Effects of organochlorines on microbial diversity and community structure in Phragmites australis rhizosphere

Co-metabolic growth and microbial diversity: Keys for the depletion of the α, δ, β and γ-HCH isomers

The objective of this study was the isolation and enrichment of microbiomes capable of degrading the main hexachlorocyclohexane isomers quantified in environmental matrices, e.g.: the α, δ, β and γ-HCH isomers. Four microbiomes were isolated and enriched from an HCH-contaminated dumpsite in Italy, both in the presence of HCH isomers (1:1:1:1) as the sole carbon sources and under co-metabolic growth conditions in presence of glucose (0.1 % v/v). The microbiomes were assessed for their relevant metabolic capabilities. A quantitative metabarcoding approach was employed to analyze the compositional evolution of the four microbiomes during the enrichment phase and the phase of testing of the HCH isomers degradation kinetics. The use of a co-metabolic substrate during enrichment process was essential for selecting microbiomes with higher biodiversity. All microbiomes efficiently degraded the α, δ, and γ-HCH isomers. The highest efficiency in the β-HCH degradation capacity was positively correlated to the highest biodiversity of the microbiome, and the involvement of Chryseobacterium and Asinibacterium sps. have been proposed for a recorded increment in bacterial load during the HCH degradation process.

Soil properties and organochlorine compounds co-shape the microbial community structure: A case study of an obsolete site

Organochlorine compounds (OCs) such as chlorobenzenes (CB) are persistent organic pollutants that are ubiquitous in soils at organochlorine pesticides (OCP) production sites. Long-term contamination with OCs might alter the soil microbial structure and further affect soil functions. However, the effects of OCs regarding the shaping of microbial community structures in the soils of OCs-contaminated sites remain obscure, especially in the vertical soil profile where pollutants are highly concealed. Hence this paper explored the status and causes of OCs pollution (CB, hexachlorocyclohexane (HCH), and dichlorodiphenyltrichloroethane (DDT)) in an obsolete site, and its combined effects with soil properties (pH, available phosphorus (AP), dissolved organic carbon (DOC), etc) on microbial community structure. The mean total concentration of OCs in the subsoils was up to 996 times higher than that in the topsoils, with CB constituting over 90% of OCs in the subsoil. Historical causes, anthropogenic effects, soil texture, and the nature of OCs contributed to the differences in the spatial distribution of OCs. Redundancy analysis revealed that both the soil properties and OCs were important factors in shaping microbial composition and diversity. Variation partitioning analysis further indicated that soil properties had a greater impact on microbial community structure than OCs. Significant differences in microbial composition between topsoils and subsoils were observed through linear discriminant analysis effect size (LEfSe) analysis, primarily driven by different pollutant conditions. Additionally, co-occurrence network analysis indicated that heavily contaminated subsoils exhibited closer and more intricate bacterial community interactions compared to lightly contaminated topsoils. This work reveals the impact of environmental factors in co-shaping the structure of soil microbial communities. These findings advance our understanding of the intricate interplay among organochlorine pollutants, soil properties, and microbial communities, and provides valuable insights into devising effective management strategies in OCs-contaminated soils.

Microbial Spectra, Physiological Response and Bioremediation Potential of Phragmites australis for Agricultural Production

Common reed (Phragmites australis) can invade and dominate in its natural habitat which is mainly wetlands. It can tolerate harsh environments as well as remediate polluted and environmental degraded sites such as mine dumps and other polluted wastelands. For this reason, this can be a very critical reed to reclaim wastelands for agricultural use to ensure sustainability. The present review manuscript examined the microbial spectra of P. australis as recorded in various recent studies, its physiological response when growing under stress as well as complementation between rhizosphere microbes and physiological responses which result in plant growth promotion in the process of phytoremediation. Microbes associated with P. australis include Proteobacteria, Bacteriodetes, and Firmicutes, Fusobacteria, Actinobacteria, and Planctomycetes families of bacteria among others. Some of these microbes and arbuscular mycorrhizal fungi have facilitated plant growth and phytoremediation by P. australis. This is worthwhile considering that there are vast areas of polluted and wasted land which require reclamation for agricultural use. Common reed with its associated rhizosphere microbes can be utilized in these land reclamation efforts. This present study suggests further work to identify microbes which when administered to P. australis can stimulate its growth in polluted environments and help in land reclamation efforts for agricultural use.

Diversity and phylogenetic composition of bacterial communities and their association with anthropogenic pollutants in sewage sludge

Despite wastewater treatment, sewage sludge is often contaminated with multiple pollutants. Their impact on the phylogenetic composition and diversity of prokaryotic communities in sludge samples remains largely unknown. In this study, we analyzed the phylogenetic structure of bacterial communities and diversity in sludge from six waste water treatment plants (WWTPs) and linked this information with the pollutants identified in these samples: eight potentially toxic metals (PTMs) and four groups of organic pollutants [polychlorinated biphenyls (PCBs), polyromantic hydrocarbons (PAHs), brominated flame retardants (BFRs) and organochlorine pesticides (OCPs)]. Alpha diversity measures and the distribution of dominant phyla varied among the samples, with the community from the thermophilic anaerobic digestion (TAD)-stabilized sample from Prague being the least rich and the least diverse and containing on average 36% of 16S rRNA gene sequence reads of the thermotolerant genus Coprothermobacter of the class Clostridia (phylum Firmicutes). Using weighted UniFrac distance-based redundancy analysis (dbRDA), we found that a collection of 5 PTMs: Cr, Cu, Ni, Pb, Zn, and a pair of BFRs: hexabromocyclododecane (HBCD) and tribromodiphenyl ethers (triBDEs) were significantly associated with the bacterial community structure in mesophilic anaerobic digestion (MAD)-stabilized samples, whereas PCBs were observed to be marginally significant. Altogether, 85% of the variance in bacterial community structure could be ascribed to these pollutants. The data presented here contribute to a greater understanding of the ecological effects of combined pollution on the composition and diversity of bacterial communities, hence have the potential to aid in predicting ecosystem functions and/or disruptions associated with pollution.

Restoring HCHs polluted land as one of the priority activities during the UN-International Decade on Ecosystem Restoration (2021-2030): A call for global action

The United Nations General Assembly has recently declared 2021-2030 as the 'International Decade on Ecosystem Restoration' for facilitating the restoration of degraded and destroyed terrestrial and marine systems for regaining biodiversity and ecosystem services, creating job opportunities and also to fight against climate change. One of the prime focus is the restoration of ~350 mha of degraded land across the world for attaining the UN-Sustainable Development Goals. Pesticides are one of the major causes of land pollution and hexachlorocyclohexanes (HCHs, including technical-HCH and γ-HCH) is one of the widely used organochlorine pesticides during the past seven decades before α-, β-, and γ-HCH was listed in the Stockholm Convention in 2009. The widespread pollution of HCHs has been reported from every sphere of the environment and ~7 Mt of HCHs residues have been dumped worldwide near the production sites. HCHs isomers have higher volatility, water solubility and long-range atmospheric transport ability which further facilitates its entry into various environmental compartments. Therefore, the restoration and management of HCHs polluted land is urgently required. Despite various pilot-scale studies have been reported for the remediation of HCHs polluted land, they are not successfully established under the field conditions. This is mainly due to the high concentration of HCHs residues in the contaminated soil and also due to its toxicity and highly persistent nature, which increases the complexity of the onsite remediation. Here we provide a novel approach i.e. sequential and integrated remediation approach (SIRA) for the restoration of HCHs contaminated land by the integrated use of agroresidues along with the application of HCHs degrading microorganisms and chemical amendments followed by the plant-based clean-up techniques using grasses, herbs, shrubs and trees in a sequential manner. SIRA provides cost effective solution with enhanced ecological and socioeconomic benefits for the sustainable restoration of HCHs contaminated sites.

From Pig Breeding Environment to Subsequently Produced Pork: Comparative Analysis of Antibiotic Resistance Genes and Bacterial Community Composition

It is well verified that pig farms are an important reservoir and supplier of antibiotic resistance genes (ARGs). However, little is known about the transmission of ARGs between the breeding environment and subsequently produced pork. This study was conducted to investigate if ARGs and associated host bacteria spread from the breeding environment onto the meat through the food production chain. We thus analyzed the occurrence and abundance of ARGs, as well as comparing both ARG and bacterial community compositions in farm soil, pig feces and pork samples from a large-scale pig farm located in Xiamen, People's Republic of China. Among the 26 target ARGs, genes conferring resistance to sulfonamide, trimethoprim, aminoglycoside, chloramphenicol, macrolide, florfenicol, and tetracycline were observed at high frequency in both the pig breeding environment and pork. The prevalence of ARGs in pork was surprisingly consistent with breeding environments, especially between the pork and feces. The relative abundance of 10 representative ARGs conferring resistance to six classes of antibiotics ranged from 3.01 × 10-1 to 1.55 × 10-6 copies/16S rRNA copies. The ARGs conferring resistance to sulfanilamide (sulI and sulII), aminoglycoside (aadA), and tetracycline [tet(A) and tet(M)] were most highly abundant across most samples. Samples from feces and meat possessed a higher similarity in ARG compositions than samples from the farms soil. Enterobacteriaceae found on the meat samples were further identical with previously isolated multidrug-resistant bacteria from the same pig farm. Our results strongly indicate that ARGs can be potentially spreading from pig breeding environment to meat via the pork industry chain, such as feed supply, pig feeding and pork production.

Lindane degradation by root epiphytic bacterium Achromobacter sp. strain A3 from Acorus calamus and characterization of associated proteins

Lindane degrading root epiphytic bacteria were isolated from wetland plant Acorus calamus. Bacterial strain A3 identified as Achromobacter sp. A3, showed maximum degradation potential of 88.7 ± 1.24% for 50 mg l^-1 lindane. Lindane biodegradation was followed by decrease in pH as well as increase in concentration of chloride ions in the culture medium. Lindane degradation potential of Achromobacter sp. A3 was also studied at different concentrations of lindane. Maximum degradation was at 10 mg l^-1 followed by 50 mg l^-1 and 100 mg l^-1 lindane. Also, lindane induced proteins were studied using SDS-PAGE. The induced proteins were identified as alpha/beta hydrolase fold-3 domain-containing protein, involved in lindane hydrolysis and extracellular solute-binding family protein having role in transmembrane transport of lindane for utilization of lindane by bacteria. The appearance of unique polypeptides in lane corresponding to media supplemented with lindane showed that the exposure of bacterial cells to lindane has resulted in regulative expression of certain proteins. So far as known, this is the first report to isolate and study lindane degrading root epiphytic bacteria from A. calamus.

Phytoremediation of organochlorine pesticides: Concept, method, and recent developments

Rapid increase in industrialization of world economy in the past century has resulted in significantly high emission of anthropogenic chemicals in the ecosystem. The organochlorine pesticides (OCPs) are a great risk to the global environment and endanger the human health due to their affinity for dispersion, transportation over long distances, and bioaccumulation in the food chain. Phytoremediation is a promising technology that aims to make use of plants and associated bacteria for the treatment of groundwater and soil polluted by these contaminants. Processes known to be involved in phytoremediation of OCPs include phytoaccumulation, rhizoremediation, and phytotransformation. Vegetation has been accounted to considerably amplify OCP elimination from soil, in contrast to non-planted soil, attributable to both, uptake within plant tissues and high microbial degradation of OCP within the root zone. Developing transgenic plants is a promising approach to enhance phytoremediation capabilities. Recent advances in the application of phytoremediation technique for OCPs, including uptake by plants and plant-microbe association in the rhizosphere for the enhanced degradation and mineralization of these pollutants, is presented in this review. Additionally, some attempts to improve this technique using transgenesis and role of certain enzymes are also discussed.

Assessing the dynamic changes of rhizosphere functionality of Zea mays plants grown in organochlorine contaminated soils

The persistent organochlorine pesticides (OCPs) in soils are suspected to disturb soil biogeochemical cycles. This study addressed the dynamic changes in soil functionality under lindane and chlordecone exposures with or without maize plant. Decreases in soil ammonium concentration, potential nitrogen mineralization and microbial biomass were only OCP-influenced in bulk soils. OCPs appeared to inhibit the ammonification step. With plants, soil functionality under OCP stress was similar to controls demonstrating the plant influence to ensure the efficiency of C- and N-turnover in soils. Moreover, OCPs did not impact the microbial community physiological profile in all tested conditions. However, microbial community structure was OCP-modified only in the presence of plants. Abundances of gram-negative and saprophytic fungi increased (up to +93% and +55%, respectively) suggesting a plant stimulation of nutrient turnover and rhizodegradation processes. Nevertheless, intimate microbial/plant interactions appeared to be OCP-impacted with depletions in mycorrhizae and micro/meso-fauna abundances (up to -53% and -56%, respectively) which might have adverse effects on more long-term plant growth (3-4 months). In short-term experiment (28days), maize growth was similar to the control ones, indicating an enhanced plasticity of the soil functioning in the presence of plants, which could efficiently participate to the remediation of OCP-contaminated soils.

Cell cycle disruption and apoptosis as mechanisms of toxicity of organochlorines in Zea mays roots

Organochlorine pesticides (OCPs) are widespread environmental pollutants; two of them are highly persistent: lindane (γHCH) and chlordecone (CLD). Maize plants cope with high levels of OCP-environmental pollution, however little is known about cellular mechanisms involved in plant response to such OCP-exposures. This research was aimed at understanding the physiological pathways involved in the plant response to OCPs in function of a gradient of exposure. Here we provide the evidences that OCPs might disrupt root cell cycle leading to a rise in the level of polyploidy possibly through mechanisms of endoreduplication. In addition, low-to-high doses of γHCH were able to induce an accumulation of H2O2 without modifying NO contents, while CLD modulated neither H2O2 nor NO production. [Ca(2+)]cytosolic, the caspase-3-like activity as well as TUNEL-positive nuclei and IP-positive cells increased after exposure to low-to-high doses of OCPs. These data strongly suggest a cascade mechanism of the OCP-induced toxic effect, notably with an increase in [Ca(2+)]cytosolic and caspase-3-like activity, suggesting the activation of programmed cell death pathway.