. [ABSTRACT FROM AUTHOR]

This study aimed to compare the effects of adding cyanide-utilizing bacteria (CUB) and sulfur on rumen fermentation, the degradation efficiency of hydrogen cyanide (HCN), feed utilization, and blood metabolites in beef cattle fed two levels of fresh cassava root (CR). A 2 × 2 factorial arrangement in a 4 × 4 Latin square design was used to distribute four male purebred Thai native beef cattle (2.5–3.0 years old) with an initial body weight (BW) of 235 ± 15.0 kg. Factor A was Enterococcus faecium KKU-BF7 oral direct fed at 108 CFU/ml and 3% dry matter (DM) basis of pure sulfur in concentrate diet. Factor B was the two levels of CR containing HCN at 300 and 600 mg/kg on DM basis. There was no interaction effect between CUB and sulfur supplementation with CR on feed utilization (p > 0.05). Similarly, CUB and sulfur supplementation did not affect (p > 0.05) DM intake and apparent nutrient digestibility. However, the high level of CR supplementation increased (p < 0.05) feed intake and neutral detergent fiber digestibility. The ruminal pH, microbial population, ammonia–nitrogen, blood urea nitrogen, and blood thiocyanate concentrations were unaffected by the addition of CUB and sulfur at two CR concentrations (p > 0.05). The addition of CUB or sulfur had no effect on the efficiency of HCN degradation in the rumen (p > 0.05). However, cattle given CR with HCN at 600 mg/kg DM had considerably higher degradation efficiency than those fed CR containing HCN at 300 mg/kg DM (p < 0.05). The group fed CUB had a considerably greater CUB population (p < 0.05) than the sulfur group. Cyanide-utilizing bacteria or sulfur supplementation with CR had no interaction effect between total VFAs and their profiles (p > 0.05). However, the study observed a significant positive correlation between the amount of CR and the concentration of propionate in the rumen (p < 0.05). The levels of nitrogen absorption and nitrogen retention did not differ significantly among the treatments (p > 0.05). Hence, it may be inferred that the administration of a high concentration of CR at a dosage of 600 mg/kg DM HCN could potentially provide advantageous outcomes when animals are subjected to oral CUB incorporation. [ABSTRACT FROM AUTHOR]

Fatty acids and bulk geochemical proxies were employed to understand the sources and transformation of sedimentary organic matter from surface sediments of major five mangrove systems in the northern Kerala coast. Texture, tidal rhythm and the proximity to the south eastern Arabian Sea were the main factors influencing distribution and accumulation of the organic matter in these systems. A total of 118 fatty acids were quantified and grouped into short-chain (SCFA), long-chain (LCFA), monounsaturated (MUFA), polyunsaturated (PUFA) and branched-chain (BrFA) fatty acids, hydroxy fatty acids, cyclic fatty acids, and dicarboxylic acids. The distribution of fatty acid groups was in the order SCFA > BrFA > MUFA > LCFA > PUFA. Total fatty acids (TFA) concentration exhibited profound seasonal variations and ranged from 6.25 to 580.49 lg/g (pre-monsoon > post-monsoon > monsoon except in Kadalundi which follows the reverse order). The sedimentary fatty acids in the study region reveal a wide spectrum of inputs from terrestrial, planktonic (preponderance of diatom followed by dinoflagellates along with brown algae, cyanobacteria, red algae) and bacterial sources (e.g., Desulfobulbus-type bacteria, sulfur-reducing bacteria, Sulfur-oxidizing bacteria). Significant concentrations of bacterial fatty acids suggest the functioning of an effective microbial loop and various biogeochemical pathways operating in these sediments (sulfate reduction, iron and manganese oxide reduction, etc.). [ABSTRACT FROM AUTHOR]

Simple Summary: The first-time cloning of genes from a carotenoid pathway was from purple bacteria. The availability of the carotenogenic genes promoted the molecular investigation of the spheroidene and the spirilloxanthin pathway of these bacteria. These genes were applied for heterologous enzyme expression and their characterisation and for genetic pathway complementation. These investigations provided a deeper insight into the course of spheroidene and spirilloxanthin biosynthesis and the similarities between both pathways. In purple bacteria, the genes of the carotenoid pathways are part of photosynthesis gene clusters which were distributed among different species by horizontal gene transfer. Their close organisation facilitated the first-time cloning of carotenogenic genes and promoted the molecular investigation of spheroidene and spirilloxanthin biosynthesis. This review highlights the cloning of the spheroidene and spirilloxanthin pathway genes and presents the current knowledge on the enzymes involved in the carotenoid biosynthesis of purple sulphur and non-sulphur bacteria. Mostly, spheroidene or spirilloxanthin biosynthesis exists in purple non-sulphur bacteria but both pathways operate simultaneously in Rubrivivax gelatinosus. In the following years, genes from other bacteria including purple sulphur bacteria with an okenone pathway were cloned. The individual steps were investigated by kinetic studies with heterologously expressed pathway genes which supported the establishment of the reaction mechanisms. In particular, the substrate and product specificities revealed the sequential order of the speroidene and spiriloxanthin pathways as well as their interactions. Information on the enzymes involved revealed that the phytoene desaturase determines the type of pathway by the formation of different products. By selection of mutants with amino acid exchanges in the putative substrate-binding site, the neurosporene-forming phytoene desaturase could be changed into a lycopene-producing enzyme and vice versa. Concerning the oxygen groups in neurosporene and lycopene, the tertiary alcohol group at C1 is formed from water and not by oxygenation, and the C2 or C4 keto groups are inserted differently by an oxygen-dependent or oxygen-independent ketolation reaction, respectively. [ABSTRACT FROM AUTHOR]

The influence of bacterial nutrition (by ethanol) on the appearance of hydrogen sulfide and colloidal sulfur in the filtrate of innovative U-shaped small-sized (point-of-use) submersible denitrifying biofilter describes in the course of its regular operation. The device intends to get drinking water from groundwater sources contaminated with nitrates, sulfates, and heavy metal ions. Colonies of denitrifying bacteria occupy an ecological niche inside the filter bed in an anoxic medium in the inlet elbow of the biofilter and reduce the concentration of nitrates below of hygienic limit at the optimal feed by ethanol. Hydrogen sulfide and colloidal sulfur produce the sulfate-reducing and sulfur bacteria. Sulfate-reducing bacteria act in an anaerobic environment in the bottom conjunction zone of the inlet and outlet elbows of the biofilter. These bacteria release hydrogen sulfide when ethanol adds to filtering water in excess compared to the dosage required for denitrification. Colonies of sulfur bacteria occupy an ecological niche in the output zone of the biofilter exit elbow and oxidise hydrogen sulfide to elemental sulfur. Sulfate reduction associated with nitrates removal can be helpful for additional water purification from admixtures of heavy and polyvalent metal ions. [ABSTRACT FROM AUTHOR]

In the pursuit of cultivating anaerobic anoxygenic phototrophs with unusual absorbance spectra, a purple sulfur bacterium was isolated from the shoreline of Baltrum, a North Sea island of Germany. It was designated strain 970, due to a predominant light harvesting complex (LH) absorption maximum at 963–966 nm, which represents the furthest infrared-shift documented for such complexes containing bacteriochlorophyll a. A polyphasic approach to bacterial systematics was performed, comparing genomic, biochemical, and physiological properties. Strain 970 is related to Thiorhodovibrio winogradskyi DSM 6702T by 26.5, 81.9, and 98.0% similarity via dDDH, ANI, and 16S rRNA gene comparisons, respectively. The photosynthetic properties of strain 970 were unlike other Thiorhodovibrio spp., which contained typical LH absorbing characteristics of 800–870 nm, as well as a newly discovered absorption band at 908 nm. Strain 970 also had a different photosynthetic operon composition. Upon genomic comparisons with the original Thiorhodovibrio strains DSM 6702T and strain 06511, the latter was found to be divergent, with 25.3, 79.1, and 97.5% similarity via dDDH, ANI, and 16S rRNA gene homology to Trv. winogradskyi, respectively. Strain 06511 (=DSM 116345T) is thereby described as Thiorhodovibrio litoralis sp. nov., and the unique strain 970 (=DSM 111777T) as Thiorhodovibrio frisius sp. nov. [ABSTRACT FROM AUTHOR]

BACKGROUND: Persulfate (PS) has the capability to yield free radicals via activators, thereby shaping an advanced oxidation process that can significantly contribute to effective sterilization. Central to this technology is the pursuit of appropriate activators. RESULTS: In our research, we successfully synthesized an economical and efficient PS activator, namely a pyrrhotite‐loaded sludge carbon (Pyr‐SC) composite. This was achieved via a straightforward procedure utilizing two environmentally friendly and cost‐efficient raw materials: pyrite and sludge. Pyr‐SC exhibited a specific surface area of 60.4 m2 g−1 and rich functional groups such as carbon–sulfur and sulfur–oxygen. The magnetic and graphitic carbon structures were formed at high temperatures during the preparation process, and the sludge carbon (SC) exhibited porous defects, which allowed the effective insertion of iron/sulfur into SC to form the stable Pyr‐SC structure. Pyr‐SC activated PS, which further sterilized Escherichia coli in the wastewater at a sterilization rate of 7.00 lg E. coli at 107 cfu mL−1 in 80 min. The sterilization rate was less affected by temperature and pH. We verified sulfate, hydroxyl and oxygen free radicals produced by the Pyr‐SC‐activated PS. The Pyr‐SC composite, thanks to its expedited electron transfer, could activate PS to engender free radicals. Furthermore, the oscillatory transformation of iron ions caused by the monosulfide ion on the Pyr‐SC surface augmented the production of free radicals. An assessment of Pyr‐SC's stability was conducted, adhering to the principles of magnetic separation. After five cycles in the Pyr‐SC/PS reaction system, the sterilization rate reached 3.29 lg, whereas the leaching rate of iron in Pyr‐SC decreased. The Pyr‐SC/PS reaction system also had a broad spectrum of wastewater. CONCLUSION: The economically prepared Pyr‐SC composite provided an effective technology for activating PS and sterilizing microorganisms in wastewater. © 2023 Society of Chemical Industry. [ABSTRACT FROM AUTHOR]

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Microbiota of sulfur-rich environments has been extensively studied due to the biotechnological potential of sulfur bacteria, or as a model of ancient life. Cold terrestrial sulfur springs are less studied compared to sulfur-oxidizing microbiota of hydrothermal vents, volcanic environments, or soda lakes. Despite that, several studies suggested that sulfur springs harbor diverse microbial communities because of the unique geochemical conditions of upwelling waters. In this study, the microbiota of five terrestrial sulfur springs was examined using a 16 S rRNA gene sequencing. The clear dominance of the Proteobacteria and Campylobacterota phyla of cold sulfur springs microbiota was observed. Contrary to that, the microbiota of the hot sulfur spring was dominated by the Aquificota and Firmicutes phylum respectively. Sulfur-oxidizing genera constituted a dominant part of the microbial populations with the Thiothrix and Sulfurovum genera identified as the core microbiota of cold sulfur terrestrial springs in Slovakia. Additionally, the study emphasizes that sulfur springs in Slovakia support unique, poorly characterized bacterial communities of sulfur-oxidizing bacteria. [ABSTRACT FROM AUTHOR]

The chemical and structural diversity of minerals containing sulfur as an essential mineral-forming element has been analyzed in terms of the concept of mineral systems and the information-based structural and chemical complexity parameters. The study employs data for 1118 sulfur mineral species approved by the International Mineralogical Association. All known sulfur minerals belong to nine mineral systems, with the number of essential components ranging from one to nine. The chemical and structural complexity of S minerals correlate with each other; that is, on average, chemical complexification results in structural complexification. The minerals with S–O bonds (sulfates and sulfites) are more complex than those without S–O bonds (sulfides and sulfosalts). However, the most complex sulfur mineral known so far is incomsartorite, Tl6Pb144As246S516, a sulfosalt. The complexity-generating mechanism in sulfides and sulfosalts is the complex combination of different modules excised from parent PbS or SnS archetypes with the subsequent formation of superstructures. The drivers for structural complexity in sulfates are more diverse and, in addition to modular construction and superstructures, also include a high hydration state, the presence of polyatomic clusters, and framework complexity. The most complex Martian minerals are most probably halotrichite-group minerals. The chemical and structural complexity increases with the passage of geological time with the formation of the most complex sulfosalts at Lengenbach (Swiss Alps) triggered by life (activity of sulfur-reducing bacteria). [ABSTRACT FROM AUTHOR]

Potentially corrosion-active microorganisms isolated from structural materials with the signs of biofouling on the coast of Kislaya Bay (Barents Sea, Russia) were studied: sulfate-reducing, iron-oxidizing and sulfur-oxidizing bacteria. The cultures of sulfate-reducing bacteria (Desulfovibrio sp., Halodesulfovibrio sp.), sulfur-oxidizing bacteria (Dietzia sp.), and iron-oxidizing bacteria (Pseudomonas fluorescens, Bacillus sp.) were identified on the basis of determining the nucleotide sequences of the 16S rRNA gene. The methods of scanning electron microscopy, energy dispersive microanalysis of the chemical composition, and powder X-ray diffraction analysis revealed significant changes in the structure and chemical composition of the surface layer of steel reinforcement samples exposed for 28 days in the presence of isolated microorganisms that demonstrated their active participation in corrosion processes. It has been shown that the formation of mineral analogues in corrosion products depends on the strains of studied bacteria and the peculiarities of their metabolism. Sulfate-reducing bacteria isolated from the littoral zone of the Barents Sea showed the highest activity in the development of corrosion processes. [ABSTRACT FROM AUTHOR]

Haloalkaliphilic microorganisms are double extremophiles functioning optimally at high salinity and pH. Their typical habitats are soda lakes, geologically ancient yet widespread ecosystems supposed to harbor relict microbial communities. We compared metabolic features and their determinants in two strains of the natronophilic species Dethiobacter alkaliphilus, the only cultured representative of the class "Dethiobacteria" (Bacillota). The strains of D. alkaliphilus were previously isolated from geographically remote Mongolian and Kenyan soda lakes. The type strain AHT1T was described as a facultative chemolithoautotrophic sulfidogen reducing or disproportionating sulfur or thiosulfate, while strain Z-1002 was isolated as a chemolithoautotrophic iron reducer. Here, we uncovered the iron reducing ability of strain AHT1T and the ability of strain Z-1002 for thiosulfate reduction and anaerobic Fe(II) oxidation. Key catabolic processes sustaining the growth of both D. alkaliphilus strains appeared to fit the geochemical settings of two contrasting natural alkaline environments, sulfur-enriched soda lakes and iron-enriched serpentinites. This hypothesis was supported by a meta-analysis of Dethiobacterial genomes and by the enrichment of a novel phylotype from a subsurface alkaline aquifer under Fe(III)-reducing conditions. Genome analysis revealed multiheme c-type cytochromes to be the most probable determinants of iron and sulfur redox transformations in D. alkaliphilus. Phylogeny reconstruction showed that all the respiratory processes in this organism are likely provided by evolutionarily related early forms of unconventional octaheme tetrathionate and sulfite reductases and their structural analogs, OmhA/OcwA Fe(III)-reductases. Several phylogenetically related determinants of anaerobic Fe(II) oxidation were identified in the Z-1002 genome, and the oxidation process was experimentally demonstrated. Proteomic profiling revealed two distinct sets of multiheme cytochromes upregulated in iron(III)- or thiosulfate-respiring cells and the cytochromes peculiar for Fe(II) oxidizing cells. We suggest that maintaining high variation in multiheme cytochromes is an effective adaptive strategy to occupy geochemically contrasting alkaline environments. We propose that sulfurenriched soda lakes could be secondary habitats for D. alkaliphilus compared to Fe-rich serpentinites, and that the ongoing evolution of Dethiobacterales could retrace the evolutionary path that may have occurred in prokaryotes at a turning point in the biosphere's history, when the intensification of the sulfur cycle outweighed the global significance of the iron cycle. [ABSTRACT FROM AUTHOR]

Sulphur-oxidizing bacteria can alter the root environment by oxidizing sulphur and lowering pH to increase nutrient availability. A field experiment was conducted on calcareous soil to assess the impact of elemental sulfur and farmyard manure enriched with sulfur-oxidizing bacteria (named microbial soil conditioner; MSC) on P and micronutrient availability, as well as on wheat growth. Five treatments, CK (Control), NPK (recommended dose of NPK), MSC (microbial soil conditioner), ½ P + MSC (half recommended dose of P with a full recommended dose of NK + MSC) and NPK +MSC (recommended dose of NPK + MSC), were used. Data regarding plant physiological and yield parameters were analyzed. The results showed that MSC + NPK and ½ P significantly enhanced the nutrient availability, particularly phosphorus and micronutrients. The highest P concentrations in wheat grain, straw and yield were obtained by the recommended dose of NPK + MSC following half recommended dose of P with NK+ MSC. This work advocates that application of sulphur and farmyard manure enriched with sulphur-oxidizing bacteria could be a beneficial strategy for improving nutrient availability, mainly phosphorus and micronutrients ultimately with improved plant growth in calcareous soils. [ABSTRACT FROM AUTHOR]

Arbuscular mycorrhizal fungi (AMF) can symbiose with many plants and improve nutrient uptake for their host plant. Rhizosphere microorganisms have been pointed to play important roles in helping AMF to mobilize soil insoluble nutrients, especially phosphorus. Whether the change in phosphate transport under AMF colonization will affect rhizosphere microorganisms is still unknown. Here, we evaluated the links of interactions among AMF and the rhizosphere bacterial community of maize (Zea mays L.) by using a maize mycorrhizal defective mutant. Loss of mycorrhizal symbiosis function reduced the phosphorus concentration, biomass, and shoot length of maize colonized by AMF. Using 16S rRNA gene amplicon high-throughput sequencing, we found that the mutant material shifted the bacterial community in the rhizosphere under AMF colonization. Further functional prediction based on amplicon sequencing indicated that rhizosphere bacteria involved in sulfur reduction were recruited by the AMF colonized mutant but reduced in the AMFcolonized wild type. These bacteria harbored much abundance of sulfur metabolism-related genes and negatively correlated with biomass and phosphorus concentrations of maize. Collectively, this study shows that AMF symbiosis recruited rhizosphere bacterial communities to improve soil phosphate mobilization, which may also play a potential role in regulating sulfur uptake. This study provides a theoretical basis for improving crop adaptation to nutrient deficiency through soil microbial management practices. [ABSTRACT FROM AUTHOR]

Drivers of reef decline are well known both today and in the geological past. Considerably less is known about the preconditions for a pantropical expansion of coral reefs. The geological record of reef building is characterised by considerably long intervals with very limited reef expansion and geologically brief (< 20 million years) episodes of prolific, pantropical reef growth. Here, we propose a new "co-occurrence hypothesis" (COH), which posits that reefs thrive when fast-growing hypercalcifiers co-occur with encrusting organisms such as calcifying microbes or coralline algae to construct wave-resistant structures. While there is little evidence of the effect of abiotic drivers on reef proliferation, we find that positive co-occurrence patterns are significantly more common in reefal as compared to non-reefal communities, suggesting that biological interactions are more relevant in reefs than in non-reefs. Supporting COH, we also show that reefs after the end-Permian mass extinction became more modular in nature with limited membership in reef assemblages during reef booms than in typical periods of reef growth (background intervals). Modularity in reefs may have led to the stabilisation of reef ecosystems, giving them the ability to recover from small perturbations, promoting reefal carbonate accretion and prolific reef growth. [ABSTRACT FROM AUTHOR]

Fenna-Mathews-Olson complexes participate in the photosynthetic process of Sulfur Green Bacteria. These biological subsystems exhibit quantum features which possibly are responsible for their high efficiency; the latter may comprise multipartite entanglement and the apparent tunnelling of the initial quantum state. At first, to study these aspects, a multidisciplinary approach including experimental biology, spectroscopy, physics, and math modelling is required. Then, a global computer modelling analysis is achieved in the computational biology domain. The current work implements the Hierarchical Equations of Motion to numerically solve the open quantum system problem regarding this complex. The time-evolved states obtained with this method are then analysed under several measures of entanglement, some of them already proposed in the literature. However, for the first time, the maximum overlap with respect to the closest separable state is employed. This authentic multipartite entanglement measure provides information on the correlations, not only based on the system bipartitions as in the usual analysis. Our study has led us to note a different view of FMO multipartite entanglement as tiny contributions to the global entanglement suggested by other more basic measurements. Additionally, in another related trend, the initial state, considered as a Förster Resonance Energy Transfer, is tracked using a novel approach, considering how it could be followed under the fidelity measure on all possible permutations of the FMO subsystems through its dynamical evolution by observing the tunnelling in the most probable locations. Both analyses demanded significant computational work, making for a clear example of the complexity required in computational biology. [ABSTRACT FROM AUTHOR]

Color-tuning is a critical survival mechanism for photosynthetic organisms. Calcium ions are believed to enhance both spectral tuning and thermostability in obligatory calcium-containing sulfur purple bacteria. This study examined the thermo- and piezo stability of the LH1-RC complexes from two calcium-containing sulfur purple bacteria notable for their extreme red-shifted spectra. The results generally show limited reversibility of both temperature and pressure effects related to the malleability of calcium-binding sites. While the pressure-induced decomposition product closely resembles the calcium-depleted form of the chromoproteins, the thermally induced products reveal monomeric B777 and dimeric B820 forms of bacteriochlorophyll a, similar to those seen in non-sulfur purple bacteria treated with detergent. The study further found nearly unison melting of the protein tertiary and secondary structures. Overall, our findings do not support a direct link between color adjustment and thermodynamic stability in light-harvesting chromoproteins. [ABSTRACT FROM AUTHOR]

A bioelectrochemical system (BES) combining oxygenic and anoxygenic photosynthesis was investigated. The possibility of improving the composition of biogas by removing H2S and carbon dioxide in the anode zone of the bioelectrochemical system and obtaining additional energy has been established. The dynamics of HS-removal from model solutions in the BES anolyte at 3 operating modes were observed. Complete removal of sulfides in the anodic zone and the anaerobic photobioreactor was found in the BES operating option as a microbial fuel cell. At the same time, an increase in the concentration of sulfates was observed to varying degrees for the studied variants. The most probable mechanisms for the removal of H2S in this combined system are the oxidation of sulfides by sulfur photoautotrophic bacteria present in the mixed consortium to sulfates and the bioelectrochemical oxidation of hydrogen sulfide on the surface of the anode to elemental sulfur and its other forms. The obtained results with real biogas passed through the BES anolyte and the anaerobic photobioreactor (APBR) are also positive. A complete purification of the biogas from H2S and a significant removal of CO2 (81 % - 85 %) were achieved, where the CH4 content in the biogas reached 94.1 % - 96.2 %. [ABSTRACT FROM AUTHOR]

In terrestrial hot springs, some members of the microbial mat community utilize sulfur chemical species for reduction and oxidization metabolism. In this study, the diversity and activity of sulfur-metabolizing bacteria were evaluated along a temperature gradient (48–69 °C) in non-acidic phototrophic mats of the Porcelana hot spring (Northern Patagonia, Chile) using complementary meta-omic methodologies and specific amplification of the aprA (APS reductase) and soxB (thiosulfohydrolase) genes. Overall, the key players in sulfur metabolism varied mostly in abundance along the temperature gradient, which is relevant for evaluating the possible implications of microorganisms associated with sulfur cycling under the current global climate change scenario. Our results strongly suggest that sulfate reduction occurs throughout the whole temperature gradient, being supported by different taxa depending on temperature. Assimilative sulfate reduction is the most relevant pathway in terms of taxonomic abundance and activity, whereas the sulfur-oxidizing system (Sox) is likely to be more diverse at low rather than at high temperatures. Members of the phylum Chloroflexota showed higher sulfur cycle-related transcriptional activity at 66 °C, with a potential contribution to sulfate reduction and oxidation to thiosulfate. In contrast, at the lowest temperature (48 °C), Burkholderiales and Acetobacterales (both Pseudomonadota, also known as Proteobacteria) showed a higher contribution to dissimilative sulfate reduction/oxidation as well as to thiosulfate metabolism. Cyanobacteriota and Planctomycetota were especially active in assimilatory sulfate reduction. Analysis of the aprA and soxB genes pointed to members of the order Burkholderiales (Gammaproteobacteria) as the most dominant and active along the temperature gradient for these genes. Changes in the diversity and activity of different sulfur-metabolizing bacteria in photoautotrophic microbial mats along a temperature gradient revealed their important role in hot spring environments, especially the main primary producers (Chloroflexota/Cyanobacteriota) and diazotrophs (Cyanobacteriota), showing that carbon, nitrogen, and sulfur cycles are highly linked in these extreme systems. [ABSTRACT FROM AUTHOR]

When oxidizing reduced sulfur compounds, the phototrophic sulfur bacterium Allochromatium vinosum forms spectacular sulfur globules as obligatory intracellular–but extracytoplasmic–intermediates. The globule envelope consists of three extremely hydrophobic proteins: SgpA and SgpB, which are very similar and can functionally replace each other, and SgpC which is involved in the expansion of the sulfur globules. The presence of a fourth protein, SgpD, was suggested by comparative transcriptomics and proteomics of purified sulfur globules. Here, we investigated the in vivo function of SgpD by coupling its carboxy-terminus to mCherry. This fluorescent protein requires oxygen for chromophore maturation, but we were able to use it in anaerobically growing A. vinosum provided the cells were exposed to oxygen for one hour prior to imaging. While mCherry lacking a signal peptide resulted in low fluorescence evenly distributed throughout the cell, fusion with SgpD carrying its original Sec-dependent signal peptide targeted mCherry to the periplasm and co-localized it exactly with the highly light-refractive sulfur deposits seen in sulfide-fed A. vinosum cells. Insertional inactivation of the sgpD gene showed that the protein is not essential for the formation and degradation of sulfur globules. [ABSTRACT FROM AUTHOR]

Pigments produced by anoxygenic phototrophic bacteria are valuable proxies of past anoxia in lacustrine and marine environments. Pigment measurement typically requires time-consuming and costly chemical extractions and chromatographic analyses, which limits the temporal resolution of paleoenvironmental reconstructions based on sedimentary pigments. Here, we evaluate the potential of in situ hyperspectral imaging (HSI) core scanning as a rapid, non-destructive method to document high-resolution changes in oxygenic and anoxygenic phototrophic communities at meromictic Lake Cadagno, Switzerland. Three distinct groups of pigments can be detected with the HSI method in the sediments of Lake Cadagno; each pigment group represents a different phototrophic community. Oxygenic phototrophs are indicated by total chloropigments (TChl; chlorophyll a , b , and derivatives). Two types of anoxygenic phototrophs were distinguished – purple sulfur bacteria (PSB), represented by bacteriochlorophyll a , and green sulfur bacteria (GSB), represented by bacteriochlorophyll c , d , and e. HSI pigment indices were validated by pigment measurements performed on extracted samples using spectrophotometer and high-performance liquid chromatography (HPLC). Bacteriochlorophylls were present throughout the past 10 kyr, confirming geochemical evidence of nearly continuous stratification and sulfidic conditions at Lake Cadagno. Major shifts in the anoxygenic phototropic communities are recorded at decadal to millennial scales. GSB and PSB communities coexisted from 10.2–8.8 kyr BP. Dominance of PSB over GSB from 8.8–3.4 kyr BP indicates strongly stratified conditions in the lake and strong light radiation at the chemocline. From 3.4–1.3 kyr BP, PSB were mostly absent, and GSB became dominant, implying lower light intensity at the chemocline due to a combination of factors including deforestation in the lake surroundings, increased flood frequency, cooler climatic conditions, and changes in groundwater solute concentrations. The high-resolution HSI data show that frequent flood events and mass movements disturbed the chemocline and the anoxygenic bacterial communities and that the PSB were particularly sensitive and slow to recover following these disturbance events. This study demonstrates for the first time that HSI can detect GSB-related pigments, making the method uniquely valuable as a rapid tool to study samples containing pigments of both oxygenic and anoxygenic phototrophs. [ABSTRACT FROM AUTHOR]

Discovery of Thiomargarita magnifica – an exceptionally large giant sulfur bacterium – urges us to pay additional attention to the giant sulfur bacteria and to revisit our recent bioinformatic finding of lipoxygenases in the representatives of the genus Beggiatoa. These close relatives of Thiomargarita magnifica meet the similar size requirements by forming multicellular structures. We hypothesize that their lipoxygenases are a part of the oxylipin signaling system that provides high level of cell-to-cell signaling complexity which, in turn, enables them to reach large sizes. [ABSTRACT FROM AUTHOR]

The lacustrine organic-rich shale in the Permian Lucaogou (LCG) Formation of the Jimsar Sag, Junggar Basin, is one of the main shale oil plays in China. In this paper, geological and geochemical research techniques were employed to evaluate the geochemical variability of the lacustrine shale and the production of organic matter and its preservation conditions. The LCG Formation is characterized by its complex mineral compositions and a wide range of organic matter richness and quality. The presence of high proportions of β-carotane and C29 steranes, indicates that the organic matter mainly originated from phytoplankton and aquatic algal-bacterial organisms, especially cyanobacteria. This study found that the productivity of the Lower LCG Member (P2/1) was highest, and the Middle LCG Member (P2/2) was the lowest. During the deposition of the Lower LCG Member, the lake's bottom water was predominantly a reducing environment, and the degradation of organic matter was largely a result of bacterial sulfate reduction. During the deposition of the Middle and Upper LCG members, the lake's bottom water was mainly oxidizing, and the degradation of organic matter was likely to be caused by aerobic processes. Based on a comprehensive analysis of the origin and production of organic matter, as well as its depositional environment and preservation conditions, two organic matter accumulation models were proposed to explain the distribution of the organic-rich shale. In model A, the high influx of volcanic ash released nutrients and brought abundant sulfate into the water, the accumulation of organic matter was mainly controlled by the preservation of organic matter, which was mainly controlled by BSR. In the model B, the influx of volcanic ash was small, organic matter was mainly degraded by oxygen and the accumulation of organic matter is mainly determined by the production of organic matter. [ABSTRACT FROM AUTHOR]

Since the beginning of unicellular life, dissimilation reactions of autotrophic sulfur bacteria have been a crucial part of the biogeochemical sulfur cycle on Earth. A wide range of sulfur oxidation states is reflected in the diversity of metabolic pathways used by sulfur-oxidizing bacteria. This metabolically and phylogenetically diverse group of microorganisms inhabits a variety of environments, including extreme environments. Although they have been of interest to microbiologists for more than 150 years, meso- and psychrophilic chemolithoautotrophic sulfur-oxidizing microbiota are less studied compared to the microbiota of hot springs. Several recent studies suggested that cold sulfur waters harbor unique, yet not described, bacterial taxa. [ABSTRACT FROM AUTHOR]

One of the best technologies available for metal removal from mining effluents is the precipitation of metals as sulfides. However, the high cost and difficulty in managing reagents limit its widespread application. Recent literature suggests the use of sulfur-reducing bacteria (S°RB) as a safe and effective alternative to producing H2S. Nevertheless, direct substrates for S°RB are high-cost low molecular compounds. This research aimed to evaluate the ability to produce sulfides by sulfur-reducing consortia in fixed-bed bioreactors using complex organic substrates. Consortia enriched using cellulose or Spirulina as electron donors were phylogenetically characterized by fluorescent in situ hybridization. Microorganisms belonging to Bacteria and Archaea were involved, being the most representative of the δ-Proteobacterias. The results obtained in test tube culture indicated that these consortia could use cellulose and Spirulina in alkaline conditions, resulting in high sulfide production. Upflowed fixed-bed bioreactors were implemented to establish optimal parameters., resulting in H2S volumetric productivities ranging from 1.94 to 2.94 mol/m3∙day. In conclusion, an active biomass with significant sulfidogenic activity can be generated in bioreactors under an upflowed regime using cellulose or Spirulina. [ABSTRACT FROM AUTHOR]

In the Xishan coalfield of northern China, the stratified stacking of soil and gangue was applied to limit the acid pollution from high-sulfur coal gangue. In this study, we found that stratified stacking can effectively neutralize the acidity, with the pH value of gangue-leaching water being 6.02–8.13. In contrast to the acidic contaminated area, most of the microorganisms in the study area sediment were neutrophilic, with the main genera being Arthrobacter, Pseudorhodobacter, Pseudomonas, and Rhodoferax. A variety of iron- and sulfur-metabolizing bacteria was discovered in the gangue-leaching sediment, with the total relative abundance ranging from 4.20 to 23.75%, of which the iron-reducing bacteria (FeRB) accounted for the highest percentage. The distributions of these functional microorganisms in the samples were significantly influenced by Fe and S. The co-occurrence network analysis revealed a significant positive correlation between the iron- and sulfur-metabolizing bacteria in the sediment (93.75%), indicating a strong reciprocal symbiotic relationship between these bacteria. The iron and sulfur metabolism genes in the sediment were predicted and compared based on the Tax4Fun functional prediction method. Results showed that functional genes related to iron metabolism were highly expressed in the gangue-leaching sediment. This study enhances the understanding of iron and sulfur metabolism in gangue-leaching contaminated areas. [ABSTRACT FROM AUTHOR]

Green sulfur bacteria (GSB) are a distinct group of anoxygenic phototrophic bacteria that are found in many ecological niches. Prosthecochloris, a marine representative genus of GSB, was found to be dominant in some coral skeletons. However, how coral-associated Prosthecochloris (CAP) adapts to diurnal changing microenvironments in coral skeletons is still poorly understood. In this study, three Prosthecochloris genomes were obtained through enrichment culture from the skeleton of the stony coral Galaxea fascicularis. These divergent three genomes belonged to Prosthecochloris marina and two genomes were circular. Comparative genomic analysis showed that between the CAP and non-CAP clades, CAP genomes possess specialized metabolic capacities (CO oxidation, CO2 hydration and sulfur oxidation), gas vesicles (vertical migration in coral skeletons), and cbb3-type cytochrome c oxidases (oxygen tolerance and gene regulation) to adapt to the microenvironments of coral skeletons. Within the CAP clade, variable polysaccharide synthesis gene clusters and phage defense systems may endow bacteria with differential cell surface structures and phage susceptibility, driving strain-level evolution. Furthermore, mobile genetic elements (MGEs) or evidence of horizontal gene transfer (HGT) were found in most of the genomic loci containing the above genes, suggesting that MGEs play an important role in the evolutionary diversification between CAP and non-CAP strains and within CAP clade strains. Our results provide insight into the adaptive strategy and population evolution of endolithic Prosthecochloris strains in coral skeletons. [ABSTRACT FROM AUTHOR]

Hydrothermal vent systems are important biodiversity hotspots that host a vast array of unique species and provide information on life's evolutionary adaptations to extreme environments. However, these habitats are threatened by both human exploitation and extreme natural events, both of which can rapidly disrupt the delicate balance of the food webs found in these systems. This is particularly true for shallow vent endemic animals due to their limited dietary niche and specialized adaptations to specific biogeochemical conditions.In this study, we used the shallow hydrothermal vents of Kueishantao off the coast of Taiwan as a natural laboratory to examine the response of a benthic food web to a M5.8 earthquake and a C5 typhoon that led to a two‐year "near shutdown" of the vents. These perturbations drastically altered the local biogeochemical cycle and the dietary availability of chemosynthetic versus photosynthetic food resources.Our analysis of multiple stable isotopes, including those of sulphur, carbon, and nitrogen (δ34S, δ13C, and δ15N), from different benthic macrofauna reveals that endemic and non‐endemic consumers exhibited different responses to sudden disruption in habitat and biogeochemical cycling.The endemic vent crab, Xenograpsus testudinatus, continued to partially rely on chemosynthetic sulphur bacteria despite photosynthetic sources being the most dominant food source after the disruption. We posit that X. testudinatus has an obligate nutritional dependence on chemoautotrophic sources because the decrease in chemoautotrophic production was accompanied by a dramatic decrease in the abundance of X. testudinatus. The population decline rate was ~19 individuals per m2 per year before the perturbation, but the decline rate increased to 40 individuals per m2 per year after the perturbation. In contrast, the non‐endemic gastropods exhibited much greater dietary plasticity that tracked the overall abundance of photo‐ and chemo‐synthetic dietary sources.The catastrophic events in shallow hydrothermal vent ecosystem presented a novel opportunity to examine dietary adaptations among endemic and non‐endemic benthic macrofauna in response to altered biogeochemical cycling. Our findings highlight the vulnerability of benthic specialists to the growing environmental pressures exerted by human activities worldwide. Read the free Plain Language Summary for this article on the Journal blog. [ABSTRACT FROM AUTHOR]

The development of immobilization technology and the application of immobilized strains are summarized from three aspects: immobilization method, immobilized material and post-immobilization utility of sulfur bacillus acidophilus.The principle of the immobilization method and its advantages and disadvantages of the bacterium were reviewed, the adsorption method and embedding method were more widely used, and the cyclic culture fixation method, as the latest proposed method, improved both the immobilization time and the oxidation rate of the strain.The types and characteristics of immobilized materials are introduced, natural polymer materials and synthetic polymer materials have better fixed mechanical strength, and composite material fixation can complement the advantages and disadvantages of various types of materials.The application field and efficiency of the fungus after immobilization are summarized, and it is mostly used in biological leaching, electronic waste treatment, H2S treatment and utilization and sewage treatment.In the future, the development direction of immobilization technology of sulfur bacterium ferrosinophilus oxide lies in optimizing the immobilization method, exploring diversified immobilized materials, enhancing the practical industrial application value of the immobilized strain and expanding its application field. [ABSTRACT FROM AUTHOR]

Several strains of a Gram-negative, anaerobic photoautotrophic, motile, rod-shaped bacterium, designated as B14B, A-7R, and A-7Y were isolated from biofilms of low-mineralized soda lakes in central Mongolia and Russia (southeast Siberia). They had lamellar stacks as photosynthetic structures and bacteriochlorophyll a as the major photosynthetic pigment. The strains were found to grow at 25–35 °C, pH 7.5–10.2 (optimum, pH 9.0), and with 0–8% (w/v) NaCl (optimum, 0%). In the presence of sulfide and bicarbonate, acetate, butyrate, yeast extract, lactate, malate, pyruvate, succinate, and fumarate promoted growth. The DNA G + C content was 62.9–63.0 mol%. While the 16S rRNA gene sequences confirmed that the new strains belonged to the genus Ectothiorhodospira of the Ectothiorhodospiraceae, comparison of the genome nucleotide sequences of strains B14B, A-7R, and A-7Y revealed that the new isolates were remote from all described Ectothiorhodospira species both in dDDH (19.7–38.8%) and in ANI (75.0–89.4%). The new strains are also genetically differentiated by the presence of a nitric oxide reduction pathway that is lacking from all other Ectiothiorhodospiraceae. We propose to assign the isolates to the new species, Ectothiorhodospira lacustris sp. nov., with the type strain B14BT (=DSM 116064T = KCTC 25542T = UQM 41491T). [ABSTRACT FROM AUTHOR]

Soil, sediment, and waters contaminated with heavy metals pose a serious threat to ecosystem function and human health, and microorganisms are an effective way to address this problem. In this work, sediments containing heavy metals (Cu, Pb, Zn, Mn, Cd, As) were treated differently (sterilized and unsterilized) and bio-enhanced leaching experiments were carried out with the addition of exogenous iron-oxidizing bacteria A. ferrooxidans and sulfur-oxidizing bacteria A. thiooxidans. The leaching of As, Cd, Cu, and Zn was higher in the unsterilized sediment at the beginning 10 days, while heavy metals leached more optimally in the later sterilized sediment. The leaching of Cd from sterilized sediments was favored by A. ferrooxidans compared to A. thiooxidans. Meanwhile, the microbial community structure was analyzed using 16S rRNA gene sequencing, which revealed that 53.4% of the bacteria were Proteobacteria, 26.22% were Bacteroidetes, 5.04% were Firmicutes, 4.67% were Chlamydomonas, and 4.08% were Acidobacteria. DCA analysis indicated that microorganisms abundance (diversity and Chao values) increased with time. Furthermore, network analysis showed that complex networks of interactions existed in the sediments. After adapting to the acidic environmental conditions, the growth of some locally dominant bacteria increased the microbial interactions, allowing more bacteria to participate in the network, making their connections stronger. This evidence points to a disruption in the microbial community structure and its diversity following artificial disturbance, which then develops again over time. These results could contribute to the understanding of the evolution of microbial communities in the ecosystem during the remediation of anthropogenically disturbed heavy metals. [ABSTRACT FROM AUTHOR]

Iron-sulfide minerals found in shale formations are stable under anaerobic conditions. However, in the presence of oxygen and water, acid-loving chemolithotrophic bacteria can transform the iron-sulfide minerals into a toxic solution of sulfuric acid and dissolved iron and minerals known as acid rock drainage (ARD). The objective of this study was to disrupt chemolithotrophic bacteria responsible for ARD using chemical treatments and to foster an environment favorable for competing microorganisms to attenuate the biologically induced ARD. Chemical treatments were injected into flow-through microcosms consisting of 501 g of pyrite-rich shale pieces inoculated with ARD bacteria. Three treatments were tested in the microcosms: (1) a sodium hydroxide-bleach mix, (2) a sodium lactate solution, and (3) a sodium lactate-soy infant formula mix. The effectiveness of the treatments was assessed by monitoring pH, dissolved iron, and other geochemical constituents in the discharge waters. The optimal treatment was a sequential injection of 1.5 g sodium hydroxide, followed by 0.75 g lactate and 1.5 g soy formula dissolved in 20 mL water. The pH of the discharge water rose to 6.0 within 10 days, dissolved iron concentrations dropped below 1 mg/L, the median alkalinity increased to 98 mg/L CaCO3, and sulfur-reducing and slime-producing bacteria populations were stimulated. The ARD attenuating benefits of this treatment were still evident after 231 days. Other treatments provided a number of ARD attenuating effects but were tempered by problems such as high phosphate concentrations, short longevity, or other shortcomings. The results of these laboratory microcosm experiments were promising for the attenuation of ARD. Additional investigations and careful selection of treatment methods will be needed for field application. [ABSTRACT FROM AUTHOR]

In the northern Perth Basin (Western Australia), the Early Triassic Kockatea Shale is the primary petroleum source rock. Possible source rocks in the Northern Carnarvon Basin are more varied and include the Upper Jurassic Dingo Claystone as well as the Early Triassic Locker Shale. Biomarker analyses were conducted on petroleum samples from these basins to understand the nature of the petroleum systems. Many of the analysed petroleum samples contain carotenoids (okenane, chlorobactane and isorenieratane) derived from photosynthetic sulfur bacteria, suggesting that their source rocks were deposited under conditions of photic zone euxinia (PZE) and/or derived from microbialites. In the northern Perth Basin, the major lithofacies contributing to the source rock are dark coloured mudstones deposited under PZE conditions and/or derived from microbialites. In the southern Perth Basin, the potential source rock is either Permian, Jurassic or Cretaceous in age as indicated by the low concentrations or absence of carotenoids and the Triassic biomarker n-C33 alkylcyclohexane. There is also a possibility that the Lower Triassic Locker Shale is the source rock of petroleum in the Tubridgi field on the Peedamullah Shelf of the Northern Carnarvon Basin, based on the similarity of biomarkers to Perth Basin petroleum sourced from the Kockatea Shale. However, the possibility of charge from the Upper Jurassic Dingo Claystone cannot be entirely excluded. Supplementary material: biomarker dataset is available at https://doi.org/10.6084/m9.figshare.c.6452153 [ABSTRACT FROM AUTHOR]

Beard worms from the family Siboglinidae, are peculiar animals and are known for their symbiotic relationships with sulfur bacteria. Most Siboglinids inhabit the deep-sea floor, thus making difficult to make any observations in situ. One species, Oligobrachia mashikoi, occurs in the shallow depths (24.5 m) of the Sea of Japan. Taking advantage of its shallow-water habitat, the first ecological survey of O. mashikoi was performed over a course of 7 years, which revealed that its tentacle-expanding behavior was dependent on the temperature and illuminance of the sea water. Furthermore, there were significantly more O. mashikoi with expanding tentacles during the nighttime than during the daytime, and the prevention of light eliminated these differences in the number of expending tentacles. These results confirmed that the tentacle-expanding behavior is controlled by environmental light signals. Consistent with this, we identified a gene encoding a photoreceptor molecule, neuropsin, in O. mashikoi, and the expression thereof is dependent on the time of day. We assume that the described behavioral response of O. mashikoi to light signals represent an adaptation to a shallow-water environment within the predominantly deep-sea taxon. [ABSTRACT FROM AUTHOR]

The acidification of water in mining areas is a global environmental issue primarily catalyzed by sulfur-oxidizing bacteria (SOB). Little is known about microbial sulfur cycling in circumneutral pH mine tailing impoundment waters. Here we investigate biological sulfur oxidation over four years in a mine tailings impoundment water cap, integrating aqueous sulfur geochemistry, genome-resolved metagenomics and metatranscriptomics. The microbial community is consistently dominated by neutrophilic, chemolithoautotrophic SOB (relative abundances of ~76% in 2015, ~55% in 2016/2017 and ~60% in 2018). Results reveal two SOB strategies alternately dominate across the four years, influencing acid generation and sulfur speciation. Under oxic conditions, novel Halothiobacillus drive lower pH conditions (as low as 4.3) and lower [S2O32−] via the complete Sox pathway coupled to O2. Under anoxic conditions, Thiobacillus spp. dominate in activity, via the incomplete Sox and rDSR pathways coupled to NO3−, resulting in higher [S2O32−] and no net significant acidity generation. This study provides genomic evidence explaining acidity generation and thiosulfate accumulation patterns in a circumneutral mine tailing impoundment and has significant environmental applications in preventing the discharge of sulfur compounds that can impact downstream environments. These insights illuminate opportunities for in situ biotreatment of reduced sulfur compounds and prediction of acidification events using gene-based monitoring and in situ RNA detection. Microbial genomics is a widely under-utilized tool in mining in understanding water quality drivers. Here the authors show early acid generation and thiosulfate concentrations are driven by O2 dependent microbial sulfur oxidizing bacterial niches in a mine tailings impoundment [ABSTRACT FROM AUTHOR]

The dendrolites composed of light gray massive micrite limestone occur at the top of the Cambrian Zhangxia Formation in Houziyu Section, Zibo, Shandong Province. Because it is very difficult to study the genesis of microbial rocks through "the function of diagenesis filter," this paper analyzes its genetic mechanism by characterizing the sedimentary fabric and formation environment of dendrolites and it is of great significance to study microbial carbonate deposited in geological history in oil exploration. The Cambrian Zhangxia Formation in the Houziyu section is a marine deposit. The macroscopic shrub-like fabric of centimeter scale can be seen on the surface of the tree-shaped stone, with small biological burrows and remnants of calcareous mud components after filling. The microstructure observation shows that the main fabric of the dendrolites is a dark micrite matrix, bright calcite cement, clastic particles, and a calcified cyanobacteria biological community. Detailed supplementary information on the diversity of calcified microorganisms in dendrolites has been made through the study of various types of calcified cyanobacteria and calcified residual substances in the microbial membrane of calcified cyanobacteria in the dendrolites of the study area. It is clear that dendrolites are the product of the calcification of biofilms or microbial mats dominated by cyanobacteria. With the deepening of this kind of research, it is bound to raise the research of microbial carbonate to a new level in China and provide great help to find oil and gas resources in marine strata of microbial origin in China. [ABSTRACT FROM AUTHOR]

Three karst lakes were investigated in the Nizhny Novgorod region: Staropustynskie lakes Svyato and Nekrasov Bay and Lake Svetloyar. The studied lakes belonged to the mesotrophic-eutrophic polyhumous type and were characterized by stable stratification with signs of meromixis. Their water columns were divided into aerobic and anaerobic zones, with the bottom water containing sulfide. Fe(II) compounds were also present in the Staropustynskie lakes. In the Lake Nekrasov Bay, the mixolimnion showed a high rate of oxygenic photosynthesis, up to 1.2 µg С L–1 day–1, as well as a maximum of anoxygenic photosynthesis in the chemocline (0.030–0.706 µg С L–1 day–1) at a depth of 1.5−2.5 m. The peak of dark CO2 assimilation (0.146 µg С L–1 day–1) occurred at a depth of 1.5 m in the oxycline zone. Anoxygenic phototrophic bacteria (APB) were found in the Lakes Nekrasov Bay and Svyato at the boundary of light penetration. Green sulfur bacteria with short cell prosthecate outgrowths, "Ancalochloris sp.," predominated. Consortia "Chlorochromatium aggregatum" and filamentous chlorobacteria "Chloronema giganteum" were also found, their cell sheaths accumulated ferric iron salts. In the Staropustynskie lakes, various morphotypes of iron bacteria formed clusters in the microaerobic zone. In Lake Svetloyar the chemocline was located at a depth of 16 m, outside the photic zone, and the conditions were unfavorable for APB growth. In the studied lakes, heterotrophic aerobic bacteria played the main role in the aerobic oxidation of sulfur compounds in the chemocline zone. [ABSTRACT FROM AUTHOR]