Endophytic Bacillus megaterium BM18-2 mutated for cadmium accumulation and improving plant growth in Hybrid Pennisetum

Unboxing PGPR-mediated management of abiotic stress and environmental cleanup: what lies inside?

Abiotic stresses including heavy metal toxicity, drought, salt and temperature extremes disrupt the plant growth and development and lowers crop output. Presence of environmental pollutants further causes plants suffering and restrict their ability to thrive. Overuse of chemical fertilizers to reduce the negative impact of these stresses is deteriorating the environment and induces various secondary stresses to plants. Therefore, an environmentally friendly strategy like utilizing plant growth-promoting rhizobacteria (PGPR) is a promising way to lessen the negative effects of stressors and to boost plant growth in stressful conditions. These are naturally occurring inhabitants of various environments, an essential component of the natural ecosystem and have remarkable abilities to promote plant growth. Furthermore, multifarious role of PGPR has recently been widely exploited to restore natural soil against a range of contaminants and to mitigate abiotic stress. For instance, PGPR may mitigate metal phytotoxicity by boosting metal translocation inside the plant and changing the metal bioavailability in the soil. PGPR have been also reported to mitigate other abiotic stress and to degrade environmental contaminants remarkably. Nevertheless, despite the substantial quantity of information that has been produced in the meantime, there has not been much advancement in either the knowledge of the processes behind the alleged positive benefits or in effective yield improvements by PGPR inoculation. This review focuses on addressing the progress accomplished in understanding various mechanisms behind the protective benefits of PGPR against a variety of abiotic stressors and in environmental cleanups and identifying the cause of the restricted applicability in real-world.

Plant Growth-Promoting Bacteria Influence Microbial Community Composition and Metabolic Function to Enhance the Efficiency of Hybrid pennisetum Remediation in Cadmium-Contaminated Soil

The green and efficient remediation of soil cadmium (Cd) is an urgent task, and plant-microbial joint remediation has become a research hotspot due to its advantages. High-throughput sequencing and metabolomics have technical advantages in analyzing the microbiological mechanism of plant growth-promoting bacteria in improving phytoremediation of soil heavy metal pollution. In this experiment, a pot trial was conducted to investigate the effects of inoculating the plant growth-promoting bacterium Enterobacter sp. VY on the growth and Cd remediation efficiency of the energy plant Hybrid pennisetum. The test strain VY-1 was analyzed using high-throughput sequencing and metabolomics to assess its effects on microbial community composition and metabolic function. The results demonstrated that Enterobacter sp. VY-1 effectively mitigated Cd stress on Hybrid pennisetum, resulting in increased plant biomass, Cd accumulation, and translocation factor, thereby enhancing phytoremediation efficiency. Analysis of soil physical-chemical properties revealed that strain VY-1 could increase soil total nitrogen, total phosphorus, available phosphorus, and available potassium content. Principal coordinate analysis (PCoA) indicated that strain VY-1 significantly influenced bacterial community composition, with Proteobacteria, Firmicutes, Chloroflexi, among others, being the main differential taxa. Redundancy analysis (RDA) revealed that available phosphorus, available potassium, and pH were the primary factors affecting bacterial communities. Partial Least Squares Discriminant Analysis (PLS-DA) demonstrated that strain VY-1 modulated the metabolite profile of Hybrid pennisetum rhizosphere soil, with 27 differential metabolites showing significant differences, including 19 up-regulated and eight down-regulated expressions. These differentially expressed metabolites were primarily involved in metabolism and environmental information processing, encompassing pathways such as glutamine and glutamate metabolism, α-linolenic acid metabolism, pyrimidine metabolism, and purine metabolism. This study utilized 16S rRNA high-throughput sequencing and metabolomics technology to investigate the impact of the plant growth-promoting bacterium Enterobacter sp. VY-1 on the growth and Cd enrichment of Hybrid pennisetum, providing insights into the regulatory role of plant growth-promoting bacteria in microbial community structure and metabolic function, thereby improving the microbiological mechanisms of phytoremediation.

Role of Plant-Growth-Promoting Rhizobacteria in Plant Machinery for Soil Heavy Metal Detoxification

Heavy metals migrate easily and are difficult to degrade in the soil environment, which causes serious harm to the ecological environment and human health. Thus, soil heavy metal pollution has become one of the main environmental issues of global concern. Plant-growth-promoting rhizobacteria (PGPR) is a kind of microorganism that grows around the rhizosphere and can promote plant growth and increase crop yield. PGPR can change the bioavailability of heavy metals in the rhizosphere microenvironment, increase heavy metal uptake by phytoremediation plants, and enhance the phytoremediation efficiency of heavy-metal-contaminated soils. In recent years, the number of studies on the phytoremediation efficiency of heavy-metal-contaminated soil enhanced by PGPR has increased rapidly. This paper systematically reviews the mechanisms of PGPR that promote plant growth (including nitrogen fixation, phosphorus solubilization, potassium solubilization, iron solubilization, and plant hormone secretion) and the mechanisms of PGPR that enhance plant-heavy metal interactions (including chelation, the induction of systemic resistance, and the improvement of bioavailability). Future research on PGPR should address the challenges in heavy metal removal by PGPR-assisted phytoremediation.

Enhancing cadmium phytoremediation of Chlorophytum comosum (Thunb.) Jacques by applying cadmium-resistant bacterial tablet

This study aims to formulate bacterial tablets of cadmium (Cd)-resistant Micrococcus sp. MU1, an indole-3-acetic acid-producer, for soil inoculation to improve Cd phytoremediation by Chlorophytum comosum (Thunb.) Jacques. The viability of Micrococcus sp. MU1 in tablets after storage at room temperature and 4 °C was determined. The ability of Micrococcus sp. tablets and cell suspensions on stimulating growth and Cd accumulation in C. comosum was compared. The results found that the viability of Micrococcus sp. tablets stored at room temperature and 4 °C for 2 months were 29.2 and 97.9%, respectively. After 2 months of growth in pots, the dry biomass weights of C. comosum amended with Micrococcus sp. tablet and cell suspension were greater than that of uninoculated control by 1.4- and 1.3-fold, respectively. Cd concentrations in the roots and shoots of C. comosum inoculated with bacterial tablet and bacterial suspension were not significantly different (p < 0.05) and were greater than that of the uninoculated plants. In addition, plants inoculated with Micrococcus sp. tablet and cell suspension exhibited superior phytoextraction performance, bioaccumulation factor, and translocation factor, indicating equal performance of both bacterial forms on boosting Cd phytoremediation efficiency in C. comosum. These findings suggest that soil inoculation with Micrococcus sp. tablet as a ready-to-use inoculum is a novel approach to promote phytoremediation of C. comosum in Cd-contaminated agricultural soil.

Plant growth-promoting rhizobacteria: A good companion for heavy metal phytoremediation

Phytoremediation is an environment-friendly approach regarded as a potential candidate for remediating heavy metal (HM)-contaminated soils. However, the low efficacy of phytoremediation is a major limitation that hampers its large-scale application. Therefore, developing strategies to enhance phytoremediation efficacy for contaminated soils is crucial. Plant growth-promoting rhizobacteria (PGPR) considerably contribute to phytoremediation intensification. To improve the efficiency of plant-microbe symbiosis for remediation, the mechanisms underlying PGPR-stimulated HM accumulation and tolerance in plants should be comprehensively understood. This review focuses on hyperaccumulators, PGPR, and the mechanisms by which PGPR enhance phytoremediation from four aspects: providing nutrients to plants, secreting plant hormones and specific enzymes, inducing systemic resistance, and altering the bioavailability of HMs in soils. It also provides a theoretical and technical basis for future research on PGPR synergism in promoting the phytoextraction efficiency in HM-contaminated soils.

Plant growth-promoting and heavy metal-resistant Priestia and Bacillus strains associated with pioneer plants from mine tailings

Open mine tailings dams are extreme artificial environments containing sizeable potentially toxic elements (PTEs), including heavy metals (HMs), transition metals, and metalloids. Furthermore, these tailings have nutritional deficiencies, including assimilable phosphorus sources, organic carbon, and combined nitrogen, preventing plant colonization. Bacteria, that colonize these environments, have mechanisms to tolerate the selective pressures of PTEs. In this work, several Priestia megaterium (formerly Bacillus megaterium), Bacillus mojavensis, and Bacillus subtilis strains were isolated from bulk tailings, anthills, rhizosphere, and endosphere of pioneer plants from abandoned mine tailings in Zacatecas, Mexico. Bacillus spp. tolerated moderate HMs concentrations, produced siderophores and indole-3-acetic acid (IAA), solubilized phosphates, and reduced acetylene in the presence of HMs. The strains harbored different PIB-type ATPase genes encoding for efflux pumps and Cation Diffusion Facilitator (CDF) genes. Moreover, nifH and nifD nitrogenase genes were detected in P. megaterium and B. mojavensis genomic DNA. They showed similarity with sequences of the beta-Proteobacteria species, which may represent likely horizontal transfer events. These Bacillus species precede the colonization of mine tailings by plants. Their phenotypic and genotypic features could be essential in the natural recovery of the sites by reducing the oxidative stress of HMs, fixing nitrogen, solubilizing phosphate, and accumulating organic carbon. These traits of the strains reflect the adaptations of Bacillus species to the mine tailings environment and could contribute to the success of phytoremediation efforts.

Bioremediation of Heavy Metals by the Genus Bacillus

Environmental contamination with heavy metals is one of the major problems caused by human activity. Bioremediation is an effective and eco-friendly approach that can reduce heavy metal contamination in the environment. Bioremediation agents include bacteria of the genus Bacillus, among others. The best-described species in terms of the bioremediation potential of Bacillus spp. Are B. subtilis, B. cereus, or B. thuringiensis. This bacterial genus has several bioremediation strategies, including biosorption, extracellular polymeric substance (EPS)-mediated biosorption, bioaccumulation, or bioprecipitation. Due to the above-mentioned strategies, Bacillus spp. strains can reduce the amounts of metals such as lead, cadmium, mercury, chromium, arsenic or nickel in the environment. Moreover, strains of the genus Bacillus can also assist phytoremediation by stimulating plant growth and bioaccumulation of heavy metals in the soil. Therefore, Bacillus spp. is one of the best sustainable solutions for reducing heavy metals from various environments, especially soil.

Phytoremediation potential of hybrid Pennisetum in cadmium-contaminated soil and its physiological responses to cadmium

Cadmium (Cd) contamination in soil is a global problem. Recently, phytoremediation with plants, possessing high biomass and moderate Cd enrichment ability, has received excessive attention as a cost-effective method for Cd remediation from the soil. In this study, the plant growth, physiological responses, Cd concentration, accumulation, and distribution of the C4 grass hybrid Pennisetum (HP) were studied in different levels of Cd-contaminated soil in a pot experiment. Furthermore, a field trial was also conducted to accurately assess its practical phytoremediation potential in natural Cd-contaminated fallow filed. The results showed that HP possessed effective antioxidant enzymes to scavenge ROS and strong physiological coordination in response to Cd stress. The HP had a considerable Cd enrichment ability, and the maximal Cd uptake of 1.08 mg plant^-1 was achieved at 60 mg kg^-1 Cd in the pot. The maximal concentration of Cd in the aboveground parts and roots of HP were 49.33 mg kg^-1 and 103.33 mg kg^-1, respectively, when soil Cd was 70 mg kg^-1 in the pot. The bioconcentration factor (BCF) of Cd in the aboveground parts was less than 1, while the BCF in the root was greater than 1, and the translocation factor (TF) was less than 0.5 in all Cd treatment groups. A total of 46.89-65.46% absorbed Cd stored in the aboveground parts in the pot. The Cd concentration in roots of HP was significantly higher compared to those in leaves and stems, and all BCFs were greater than 1.5 in a lightly Cd-contaminated field (0.35 mg kg^-1). Furthermore, HP had high aboveground dry biomass up to 54.63 t ha^-1 and accumulated 16.13 g ha^-1 Cd in its aboveground parts in the field, which was accounted for about 91.54% of the total Cd extracted by the plant. The soil Cd concentration was reduced by 60.00% after planting HP. Our results suggest that HP is a potential phytoextractor for Cd in lightly Cd-contaminated soil as well as a phytostabilizer under strong Cd stress in the pot.

Vermi-cyanobacterial remediation of cadmium-contaminated soil with rice husk biochar: An eco-friendly approach

Present study is aimed to evaluate the influence of earthworm (Eisenia fetida), Cyanobacteria (Cylindrospermum stagnale), and rice husk biochar (BC) on cadmium (Cd) detoxification in artificially contaminated soil. The Cd content was kept at 10 mg/kg in factorial design I, coupled with 2% and 0% BC. E. fetida and C. stagnale un-inoculated and inoculated experiments were maintained respectively as negative and positive controls. In factorial design II, E. fetida and C. stagnale were inoculated, along with BC (0% and 2%, denoted as B), without BC (WB), along with four different Cd concentrations (Cd-0, Cd-5, Cd-10, and Cd-20 mg/kg). Results suggest a substantial amount of Cd removal in BC-assisted treatments when compared to negative control-1. Cd (mg/g) in E. fetida tissue ranged from 0.019 (WB2) to 0.0985 (B4). C. stagnale of WB4 (0.036) bioaccumulated the most Cd (mg/g), while B2 showed the least (0.018). The maximum quantity of metallothionein (5.34 μM/mg) was detected in E. fetida of B4 (factorial design - II) and the minimum was claimed in WB1 (0.48 μM/mg) at the end. Earthworm metallothionein protein is a key component in Cd removal from soil by playing an important role in detoxification process. Microbial communities and humic substances were observed in BC-assisted treatments, which aided in Cd-contaminated soil remediation. The present findings suggest that BC (2%) + earthworms + algae could be a suitable remediation strategy for Cd contaminated soil. BC + earthworm + algal-based investigation on heavy metal remediation will be a valuable platform for detoxifying harmful metals in soils.

A Plant Endophytic Bacterium Priestia megaterium StrainBP-R2 Isolated from the Halophyte Bolboschoenus planiculmis Enhances Plant Growth under Salt and Drought Stresses

Global warming and climate change have contributed to the rise of weather extremes. Severe drought and soil salinization increase because of rising temperatures. Economically important crop production and plant growth and development are hindered when facing various abiotic stresses. Plant endophytic bacteria live inside host plants without causing visible harm and can be isolated from surface-sterilized plant tissues. Using plant endophytic bacteria to stimulate plant growth and increase environmental stress tolerance has become an alternative approach besides using the traditional breeding and genetically modifying approaches to select or create new crop types resistant to different environmental stresses. The plant endophytic bacterium, Priestia megaterium (previously known as Bacillus megaterium) strain BP-R2, was isolated from the surface-sterilized root tissues of the salt marsh halophyte Bolboschoenus planiculmis. The bacteria strain BP-R2 showed high tolerance to different sodium chloride (NaCl) concentrations and produced the auxin plant hormone, indole acetic acid (IAA), under various tested growth conditions. Inoculation of Arabidopsis and pak choi (Brassica rapa L. R. Chinensis Group) plants with the strain BP-R2 greatly enhanced different growth parameters of the host plants under normal and salt and drought stress conditions compared to that of the mock-inoculated plants. Furthermore, the hydrogen peroxide (H₂O₂) content, electrolyte leakage (EL), and malondialdehyde (MDA) concentration accumulated less in the BP-R2-inoculated plants than in the mock-inoculated control plants under salt and drought stresses. In summary, the plant endophytic bacterium strain BP-R2 increased host plant growth and stress tolerance to salt and drought conditions.

Effects of Cellulase, Lactobacillus plantarum, and Sucrose on Fermentation Parameters, Chemical Composition, and Bacterial Community of Hybrid Pennisetum Silage

Hybrid Pennisetum (HP) is a perennial herb with a high yield and high quality, which makes it valuable for research as feed for herbivores. In order to make better use of hybrid Pennisetum as feed, this study studied the effects of cellulase (CE), Lactobacillus plantarum (LP), sucrose (SU), and their mixtures on fermentation parameters, chemical composition, and the bacterial community of hybrid Pennisetum silage. The experiment was divided into 7 treatments, silage treatment, and its abbreviation: CON (control group), CE (100 U/g FM cellulase), LP (1 × 106 cfu/g FM Lactobacillus plantarum), SU (1% FM sucrose), CE+LP (100 U/g FM cellulase + 1 × 106 cfu/g FM Lactobacillus plantarum), CE+SU (100 U/g FM cellulase + 1% FM sucrose), and LP+SU (1 × 106 cfu/g FM Lactobacillus plantarum + 1% FM sucrose). The silage bag was opened on the 60th day of ensilage for subsequent determination. The addition of CE and LP increased lactic acid content (p > 0.05). The pH and acetic acid of CE and LP were lower than CON (p < 0.05), and the crude protein content of CE was higher than CON. Cellulase and Lactobacillus plantarum can improve the quality of hybrid Pennisetum silage. Compared with Lactobacillus plantarum and sucrose, cellulase has better nutrition preservation and the ability to inhibit protein hydrolysis. 16S rRNA analysis showed that the dominant phyla were Fimicutes and Proteobacteria, and the dominant genera were Lactobacillus and Weissella. The changes in fermentation parameters and chemical components of hybrid Pennisetum silage caused by cellulase, Lactobacillus plantarum, sucrose, and their mixture may be the result of bacterial community changes.

A newly isolated bacterium Comamonas sp. XL8 alleviates the toxicity of cadmium exposure in rice seedlings by accumulating cadmium

Cadmium (Cd) is a typical heavy-metal highly accumulating in crops and drinking water, thus posing a severe health risk for human health. In this study, we firstly isolated 24 Cd-resistant bacteria from the heavy-metals contaminated soil at Daye Iron Ore, in which Comamonas sp. XL8 exhibited a high resistance and strong accumulation capacity to Cd. After absorption, Comamonas sp. XL8 could biosynthesize intracellular Cd-nanoparticles (CdNPs), which has not been reported in characteristics of Comamonas genus before. We found that the gene expressions of cadA and bmtA related to Cd transportation and binding in strain XL8 were significantly upregulated with Cd exposure, suggesting that genes cadA and bmtA may contribute to the formation of CdNPs. Of particular note, the co-inoculation of Comamonas sp. XL8 and rice seedlings (Oryzae sativa L.) significantly decreased the oxidative stress-induced by Cd accumulation and subsequently alleviated toxicity of Cd exposure. Our results reveal the biochemical process of Cd accumulation in Comamonas sp. XL8 by forming CdNPs, showing that it has great potential for effective bioremediation of environmental Cd exposure.

Agricultural and Other Biotechnological Applications Resulting from Trophic Plant-Endophyte Interactions

Endophytic microbiota plays a role not only in supplying plants with the basic nutrients indispensable for their growth, but also helps them in the mechanisms of adaptation to various environmental stresses (i.e., salinity, drought), which is important in the aspect of crop yields. From the agricultural and biotechnological points of view, the knowledge of endophytes and their roles in increasing crop yields, plant resistance to diseases, and helping to survive environmental stress is extremely desirable. This paper reviews some of the beneficial plant–microbe interactions that might be potentially used in both agriculture (plant growth stimulation effect, adaptation of host organisms in salinity and drought conditions, and support of defense mechanisms in plants), and in biotechnology (bioactive metabolites, application of endophytes for bioremediation and biotransformation processes, and production of biofertilizers and biopreparations). Importantly, relatively recent reports on endophytes from the last 10 years are summarized in this paper.