Metagenomic assembled genomes indicated the potential application of hypersaline microbiome for plant growth promotion and stress alleviation in salinized soils.

Climate change is causing unpredictable seasonal variations globally. Due to the continuously increasing earth's surface temperature, the rate of water evaporation is enhanced, conceiving a problem of soil salinization, especially in arid and semi-arid regions. The accumulation of salt degrades soil quality, impairs plant growth, and reduces agricultural yields. Salt-tolerant, plant-growth-promoting microorganisms may offer a solution, enhancing crop productivity and soil fertility in salinized areas. In the current study, genome-resolved metagenomic analysis has been performed to investigate the salt-tolerating and plant growth-promoting potential of two hypersaline ecosystems, Sambhar Lake and Drang Mine. The samples were co-assembled independently by Megahit, MetaSpades, and IDBA-UD tools. A total of 67 metagenomic assembled genomes (MAGs) were reconstructed following the binning process, including 15 from Megahit, 26 from MetaSpades, and 26 from IDBA_UD assembly tools. As compared to other assemblers, the MAGs obtained by MetaSpades were of superior quality, with a completeness range of 12.95%-96.56% and a contamination range of 0%-8.65%. The medium and high-quality MAGs from MetaSpades, upon functional annotation, revealed properties such as salt tolerance (91.3%), heavy metal tolerance (95.6%), exopolysaccharide (95.6%), and antioxidant (60.86%) biosynthesis. Several plant growth-promoting attributes, including phosphate solubilization and indole-3-acetic acid (IAA) production, were consistently identified across all obtained MAGs. Conversely, characteristics such as iron acquisition and potassium solubilization were observed in a substantial majority, specifically 91.3%, of the MAGs. The present study indicates that hypersaline microflora can be used as bio-fertilizing agents for agricultural practices in salinized areas by alleviating prevalent stresses. IMPORTANCE: The strategic implementation of metagenomic assembled genomes (MAGs) in exploring the properties and harnessing microorganisms from ecosystems like hypersaline niches has transformative potential in agriculture. This approach promises to redefine our comprehension of microbial diversity and its ecosystem roles. Recovery and decoding of MAGs unlock genetic resources, enabling the development of new solutions for agricultural challenges. Enhanced understanding of these microbial communities can lead to more efficient nutrient cycling, pest control, and soil health maintenance. Consequently, traditional agricultural practices can be improved, resulting in increased yields, reduced environmental impacts, and heightened sustainability. MAGs offer a promising avenue for sustainable agriculture, bridging the gap between cutting-edge genomics and practical field applications.

SarCTAB: an efficient and cost-effective DNA isolation protocol from geophytes.

Geophytes are herbaceous plants that grow anew from underground buds and are excellent models to study storage organ formation. However, molecular studies involving geophytes are constrained due to the presence of a wide spectrum of polysaccharides and polyphenols that contaminate the genomic DNA. At present, several protocols exist for the extraction of genomic DNA from different plant species; however, isolating high-quality DNA from geophytes is challenging. Such challenges are further complexed by longer incubation time and multiple precipitation steps involved in existing DNA isolation methods. To overcome such problems, we aimed to establish a DNA extraction method (SarCTAB) which is an economical, quick, and sustainable way of DNA isolation from geophytes. We improved the traditional CTAB method by optimizing key ingredients such as sarcosine, ß-mercaptoethanol, and high molar concentration of sodium chloride (NaCl), which resulted in high concentration and good-quality DNA with lesser polysaccharides, proteins, and polyphenols. This method was evaluated to extract DNA from storage organs of six different geophytes. The SarCTAB method provides an average yield of 1755 ng/µl of high-quality DNA from 100 mg of underground storage tissues with an average standard purity of 1.86 (260/280) and 1.42 (260/230). The isolated genomic DNA performed well with Inter-simple sequence repeat (ISSR) amplification, restriction digestion with EcoRI, and PCR amplification of plant barcode genes viz. matK and rbcL. Also, the cost involved in DNA isolation was low when compared to that with commercially available kits. Overall, SarCTAB method works effectively to isolate high-quality genomic DNA in a cost-effective manner from the underground storage tissues of geophytes, and can be applied for next-generation sequencing, DNA barcoding, and whole genome bisulfite sequencing.

Designing of future ornamental crops: a biotechnological driven perspective.

With a basis in human appreciation of beauty and aesthetic values, the new era of ornamental crops is based on implementing innovative technologies and transforming symbols into tangible assets. Recent advances in plant biotechnology have attracted considerable scientific and industrial interest, particularly in terms of modifying desired plant traits and developing future ornamental crops. By utilizing omics approaches, genomic data, genetic engineering, and gene editing tools, scientists have successively explored the underlying molecular mechanism and potential gene(s) behind trait regulation such as floral induction, plant architecture, stress resistance, plasticity, adaptation, and phytoremediation in ornamental crop species. These signs of progress lay a theoretical and practical foundation for designing and enhancing the efficiency of ornamental plants for a wide range of applications. In this review, we briefly summarized the existing literature and advances in biotechnological approaches for the improvement of vital traits in ornamental plants. The future ornamental plants, such as light-emitting plants, biotic/abiotic stress detectors, and pollution abatement, and the introduction of new ornamental varieties via domestication of wild species are also discussed.

A systematic review on mitigation of common indoor air pollutants using plant-based methods: a phytoremediation approach.

Environmental pollution, especially indoor air pollution, has become a global issue and affects nearly all domains of life. Being both natural and anthropogenic substances, indoor air pollutants lead to the deterioration of the ecosystem and have a negative impact on human health. Cost-effective plant-based approaches can help to improve indoor air quality (IAQ), regulate temperature, and protect humans from potential health risks. Thus, in this review, we have highlighted the common indoor air pollutants and their mitigation through plant-based approaches. Potted plants, green walls, and their combination with bio-filtration are such emerging approaches that can efficiently purify the indoor air. Moreover, we have discussed the pathways or mechanisms of phytoremediation, which involve the aerial parts of the plants (phyllosphere), growth media, and roots along with their associated microorganisms (rhizosphere). In conclusion, plants and their associated microbial communities can be key solutions for reducing indoor air pollution. However, there is a dire need to explore advanced omics technologies to get in-depth knowledge of the molecular mechanisms associated with plant-based reduction of indoor air pollutants.

Exogenous applications of gibberellic acid modulate the growth, flowering and longevity of calla lily.

Calla lily (Zantedeschia aethiopica (L.) Spreng.) is an important ornamental crop used in garden landscapes, floral arrangements, and medicinal applications. Gibberellic acid (GA3) is actively involved in cell elongation, growth, physiology, and flowering. In addition, it is an environmentally-friendly compound which can be applied to plants to increase the ornamental production. Therefore, the present study was designed with three GA3 spray times viz., single, double and triple spray and five exogenous applications of gibberellic acid concentrations viz., 0, 25, 50, 100, and 200 mg L-1 with factorial randomized block design. Results revealed that the interaction effect of combinations of two time applications of GA3 at 100 mg L-1 induced higher growth parameters over control. Significantly higher physiological parameters viz., photosynthetic rate (14.3 µmol m-2s-1), number of stomata (26.5 mm-2), stomatal conductance (0.28 mmol m-2s-1), and transpiration rate (3.6 mmol m-2s-1) were reported when plants were treated twice with 100 mg L-1 GA3. Similarly, among flowering traits, days to flower were significantly low in plants treated two-time spray at GA3 100 mg L-1 (169.8 days). The number of flowers in the double spray at GA3 100 mg L-1 treatment increased by 11.3 and 23.7% over triple spray and control, respectively. Vase life was also significantly higher in plants treated with double spray at GA3 100 mg L-1 (6.3 days). The regression equation and correlation matrix indicated a strong relationship between growth, flowering and GA3 concentrations up to 100 mg L-1. The PCA analysis revealed that the calla lily crop is positively affected by spray timing and GA3 treatments. In the context of vegetative, reproductive, and longevity parameters of the crop, a dual spray of 100 mg L-1 GA3 can be recommended to small scale farmers and commercial growers as an alternative technique for promoting growth, yield and improving the ornamental value for commercial level production.

Functional divergence of Heat Shock Factors (Hsfs) during heat stress and recovery at the tissue and developmental scales in C4 grain amaranth (Amaranthus hypochondriacus).

Two major future challenges are an increase in global earth temperature and a growing world population, which threaten agricultural productivity and nutritional food security. Underutilized crops have the potential to become future climate crops due to their high climate-resilience and nutritional quality. In this context, C4 pseudocereals such as grain amaranths are very important as C4 crops are more heat tolerant than C3 crops. However, the thermal sensitivity of grain amaranths remains unexplored. Here, Amaranthus hypochondriacus was exposed to heat stress at the vegetative and reproductive stages to capture heat stress and recovery responses. Heat Shock Factors (Hsfs) form the central module to impart heat tolerance, thus we sought to identify and characterize Hsf genes. Chlorophyll content and chlorophyll fluorescence (Fv/Fm) reduced significantly during heat stress, while malondialdehyde (MDA) content increased, suggesting that heat exposure caused stress in the plants. The genome-wide analysis led to the identification of thirteen AhHsfs, which were classified into A, B and C classes. Gene expression profiling at the tissue and developmental scales resolution under heat stress revealed the transient upregulation of most of the Hsfs in the leaf and inflorescence tissues, which reverted back to control levels at the recovery time point. However, a few Hsfs somewhat sustained their upregulation during recovery phase. The study reported the identification, physical location, gene/motif structure, promoter analysis and phylogenetic relationships of Hsfs in Amaranthus hypochondriacus. Also, the genes identified may be crucial for future gene functional studies and develop thermotolerant cultivars.

Molecular insights into rare earth element (REE)-mediated phytotoxicity and its impact on human health.

Rare earth elements (REEs) that include 15 lanthanides, scandium, and yttrium are a special class of elements due to their remarkable qualities such as magnetism, corrosion resistance, luminescence, and electroconductivity. Over the last few decades, the implication of REEs in agriculture has increased substantially, which was driven by rare earth element (REE)-based fertilizers to increase crop growth and yield. REEs regulate different physiological processes by modulating the cellular Ca2+ level, chlorophyll activities, and photosynthetic rate, promote the protective role of cell membranes, and increase the plant's ability to withstand various stresses and other environmental factors. However, the use of REEs in agriculture is not always beneficial because REEs regulate plant growth and development in dose-dependent manner and excessive usage of them negatively affects plants and agricultural yield. Moreover, increasing applications of REEs together with technological advancement is also a rising concern as they adversely impact all living organisms and disturb different ecosystems. Several animals, plants, microbes, and aquatic and terrestrial organisms are subject to acute and long-term ecotoxicological impacts of various REEs. This concise overview of REEs' phytotoxic effects and implications on human health offers a context for continuing to sew fabric scraps to this incomplete quilt's many layers and colors. This review deals with the applications of REEs in different fields, specifically agriculture, the molecular basis of REE-mediated phytotoxicity, and the consequences for human health.

Lemon grass essential oil improves Gladiolus grandiflorus postharvest life by modulating water relations, microbial growth, biochemical activity, and gene expression.

Gladiolus (Gladiolus grandiflorus Andrews) is a high-valued bulbous cut flower. However, the shorter postharvest life of the gladiolus, limits its marketing and commercial value. In the present investigation, the effect of lemon grass (LG) essential oil as an antimicrobial agent was studied towards increasing the vase life of gladiolus. The results revealed that as compared to control (distilled water), treatment with a lower concentration of 5 µL L-1 LG essential oil prolonged the vase life of gladiolus up to 11 days (d). Scanning Electron Microscope (SEM) observation indicated that the sample treated with 5 µL L-1 LG essential oil showed intact vasculature, suggesting reduced microbial blockage at the stem end which was further corroborated by microbial count. Biochemical analysis suggested an increased level of total soluble sugars, carotenoid content, lower MDA accumulation, and higher activity of antioxidant enzymes in LG treated flowers. Moreover, transcripts levels of genes associated with senescence viz., GgCyP1 and GgERS1a were downregulated, while expression of GDAD1 and antioxidant genes such as GgP5C5, GgPOD 1, GgMnSOD, and GgCAT1 were upregulated in LG treated cut spikes as compared to control. Among various treatments we have concluded that, the vase life of the gladiolus cut spike was improved along with the relative fresh flower weight and diameter of flower at the lower dose of 5 µL L-1 LG oil in the vase solution. Thus, LG oil as an eco-friendly agent has the potential to extend the postharvest life of cut flowers.

CRISPR-Cas: A robust technology for enhancing consumer-preferred commercial traits in crops.

The acceptance of new crop varieties by consumers is contingent on the presence of consumer-preferred traits, which include sensory attributes, nutritional value, industrial products and bioactive compounds production. Recent developments in genome editing technologies provide novel insight to identify gene functions and improve the various qualitative and quantitative traits of commercial importance in plants. Various conventional as well as advanced gene-mutagenesis techniques such as physical and chemical mutagenesis, CRISPR-Cas9, Cas12 and base editors are used for the trait improvement in crops. To meet consumer demand, breakthrough biotechnologies, especially CRISPR-Cas have received a fair share of scientific and industrial interest, particularly in plant genome editing. CRISPR-Cas is a versatile tool that can be used to knock out, replace and knock-in the desired gene fragments at targeted locations in the genome, resulting in heritable mutations of interest. This review highlights the existing literature and recent developments in CRISPR-Cas technologies (base editing, prime editing, multiplex gene editing, epigenome editing, gene delivery methods) for reliable and precise gene editing in plants. This review also discusses the potential of gene editing exhibited in crops for the improvement of consumer-demanded traits such as higher nutritional value, colour, texture, aroma/flavour, and production of industrial products such as biofuel, fibre, rubber and pharmaceuticals. In addition, the bottlenecks and challenges associated with gene editing system, such as off targeting, ploidy level and the ability to edit organelle genome have also been discussed.

How plants conquered land: evolution of terrestrial adaptation.

The transition of plants from water to land is considered one of the most significant events in the evolution of life on Earth. The colonization of land by plants, accompanied by their morphological, physiological and developmental changes, resulted in plant biodiversity. Besides significantly influencing oxygen levels in the air and on land, plants manufacture organic matter from CO2 and water with the help of sunlight, paving the way for the diversification of nonplant lineages ranging from microscopic organisms to animals. Land plants regulate the climate by adjusting total biomass and energy flow. At the genetic level, these innovations are achieved through the rearrangement of pre-existing genetic information. Advances in genome sequencing technology are revamping our understanding of plant evolution. This study highlights the morphological and genomic innovations that allow plants to integrate life on Earth.

Synergistic effect of graphene oxide and silver nanoparticles as biostimulant improves the postharvest life of cut flower bird of paradise (Strelitzia reginae L.).

The bird of paradise (Strelitzia reginae L.) is one of the important tropical cut flowers. Generally, flowers like bird of paradise (BOP) grown for the commercial ornamental market must be of high pre and postharvest quality. Thus, to improve the postharvest longevity and increase marketability, the relative efficacy of two different biologically synthesized nanoparticles (NPs) was evaluated. The novel proprietary stimulants were graphene oxide (GO) and silver nanoparticles (SNPs). The NP treatments were applied as a vase (lower concentrations) solutions. Among all the applied treatments, the synergistic effect of GO + SNPs at 1 µL L-1 vase solution significantly (p =0.05) prolongs the post-harvest life of cut flowers of BOP. Increased vase life over the deionized water (DI) control was associated with better maintenance of relative water uptake, relative fresh weight, suppressed microbial density at stem-end and delay of stem blockage, reduced electrolyte leakage, malondialdehyde (MDA), SOD, and POD activity. In contrast to control, administration of NPs gave better results for all analyzed parameters. Application of biologically synthesized NPs in combination (GO + SNPs at 1 µL L-1) extended the vase life of cut flowers by 6 days compared with control flowers, and overall, showed better results than the control. The findings of the studies revealed that the standardized NPs could have more potential in prolonging the postharvest life of cut flowers in BOP. Thus, this technique can be used as a novel postharvest technology for commercial application in cut flowers.

Understanding plant stress memory response for abiotic stress resilience: Molecular insights and prospects.

As sessile species and without the possibility of escape, plants constantly face numerous environmental stresses. To adapt in the external environmental cues, plants adjust themselves against such stresses by regulating their physiological, metabolic and developmental responses to external environmental cues. Certain environmental stresses rarely occur during plant life, while others, such as heat, drought, salinity, and cold are repetitive. Abiotic stresses are among the foremost environmental variables that have hindered agricultural production globally. Through distinct mechanisms, these stresses induce various morphological, biochemical, physiological, and metabolic changes in plants, directly impacting their growth, development, and productivity. Subsequently, plant's physiological, metabolic, and genetic adjustments to the stress occurrence provide necessary competencies to adapt, survive and nurture a condition known as "memory." This review emphasizes the advancements in various epigenetic-related chromatin modifications, DNA methylation, histone modifications, chromatin remodeling, phytohormones, and microRNAs associated with abiotic stress memory. Plants have the ability to respond quickly to stressful situations and can also improve their defense systems by retaining and sustaining stressful memories, allowing for stronger or faster responses to repeated stressful situations. Although there are relatively few examples of such memories, and no clear understanding of their duration, taking into consideration plenty of stresses in nature. Understanding these mechanisms in depth could aid in the development of genetic tools to improve breeding techniques, resulting in higher agricultural yield and quality under changing environmental conditions.

Mitigation of indoor air pollutants using Areca palm potted plants in real-life settings.

Deterioration of indoor air quality (IAQ) has become a serious concern as people spend lots of time indoors and prolonged pollution exposure can result in adverse health outcomes. Indoor plants can phytoremediate a wide variety of indoor contaminants. Nonetheless, few experiments have demonstrated their efficacy in real-time environments. Therefore, the present study aims to experimentally assess the efficiency of Areca palm potted plants in phytoremediation of primary indoor air pollutant viz. total volatile organic compounds (TVOCs), carbon dioxide (CO2), and carbon monoxide (CO) levels from real-world indoor spaces, for the first time. Four discrete naturally ventilated experimental sites (I-IV) situated at the Council of Scientific and Industrial Research- Institute of Himalayan Bioresource Technology (CSIR-IHBT) were used. For over a period of 4 months, the sites were monitored using zero plants as a control (1-4 week), three plants (5-8 week), six plants (9-12 week), and nine plants (13-16 week), respectively. Present results indicate that Areca palm potted plants can effectively reduce the TVOCs, CO2, and CO levels by 88.16% in site IV, 52.33% and 95.70% in site III, respectively. The current study concluded that Areca palm potted plants offer an efficient, cost-effective, self-regulating, sustainable solution for improving indoor air quality and thereby human well-being and productivity in closed and confined spaces.

Bioremediation of polyaromatic hydrocarbons (PAHs) using rhizosphere technology.

The remediation of polluted sites has become a priority for society because of increase in quality of life standards and the awareness of environmental issues. Over the past few decades there has been avid interest in developing in situ strategies for remediation of environmental contaminants, because of the high economic cost of physicochemical strategies, the biological tools for remediation of these persistent pollutants is the better option. Major foci have been considered on persistent organic chemicals i.e. polyaromatic hydrocarbons (PAHs) due to their ubiquitous occurrence, recalcitrance, bioaccumulation potential and carcinogenic activity. Rhizoremediation, a specific type of phytoremediation that involves both plants and their associated rhizospheric microbes is the creative biotechnological approach that has been explored in this review. Moreover, in this review we showed the significance of rhizoremediation of PAHs from other bioremediation strategies i.e. natural attenuation, bioaugmentation and phytoremediation and also analyze certain environmental factor that may influence the rhizoremediation technique. Numerous bacterial species were reported to degrade variety of PAHs and most of them are isolated from contaminated soil, however few reports are available from non contaminated soil. Pseudomonas aeruginosa , Pseudomons fluoresens , Mycobacterium spp., Haemophilus spp., Rhodococcus spp., Paenibacillus spp. are some of the commonly studied PAH-degrading bacteria. Finally, exploring the molecular communication between plants and microbes, and exploiting this communication to achieve better results in the elimination of contaminants, is a fascinating area of research for future perspective.

Bioremediation of polyaromatic hydrocarbons (PAHs) using rhizosphere technology

The remediation of polluted sites has become a priority for society because of increase in quality of life standards and the awareness of environmental issues. Over the past few decades there has been avid interest in developing in situ strategies for remediation of environmental contaminants, because of the high economic cost of physicochemical strategies, the biological tools for remediation of these persistent pollutants is the better option. Major foci have been considered on persistent organic chemicals i.e. polyaromatic hydrocarbons (PAHs) due to their ubiquitous occurrence, recalcitrance, bioaccumulation potential and carcinogenic activity. Rhizoremediation, a specific type of phytoremediation that involves both plants and their associated rhizospheric microbes is the creative biotechnological approach that has been explored in this review. Moreover, in this review we showed the significance of rhizoremediation of PAHs from other bioremediation strategies i.e. natural attenuation, bioaugmentation and phytoremediation and also analyze certain environmental factor that may influence the rhizoremediation technique. Numerous bacterial species were reported to degrade variety of PAHs and most of them are isolated from contaminated soil, however few reports are available from non contaminated soil. Pseudomonas aeruginosa, Pseudomons fluoresens, Mycobacterium spp., Haemophilus spp., Rhodococcus spp., Paenibacillus spp. are some of the commonly studied PAH-degrading bacteria. Finally, exploring the molecular communication between plants and microbes, and exploiting this communication to achieve better results in the elimination of contaminants, is a fascinating area of research for future perspective.