Elsholtzia splendens promotes phenanthrene and polychlorinated biphenyl degradation under Cu stress through enrichment of microbial degraders

Response of rhizosphere microbial community characteristics and ecosystem multifunctionality to the addition of crude oil in Achnatherum splendens and Pennisetum alopecuroides

This study aimed to reveal the effects of crude oil addition on the characteristics of soil microbial communities and ecosystem multifunctionality in Achnatherum splendens and Pennisetum alopecuroides. Specifically, it explored how crude oil addition influences the relationship between soil nutrient regulation, microbial community characteristics, and ecosystem multifunctionality. The results indicated that as crude oil addition increased, the Shannon index and Chao1 index for soil bacteria and fungi in both Achnatherum splendens and Pennisetum alopecuroides increased. Conversely, while the Shannon index for soil archaea in both species increased, the Chao1 index decreased. The ecological network analysis indicated that a strong collaborative relationship existed between species in the soil bacterial communities of Achnatherum splendens and Pennisetum alopecuroides exposed to 10 g/kg crude oil, as well as between species in the soil fungal and archaeal communities of Achnatherum splendens exposed to 40 g/kg crude oil. A strong collaborative relationship was also observed between species in the soil fungal and archaeal communities of Pennisetum alopecuroides exposed to 10 g/kg crude oil. The bacterial and fungal communities exerted a significant direct negative regulatory effect on the soil ecosystem multifunctionality of Achnatherum splendens and Pennisetum alopecuroides, while the archaeal communities had a significant direct positive regulatory effect. Additionally, the multifunctionality index of the soil ecosystem in Achnatherum splendens and Pennisetum showed a significant decline with increasing crude oil addition. This is likely due to the higher toxicity of high-concentration crude oil, which negatively impacts the soil biological community, leading to reduced biodiversity and disruptions in nutrient cycles. This study explores the characteristics of bacterial, fungal, and archaeal communities and ecosystem multifunctionality under different levels of crude oil, which can provide theoretical support for evaluating the restoration of Achnatherum splendens and Pennisetum alopecuroides from crude oil pollution.

Enhancing remediation efficiency of cadmium-contaminated soil: integrating forage-microorganism systems with agronomic strategies

Soil contamination due to heavy metals, especially cadmium (Cd), poses a growing concern. This study seeks to develop an economical and non-polluting sustainable remediation program for Cd-contaminated soil to address this issue. This study pioneered the exploration of Cd accumulation patterns in three forage species: Lolium multiflorum Lamk (LMJS), Sorghum bicolor × sudanense (SSBJ), and Sorghum sudanense (Piper) Stapf (SUJS) to identify their optimal harvest periods in Cd-contaminated soils. Additionally, a consortium of beneficial microorganisms (combinations of C, F, and H; C: 10% Bacillus subtilis; F: 20% Bacillus subtilis + 10% Bacillus cereus + 20% Citrobacter; H: 20% Deinococcus radiodurans + 10% Bacillus cereus) was implemented, with a focus on developing an efficient forage-microbial co-remediation system. Subsequently, agronomic strategies (mowing or chelating agents) were employed to improve the Cd enrichment capacity of the combined forage-microbe remediation system, offering sustainable field remediation strategies. The results indicate that the SSBJ + F combined remediation system was mowed on the 60th day (stubble left at 35 cm, light mowing) and harvested on the 120th day as the optimal choice. The bioaccumulation quantity (BCQ) unit accumulation in Cd-contaminated soil at a concentration of 10 mg/kg reached 0.397 mg/kg, and the annual Cd removal rate was 9.23%, representing a 29.63% increase compared to the control group. The results of this study provide valuable insights into the development of practical, field-applicable remedial measures for cadmium-contaminated soils while minimizing environmental impacts.

Polychlorinated biphenyls modify Arabidopsis root exudation pattern to accommodate degrading bacteria, showing strain and functional trait specificity

Introduction

The importance of plant rhizodeposition to sustain microbial growth and induce xenobiotic degradation in polluted environments is increasingly recognized.

Methods

Here the "cry-for-help" hypothesis, consisting in root chemistry remodeling upon stress, was investigated in the presence of polychlorinated biphenyls (PCBs), highly recalcitrant and phytotoxic compounds, highlighting its role in reshaping the nutritional and signaling features of the root niche to accommodate PCB-degrading microorganisms.

Results

Arabidopsis exposure to 70 µM PCB-18 triggered plant-detrimental effects, stress-related traits, and PCB-responsive gene expression, reproducing PCB phytotoxicity. The root exudates of plantlets exposed for 2 days to the pollutant were collected and characterized through untargeted metabolomics analysis by liquid chromatography-mass spectrometry. Principal component analysis disclosed a different root exudation fingerprint in PCB-18-exposed plants, potentially contributing to the "cry-for-help" event. To investigate this aspect, the five compounds identified in the exudate metabolomic analysis (i.e., scopoletin, N-hydroxyethyl-β-alanine, hypoxanthine, L-arginyl-L-valine, and L-seryl-L-phenylalanine) were assayed for their influence on the physiology and functionality of the PCB-degrading strains Pseudomonas alcaliphila JAB1, Paraburkholderia xenovorans LB400, and Acinetobacter calcoaceticus P320. Scopoletin, whose relative abundance decreased in PCB-18-stressed plant exudates, hampered the growth and proliferation of strains JAB1 and P320, presumably due to its antimicrobial activity, and reduced the beneficial effect of Acinetobacter P320, which showed a higher degree of growth promotion in the scopoletin-depleted mutant f6'h1 compared to Arabidopsis WT plants exposed to PCB. Nevertheless, scopoletin induced the expression of the bph catabolic operon in strains JAB1 and LB400. The primary metabolites hypoxanthine, L-arginyl-L-valine, and L-seryl-L-phenylalanine, which increased in relative abundance upon PCB-18 stress, were preferentially used as nutrients and growth-stimulating factors by the three degrading strains and showed a variable ability to affect rhizocompetence traits like motility and biofilm formation.

Discussion

These findings expand the knowledge on PCB-triggered "cry-for-help" and its role in steering the PCB-degrading microbiome to boost the holobiont fitness in polluted environments.

Response and adaptation of rhizosphere microbiome to organic pollutants with enriching pollutant-degraders and genes for bioremediation: A critical review

Phytoremediation largely involves microbial degradation of organic pollutants in rhizosphere for removing organic pollutants like polycyclic aromatic hydrocarbons, phthalates and polychlorinated biphenyls. Microbial community in rhizosphere experiences complex processes of response-adaptation-feedback up on exposure to organic pollutants. This review summarizes recent research on the response and adaptation of rhizosphere microbial community to the stress of organic pollutants, and discusses the enrichment of the pollutant-degrading microbial community and genes in the rhizosphere for promoting bioremediation. Soil pollution by organic contaminants often reduces the diversity of rhizosphere microbial community, and changes its functions. Responses vary among rhizosphere microbiomes up on different classes of organic pollutants (including co-contamination with heavy metals), plant species, root-associated niches (e.g., rhizosphere, rhizoplane and endosphere), geographical location and soil properties. Soil pollution can deplete some sensitive microbial taxa and enrich some tolerant microbial taxa in rhizosphere. Furthermore, rhizosphere enriches pollutant-degrading microbial community and functional genes including different gene clusters responsible for biodegradation of organic pollutants and their intermediates, which improve the adaptation of microbiome and enhance the remediation efficiency of the polluted soil. The knowledge gaps and future research challenges are highlighted on rhizosphere microbiome in response-adaptation-feedback processes to organic pollution and rhizoremediation. This review will hopefully update understanding on response-adaptation-feedback processes of rhizosphere microbiomes and rhizoremediation for the soil with organic pollutants.

A novel mechanism of enhanced PCBs degradation associated with nitrogen in the rhizosphere of the wetland plant Myriophyllum aquaticum

Co-contamination of polychlorinated biphenyls (PCBs) and nitrogen (N) is widespread. Here, N removal and PCBs degradation were investigated in constructed wetlands populated with Myriophyllum aquaticum, and the role of N in PCBs degradation was explored as well. Nearly 97% of N was removed in the planted system, whereas less than 40% was removed in the plant-free system. Compared to the treatment with plants and no N amendment, N addition enhanced plant growth by 31.9% and PCBs removal by 9.90%. PCBs attenuation was mainly attributed to microbial degradation rather than plant uptake. Using DNA stable-isotope probing, 26 operational taxonomic units were identified across all treatments, of which 25 were linked to PCBs degradation for the first time. Some PCB-degraders were associated with nitrification/denitrification and were significantly enriched in the treatment that included both plants and N application, indicating that PCBs degradation was promoted by recruiting ammonia-oxidising and denitrifying microbes with PCBs metabolic ability. This was confirmed by the higher A13/A12 ratios for the bphC, amoA, and nirK genes and their significant positive correlations. Overall, the findings clarify the novel mechanism by which N promotes PCBs degradation in constructed wetlands and offers a theoretical basis for efficiently removing inorganic elements and persistent organic pollutants.

Soil microbial community compositions and metabolite profiles of Achnatherum inebrians affect phytoremediation potential in Cd contaminated soil

Cadmium (Cd) contamination poses serious risks to soil ecosystems and human health. Herein, the effect of two drunken horse grasses (Achnatherum inebrians) including endophytes Epichloë gansuensis infected (E+ ) and uninfected (E-) on the phytoremediation of Cd-contaminated soils were analyzed by coupling high-throughput sequencing and soil metabolomics. The results showed that the high-risk soil Cd decreased and the medium- and low-risk Cd fraction increased to varying degrees after planting E+ and E- plants in the soil. Meanwhile, total Cd content decreased by 19.7 % and 35.1 % in E+ and E- A. inebrians-planted soils, respectively. Principal coordinate analysis revealed a significant impact of E+ and E- plants on the soil microbial community. Most stress-tolerant and gram-positive functional bacterial taxa were enriched to stabilize Cd(II) in E+ planted soil. Several beneficial fungal groups related to saprotroph and symbiotroph were enriched to absorb Cd(II) in E- soil. Soil metabolomic analysis showed that the introduction of A. inebrians could weaken the threat of CdCl2 to soil microbe metabolism and improve soil quality, which in turn promoted plant growth and improved phytoremediation efficiency in Cd-contaminated soil. In conclusion, A. inebrians plants alleviate soil Cd pollution by regulating soil microbial metabolism and microbial community structure. These results provide valuable information for an in-depth understanding of the phytoremediation mechanisms of A. inebrians.

The complete chloroplast genome of Elsholtzia fruticosa (D. Don) Rehd. (Labiatae), an ornamental plant with high medicinal value

Elsholtzia fruticosa is an ornamental plant with high medicinal value. In this study, we sequenced and analyzed the complete chloroplast (cp) genome of the species. The complete cp sequence is 151,550 bp, including the large single-copy (LSC) region of 82,778 bp, the small single-copy (SSC) region of 17,492 bp, and a pair of invert repeats (IRs) regions of 25,640 bp. It encodes 132 unique genes in total, including 87 protein-coding genes, 37 transfer RNA genes (tRNAs), and eight ribosomal RNA genes (rRNAs). The comparative analysis of complete cp genomes showed that the genomic structure and gene order of E. fruticosa cps were conserved. The sequences of rps15, rps19, ycf1, ycf3, ycf15, psbL, psaI, trnG-UCC, trnS-GCU, trnR-UCU, trnL-UAG, trnP-UG, and trnL-UAA serve as hotspots for developing the DNA barcoding of Elsholtzia species. There are 49 SSR loci in the cp genome of E. fruticosa, among which the repeat numbers of mononucleotide, dinucleotide, trinucleotide, tetranucleotide, and pentanucleotides SSR are 37, 9, 3, 0, and 0, respectively. A total of 50 repeats were detected, including 15 forward repeats, seven reverse repeats, 26 palindromic repeats, and two complementary repeats. Phylogenetic analysis based on the complete cp genome and protein-coding DNA sequences of 26 plants indicates that E. fruticosa has a dose relationship with E. splendens and E. byeonsanensis.