Analysis Of Community Structure Research Articles

Metagenomics analysis of bacterial community structure from wood- and soil-feeding termites: metabolic pathways and functional structures toward the degradation of lignocellulose and recalcitrant compounds

Some essential information on gut bacterial profiles and their unique contributions to food digestion in wood-feeding termites (WFT) and soil-feeding termites (SFT) is still inadequate. The feeding type of termites is hypothesized to influence their gut bacterial composition and its functionality in degrading lignocellulose or other organic chemicals. This could potentially provide alternative approaches for the degradation of some recalcitrant environmental chemicals. Therefore, metagenomic analysis can be employed to examine the composition and functional profiles of gut bacterial symbionts in WFT and SFT. Based on the metagenomic analysis of the 16S rRNA gene sequences of gut bacterial symbionts in the WFT, Microcerotermes sp., and the SFT, Pericapritermes nitobei, the findings revealed a total of 26 major bacterial phyla, with 18 phyla commonly represented in both termites, albeit in varying abundances. Spirochaetes dominated the bacterial symbionts in Microcerotermes sp. at 55%, followed by Fibrobacters, while Firmicutes dominated the gut bacteria symbionts in P. nitobei at 95%, with Actinobacteria coming in second at 2%. Furthermore, the Shannon and phylogenetic tree diversity indices, as well as the observed operational taxonomic units and Chao 1 richness indices, were all found to be higher in the WFT than in the SFT deduced from the alpha diversity analysis. Based on the principal coordinate analysis, exhibited a significant distance dissimilarity between the gut bacterial symbionts. The results showed that the gut bacterial composition differed significantly between the WFT and SFT. Furthermore, Tax4Fun analysis evaluated bacterial functions, revealing the predominance of carbohydrate metabolism, followed by amino acid metabolism and energy metabolism in both Microcerotermes sp. and P. nitobei termites. The results implicated that bacterial symbionts inhabiting the guts of both termites were actively involved in the degradation of lignocellulose and other recalcitrant compounds.

Enhanced activity of mixed-culture electroactive biofilms and sulfamethoxazole removal efficiency by adding N-acyl-homoserine lactones in bio-electrochemical system

ABSTRACT The addition of exogenous quorum sensing signaling molecules significantly enhanced the degradation efficiency of antibiotics, such as chloramphenicol in bio-electrochemical systems (BESs). However, the effects and mechanisms by which AHLs addition in BES facilitated the removal of sulfamethoxazole (SMX) remained inadequately explored. This study systematically compared the electrochemical performance and SMX removal efficiency in BES under two conditions: with and without the addition of N-acyl-homoserine lactones (AHLs) signaling molecules. In comparison to the control group, the AHL-treated group exhibited an increase in maximum output voltage from 340 to 489.67 mV, alongside a notable enhancement in SMX removal efficiency over 120 h ranging from 14.65% to 15.76%. Analyses of the live and dead cells and extracellular polymeric substances (EPS) composition revealed that following AHLs addition, both the ratio of live to dead cells and protein content within EPS increased by 12.66% and 74.37%, respectively. Furthermore, microbial community structure analysis indicated that after AHLs supplementation, there was a marked increase in the abundance of electroactive microorganisms as well as antibiotic-degrading and nitrogen-removing bacteria. Notably, Klebsiella – characterised by its electroactivity along with antibiotic degradation and nitrogen removal capabilities – exhibited a relative abundance reaching 56.84% in AHL, reflecting an increase of 28.31% compared to Blank; additionally, electroactive bacteria Dysgonomonas showed a relative abundance rise of 2.49%. Collectively, these findings suggested that enhancements in SMX removal efficiency upon AHLs addition were primarily driven by improvements in electrochemical performance coupled with alterations in microbial community structure.

Enhanced bioremediation of bensulfuron-methyl contaminated soil by Hansschlegelia zhihuaiae S113: metabolic pathways and bacterial community structure

Bensulfuron-methyl (BSM), a widely used herbicide, can persist in soil and damag sensitive crops. Microbial degradation, supplemented with exogenous additives, provides an effective strategy to enhance BSM breakdown. Hansschlegelia zhihuaiae S113 has been shown to efficiently degrade this sulfonylurea herbicide. However, depending solely on a single strain for degradation proves inefficient and unlikely to achieve ideal remediation in practical applications. This study assessed the impact of various carbon sources on the degradation efficiency of S113 in BSM-polluted soil. Among these, glucose was the most effective, achieving a 98.7% degradation rate after 9 d of inoculation. In addition, seven intermediates were detected during BSM degradation in soil through the cleavage of the phenyl ring ester bond, the pyrimidine rings, and urea bridge peptide bond, among other pathways. 2-amino-4,6-dimethoxy pyrimidine (ADMP), and 2-(aminosulfonylmethyl)-methyl benzoate(MSMB) were the primary intermediates. These metabolites were less toxic to maize, sorghum, and bacteria than the BSM. Community structure analysis indicated that variations in exogenous carbon sources and environmental pollutants significantly improved the ecological functions of soil microbial communities, enhancing pollutant degradation. Addition of carbon sources notably affected soil microbial community structure, modifying metabolic activities and interaction patterns. Specifically, glucose substantially increased the richness and diversity of soil bacterial communities. These findings offer valuable insights for field remediation practices and contributed to the development of more robuste soil pollution management strategies.

Cobalt-modified digestate-derived biochar enhances kitchen waste anaerobic dry digestion: Performance, microbial mechanisms, and metabolic pathways

To achieve simultaneous in-situ high-value utilization of digestate and efficient resource recovery of kitchen waste (KW). In this work, Co-modified digestate-derived biochar (DDB-Co) was prepared for the first time, the effects of DDB-Co on KW mesophilic dry anaerobic digestion were investigated, and the underlying mechanisms were elucidated. The results showed that the specific surface area of DDB-Co increased to 98.7 m2/g, which was 37.4 % higher than that of the unmodified group (DDB). DDB-Co exhibited a dose-dependent effect on biogas production from the KW dry digestion, with the optimal dose of 4.0 g/L (calculated on a solid content) DDB-Co yielding 205.3 mL/(g·VS) of biogas, representing an 80.9 % increase compared to the CK group. However, higher doses, such as 8.0 g/L DDB-Co, reduced the cumulative biogas production. Mechanistic analysis indicated that 4.0 g/L DDB-Co facilitated the dissolution of particulate organic matter and accelerates the conversion process of volatile fatty acids (VFA) in KW, thereby preventing excessive acidification. Microbial community structure analysis revealed that DDB-Co reduced microbial richness and diversity but selectively enriched microorganisms such as Lactobacillus and Methanothrix, accelerating the direct interspecific electron transfer (DIET) reaction rate and increasing biogas production. Metagenomic analysis demonstrated that DDB-Co primarily upregulated the relative abundances of key enzymes in the acetate decarboxylation methanogenesis pathway, such as acetate kinase (ackA), phosphate acetyltransferase (pta), and acetyl-CoA synthetase (acs), enhancing biogas yield and maintaining system stability. The findings of this work expand the high-value utilization pathways for digestate and provide an alternative solution for the efficient resource recovery of KW.

Experimental Study on the Removal of Pollutants from Domestic Wastewater in a Strongly Constructed Wetland with an Applied Electric Magnetic Field

The addition of physical field enhancement measures to improve the purification effect of vertical flow artificial wetlands has gradually become popular. In this study, a vertical flow artificial wetland system reinforced by electric and magnetic fields was constructed. These fields were first optimized using finite element 3D simulation software to obtain the optimal electric and magnetic field parameters. Then, the pollutant removal effects and changes in microbial community structure were comparatively analyzed. The optimal electromagnetic field parameters (applied voltage of 15 V and applied magnetic field of 20 mT) resulted in significantly enhanced removal rates of chemical oxygen demand (COD), nitrate nitrogen (NH4+-N), total phosphorus (TP), and orthophosphorus (PO43−-P) in wastewater, with rates of 74.47%, 45.44%, 89.85%, and 90.04%, respectively. These rates were notably higher than those observed in the vertical flow artificial wetland system. The microbial community structure analysis revealed that the vertical flow constructed wetland with enhanced electric and magnetic fields exhibited (EM-VFCW) a more diverse and complex microbial community structure. Notably, the abundance of bacteria capable of removing NH4+-N and COD, including Aspergillus, Fusarium, and Actinobacteria, was significantly elevated.

Unraveling the Role of Contaminants Reshaping the Microflora in Zea mays Seeds from Heavy Metal–Contaminated and Pristine Environment

Heavy metal (HM) contaminants are the emerging driving force for reshaping the microflora of plants by eradicating the non-tolerance and non-resistant microbes via their lethal effects. Seeds served as a prime source of ancestral microbial diversity hereditary transfer from generation to generation. However, the problem arises when they got exposed to metal contamination, does metal pollutant disrupt the delicate balance of microbial communities within seeds and lead to shifts in their microflora across generations. In this study, the endophytic community within Zea mays seeds was compared across three distinct regions in Yunnan province, China: a HM-contaminated site Ayika (AK), less-contaminated site Sanduoduo (SD), and a non-contaminated Site Dali (DL). High-throughput sequencing techniques were employed to analyze the microbial communities. A total of 492,177 high-quality reads for bacterial communities and 1,001,229 optimized sequences for fungal communities were obtained. These sequences were assigned to 502 and 239 operational taxonomic units (OTUs) for bacteria and fungi, respectively. A higher diversity was recorded in AK samples than in SD and DL. Microbial community structure analysis showed higher diversity and significant fluctuation in specific taxa abundance in the metal-polluted samples exhibiting higher response of microbial flora to HM. In AK samples, bacterial genera such as Gordonia and Burkholderia-Caballeronia-Paraburkholderia were dominant, while in SD Pseudomonas and Streptomyces were dominant. Among the fungal taxa, Fusarium, Saccharomycopsis, and Lecanicillium were prevalent in HM-contaminated sites. Our finding revealed the influential effect of HM contaminants on reshaping the seed microbiome of the Zea mays, showing both the resilience of certain important microbial taxa as well the shifts in the diversity in the contaminated and pristine conditions. The knowledge will benefit to develop effective soil remediation, reclamation, and crop management techniques, and eventually assisting in the extenuation of metal pollution's adverse effects on plant health and agricultural productivity.

Effects of Different Dietary Combinations on Blood Biochemical Indicators and Rumen Microbial Ecology in Wenshan Cattle

With the continuous optimization of feed ingredients in livestock production, barley has garnered significant attention as a potential substitute for corn in feed. This study aims to investigate the effects of replacing part of the corn and soybean meal with barley, wheat bran, and rapeseed meal on Wenshan cattle, focusing on the rumen microbial community, blood physiological and biochemical indicators, and growth traits. Through an intensive feeding experiment with two different dietary ratios, we found that adding barley to the diet significantly reduced the host’s blood lipid concentration and significantly increased the height, body length, heart girth, and average daily weight gain of Wenshan cattle. Analysis of the rumen microbial community structure showed that the addition of barley significantly affected the relative abundance of Firmicutes, Proteobacteria, and Bacteroidetes, with the relative abundance of Spirochaetes being significantly lower than that of the control group (p < 0.05). The dominant bacterial groups mainly included Acinetobacter, Solibacillus, and Lysinibacillus. In summary, this study reveals the potential of different feed ingredient ratios involving barley, wheat bran, and rapeseed meal in the production performance of Wenshan cattle. By regulating blood physiology and improving the rumen micro-ecological structure, it provides new scientific evidence for optimizing livestock and poultry feeding management strategies. Future research will further explore the optimal application ratio of barley under different feeding conditions and its long-term impact on animal health and production performance.

Characteristics of Water Environment and Intestinal Microbial Community of Largemouth Bass (Micropterus salmoides) Cultured Under Biofloc Model

To investigate the effects of biofloc mode on the water environment and intestinal microbial community structure of largemouth bass, a 60-day culture experiment was conducted without water replacement in 300-L glass tanks. The experiment included a control group and a biofloc group, each with three replicates. The results showed the following: (i) the richness and diversity of the water environment and fish intestinal microbial community increased under the biofloc model; (ii) Proteobacteria, Patescibacteria, and Bacteroidota were the dominant phyla in the water environment of largemouth bass, while Proteobacteria, Firmicutes, Bacteroidota, Patescibacteria, and Actinobacteriota were the dominant phyla in the gut of largemouth bass. However, differences in the relative abundance and community structure of microorganisms were observed between the two groups, suggesting that the biofloc system impacts both the water environment and intestinal microbial community structure in largemouth bass culture. (iii) A correlation analysis between water quality indices and enzyme activity with microbial abundance revealed that microbial community composition could effectively reflect water quality and fish physiological health. Based on the analysis of microbial community structure, this study offers a theoretical foundation for integrating largemouth bass culture with the biofloc system, and provides valuable data for future health management and water quality control in largemouth bass production.

Potential for synergism of sequential UV-NaClO disinfection on ARGs removal in municipal sewage: Effectiveness, kinetics, and mechanisms

Conventional disinfection technologies have limitations in effectively addressing the challenges posed by the emerging pollutant of antibiotic resistance genes (ARGs). To reduce the risk of antibiotic resistance in wastewater treatment plant (WWTP) effluent, this study investigated the effectiveness of ultraviolet (UV) irradiation followed by Sodium hypochlorite (NaClO) (sequential UV-NaClO) disinfection in removing six classes and 18 subtypes of ARGs in the secondary effluent of a municipal WWTP. The study showed that UV disinfection could reduce tetracycline ARGs (TCs-ARGs) subtype tetQ by 0.98 log, while it was ineffective in removing sulfonamide ARGs (SAs-ARGs). NaClO disinfection was very effective in removing ARGs. Increasing the disinfectant dosage is more effective than extending the disinfection time. The highest removal was observed for the SAs-ARGs subtype sul1 with 4.15 log and the β-lactams-ARGs(β-LACs-ARGs) subtype blaCTX-M1 with 3.87 log. Sequential UV-NaClO disinfection has the potential for synergistic effects in disinfection. Sequential UV-NaClO disinfection with a UV dosage of 15 mJ/cm2 and a NaClO dosage of 10 mg/L can effectively remove 1.46 log of the total 18 subtypes of ARGs, which is 0.73 log higher than the removal achieved by standalone UV irradiation at a fluence of 100 mJ/cm2, and equivalent to the results obtained with NaClO disinfection alone at a dose of 30 mg/L. Additionally, sequential UV-NaClO disinfection can reduce the repair efficiency of ARGs. The proposed modified Hom model can be used to analyze the kinetics of sequential UV-NaClO disinfection synergy. Analysis of microbial community structure and co-occurrence of ARGs showed synchronized and consistent removal of ARGs and their potential bacterial hosts. Sequential UV-NaClO disinfection could achieve 99 % removal of more than half of the genera. Overall, our results indicate that sequential disinfection is a promising disinfection technology for disinfecting municipal wastewater and reducing the spread and transfer of ARGs.

Analyses of Rhizosphere Soil Physicochemical Properties and Microbial Community Structure in Cerasus humilis Orchards with Different Planting Years

Analyses of Rhizosphere Soil Physicochemical Properties and Microbial Community Structure in Cerasus humilis Orchards with Different Planting Years

Inoculation of Bacillus velezensis Bv-116 and its bio-organic fertilizer serve as an environmental friendly biocontrol strategy against cucumber Fusarium wilt.

The aim of this study was to evaluate the effects of Bacillus velezensis Bv-116 and its bio-organic fertilizer on the control of cucumber Fusarium wilt caused by Fusarium oxysporum f. sp. Cucumerinum (FOC), the promotion of growth of cucumber seedlings, and the soil microbial community. B. velezensis Bv-116 exhibited an inhibition rate of 84.93% against FOC, as well as broad-spectrum inhibitory activities against other soil-borne plant pathogenic fungi. Fermentation products of B. velezensis Bv-116 destroyed the cell structure of FOC and inhibited the growth of FOC mycelium. These products were identified as volatile antimicrobial gases, proteases and cellulases. In the greenhouse pot experiment, both B. velezensis Bv-116 and its bio-organic fertilizer exhibited significant promoting effects on cucumber growth, and a significant reduction in the incidence and disease severity index of cucumber wilt (p < 0.05). Analysis of the microbial community structure of cucumber rhizosphere soil revealed that inoculation of B. velezensis Bv-116 and its bio-organic fertilizer increased the abundance of genera with biocontrol capabilities against plant pathogens. In addition, inoculation of the bio-organic fertilizer reversed the excessive proliferation of Fusarium and Acidobacteria. Our results suggest the potential of inoculating B. velezensis Bv-116 and its bio-organic fertilizer as an environmentally friendly biocontrol strategy against cucumber wilt.

Weathering of Buried Standard Pieces of Serpentine under Varied Soil Treatments and Relevant Analysis of Microbial Community Structure

Carbon sink processes related to the weathering of silicate minerals are often accompanied by physical, chemical, and biological effects. In particular, plant-microbe synergistic effects are important for soil mineral weathering, but relevant correlation analyses and quantitative studies remain sparse. In this research, a standard serpentine test specimens (STSs) with specific specifications were used to study serpentine weathering under different environmental conditions (abiotic or biotic) and correlated it with the microbial community structure under the growth of Setaria viridis. The results showed that the environment with growing S. viridis had the strongest weathering capacity for STSs, which was 35 times higher than that of the abiotic environment group, and a significant increase in soil inorganic and organic carbon contents compared with the abiotic environment and the environment without plant growth. The bacteria with strong weathering ability were enriched in the soil of around STSs, such as Pseudomonas spp. and Sphingomonas spp. In addition, the fungal community of Ascomycetes is also heavily enriched, accelerating STSs weathering. The addition of bacterial agent (Bacillus subtilis) further promoted the STSs weathering under the growth conditions of S. viridis. The soil surrounding the buried STSs was also enriched with heavy metal tolerant Massilia spp. and disease suppressing Lysobacter spp., while the abundance of fungi functionally associated with pathotypes was reduced, thereby benefiting plant growth. This study provides basic information for the serpentine bio-weathering coupled with carbon sequestration by using plant-microbe synergistic effects.

Changes in Phytoplankton Community Structure in Qingcaosha Reservoir Based on Time Series Analysis

Qingcaosha Reservoir is one among the important reservoirs and drinking water sources in Shanghai. Samples were collected from the reservoir every month from 2014 to 2021 to analyze phytoplankton community structure and water environmental factors to provide a reasonable reference for urban reservoir operation management, water resource protection, and development and utilization. The results showed that 561 species of phytoplankton were identified from eight phyla in 8a, mainly diatomata, chlorophyta, and cyanophyta, accounting for 34.94%, 34.58%, and 17.65% of the total species, respectively. A total of 26 dominant species were present in four phyla, and cyanobacteria accounted for 50%. Diatoms and green algae were the dominant species, cyanobacteria was the absolute dominant species, and other phyla accounted for a low proportion in the community structure. The Qingcaosha reservoir had the tendency of transforming into a cyanobacteria-type reservoir. The major dominant genera of chlorophyta were Scenedesmus, Ankistrodesmusc, and Chlorellaceae. The dominant genera of the phylum cyanobacteria were Merismopediaceae, Microcystaceae, Aphanocapsa, and Pseudanabaenaceae. The major dominant genera of the diatoms were Cyclotella, Melosira, and Aulacoseira. The dominant genus of xanthophyta was Tribonemataceae. Phytoplankton abundance ranged from 8.391×105 to 2.115×107 cells·L-1, with an average of 6.345×106 cells·L-1. The biomass of phytoplankton varied from 0.113 to 11.903 mg·L-1, with an average of 1.538 mg·L-1. The maximum abundance occurred in summer, and the maximum biomass occurred in spring. In spatial distribution, the maximum biomass and abundance appeared in the reservoir. Redundancy analysis （RDA） of phytoplankton community structure and water environmental factors showed that water temperature （WT）, dissolved oxygen （DO）, and nutrient salts （TN, TP） were important environmental factors affecting phytoplankton community structure, and significant changes occurred in 2014-2017 and 2018-2021. From 2018 to 2021, cyanobacteria disappeared and cyanobacteria dominated the reservoir and even changed to cyanobacteria-type reservoirs. From 2016 to 2021, half of the dominant species were cyanobacteria, and the cyanobacteria abundance accounted for the highest proportion during this period. The reasons for the extinction of xanthophyta were speculated to be the increase in phosphorus concentration and water temperature, and the reasons for the dominant position of cyanophyta, to be the rise of water level, water temperature, and alkaline water. Reservoirs use filter-feeding fish to control algal overgrowth； however, filter-feeding fish do not filter all algae and not all of their filter-feeding algae is easily digestible. In this study, it was observed that the size of digestible algae biomass in the four seasons was in the order of spring &gt; summer &gt; autumn &gt; winter. RDA analysis of silver carp, bighead carp, and digestible algae showed that the biomass of digestible algae was positively correlated with that of silver carp and bighead carp in spring, autumn, and winter. These results suggest that the digestibility of algae changed the resource use efficiency of filter-feeding fish and led to changes in phytoplankton community structure. The phytoplankton community structure was directly affected by the descending effect of fish and indirectly affected by the digestibility of algae.

Extinction cascades, community collapse, and recovery across a Mesozoic hyperthermal event

Mass extinctions are considered to be quintessential examples of Court Jester drivers of macroevolution, whereby abiotic pressures drive a suite of extinctions leading to huge ecosystem changes across geological timescales. Most research on mass extinctions ignores species interactions and community structure, limiting inference about which and why species go extinct, and how Red Queen processes that link speciation to extinction rates affect the subsequent recovery of biodiversity, structure and function. Here, we apply network reconstruction, secondary extinction modelling and community structure analysis to the Early Toarcian (Lower Jurassic; 183 Ma) Extinction Event and recovery. We find that primary extinctions targeted towards infaunal guilds, which caused secondary extinction cascades to higher trophic levels, reproduce the empirical post-extinction community most accurately. We find that the extinction event caused a switch from a diverse community with high levels of functional redundancy to a less diverse, more densely connected community of generalists. Recovery was characterised by a return to pre-extinction levels of some elements of community structure and function prior to the recovery of biodiversity. Full ecosystem recovery took ~7 million years at which point we see evidence of dramatically increased vertical structure linked to the Mesozoic Marine Revolution and modern marine ecosystem structure.

Overload of dissolved organic matter (DOM) in riparian infiltration zone increasing the pollution risk of naphthalene, insight from the competitive inhibition of naphthalene biodegradation by DOM.

Riparian infiltration zones are crucial for maintaining water quality by reducing the aqueous concentrations of polycyclic aromatic hydrocarbons (PAHs) through adsorption and biodegradation within the aquatic ecosystem. Dissolved organic matter (DOM) are ubiquitous in riparian infiltration zones where they extensively engage in the adsorption and biodegradation of PAHs, thereby influencing PAHs natural attenuation potential within riparian infiltration zones. Few studies have explored the natural attenuation mechanisms of PAHs influenced by DOM in riparian infiltration zones. In this study, the natural attenuation mechanisms of naphthalene (a typical PAHs component), under the influence of DOM, were explored, based on a case riverside source area. Analysis of microbial community structures, and the electron acceptor (e.g., Fe(III), DO/NO3-, SO42-)/electron donor (naphthalene and DOM) concentration changes within the riparian infiltration zone revealed a competitive inhibition relationship between DOM and naphthalene during microbial metabolism. Biodegradation experiments showed that when the concentration of DOM is higher than 4.0 mg·L-1, it inhibits the biodegradation of naphthalene. DOM competitively inhibits the biodegradation of naphthalene through the following mechanisms: (i) triggering microbial antioxidative defense mechanisms, diminishing the available resources for microbial participation in naphthalene degradation; (ii) altering microbial community structure; (iii) modulating microbial EPS composition, reducing the efficiency of microorganisms in utilizing carbon sources; and (iv) inhibiting the expression levels of downstream genes involved in naphthalene degradation. The competitive inhibition constants of DOM with concentrations of 1.0, 2.0, 4.0, 8.0, and 16.0 mg·L-1 on naphthalene biodegradation are -2.0 × 10-3, -5.0 × 10-3,1.0 × 10-3, 4.0 × 10-4, and 1.0 × 10-4, respectively. These findings enhance understanding of PAHs attenuation in riparian infiltration zone, providing a basis for assessing and managing PAHs pollution risks during riparian extraction.

Remediation of heavy metal contaminated soil in mining areas with vaterite-type biological calcium carbonate

In recent years, research on the remediation of heavy metal contaminated soil by microbially induced carbonate precipitation (MICP) technology has yielded significant findings. However, when utilizing MICP for remediation in situ, urea and calcium chloride may produce high concentrations of NH4+ and Cl-, which subsequently cause secondary pollution. If the biological calcium carbonate (Bio-CaCO3) produced by MICP is employed as a highly efficacious adsorbent, secondary pollution can be avoided while remediating heavy metal pollution. In this study, vaterite-type Bio-CaCO3 was prepared under the regulation of sophorolipids, and the remediation effect and mechanisms for heavy metal contaminated soil were investigated. The results demonstrated that sophorolipids facilitate the formation and stabilization of vaterite-type Bio-CaCO3. The addition of vaterite-type Bio-CaCO3 could notably increase the content of soil organic matter, enhance soil urease activity, and reduce soil catalase activity. On the 30th day of remediation with vaterite-type Bio-CaCO3, the active state content of Pb and Cd in the soil exhibited a decrease of 41.23% and 35.00%, respectively. Additionally, the exchangeable state content demonstrated a reduction of 6.61% and 8.48%, while the carbonate-bound state exhibited an increase of 12.05% and 13.89%, respectively. The principal mechanisms for the remediation of heavy metal contaminated soil by vaterite-type Bio-CaCO3 may be attributed to ion exchange, chemical precipitation, physical adsorption, and complexation reactions. The analysis of the microbial community structure demonstrated that vaterite-type Bio-CaCO3 could enhance the abundance of multiple genera with urease-producing genes, including Pseudomonas, Staphylococcus, and Bacillus while maintaining the soil biodiversity. This study provides a new idea for the remediation of heavy metal contaminated soil around the mining area and offers technical support for the construction of green mines.

Sample collecting methods for bacterial community structure analysis of scalp hair: non-invasive swabbing versus intrusive hair shaft cutting

Human skin samples for microbiome analysis are traditionally collected using a non-invasive swabbing method. Here, we compared the differences in bacterial community structures on scalp hair and scalps with samples collected using non-invasive swabbing and cutting/removal of scalp hair in 12 individuals. Hair-related samples, such as hair shafts and hair swabs, had significantly higher alpha diversity than scalp swab samples, whereas there were no significant differences between hair shafts and hair swabs. The relative abundances of the three major phyla and five major operational taxonomic units were not significantly different between the hair shaft and hair swab samples. The principal coordinate analysis plots based on weighted UniFrac distances were grouped into two clusters: samples from hair-related areas and scalp swabs, and there were significant differences only between samples from hair-related areas and scalp swabs. In addition, a weighted UniFrac analysis revealed that the sampling site-based category was a statistical category but not a hair sampling method-based category. These results suggest that scalp hair bacteria collected using non-invasive swab sampling were comparable to those collected cutting/removal of scalp hair.

Unravelling tropical estuary health through a multivariate analysis of spatiotemporal phytoplankton diversity and community structure in relation to environmental interactions

Unravelling tropical estuary health through a multivariate analysis of spatiotemporal phytoplankton diversity and community structure in relation to environmental interactions

Fecal microbiome and functional prediction profiles of horses with and without crib-biting behavior: A comparative study

Crib-biting is a stereotyped oral behavior with poorly understood etiology and pathophysiology. The relationship between the gut microbiome and brain function has been described in behavioral disorders such as schizophrenia, depression and anxiety in humans. In horses, studies of behavioral problems and the microbiome are very limited. This study aimed to characterize the fecal microbiome and the predicted functional profile of horses with and without aerophagia. Fecal samples were collected from 12 Colombian Creole Horses of both sexes, divided into two groups: group 1, composed of six horses with crib-biting (3 females and 3 males), average body weight of 330 ± 10 kg, age of 7.0 ± 1.2 years and body condition score (BCS) of 5/9 ± 1 and group 2, consisting of six horses without crib-biting (3 females and 3 males), average body weight of 335 ± 5 kg, age 6.5 ± 1 years and BCS of 6/9 ± 1. From each horse in both groups fecal total DNA was obtained and 16S ribosomal RNA gene amplicons were sequenced to characterize the bacterial community structure. Community structure and differential abundance analyses revealed significant differences between the two conditions (p < 0.05). Specifically, the fecal microbiota at the family level in crib-biting horses, showing a decrease in Bacteroidales and an increase in Bacillota and Clostridia, differed from that of healthy horses without crib-biting, consistent with findings from previous studies. Furthermore, metagenome prediction suggests metabolic profile changes in bacterial communities between both conditions in horses. Further studies are required to validate the role of the microbiota-gut-brain axis in the etiology of crib-biting and other abnormal and stereotyped behaviors.

Community structure and environmental drivers of offshore hard-bottom reef fishes in the northern Gulf of Mexico

Abstract Understanding patterns in community structure in large marine ecosystems is necessary for advancing community- and ecosystem-based approaches to marine fisheries management. We analyzed data from a large-scale, fishery-independent video survey to quantify the structure of reef fish communities on offshore hard-bottom reef habitats in the northern Gulf of Mexico (nGOM). A novel aspect of this work is that all species visualized on videos were identified and enumerated over a 13-year period, which allowed for a comprehensive analysis of fish community structure. We observed a total of 243 fish species from 54 families and 14 orders. Species richness and biodiversity varied considerably across the nGOM and were highest in regions that harbor extensive coral reef habitat (south Florida, Louisiana-Texas shelf). Multivariate analyses identified 12 species assemblages, with important fishery species and species of concern (i.e. IUCN-listed) occurring in the largest identified assemblages. One assemblage composed mostly of large-bodied fishery species accounted for 45% by number and 89% by weight of all fish observed. Species assemblages were most strongly associated with depth, temperature, and substrate composition, with weaker associations with the amount of attached algae and vertical relief, while species richness was positively correlated with bottom water temperature. In general, large-scale bathymetric and hydrographic factors (e.g. depth, temperature) were more important than local topographic structure and biogenic habitat in structuring reef fish communities at the spatial scales (i.e.1000 km) considered here. Our results advance ecosystem-based approaches to fisheries management by providing a basis for incorporating multispecies spatial dynamics into the monitoring and assessment of hard-bottom reef fish communities in the nGOM.