Importance of Mineral Nutrition for Mitigating Aluminum Toxicity in Plants on Acidic Soils: Current Status and Opportunities

Aluminum or Low pH - Which Is the Bigger Enemy of Barley? Transcriptome Analysis of Barley Root Meristem Under Al and Low pH Stress

Aluminum (Al) toxicity is considered to be the most harmful abiotic stress in acidic soils that today comprise more than 50% of the world’s arable lands. Barley belongs to a group of crops that are most sensitive to Al in low pH soils. We present the RNA-seq analysis of root meristems of barley seedlings grown in hydroponics at optimal pH (6.0), low pH (4.0), and low pH with Al (10 μM of bioavailable Al³⁺ ions). Two independent experiments were conducted: with short-term (24 h) and long-term (7 days) Al treatment. In the short-term experiment, more genes were differentially expressed (DEGs) between root meristems grown at pH = 6.0 and pH = 4.0, than between those grown at pH = 4.0 with and without Al treatment. The genes upregulated by low pH were associated mainly with response to oxidative stress, cell wall organization, and iron ion binding. Among genes upregulated by Al, overrepresented were those related to response to stress condition and calcium ion binding. In the long-term experiment, the number of DEGs between hydroponics at pH = 4.0 and 6.0 were lower than in the short-term experiment, which suggests that plants partially adapted to the low pH. Interestingly, 7 days Al treatment caused massive changes in the transcriptome profile. Over 4,000 genes were upregulated and almost 2,000 genes were downregulated by long-term Al stress. These DEGs were related to stress response, cell wall development and metal ion transport. Based on our results we can assume that both, Al³⁺ ions and low pH are harmful to barley plants. Additionally, we phenotyped the root system of barley seedlings grown in the same hydroponic conditions for 7 days at pH = 6.0, pH = 4.0, and pH = 4.0 with Al. The results correspond to transcriptomic data and show that low pH itself is a stress factor that causes a significant reduction of root growth and the addition of aluminum further increases this reduction. It should be noted that in acidic arable lands, plants are exposed simultaneously to both of these stresses. The presented transcriptome analysis may help to find potential targets for breeding barley plants that are more tolerant to such conditions.

Organic acids: versatile stress-response roles in plants

Organic acids (OAs) are central to cellular metabolism. Many plant stress responses involve the exudation of OAs at the root-soil interface, which can improve soil mineral acquisition and toxic metal tolerance. Because of their simple structure, the low-molecular-weight OAs are widely studied. We discuss the conventional roles of OAs, and some newly emerging roles in plant stress tolerance. OAs are more versatile in their role in plant stress tolerance and are more efficient chelating agents than other acids, such as amino acids. Root OA exudation is important in soil carbon sequestration. These functions are key processes in combating climate change and helping with more sustainable food production. We briefly review the mechanisms behind enhanced biosynthesis, secretion, and regulation of these activities under different stresses, and provide an outline of the transgenic approaches targeted towards the enhanced production and secretion of OAs. A recurring theme of OAs in plant biology is their role as 'acids' modifying pH, as 'chelators' binding metals, or as 'carbon sources' for microbes. We argue that these multiple functions are key factors for understanding these molecules' important roles in plant stress biology. Finally, we discuss how the functions of OAs in plant stress responses could be used, and identify the important unanswered questions.

Phosphate removal using thermally regenerated Al adsorbent from drinking water treatment sludge

Alum sludge (AS) is an abundant and ubiquitous residue generated from drinking water treatment plants. AS was thermally treated to use as an adsorbent for phosphate removal from wastewater. Organic matter in the AS was a potential competitor and can deter phosphate adsorption. Pyrolysis and drying of AS were adopted to enhance phosphate removal by eliminating organic matter and enriching Al content. Adsorption kinetics showed that phosphate removal was highest with the AS pyrolyzed at 700 °C followed by 500 °C, air-dried and oven-dried (105 °C). Adsorption kinetic modelling showed that chemisorption is the operative mechanism of phosphate removal in all the AS. Adsorption isotherms also showed that the pyrolyzed AS and air-dried AS had similar adsorption capacity of 30.83-34.53 mg P/g AS. Al dissolution was less than 2 mg/g Al in all the AS samples. COD release was significant in the dried AS, up to 8.0 mg COD/g AS, whereas the pyrolyzed AS released less than 1 mg COD/g AS. FTIR and SEM-EDS analyses of the AS after phosphate adsorption showed the formation of aluminum-phosphate complex. Overall, the pyrolysis of AS at 700 °C was most effective in removing phosphate without leaving secondary pollution.

Bioavailability study of phosphorus in alum-phosphorus sludge using switchgrass

The study investigated biomass yield and the uptake of P and aluminum by switchgrass grown in a low-P soil amended with alum-P sludge and a conventional fertilizer, monoammonium phosphate (MAP), at rates of 9.7, 19.4, 29.1 and 38.8 mg P kg^-1 dry soil. Potted soil (amended and control) units were seeded with pre-germinated switchgrass and harvested three times at 50-day intervals. Over the three growth cycles, P from alum-P sludge gradually became available. Amendment rate showed no significant effect on switchgrass biomass yield. P availability was greater for alum-P sludge than MAP and this may have been enhanced by the properties and activities of the plant root system. Aluminum (Al) uptake by switchgrass increased with the number of cycles, but did not differ significantly among treatments. Cumulative Al uptake over the 3 cycles was greater for below-ground biomass than for above-ground biomass. Maximum P recovery efficiency of 28% was achieved at the 9.7 mg P kg soil^-1 rate. These results demonstrate that alum-P sludge is an effective source of available P for cropping switchgrass in a high pH and low Olsen-P soil.

Aluminum toxicity in plants and its possible mitigation in acid soils by biochar: A review

Toxicity of aluminum (Al) is a serious problem for agricultural plants, especially due to excessive soil acidification caused by continuous intensive agriculture and modified environmental conditions related with global climate change. Decreased root elongation and shoot growth, reduced biomass production, nutrient imbalance and altered physiological and metabolic processes are responsible for lower yield and crop quality and therefore, decreased variability and productivity of the land. Recently, biochar is gaining popularity for ameliorating metal toxicity in soils. However, there is a lack of comprehensive information regarding the effects of biochar and its functioning. Multiple mechanisms are involved in ameliorating Al toxicity in which inherent properties of biochar influencing Al adsorption, absorption, complexation, cation exchange and electrostatic interaction are considered to play major roles. Modification of biochar to enhance these mechanisms might hold the key for long term solution. Present review indicates gaps for further research. Long term field studies are needed to understand the effects of biochar on Al toxicity.

Agricultural Soil Management Practices Differentially Shape the Bacterial and Fungal Microbiome of Sorghum bicolor

Soils play important roles in biological productivity. While past work suggests that microbes affect soil health and respond to agricultural practices, it is not well known how soil management shapes crop host microbiomes. To elucidate the impact of management on microbial composition and function in the sorghum microbiome, we performed 16S rRNA gene and ITS2 amplicon sequencing and metatranscriptomics on soil and root samples collected from a site in California's San Joaquin Valley that is under long-term cultivation with 1) standard (ST) or no tilling (NT) and 2) cover-cropping (CC) or leaving the field fallow (NO). Our results revealed that microbial diversity, composition, and function change across tillage and cover type, with a heightened response in fungal communities, versus bacterial. Surprisingly, ST harbored greater microbial alpha diversity than NT, indicating that tillage may open niche spaces for broad colonization. Across management regimes, we observed class-level taxonomic level shifts. Additionally, we found significant functional restructuring across treatments, including enrichment for microbial lipid and carbohydrate transport and metabolism and cell motility with NT. Differences in carbon cycling were also observed, with increased prevalence of glycosyltransferase and glycoside hydrolase carbohydrate active enzyme families with CC. Lastly, treatment significantly influenced arbuscular mycorrhizal fungi, which had the greatest prevalence and activity under ST, suggesting that soil practices mediate known beneficial plant-microbe relationships. Collectively, our results demonstrate how agronomic practices impact critical interactions within the plant microbiome and inform future efforts to configure trait-associated microbiomes in crops.Importance While numerous studies show that farming practices can influence the soil microbiome, there are often conflicting results on how microbial diversity and activity respond to treatment. In addition, there is very little work published on how the corresponding crop plant microbiome is impacted. With bacteria and fungi known to critically affect soil health and plant growth, we concurrently compared how the practices of no and standard tillage, in combination with either cover-cropping or fallow fields, shape soil and plant-associated microbiomes between the two classifications. In determining not only the response to treatment in microbial diversity and composition, but for activity as well, this work demonstrates the significance of agronomic practice in modulating plant-microbe interactions, as well as encourages future work on the mechanisms involved in community assemblages supporting similar crop outcomes.

Recent Advances in Understanding Mechanisms of Plant Tolerance and Response to Aluminum Toxicity

Aluminum (Al) toxicity is a major environmental stress that inhibits plant growth and development. There has been impressive progress in recent years that has greatly increased our understanding of the nature of Al toxicity and its mechanisms of tolerance. This review describes the transcription factors (TFs) and plant hormones involved in the adaptation to Al stress. In particular, it discusses strategies to confer plant resistance to Al stress, such as transgenic breeding, as well as small molecules and plant growth-promoting rhizobacteria (PGPRs) to alleviate Al toxicity. This paper provides a theoretical basis for the enhancement of plant production in acidic soils.

Plant mineral transport systems and the potential for crop improvement

Nutrient transporter genes could be a potential candidate for improving crop plants, with enhanced nutrient uptake leading to increased crop yield by providing tolerance against different biotic and abiotic stresses. The world's food supply is nearing a crisis in meeting the demands of an ever-growing global population, and an increase in both yield and nutrient value of major crops is vitally necessary to meet the increased population demand. Nutrients play an important role in plant metabolism as well as growth and development, and nutrient deficiency results in retarded plant growth and leads to reduced crop yield. A variety of cellular processes govern crop plant nutrient absorption from the soil. Among these, nutrient membrane transporters play an important role in the acquisition of nutrients from soil and transport of these nutrients to their target sites. In addition, as excess nutrient delivery has toxic effects on plant growth, these membrane transporters also play a significant role in the removal of excess nutrients in the crop plant. The key function provided by membrane transporters is the ability to supply the crop plant with an adequate level of tolerance against environmental stresses, such as soil acidity, alkalinity, salinity, drought, and pathogen attack. Membrane transporter genes have been utilized for the improvement of crop plants, with enhanced nutrient uptake leading to increased crop yield by providing tolerance against different biotic and abiotic stresses. Further understanding of the basic mechanisms of nutrient transport in crop plants could facilitate the advanced design of engineered plant crops to achieve increased yield and improve nutrient quality through the use of genetic technologies as well as molecular breeding. This review is focused on nutrient toxicity and tolerance mechanisms in crop plants to aid in understanding and addressing the anticipated global food demand.

Potential of calcium nitrate to mitigate the aluminum toxicity in Phaseolus vulgaris: effects on morphoanatomical traits, mineral nutrition and photosynthesis

Common bean (Phaseolus vulgaris) cultivation occurs mainly in regions with acidic soils, where high aluminum (Al) concentration is a major constraint to crop production. In this study, we evaluated tolerance and sensitivity traits to Al exposure and calcium (Ca) deficiency in bean plants, and determined the efficiency of Ca to mitigate the toxic Al effects. Two bean cultivars (BRS Estilo and Campos Gerais) were grown in three soil conditions: (I) soil liming with calcium hydroxide Ca(OH)₂ and Al unavailable (-Al+Ca); (II) fertilized soil with calcium nitrate [Ca(NO₃)₂·4H₂O] and Al available (+Al+Ca); and (III) soil without Ca addition and Al available (+Al-Ca). At the beginning of the reproductive stage, we evaluated the photosynthetic processes, mineral nutrition, and leaf anatomy and morphological traits of plants. The photosynthetic parameters were good tools for monitor Al sensitivity in bean. +Al+Ca soil treatment mitigated the deleterious effects of Al on growth and mineral nutrition of both bean cultivars. However, Ca did not prevent the toxic effects of Al on leaf anatomy. Al stress and Ca deficiency caused negative effects on nutrient content, photosynthetic activity and leaf anatomy of bean plants. Calcium mitigated Al toxicity, primarily in the Campos Gerais cultivar, showing the potential to improve bean crop productivity in acid soils.

Epigenetic Control of Plant Response to Heavy Metal Stress: A New View on Aluminum Tolerance

High concentrations of heavy metal (HM) ions impact agronomic staple crop production in acid soils (pH ≤ 5) due to their cytotoxic, genotoxic, and mutagenic effects. Among cytotoxic ions, the trivalent aluminum cation (Al³⁺) formed by solubilization of aluminum (Al) into acid soils, is one of the most abundant and toxic elements under acidic conditions. In recent years, several studies have elucidated the different signal transduction pathways involved in HM responses, identifying complementary genetic mechanisms conferring tolerance to plants. Although epigenetics has become more relevant in abiotic stress studies, epigenetic mechanisms underlying plant responses to HM stress remain poorly understood. This review describes the main epigenetic mechanisms related to crop responses during stress conditions, specifically, the molecular evidence showing how epigenetics is at the core of plant adaptation responses to HM ions. We highlight the epigenetic mechanisms that induce Al tolerance. Likewise, we analyze the pivotal relationship between epigenetic and genetic factors associated with HM tolerance. Finally, using rice as a study case, we performed a general analysis over previously whole-genome bisulfite-seq published data. Specific genes related to Al tolerance, measured in contrasting tolerant and susceptible rice varieties, exhibited differences in DNA methylation frequency. The differential methylation patterns could be associated with epigenetic regulation of rice responses to Al stress, highlighting the major role of epigenetics over specific abiotic stress responses.

Seasonal, spatial variation, and pollution sources of heavy metals in the sediment of the Saigon River, Vietnam

The current study was conducted to (1) examine seasonal and spatial distribution of heavy metals and metalloid in sediment from the Saigon River and (2) apportion and quantify their pollution sources. Ninety-six sediment samples were taken in the rainy and dry season on 13 sampling sites, distributed over the lower reaches of the River, to analyze for exchangeable concentration of 11 heavy metals and metalloid (Al, B, Cd, Co, Fe, In, Mn, Ni, Pb, Sr, and Zn), pH, EC, organic carbon content, and particle-size distribution. Generally, the concentration of 11 elements was ranked in the order Mn > Al > Fe > Zn > Sr > In > B > Ni > Co > Pb > Cd. Hierarchical cluster analysis grouped 13 sampling sites into two parts based on the similar concentration of the 11 elements. Three-way analysis of variance showed that the total exchangeable concentration of 11 elements was significantly higher in the rainy season than in the dry season and in the upper part than in the lower part of the river. Principal component analysis/factor analysis and correlation analysis revealed that three pollution sources (PS) may contribute to enriching the 11 examined elements in the sediment. These sources included (PS1) from catchment through water erosion over natural areas, explaining 83%, (PS2) mixed sources from catchment through water erosion over agricultural fields and inside Ho Chi Minh City, accounting for 6%, and (PS3) mixed sources from lowland areas, explaining 7.8% of the total variance of the elements. In brief, the sediment concentration of 11 metals and metalloid varied with season and space and three major pollution sources from river catchment, inside Ho Chi Minh City, and lowland contributively enriched the elements in the sediment of the River.

Genetic control of some plant growth characteristics of bread wheat (Triticum aestivum L.) under aluminum stress

BACKGROUND

Biomass yield is an important trait for wheat breeding programs. Enhancing the yield of the aerial components of wheat cultivars will be an integral part of future wheat improvement. Aluminum (Al) toxicity is one of the main factors limiting wheat growth and production in acid soils, which occur on up to 50% of the arable lands of the world especially in tropical and subtropical regions.

OBJECTIVE

Our objective was to identify quantitative trait loci (QTL) of plant growth characteristics and yield in wheat.

METHODS

A recombinant inbred line (RIL) population consisting of 167 lines, derived from a cross between SeriM82 and Babax were evaluated under two Al treatments (+ Al, 800 µM of Al; -Al, 0 µM of Al) in the field based on an alpha lattice design with two replications for two consecutive crop seasons.

RESULTS

A total of 40 QTLs including nine putative and 31 suggestive QTLs were found for all traits using the composite interval mapping (CIM) method. By mixed model-based composite interval mapping (MCIM) method, 42 additive QTLs and nine pairs of epistatic effects were detected for studied traits, of which 20 additive and six pairs of epistatic QTLs showed significant QTL × environment interactions. Most of the detected QTLs across environments were stable, and the highest number of stable QTLs was related to A genome. Co-localization of QTL was found on linkage groups (LGs) 2B, 4B, 6A-a, and 7A (CIM method) and 2A-d, and 6A-a (MCIM method).

CONCLUSION

These results have implications for selection strategies in biomass yield and for increasing the yield of the aerial part of wheat following further evaluations in various genetic backgrounds and environments.

Photosynthesis, Ecological Stoichiometry, and Non-Structural Carbohydrate Response to Simulated Nitrogen Deposition and Phosphorus Addition in Chinese Fir Forests

Phosphorus (P) deficiency in soil affects plant growth and primary production. Accelerated nitrogen (N) deposition can cause ecological carbon:nitrogen:phosphorus (C:N:P) stoichiometry imbalance and increase the degree of relative P deficiency in the soil. However, it remains unclear how N deposition affects P uptake and C:N:P stoichiometry in coniferous timber forests, and whether P addition diminishes the effect of N-induced P limitation on plant growth. From January 2017 to April 2018, we investigated the effects of nine different N and P addition treatments on 10-year old trees of Chinese fir, Cunninghamia lanceolata (Lamb.) Hook. Our results demonstrated that N and P additions at a high concentration could improve the photosynthetic capacity in Chinese fir by increasing the chlorophyll content and stimulating the photosynthesis activity. The C:N:P stoichiometry varied with the season under different N and P addition treatments, indicating that N addition at a moderate concentration could diminish the effect of the P limitation on the growth of Chinese fir. The soluble sugar content in the leaves displayed more stable seasonal variations, compared with those of starch. However, the non-structural carbohydrate (NSC) content in the leaves did not vary with the season under both P and N addition treatment. The data suggested that N and P combination treatment at moderate concentrations promoted carbon assimilation by accelerating the photosynthetic rate. Thus, our results provide new insights into the adaptation mechanisms of coniferous timber forest ecosystems to the effects of N deposition under P deficiency and can help to estimate the ecological effects of environmental changes linked to human management practices.

Polyamines and Legumes: Joint Stories of Stress, Nitrogen Fixation and Environment

Polyamines (PAs) are natural aliphatic amines involved in many physiological processes in almost all living organisms, including responses to abiotic stresses and microbial interactions. On other hand, the family Leguminosae constitutes an economically and ecologically key botanical group for humans, being also regarded as the most important protein source for livestock. This review presents the profuse evidence that relates changes in PAs levels during responses to biotic and abiotic stresses in model and cultivable species within Leguminosae and examines the unreviewed information regarding their potential roles in the functioning of symbiotic interactions with nitrogen-fixing bacteria and arbuscular mycorrhizae in this family. As linking plant physiological behavior with "big data" available in "omics" is an essential step to improve our understanding of legumes responses to global change, we also examined integrative MultiOmics approaches available to decrypt the interface legumes-PAs-abiotic and biotic stress interactions. These approaches are expected to accelerate the identification of stress tolerant phenotypes and the design of new biotechnological strategies to increase their yield and adaptation to marginal environments, making better use of available plant genetic resources.

ATR, a DNA Damage Signaling Kinase, Is Involved in Aluminum Response in Barley

Ataxia Telangiectasia and Rad-3-related protein (ATR) is a DNA damage signaling kinase required for the monitoring of DNA integrity. Together with ATM and SOG1, it is a key player in the transcriptional regulation of DNA damage response (DDR) genes in plants. In this study, we describe the role of ATR in the DDR pathway in barley and the function of the HvATR gene in response to DNA damages induced by aluminum toxicity. Aluminum is the third most abundant element in the Earth's crust. It becomes highly phytotoxic in acidic soils, which comprise more than 50% of arable lands worldwide. At low pH, Al is known to be a genotoxic agent causing DNA damage and cell cycle arrest. We present barley mutants, hvatr.g and hvatr.i, developed by TILLING strategy. The hvatr.g mutant carries a G6054A missense mutation in the ATR gene, leading to the substitution of a highly conserved amino acid in the protein (G1015S). The hvatr.g mutant showed the impaired DDR pathway. It accumulated DNA damages in the nuclei of root meristem cells when grown in control conditions. Terminal deoxynucleotidyl transferase-mediated dUTP nick-end labeling (TUNEL) analysis revealed that 60% of mutant nuclei possessed DNA nicks and breaks, whereas in the wild type only 2% of the nuclei were TUNEL-positive. The high frequency of DNA damages did not lead to the inhibition of the cell cycle progression, but the mutant showed an increased number of cells in the G2/M phase. In response to treatments with different Al doses, hvatr.g showed a high level of tolerance. The retention of root growth, which is the most evident symptom of Al toxicity, was not observed in the mutant, as it was in its parent variety. Furthermore, Al treatment increased the level of DNA damages, but did not affect the mitotic activity and the cell cycle profile in the hvatr.g mutant. A similar phenotype was observed for the hvatr.i mutant, carrying another missense mutation leading to G903E substitution in the HvATR protein. Our results demonstrate that the impaired mechanism of DNA damage response may lead to aluminum tolerance. They shed a new light on the role of the ATR-dependent DDR pathway in an agronomically important species.