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BACKGROUND: The plant root system is critical for the absorption of water and nutrients, and have a direct influence on growth and yield. In cucumber, a globally consumed crop, the molecular mechanism of root development remains unclear, and this has implications for developing stress tolerant varieties. This study sought to determine the genetic patterns and related genes of cucumber root weight. A core cucumber germplasms population was used to do the GWAS analysis in three environments. RESULTS: Here, we investigated four root-weight related traits including root fresh weight (RFW), root dry weight (RDW), ratio of root dry weight to root fresh weight (RDFW) and the comprehensive evaluation index, D-value of root weight (DRW) deduced based on the above three traits for the core germplasm of the cucumber global repository. According to the D-value, we identified 21 and 16 accessions with light and heavy-root, respectively. We also found that the East Asian ecotype accessions had significantly heavier root than other three ecotypes. The genome-wide association study (GWAS) for these four traits reveals that 4 of 10 significant loci (gDRW3.1, gDRW3.2, gDRW4.1 and gDRW5.1) were repeatedly detected for at least two traits. Further haplotype and expression analysis for protein-coding genes positioned within these 4 loci between light and heavy-root accessions predicted five candidate genes (i.e., Csa3G132020 and Csa3G132520 both encoding F-box protein PP2-B1 for gDRW3.1, Csa3G629240 encoding a B-cell receptor-associated protein for gDRW3.2, Csa4G499330 encodes a GTP binding protein for gDRW4.1, and Csa5G286040 encodes a proteinase inhibitor for gDRW5.1). CONCLUSIONS: We conducted a systematic analysis of the root genetic basis and characteristics of cucumber core germplasms population. We detected four novel loci, which regulate the root weight in cucumber. Our study provides valuable candidate genes and haplotypes for the improvement of root system in cucumber breeding.

The arbuscular mycorrhizal (AM) symbiosis formed by most extant land plants with symbiotic fungi evolved 450 Ma. AM promotes plant growth by improving mineral nutrient and water uptake, while the symbiotic fungi obtain carbon in return. A number of plant genes regulating the steps leading to an efficient symbiosis have been identified; however, our understanding of the metabolic processes involved in the symbiosis and how they were wired to symbiosis regulation during plant evolution remains limited. Among them, the exchange of chemical signals, the activation of dedicated biosynthesis pathways and the production of secondary metabolites regulating late stages of the AM symbiosis begin to be well described across several land plant clades. Here, we review our current understanding of these processes and propose future directions to fully grasp the phylogenetic distribution and role played by small molecules during this ancient plant symbiosis. This article is part of the theme issue 'The evolution of plant metabolism'. [ABSTRACT FROM AUTHOR]

Shrubs are usually adapted to stressful environments in which soil resources are limited, and thus, roots are fundamental for their biological success. However, root measures are challenging to collect, especially in field conditions and at the individual level. For this study, we collected data on the three‐dimensional distribution of fine root biomass of twenty‐three individuals belonging to three shrub species in a mediterranean shrubland in central Spain: gum rockrose Cistus ladanifer, rosemary Salvia rosmarinus, and hairy‐fruited broom Cytisus striatus. Our goal was to determine the soil‐foraging strategies adopted by the plants. We hypothesized that plants would show stabilizing niche differences explaining the high plant biodiversity characteristic of mediterranean shrublands and that they would follow the game theory model's prediction of exploitative segregation of roots behaving territorially but also over‐proliferating roots close to their stem and engaging in a root tragedy of the commons. We found that two‐thirds to three‐fourths of the biomass was belowground, and the system's productivity was roughly 500–600 g C m−2 year−1. Only rosemary plants competed with neighbors following the exploitative segregation predictions. Broom plants had the shallowest and most widespread root systems but significantly reduced their root range toward competing neighbors. Gum rockrose presented deep, narrow root systems avoiding extensive overlap with neighbors but did not appear to respond to competitive pressure levels. Shrubs appeared to stratify their roots at different soil depths, supporting the niche segregation hypothesis. [ABSTRACT FROM AUTHOR]

A network of 15 Surface Elevation Tables (SETs) at North Inlet estuary, South Carolina, has been monitored on annual or monthly time scales beginning from 1990 to 1996 and continuing through 2022. Of 73 time series in control plots, 12 had elevation gains equal to or exceeding the local rate of sea-level rise (SLR, 0.34 cm/year). Rising marsh elevation in North Inlet is dominated by organic production and, we hypothesize, is proportional to net ecosystem production. The rate of elevation gain was 0.47 cm/year in plots experimentally fertilized for 10 years with N&P compared to nearby control plots that have gained 0.1 cm/year in 26 years. The excess gains and losses of elevation in fertilized plots were accounted for by changes in belowground biomass and turnover. This is supported by bioassay experiments in marsh organs where at age 2 the belowground biomass of fertilized S. alterniflora plants was increasing by 1,994 g m−2 year−1, which added a growth premium of 2.4 cm/year to elevation gain. This was contrasted with the net belowground growth of 746 g m−2 year−1 in controls, which can add 0.89 cm/year to elevation. Root biomass density was greater in the fertilized bioassay treatments than in controls, plateauing at about 1,374 g m−2 and 472 g m−2, respectively. Growth of belowground biomass was dominated by rhizomes, which grew to 3,648 g m−2 in the fertilized treatments after 3 years and 1,439 g m−2 in the control treatments after 5 years. Depositional wetlands are limited by an exogenous supply of mineral sediment, whereas marshes like North Inlet could be classified as autonomous because they depend on in situ organic production to maintain elevation. Autonomous wetlands are more vulnerable to SLR because their elevation gains are constrained ultimately by photosynthetic efficiency. [ABSTRACT FROM AUTHOR]

Efficient utilization of agricultural wastes and reduction of chemical fertilizer inputs are crucial for sustainable development of agriculture. Plant growth promoting rhizobacteria (PGPR) are widely used as biofertilizers to partially replace chemical fertilizers in agricultural production. The functional performance of PGPR strains is closely related to their root colonization capacity. Some organic acids from root exudates can recruit PGPR to colonize the root. In this study, agricultural organic wastes such as mushroom bran and tobacco waste materials were used to produce organic acids through the hypoxic hydrolysis process. The hydrolysis conditions were optimized to maximize the production of a mixture of complex organic acids from the hypoxic hydrolysis of these materials, employing both single-factor and orthogonal experimental methods. The diluted hydrolysates were tested for their effects on the rhizosphere colonization of the PGPR strain Bacillus amyloliquefaciens SQR9 using fluorogenic quantitative PCR in greenhouse pot experiments. The results demonstrated that hypoxic hydrolysates from tobacco waste and mushroom bran significantly enhanced the colonization of SQR9 in the maize rhizosphere. Specifically, a 2000-fold dilution of tobacco waste hydrolysate yielded the most effective result, while a 5000-fold dilution of mushroom bran hydrolysate provided the best outcome. All treatments combining these hydrolysates with SQR9 significantly increased maize stem dry weight, indicating that with appropriate treatment, such as anaerobic fermentation, these agricultural organic wastes can serve as synergistic agents of microbial fertilizers, contributing to agricultural sustainability. [ABSTRACT FROM AUTHOR]

Background: Continuously growing teeth are an important innovation in mammalian evolution, yet genetic regulation of continuous growth by stem cells remains incompletely understood. Dental stem cells responsible for tooth crown growth are lost at the onset of tooth root formation. Genetic signaling that initiates this loss is difficult to study with the ever-growing incisor and rooted molars of mice, the most common mammalian dental model species, because signals for root formation overlap with signals that pattern tooth size and shape (i.e., cusp patterns). Bank and prairie voles (Cricetidae, Rodentia, Glires) have evolved rooted and unrooted molars while retaining similar size and shape, providing alternative models for studying roots. Results: We assembled a de novo genome of Myodes glareolus, a vole with high-crowned, rooted molars, and performed genomic and transcriptomic analyses in a broad phylogenetic context of Glires (rodents and lagomorphs) to assess differential selection and evolution in tooth forming genes. Bulk transcriptomics comparisons of embryonic molar development between bank voles and mice demonstrated overall conservation of gene expression levels, with species-specific differences corresponding to the accelerated and more extensive patterning of the vole molar. We leverage convergent evolution of unrooted molars across the clade to examine changes that may underlie the evolution of unrooted molars. We identified 15 dental genes with changing synteny relationships and six dental genes undergoing positive selection across Glires, two of which were undergoing positive selection in species with unrooted molars, Dspp and Aqp1. Decreased expression of both genes in prairie voles with unrooted molars compared to bank voles supports the presence of positive selection and may underlie differences in root formation. Conclusions: Our results support ongoing evolution of dental genes across Glires and identify candidate genes for mechanistic studies of root formation. Comparative research using the bank vole as a model species can reveal the complex evolutionary background of convergent evolution for ever-growing molars. [ABSTRACT FROM AUTHOR]

GLABRA2 (GL2), a class IV homeodomain leucine-zipper (HD-Zip IV) transcription factor from Arabidopsis, is a developmental regulator of specialized cell types in the epidermis. GL2 contains a monopartite nuclear localization sequence (NLS) that is conserved in most HD-Zip IV members across the plants. We demonstrate that NLS mutations affect nuclear transport and result in a loss-of-function phenotypes. NLS fusions to enhanced yellow fluorescent protein (EYFP) show that it is sufficient for nuclear localization in roots and trichomes. Despite partial overlap of the NLS with the homeodomain, genetic dissection indicates that nuclear localization and DNA binding are separable functions. Affinity purification of GL2 from plants followed by MS-based proteomics identified importin α (IMPα) isoforms as potential GL2 interactors. NLS structural prediction and molecular docking studies with IMPα-3 revealed major interacting residues. Cytosolic yeast two-hybrid assays and co-immunoprecipitation experiments with recombinant proteins verified NLS-dependent interactions between GL2 and several IMPα isoforms. IMPα triple mutants (impα-1,2,3) exhibit abnormal trichome formation and defects in GL2 nuclear localization in trichomes, consistent with tissue-specific and redundant functions of IMPα isoforms. Taken together, our findings provide mechanistic evidence for IMPα-dependent nuclear localization of GL2 in Arabidopsis, a process that is critical for cell type differentiation of the epidermis. [ABSTRACT FROM AUTHOR]

Single-cell transcriptome sequencing (scRNA-seq) is a powerful tool for describing the transcriptome dynamics of plant development but has not yet been utilized to analyze the tissue ontology of sweetpotato. This study established a stable method for isolating single protoplast cells for scRNA-seq to reveal the cell heterogeneity of sweetpotato root tip meristems at the single-cell level. The study analyzed 12,172 single cells and 27,355 genes in the root tips of the sweetpotato variety Guangshu 87, which were distributed into 15 cell clusters. Pseudo-time analysis showed that there were transitional cells in the apical development trajectory of mature cell types from stem cell niches. Furthermore, we identified novel development regulators of sweetpotato tubers via trajectory analysis. The transcription factor IbGATA4 was highly expressed in the adventitious roots during the development of sweetpotato root tips, where it may regulate the development of sweetpotato root tips. In addition, significant differences were observed in the transcriptional profiles of cell types between sweetpotato, Arabidopsis thaliana, and maize. This study mapped the single-cell transcriptome of sweetpotato root tips, laying a foundation for studying the types, functions, differentiation, and development of sweetpotato root tip cells. Highlights: This is the first single-cell transcriptional atlas of sweetpotato root apex tissue. Single-cell analysis of stem cell niche initiation showed unique transitional states. Sweetpotato, Arabidopsis, and maize root tip cell types were correlated. GATA4 may be involved in regulating sweetpotato root tip development. [ABSTRACT FROM AUTHOR]

The study delves into the prevailing focal points and developmental trends within the international sphere of crop root research under drip irrigation. It leverages the Web of Science core database and employs VOSviewer for a systematic review of the literature spanning 2001 to 2022. The analysis encompasses publication counts, publishing journals, contributing authors, research institutions, and keywords. Findings indicate that research on root systems under drip irrigation has become a notable area of interest in the field of irrigation, attracting global scholarly attention. There is a marked upward trend in publication output, with institutions in China and the United States taking on central roles. Journals like Agricultural Water Management and Acta Horticulturae are key publication venues, with Vadose Zone Journal being notable for high-impact articles. The research primarily involves agronomy, water resources, and horticulture, focusing on yield enhancement through drip irrigation, root distribution under various techniques, crop quality in response to partial root-zone drying, and irrigation scheduling model development. Scholars like Jiri Simunek and Yaohu Kang have made substantial contributions. The field's established framework calls for continued international collaboration to drive further innovation. The identified trends and parameters can be a valuable reference for researchers, policymakers, and practitioners, guiding efforts to optimize agricultural productivity and resource use. [ABSTRACT FROM AUTHOR]

Backgroud: Elephant grass (Cenchrus purpureus) is a perennial forage grass characterized by tall plants, high biomass and wide adaptability. Low-temperature stress severely limits elephant grass biomass and geographic distribution. WRKY is one of the largest families of plant-specific transcription factors and plays important roles in plant resistance to low-temperature. However, the understanding of the WRKY family in grasses is limited. In this study, we conducted a genome-wide characterization of WRKY proteins in elephant grass, including gene structure, phylogeny, expression, conserved motif organization, and functional annotation, to identify key CpWRKY candidates involved in cold tolerance. Results: In this study, a total of 176 WRKY genes were identified in elephant grass. It was found that 172 were unevenly distributed across its 14 chromosomes, while the remaining 4 genes were not anchored to any chromosome. The genes were classified into three groups based on their WRKY conserved domains and zinc finger motifs. There were 12, 8, 19, 27, 12, 18 and 80 CpWRKYs belonging to group I, group IIa, group IIb, group IIc, group IId, group IIe and group III, respectively. We hypothesized that the ancient subgroup IIc WRKY gene is the ancestor of all WRKY genes in elephant grass. Most CpWRKYs in the same group have similar structure and motif composition. A total of 169 duplicate gene pairs were identified, suggesting that segmental duplication might have contributed to the expansion of the CpWRKY gene family. Ka/Ks analysis revealed that most of the CpWRKYs were subjected to purifying selection during the evolution. It was also found that six genes (CpWRKY51, CpWRKY81, CpWRKY100, CpWRKY101, CpWRKY140 and CpWRKY143) exhibited higher expression in roots compare to leaves, and were significantly induced by low temperature stress. Among them, CpWRKY81 had the highest expression under low-temperature stress, and its over-expression significantly enhanced the cold tolerance in yeast. Conlusions: In this study, we characterized WRKY genes in elephant grass and further investigated their physicochemical properties, evolution, and expression patterns under low-temperature stress. This research provides valuable resources for identifying key CpWRKY genes that contribute to cold tolerance in elephant grass. [ABSTRACT FROM AUTHOR]

Root-knot nematodes (RKNs) are plant pests that infect the roots of host plants. Bacillus thuringiensis (Bt) nematicidal proteins exhibited toxicity to nematodes. However, the application of nematicidal proteins for plant protection is hampered by the lack of effective delivery systems in transgenic plants. In this study, we discovered the accumulation of leucoplasts (root plastids) in galls and RKN-induced giant cells. RKN infection causes the degradation of leucoplasts into small vesicle-like structures, which are responsible for delivering proteins to RKNs, as observed through confocal microscopy and immunoelectron microscopy. We showed that different-sized proteins from leucoplasts could be taken up by Meloidogyne incognita female. To further explore the potential applications of leucoplasts, we introduced the Bt crystal protein Cry5Ba2 into tobacco and tomato leucoplasts by fusing it with a transit peptide. The transgenic plants showed significant resistance to RKNs. Intriguingly, RKN females preferentially took up Cry5Ba2 protein when delivered through plastids rather than the cytosol. The decrease in progeny was positively correlated with the delivery efficiency of the nematicidal protein. In conclusion, this study offers new insights into the feeding behavior of RKNs and their ability to ingest leucoplast proteins, and demonstrates that root leucoplasts can be used for delivering nematicidal proteins, thereby offering a promising approach for nematode control. This study uncovers that root-knot nematodes (RKNs) can absorb proteins from root leucoplasts. Based on this finding, an efficient system using root leucoplasts to deliver Bt nematicidal proteins is developed for controlling RKNs , offering a novel strategy for nematode control. [ABSTRACT FROM AUTHOR]

Summary: Barley (Hordeum vulgare) is an important global cereal crop and a model in genetic studies. Despite advances in characterising barley genomic resources, few mutant studies have identified genes controlling root architecture and anatomy, which plays a critical role in capturing soil resources.Our phenotypic screening of a TILLING mutant collection identified line TM5992 exhibiting a short‐root phenotype compared with wild‐type (WT) Morex background. Outcrossing TM5992 with barley variety Proctor and subsequent SNP array‐based bulk segregant analysis, fine mapped the mutation to a cM scale. Exome sequencing pinpointed a mutation in the candidate gene HvPIN1a, further confirming this by analysing independent mutant alleles.Detailed analysis of root growth and anatomy in Hvpin1a mutant alleles exhibited a slower growth rate, shorter apical meristem and striking vascular patterning defects compared to WT. Expression and mutant analyses of PIN1 members in the closely related cereal brachypodium (Brachypodium distachyon) revealed that BdPIN1a and BdPIN1b were redundantly expressed in root vascular tissues but only Bdpin1a mutant allele displayed root vascular defects similar to Hvpin1a.We conclude that barley PIN1 genes have sub‐functionalised in cereals, compared to Arabidopsis (Arabidopsis thaliana), where PIN1a sequences control root vascular patterning. [ABSTRACT FROM AUTHOR]

Vegetables and fruits, high in starch and sugars, are promising substrates for bioethanol production, but can also yield valuable nootropic compounds, such as α-glycerylphosphorylcholine (α-GPC). This compound is a known cognitive enhancer that works by increasing the release of acetylcholine, a neurotransmitter essential for learning and memory. In this study, select root and tuber crops, as well as fruits, were subjected to Saccharomyces cerevisiae fermentation to observe the co-production of ethanol and α-GPC. The ethanol yields from these substrates were comparable to those from wheat (var. AC Andrew), ranging from 30.44 g/L (beet) to 70.04 g/L (lotus root). Aside from ethanol, α-GPC was also produced, with purple top turnip yielding 0.91 g/L, the second highest concentration after wheat (used as a reference), which produced 1.25 g/L. Although α-GPC yields in the tested substrates were lower than those from cereal grains (e.g., wheat and barley), a noteworthy observation was the production of methanol in many of these substrates. Methanol was detected in all feedstocks except wheat, with concentrations ranging from 0.10 g/L (cassava) to 1.69 g/L (purple top turnip). A linear regression analysis revealed a strong correlation between methanol and α-GPC content (R2 = 0.876; slope = 0.52), suggesting a potential link in their biosynthetic pathways. These feedstocks not only proved effective as substrates for bioethanol production, but also showed potential for generating value-added compounds such as α-GPC. This dual-purpose potential presents new market opportunities for producers by leveraging both biofuel and nootropic compound production. Furthermore, the observed relationship between methanol and α-GPC production warrants further investigation to elucidate the metabolic pathways involved. [ABSTRACT FROM AUTHOR]

Waterlogging frequently occurs in the Huaibei Plain of China, significantly hindering the sustainable development of agriculture. This study aims to investigate the impact of waterlogging stress on winter wheat growth during the seedling stage and evaluate crop resilience after waterlogging. Tritium aestivum L. 'Zhengmai136' was used as experimental material at the Wudaogou Experimental Station in Bengbu City, Anhui Province, China. Variance analysis was employed to test the significance of waterlogging effects on root morphology, in root dehydrogenase activity, plant height, stem height, stem diameter, leaf area, and biomass of Zhengmai136. The resilience of winter wheat was quantitatively evaluated using the entropy method and single-factor elastic index calculation method. Results revealed that although there was a slight increase (12.5%) in the number of winter wheat roots after waterlogging, root activity decreased significantly (61.02%), with inhibition persisting until the harvest stage. Waterlogging primarily affected above-ground indices by causing leaf shrinkage (25.47% decrease) and reducing stem diameter (14.26% decrease), resulting in inhibited tiller numbers (P < 0.01) and an overall downward trend in growth rate. Yield reduction caused by waterlogging during the seedling stage (P < 0.001) was mainly attributed to panicle number and panicle number per plant decline. Regarding resilience assessment, above-ground indices exhibited better resilience than root systems while whole-plant resilience remained at a moderate level. In this experiment, waterlogging during the seedling stage predominantly hindered the growth and development of Zhengmai136 roots; however, timely plowing and effective waterlogged control measures could promote root recovery; at the same time, this experiment could provide a reference for the post-disaster management strategy of the later crop. [ABSTRACT FROM AUTHOR]

Mediator, a multiprotein complex, is an important component of the transcription machinery. In plants, the latest studies have established that it functions as a signal processor that conveys transcriptional signals from transcription factors to RNA polymerase II. Mediator has been found to be involved in different developmental and stress-adaptation conditions, ranging from embryo, root, and shoot development to flowering and senescence, and also in responses to different biotic and abiotic stresses. In the last decade, significant progress has been made in understanding the role of Mediator subunits in root development. They have been shown to transcriptionally regulate development of almost all the components of the root system architecture—primary root, lateral roots, and root hairs. They also have a role in nutrient acquisition by the root. In this review, we discuss all the known functions of Mediator subunits during root development. We also highlight the role of Mediator as a nodal point for processing different hormone signals that regulate root morphogenesis and growth. [ABSTRACT FROM AUTHOR]

Introduction: Low ground temperature is a major factor limiting overwintering in cucumber cultivation facilities in northern alpine regions. Lower temperatures in the root zone directly affect the physiological function of the root system, which in turn affects the normal physiological activity of plants. However, the importance of the ground temperature in facilities has not attracted sufficient attention. Methods: Therefore, this study tested the cucumber variety Jinyou 35 under three root zone temperatures (room temperature, 20-22°C; suboptimal temperature, 13-15°C; and low temperature, 8-10°C) to investigated possible cold resistance mechanisms in the root of cucumber seedlings through hormone, metabolomics, and transcriptomics analyses. Results and discussion: The results showed that cucumber roots were subjected to chilling stress at different temperatures. Hormone analysis indicated that auxin content was highest in the roots. Jasmonic acid and strigolactone participated in the low-temperature stress response. Auxin and jasmonate are key hormones that regulate the response of cucumber roots to low temperatures. Phenolic acid was the most abundant metabolite in cucumber roots under chilling stress. Additionally, triterpenes may play an important role in chilling resistance. Differentially expressed genes and metabolites were significantly enriched in benzoxazinoid biosynthesis in the room temperature vs. suboptimal temperature groups and the room temperature vs. low temperature groups. Most differentially expressed transcription factor genes in AP2/ERF were strongly induced in cucumber roots by both suboptimal and low-temperature stress conditions. These results provide guidance for the cultivation of cucumber in facilities. [ABSTRACT FROM AUTHOR]

Several studies have been devoted to seeking some beneficial plant-related microorganisms for a long time, and on this basis, it has been found that arbuscular mycorrhizal fungi (AMF) have a considerable positive impact on plant health as a biological fungal agent. In this study, we focused on the effects of different AMF on the growth dynamics and root configuration of licorice under saline and alkali conditions. The metabolites of licorice under different AMF were assessed using liquid chromatography–tandem mass spectrometry (LC-MS/MS). Funneliformis mosseae (Fm) and Rhizophagus intraradices (Ri) were added as different AMF treatments, while the sterilized saline–alkali soil was treated as a control. Samples were taken in the R1 period (15 d after AMF treatment) and the R2 period (45 d after AMF treatment). The results showed that the application of AMF significantly increased the root growth of licorice and significantly increased the biomass of both shoot and root. A total of 978 metabolites were detected and divided into 12 groups including lipids, which accounted for 15.44%; organic acids and their derivatives, at 5.83%; benzene compounds and organic heterocyclic compounds, at 5.42%; organic oxides, at 3.78%; and ketones, accounting for 3.17%. Compared with the control, there were significant changes in the differential metabolites with treatment inoculated with AMF; the metabolic pathways and biosynthesis of secondary metabolites were the main differential metabolite enrichment pathways in the R1 period, and those in the R2 period were microbial metabolism in diverse environments and the degradation of aromatic compounds. In conclusion, the use of AMF as biofertilizer can effectively improve the growth of licorice, especially in terms of the root development and metabolites, in saline–alkali soil conditions. [ABSTRACT FROM AUTHOR]

Background: Brassica napus L. (B. napus) is susceptible to waterlogging stress during different cultivation periods. Therefore, it is crucial to enhance the resistance to waterlogging stress to achieve a high and stable yield of B. napus. Results: Here we observed significant differences in the responses of two B. napus varieties in root under waterlogging stress. The sensitive variety (23651) exhibited a more pronounced and rapid reduction in cell wall thickness and root integrity compared with the tolerant variety (Santana) under waterlogging stress. By module clustering analysis based on transcriptome data, we identified that cell wall polysaccharide metabolism responded to waterlogging stress in root. It was found that pectin content was significantly reduced in the sensitive variety compared with the tolerant variety. Furthermore, transcriptome analysis revealed that the expression of two homologous genes encoding polygalacturonase-inhibiting protein 2 (PGIP2), involved in polysaccharide metabolic pathways, was highly upregulated in root of the tolerant variety under waterlogging stress. BnaPGIP2s probably confer waterlogging resistance by inhibiting the activity of polygalacturonases (PGs), which in turn reduces the degradation of the pectin backbone polygalacturonic acid. Conclusions: Our findings demonstrate that cell wall polysaccharides in root plays a vital role in response to the waterlogging stress and provide a theoretical foundation for breeding waterlogging resistance in B. napus varieties. [ABSTRACT FROM AUTHOR]

Deep vertical rotary tillage (DVRT) is an innovative soil tillage technology that has been widely adopted in China and shown significant potential in enhancing soil quality, optimizing water use efficiency, and increasing crop yields across diverse ecological and agronomic conditions. DVRT utilizes a vertical spiral drill bit for deep plowing, which preserves soil structure, reduces soil compaction, and improves water retention, making it particularly effective in regions facing climatic challenges such as drought. This review synthesizes the effects of DVRT on soil's physical and chemical properties, crop root systems, photosynthesis, and water use efficiency, demonstrating its advantages in promoting robust root development and improving nutrient utilization. Although the technology has been applied successfully across various crops and regions, its nationwide adoption remains limited. This paper emphasizes the need for further research to refine the theoretical framework of DVRT and develop tailored strategies for different local conditions. Additionally, integrating DVRT with other agronomic practices and advancing machinery design, supported by policy measures, is essential for maximizing its benefits. In conclusion, DVRT presents a promising approach for sustainable agriculture in China, contributing to improved soil quality, increased crop yields, and enhanced food security. [ABSTRACT FROM AUTHOR]

Canola (Brassica napus L.) is a profitable grain crop for Australian growers. However, weeds remain a major constraint for its production. Chemical herbicides are used for weed control, but this tactic also leads to the evolution of herbicide resistance in different weed species. The suppression of weeds by crop interference (competition and allelopathic) mechanisms has been receiving significant attention. Here, the weed suppressive ability and associated functional traits and stability of four selected canola genotypes (PAK85388-502, AV-OPAL, AV-GARNET, and BAROSSA) were examined at different locations in NSW, Australia. The results showed that there were significant effects of canola genotypes and of genotypes by crop density interaction on weed growth. Among the tested genotypes, PAK85388-502 and AV-OPAL were the most weed suppressive and, at a plant density of 10 plants/m2, they reduced the weed biomass of wild radish, shepherd's purse, and annual ryegrass by more than 80%. No significant differences were found in the primary root lengths among canola varieties; however, plants of the most weed-suppressive genotype PAK8538-502 exhibited a 35% increase in lateral root number relative to plants of the less weed-suppressive genotype BAROSSA. The analysis of variance revealed a significant influence of genotypes with PAK85388-502 and AV-OPAL performing the best across all the research sites. Results showed that canola genotypes PAK85388-502 and AV-OPAL were more weed suppressive than AV-GARNET and BAROSSA and may release specific bioactive compounds in their surroundings to suppress neighboring weeds. This study provides valuable information that could be utilised in breeding programs to select weed-suppressive varieties of canola in Australia. Thus, lateral root number could be a potential target trait for weed-suppressive varieties. Additionally, other root architecture traits may contribute to the underground allelopathic interaction to provide a competitive advantage to the crop. [ABSTRACT FROM AUTHOR]

Understanding the mechanisms that regulate plant root growth under soil drying is an important challenge in root biology. We observed that moderate soil drying promotes wheat root growth. To understand whether metabolic and hormonic changes are involved in this regulation, we performed transcriptome sequencing on wheat roots under well-watered and moderate soil drying conditions. The genes upregulated in wheat roots under soil drying were mainly involved in starch and sucrose metabolism and benzoxazinoid biosynthesis. Various plant hormone-related genes were differentially expressed during soil drying. Quantification of the plant hormones under these conditions showed that the concentrations of abscisic acid (ABA), cis-zeatin (CZ), and indole-3-acetic acid (IAA) significantly increased during soil drying, whereas the concentrations of salicylic (SA), jasmonic (JA), and glycosylated salicylic (SAG) acids significantly decreased. Correlation analysis of total root length and phytohormones indicated that CZ, ABA, and IAA are positively associated with wheat root length. These results suggest that changes in metabolic pathways and plant hormones caused by moderate soil drying help wheat roots grow into deeper soil layers. [ABSTRACT FROM AUTHOR]

We consider two spectral problems on an equilateral rooted tree with the standard (continuity and Kirchhoff's type) conditions at the interior vertices (except of the root if it is interior) and Dirichlet conditions at the pendant vertices (except of the root if it is pendant). For the first (Neumann) problem we impose the standard conditions (if the root is an interior vertex) or Neumann condition (if the root is a pendant vertex) at the root, while for the second (Dirichlet) problem we impose the Dirichlet condition at the root. We show that for caterpillar trees the spectra of the Neumann problem and of the Dirichlet problem uniquely determine the shape of the tree. Also, we present an example of co-spectral snowflake graphs. [ABSTRACT FROM AUTHOR]

For a nilpotent group G without π -torsion, and x , y ∈ G , if x n = y n for a π -number n , then x = y ; if x m y n = y n x m for π -numbers m , n , then x y = y x. This is a well-known result in group theory. In this paper, we prove two analogous theorems on matrices, which have independence significance. Specifically, let m be a given positive integer and A a complex square matrix satisfying that (i) all eigenvalues of A are nonnegative, and (ii) rank ⁡ A 2 = rank ⁡ A ; then A has a unique m -th root X with rank ⁡ X 2 = rank ⁡ X , all eigenvalues of X are nonnegative, and moreover there is a polynomial f (λ) with X = f (A). In addition, let A and B be complex n × n matrices with all eigenvalues nonnegative, and rank ⁡ A 2 = rank ⁡ A , rank ⁡ B 2 = rank ⁡ B ; then (i) A = B when A r = B r for some positive integer r , and (ii) A B = B A when A s B t = B t A s for two positive integers s and t. [ABSTRACT FROM AUTHOR]

Data on the age of apical closure in felines is limited. Moreover, differences in age of apical closure between male and female cats have not been studied. The aim of this study was to determine the timing of apical closure in cats and determine if sex or position in the dental arch affected closure. In this retrospective descriptive study, intraoral radiographs were obtained at monthly or multiple-monthly intervals for 18 cats. Nine were intact females and 9 were neutered males, ranging from 6 to 9.4 months of age at the start of the study which ranged over an 8-month period. Radiographs were evaluated to establish age of apical closure for all canine teeth as well as the mandibular premolar and molar teeth. Mandibular canine tooth apices closed between 10 and 12 months of age and maxillary canine tooth apices closed between 12 and 14 months of age. The mesial and distal root apices of both the mandibular third and fourth premolar teeth closed between 8 and 9 months. The mandibular first molar tooth mesial and distal root apices closed between 8 and 8.5 months. Root apices of canine teeth closed earlier in female cats than in male cats with mandibular canine tooth root apices closing significantly earlier than maxillary canine tooth roots in both sexes. These findings suggest that there are notable differences in age of apical closure between male and female cats and discernible trends in timing of apical closure among teeth in the dental arcade. [ABSTRACT FROM AUTHOR]

Abstract Background Continuously growing teeth are an important innovation in mammalian evolution, yet genetic regulation of continuous growth by stem cells remains incompletely understood. Dental stem cells responsible for tooth crown growth are lost at the onset of tooth root formation. Genetic signaling that initiates this loss is difficult to study with the ever-growing incisor and rooted molars of mice, the most common mammalian dental model species, because signals for root formation overlap with signals that pattern tooth size and shape (i.e., cusp patterns). Bank and prairie voles (Cricetidae, Rodentia, Glires) have evolved rooted and unrooted molars while retaining similar size and shape, providing alternative models for studying roots. Results We assembled a de novo genome of Myodes glareolus, a vole with high-crowned, rooted molars, and performed genomic and transcriptomic analyses in a broad phylogenetic context of Glires (rodents and lagomorphs) to assess differential selection and evolution in tooth forming genes. Bulk transcriptomics comparisons of embryonic molar development between bank voles and mice demonstrated overall conservation of gene expression levels, with species-specific differences corresponding to the accelerated and more extensive patterning of the vole molar. We leverage convergent evolution of unrooted molars across the clade to examine changes that may underlie the evolution of unrooted molars. We identified 15 dental genes with changing synteny relationships and six dental genes undergoing positive selection across Glires, two of which were undergoing positive selection in species with unrooted molars, Dspp and Aqp1. Decreased expression of both genes in prairie voles with unrooted molars compared to bank voles supports the presence of positive selection and may underlie differences in root formation. Conclusions Our results support ongoing evolution of dental genes across Glires and identify candidate genes for mechanistic studies of root formation. Comparative research using the bank vole as a model species can reveal the complex evolutionary background of convergent evolution for ever-growing molars.

Abstract Backgroud Elephant grass (Cenchrus purpureus) is a perennial forage grass characterized by tall plants, high biomass and wide adaptability. Low-temperature stress severely limits elephant grass biomass and geographic distribution. WRKY is one of the largest families of plant-specific transcription factors and plays important roles in plant resistance to low-temperature. However, the understanding of the WRKY family in grasses is limited. In this study, we conducted a genome-wide characterization of WRKY proteins in elephant grass, including gene structure, phylogeny, expression, conserved motif organization, and functional annotation, to identify key CpWRKY candidates involved in cold tolerance. Results In this study, a total of 176 WRKY genes were identified in elephant grass. It was found that 172 were unevenly distributed across its 14 chromosomes, while the remaining 4 genes were not anchored to any chromosome. The genes were classified into three groups based on their WRKY conserved domains and zinc finger motifs. There were 12, 8, 19, 27, 12, 18 and 80 CpWRKYs belonging to group I, group IIa, group IIb, group IIc, group IId, group IIe and group III, respectively. We hypothesized that the ancient subgroup IIc WRKY gene is the ancestor of all WRKY genes in elephant grass. Most CpWRKYs in the same group have similar structure and motif composition. A total of 169 duplicate gene pairs were identified, suggesting that segmental duplication might have contributed to the expansion of the CpWRKY gene family. Ka/Ks analysis revealed that most of the CpWRKYs were subjected to purifying selection during the evolution. It was also found that six genes (CpWRKY51, CpWRKY81, CpWRKY100, CpWRKY101, CpWRKY140 and CpWRKY143) exhibited higher expression in roots compare to leaves, and were significantly induced by low temperature stress. Among them, CpWRKY81 had the highest expression under low-temperature stress, and its over-expression significantly enhanced the cold tolerance in yeast. Conlusions In this study, we characterized WRKY genes in elephant grass and further investigated their physicochemical properties, evolution, and expression patterns under low-temperature stress. This research provides valuable resources for identifying key CpWRKY genes that contribute to cold tolerance in elephant grass.

Abstract Single-cell transcriptome sequencing (scRNA-seq) is a powerful tool for describing the transcriptome dynamics of plant development but has not yet been utilized to analyze the tissue ontology of sweetpotato. This study established a stable method for isolating single protoplast cells for scRNA-seq to reveal the cell heterogeneity of sweetpotato root tip meristems at the single-cell level. The study analyzed 12,172 single cells and 27,355 genes in the root tips of the sweetpotato variety Guangshu 87, which were distributed into 15 cell clusters. Pseudo-time analysis showed that there were transitional cells in the apical development trajectory of mature cell types from stem cell niches. Furthermore, we identified novel development regulators of sweetpotato tubers via trajectory analysis. The transcription factor IbGATA4 was highly expressed in the adventitious roots during the development of sweetpotato root tips, where it may regulate the development of sweetpotato root tips. In addition, significant differences were observed in the transcriptional profiles of cell types between sweetpotato, Arabidopsis thaliana, and maize. This study mapped the single-cell transcriptome of sweetpotato root tips, laying a foundation for studying the types, functions, differentiation, and development of sweetpotato root tip cells.

Abstract Background Brassica napus L. (B. napus) is susceptible to waterlogging stress during different cultivation periods. Therefore, it is crucial to enhance the resistance to waterlogging stress to achieve a high and stable yield of B. napus. Results Here we observed significant differences in the responses of two B. napus varieties in root under waterlogging stress. The sensitive variety (23651) exhibited a more pronounced and rapid reduction in cell wall thickness and root integrity compared with the tolerant variety (Santana) under waterlogging stress. By module clustering analysis based on transcriptome data, we identified that cell wall polysaccharide metabolism responded to waterlogging stress in root. It was found that pectin content was significantly reduced in the sensitive variety compared with the tolerant variety. Furthermore, transcriptome analysis revealed that the expression of two homologous genes encoding polygalacturonase-inhibiting protein 2 (PGIP2), involved in polysaccharide metabolic pathways, was highly upregulated in root of the tolerant variety under waterlogging stress. BnaPGIP2s probably confer waterlogging resistance by inhibiting the activity of polygalacturonases (PGs), which in turn reduces the degradation of the pectin backbone polygalacturonic acid. Conclusions Our findings demonstrate that cell wall polysaccharides in root plays a vital role in response to the waterlogging stress and provide a theoretical foundation for breeding waterlogging resistance in B. napus varieties.

[Objective] To explore the differences of vegetation growth characteristics between different plant communities and gully positions. [Methods] The vegetation growth characteristics of 5 typical plant communities were systematically studied in Zhifanggou small watershed of Ansai, Shaanxi Province.The investigated characteristics included species diversity, coverage, aboveground biomass, litter storage and underground biomass. [Results] (1) The above ground biomass, litter storage and root reduction coefficient were significantly affected by vegetation type, tree cutting ditch > shrub cutting ditch > herb cutting ditch, and the coverage was shrub cutting ditch > herb cutting ditch > tree cutting ditch. (2) The species diversity index and coverage of the right side of gully (sunny to semi-sunny slopes) were smaller than those on the left side (shade to semi-shade slopes); (3) Under the comprehensive influence of hydrothermal conditions, there was no obvious difference in vegetation growth characteristics between gully bottom and the original slope; (4) The accumulation of litter on the original slope was greater than that of different positions of gully. [Conclusion] The research results provide data foundation and theoretical support for understanding of the potential effects of vegetation restoration on the development of gully and evaluating the role of vegetation in mitigating gully erosion.

Abstract Background Studies have shown that plant endophytic microbial communities are ubiquitous and closely related to plant growth and health. To clarify the mechanism of the melon varieties with high resistant to wilt, the endophytic microbial compositions and metabolites in roots of melon varieties with high resistant ability to wilt were analyzed. Results The results showed that the abundances of Firmicutes, Ascomycota, Bacillus, Bradyrhizobium, Amycolatopsis, Actinospica, and Catenulispora all increased in roots of wilt high resistant melon varieties (MT) which compared to wilt susceptible melon varieties (MS). Meanwhile, Ochrobactrum, Bordetella, Roseateles, Staphylococcus, Acidovorax, Amycolatopsis, Catenulispora, Promicromonospora, and Gymnopilus were the unique endophytic microbes in roots of MT. Moreover, in comparison with the MS varieties, the functions of Defense mechanisms, Secondary metabolites biosynthesis, transport and catabolism, Nucleotide transport and metabolism, Signal transduction mechanisms, Coenzyme transport and metabolism, Carbohydrate transport and metabolism and Amino acid transport and metabolism all increased in roots of MT varieties. Additionally, the nucleotide metabolism and biosynthesis of cofactors metabolic pathways were also significantly increased in roots of MT varieties. On the other hand, the untargeted metabolome results showed that Biosynthesis of various plant secondary metabolites, Nucleotide metabolism and Biosynthesis of cofactors metabolic pathways were significantly increased in the expression of MT varieties; and the content of metabolic compounds such as flavonoids, Cinnamic acid compounds, Organic acid compounds, and Nucleotides were increased. In addition, the correlation between microbiome and metabolome indicates a significant correlation between the two. Conclusions All above results suggested that higher abundant antagonistic microbes and metabolic functions of endophytes in roots of wilt high resistant melon varieties (MT) were the important mechanisms for their high resistance to wilt. Graphical Abstract

We consider two spectral problems on an equilateral rooted tree with the standard (continuity and Kirchhoff's type) conditions at the interior vertices (except of the root if it is interior) and Dirichlet conditions at the pendant vertices (except of the root if it is pendant). For the first (Neumann) problem we impose the standard conditions (if the root is an interior vertex) or Neumann condition (if the root is a pendant vertex) at the root, while for the second (Dirichlet) problem we impose the Dirichlet condition at the root. We show that for caterpillar trees the spectra of the Neumann problem and of the Dirichlet problem uniquely determine the shape of the tree. Also, we present an example of co-spectral snowflake graphs.

This study analyzed issues surrounding the concept of "stem" in Turkish linguistics. It began by establishing a general framework based on existing definitions of "root" and "stem" in the literature. Subsequently, it analyzed the treatment and examples of "stem" presented in Turkish grammar books published from 1940 to the present. The analysis revealed inconsistencies in the scope and definition of "stem," with terms like "root," "base," "derived root," "closed stem" and "closed form unit" often used interchangeably in examples. These inconsistencies stem not only from varying terminological preferences but also from the challenge of handling words derived from roots that do not exist independently. While some researchers propose adopting the term "base" to address these limitations, modern linguists increasingly favor terms like "form unit" and "word unit."

Abstract Background Soybean establishes a mutualistic interaction with nitrogen-fixing rhizobacteria, acquiring most of its nitrogen requirements through symbiotic nitrogen fixation. This crop is susceptible to water deficit; evidence suggests that its nodulation status—whether it is nodulated or not—can influence how it responds to water deficit. The translational control step of gene expression has proven relevant in plants subjected to water deficit. Results Here, we analyzed soybean roots’ differential responses to water deficit at transcriptional, translational, and mixed (transcriptional + translational) levels. Thus, the transcriptome and translatome of four combined-treated soybean roots were analyzed. We found hormone metabolism-related genes among the differentially expressed genes (DEGs) at the translatome level in nodulated and water-restricted plants. Also, weighted gene co-expression network analysis followed by differential expression analysis identified gene modules associated with nodulation and water deficit conditions. Protein-protein interaction network analysis was performed for subsets of mixed DEGs of the modules associated with the plant responses to nodulation, water deficit, or their combination. Conclusions Our research reveals that the stand-out processes and pathways in the before-mentioned plant responses partially differ; terms related to glutathione metabolism and hormone signal transduction (2 C protein phosphatases) were associated with the response to water deficit, terms related to transmembrane transport, response to abscisic acid, pigment metabolic process were associated with the response to nodulation plus water deficit. Still, two processes were common: galactose metabolism and branched-chain amino acid catabolism. A comprehensive analysis of these processes could lead to identifying new sources of tolerance to drought in soybean.

Objective To analyze the spatial relationship between the roots of maxillary anterior premolars and the maxillary sinus, thus providing an anatomical basis for timing, planning, surgical approaches, and implant selection at this site. Methods Cone beam CT (CBCT) images were collected from 264 patients (aged 20-65 years) who visited the Ruihua Dental Clinic between January 2017 and March 2023. The minimum distance from the apex of the maxillary anterior premolar roots to the lower wall of the maxillary sinus was measured on the coronal plane. The classification of the vertical relationship between the tooth root and the lower wall of the maxillary sinus was performed, and comparisons were made bilaterally, between genders, and among different age groups. Results The minimum distance (Q50) from the apex of the first maxillary premolar root to the lower wall of the maxillary sinus was 7.34 mm for the single-root type, 7.80 mm for the buccal root of the double-root type, and 7.36 mm for the palatal root. For the second maxillary premolar, the median distance was 2.56 mm for the single root type, 1.73 mm for the buccal root type, and 1.23 mm for the palatal root type. There was a significant difference in the shortest distance from the apex of the right second maxillary premolar single root to the lower wall of the maxillary sinus among the different age groups (PP>0.05). The most common vertical relationship between the apex of the maxillary anterior premolar roots and the lower wall of the maxillary sinus was noncontact. There was no significant difference in the vertical relationship classification between the single-root and double-root types (P>0.05). Conclusion Most maxillary first premolar roots can provide sufficient bone height, which makes it easy to achieve immediate implantation. The maxillary second premolar root frequently involves insufficient bone, which is necessary to make full use of the bone wall of the extraction socket or the sinus floor cortical bone to achieve initial stability. The vertical relationship between the premolar root and maxillary sinus was influenced by age and dental position. Younger age groups often exhibit inadequate bone height, and the indication for immediate implantation should be carefully considered. The number of roots does not significantly affect the relationship between the sinus and root; however, double-rooted premolars offer more support for immediate implantation and socket healing due to the small root diameter and bony separation between the roots.

Introduction: The brachial plexus is a variable nerve plexus in its formation and branching pattern. Variations in the brachial plexus are not uncommon, and its area of supply and associations with other adjacent anatomical structures require clinical and surgical attention. Aim: To find out any anatomical variations in the formation and branching pattern of the brachial plexus in human foetuses. Materials and Methods: A morphometric prospective observational study was conducted from January 2020 to July 2022, on 30 stillborn or Intrauterine Dead (IUD) human foetuses were taken in the study. Gestation age from 28 to 40 weeks of gestation were included in the study, while those with gross anomalies or morphological anomalies of the cranium and vertebral column were excluded. The dissection includes vertical midline incision of the skin from the external occipital protuberance to the lower limit of the thoracic vertebra (T12). The skin was cut in the midline and reflected laterally. All superficial and deep muscles of the neck were dissect out to clear the cervical and thoracic parts of the vertebral column. The vertebral column was cut and opened to visualise the spinal cord and spinal nerves. Based on gestational age, the foetuses were divided into three groups: four in the first group (28-31 weeks), twelve in the second group (32-35 weeks), and fourteen in the third group (36-40 weeks) were divided for descriptive purposes. The gender of foetuses was determined based on the external genitalia. Results: A total of 60 brachial plexuses were dissected, of which 49 (81.66%) had the usual anatomical formation of the trunks: the upper trunk formed by C5 and C6 roots, the middle trunk by the C7 root, and the lower trunk by the C8 and T1 roots. Eleven (18.34%) plexuses presented variations in trunk formation. Specifically, 8 (13.3%) brachial plexuses were of the prefix type, where the upper trunk was formed by the C5 and C6 roots with an additional contribution from the C4 root; there was inter-branch communication between C6 and C7 in one (1.7%) case; the middle and lower trunks united by C7, C8, and T1 roots formed the lower trunk in another (1.7%) case, and finally, one (1.7%) case exhibited the post-fix type. Conclusion: In this study, out of the 30 foetuses examined, 11 showed variations, which is not uncommon. The prefix type of brachial plexus is quite common among the possible variations, although anatomists and neurosurgeons cannot ignore the possibility of other variations, like post-fix type or communication between the roots of the brachial plexuses.

This article explores the impact of salinity on two different maize cultivars and their ability to tolerate salt stress. The study reveals that the more salt-tolerant cultivar is better at excluding sodium (Na+) and retaining potassium (K+), which are crucial for minimizing Na+ uptake. The researchers also discovered that the salt-tolerant cultivar experienced a net influx of hydrogen ions (H+) under severe salt stress, while the salt-sensitive cultivar did not. This suggests that net H+ influx is an important but often overlooked trait in salt tolerance. Additionally, the study found that K+ efflux and Na+ influx help maintain charge balance during H+ influx. [Extracted from the article]

Nitrogen (N) is essential for sugar beet (Beta vulgaris L.), a highly N-demanding sugar crop. This study investigated the morphological, subcellular, and microRNA-regulated responses of sugar beet roots to low N (LN) stress (0.5 mmol/L N) to better understand the N perception, uptake, and utilization in this species. The results showed that LN led to decreased dry weight of roots, N accumulation, and N dry matter production efficiency, along with damage to cell walls and membranes and a reduction in organelle numbers (particularly mitochondria). Meanwhile, there was an increase in root length (7.2%) and branch numbers (29.2%) and a decrease in root surface area (6.14%) and root volume (6.23%) in sugar beet after 7 d of LN exposure compared to the control (5 mmol/L N). Transcriptomics analysis was confirmed by qRT-PCR for 6 randomly selected microRNAs, and we identified 22 differentially expressed microRNAs (DEMs) in beet root under LN treatment. They were primarily enriched in functions related to binding (1125), ion binding (641), intracellular (437) and intracellular parts (428), and organelles (350) and associated with starch and sucrose metabolism, tyrosine metabolism, pyrimidine metabolism, amino sugar and nucleotide sugar metabolism, and isoquinoline alkaloid biosynthesis, as indicated by the GO and KEGG analyses. Among them, the upregulated miR156a, with conserved sequences, was identified as a key DEM that potentially targets and regulates squamosa promoter-binding-like proteins (SPLs, 104889216 and 104897537) through the microRNA-mRNA network. Overexpression of miR156a (MIR) promoted root growth in transgenic Arabidopsis, increasing the length, surface area, and volume. In contrast, silencing miR156a (STTM) had the opposite effect. Notably, the fresh root weight decreased by 45.6% in STTM lines, while it increased by 27.4% in MIR lines, compared to the wild type (WT). It can be inferred that microRNAs, especially miR156, play crucial roles in sugar beet root's development and acclimation to LN conditions. They likely facilitate active responses to N deficiency through network regulation, enabling beet roots to take up nutrients from the environment and sustain their vital life processes. [ABSTRACT FROM AUTHOR]

Litter and root decomposition is an important source of soil organic matter and nutrients. To ascertain the contribution of litter and root to natural grassland nutrients in rocky desertification areas, from March 2017 to January 2018, the continuous soil column method, collector method, and litter decomposition method were used to study the soil nutrients, litter and root biomass, decomposition, and nutrient release of potential, moderate, and severe rocky desertification grasslands, as well as their responses to rocky desertification. The results showed that the litter and root decomposition rate showed a trend of being first fast and then slow, and the decomposition rate of litter and root was greater than 50% after 300 days. The annual litter decomposition rates of potential, moderate, and severe rocky desertification grasslands were 69.98%, 62.14%, and 49.79%, respectively, and the annual decomposition rates of root were 73.64%, 67.61%, and 64.09%, respectively. With a deepening degree of rocky desertification, the litter and root decomposition rate decreased. The decomposition coefficients, k, of litter in potential, moderate, and severe rocky desertification grasslands were 1.128, 0.896, and 0.668, respectively, and the decomposition coefficients, k, of root were 1.152, 1.018, and 0.987, respectively. The nutrient release processes of litter and root were different, and the release mode ultimately manifests as "release". In rocky desertification grasslands, the organic carbon (OC), total nitrogen (TN), total phosphorus (TP), and total potassium (TK) released by litter and root decomposition were 18.93–263.03 g·m−2·yr−1, 1.79–5.59 g·m−2·yr−1, 0.18–0.47 g·m−2·yr−1, and 0.66–3.70 g·m−2·yr−1, respectively. The contribution of root to soil nutrients was greater than that of litter. The degree of rocky desertification was negatively correlated with the biomass, decomposition rate, and nutrient return amount of litter and root. The results of this study provide direct field evidence and illustrate the contribution of litter and root decomposition in rocky desertification grasslands to soil nutrients. [ABSTRACT FROM AUTHOR]

Existing discrete element method-based simulation analysis of Panax notoginseng root soil separation still has the challenge to get the accurate and reliable basic parameters, which are necessary for discrete element simulation. In this paper, the P. notoginseng roots suitable for harvesting period were taken as the experimental object. Then using 3D scanning reverse modeling technology and EDEM software to establish the discrete element model of P. notoginseng, based on which, the physical and virtual tests were carried out to calibrate the simulation parameters. First, the basic physical parameters (density, triaxial geometric size, moisture content, shear modulus, and elastic modulus) and contact coefficients (static friction coefficient, rolling friction coefficient, and crash recovery coefficient between P. notoginseng roots and 65Mn steel) were measured by physical tests. Furthermore, treating the contact coefficients of P. notoginseng roots as the influence factor, the steepest uphill test, and four factors combing five levels of rotational virtual simulation are conducted. The measured relative error accumulation angle and simulation accumulation angle are set as the performance indices. The results show that the static friction coefficient, rolling friction coefficient, crash recovery coefficient, and surface energy coefficient of P. notoginseng roots are 0.55, 0.35, 0.16, and 19.5 J/m², respectively. Using calibration results as parameters of the vibration separation simulation test of P. notoginseng soil, the Box-Behnken vibration separation simulation tests were carried out, in which the vibration frequency, inclination angle, and vibration amplitude of separation device as factors, screening rate and damage rate of P. notoginseng soil complex are regarded as indices. The results show that the optimal operating parameters of the separation device are the vibration frequency of 10 Hz, the inclination angle of 5°, and the amplitude of 6 cm. Based on the optimal operation parameters, the discrete element simulation experiment and field experiment of P. notoginseng roots soil separation are also performed to compare the soil three-dimensional trajectory space coordinates of P. notoginseng roots. From the results, three axis coordinate error is less than 15%. This proves that the calibration results are reliable. It can also provide the theoretical basis and technical support for the further study of the P. notoginseng root soil separation platform. [ABSTRACT FROM AUTHOR]

The bottle gourd [Lagenaria siceraria (Molina) Standl.] is often utilized as a rootstock for watermelon grafting. This practice effectively mitigates the challenges associated with continuous cropping obstacles in watermelon cultivation. The lower ground temperature has a direct impact on the rootstocks' root development and nutrient absorption, ultimately leading to slower growth and even the onset of yellowing. However, the mechanisms underlying the bottle gourd's regulation of root growth in response to low root zone temperature (LRT) remain elusive. Understanding the dynamic response of bottle gourd roots to LRT stress is crucial for advancing research regarding its tolerance to low temperatures. In this study, we compared the physiological traits of bottle gourd roots under control and LRT treatments; root sample transcriptomic profiles were monitored after 0 h, 48 h and 72 h of LRT treatment. LRT stress increased the malondialdehyde (MDA) content, relative electrolyte permeability and reactive oxygen species (ROS) levels, especially H2O2 and O2−. Concurrently, LRT treatment enhanced the activities of antioxidant enzymes like superoxide dismutase (SOD) and peroxidase (POD). RNA-Seq analysis revealed the presence of 2507 and 1326 differentially expressed genes (DEGs) after 48 h and 72 h of LRT treatment, respectively. Notably, 174 and 271 transcription factors (TFs) were identified as DEGs compared to the 0 h control. We utilized quantitative real-time polymerase chain reaction (qRT-PCR) to confirm the expression patterns of DEGs belonging to the WRKY, NAC, bHLH, AP2/ERF and MYB families. Collectively, our study provides a robust foundation for the functional characterization of LRT-responsive TFs in bottle gourd roots. Furthermore, these insights may contribute to the enhancement in cold tolerance in bottle gourd-type rootstocks, thereby advancing molecular breeding efforts. [ABSTRACT FROM AUTHOR]

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Plant leaves are a source of essential phenolic compounds, which have numerous health benefits and can be used in multiple applications. While various techniques are available for recovering bioactive compounds from by-products, more data are needed on enzyme-assisted extraction (EAE). The aim of this study was to compare EAE and solid–liquid extraction (SLE), to evaluate the impact on bioactive compounds' extraction yield, phytochemical composition, and the antioxidant, antimicrobial, and antidiabetic properties of Aralia cordata leaves and roots, sea buckthorn Hippophae rhamnoides, and hemp Cannabis sativa leaves. The results indicate that EAE with Viscozyme L enzyme (EAE_Visc) extracts of the tested plant leaves possess the highest yield, antioxidant activity, and total phenolic content. Moreover, the EAE_Visc extract increased by 40% the total sugar content compared to the control extract of A. cordata root. Interestingly, the sea buckthorn leaf extracts exhibited α-glucosidase inhibitory activity, which reached an almost 99% inhibition in all extracts. Furthermore, the sea buckthorn leaves SLE and EAE_Visc extracts possess antibacterial activity against Staphylococcus aureus. Additionally, scanning electron microscopy was used to examine changes in cell wall morphology after EAE. Overall, this study shows that EAE can be a promising method for increasing the yield and improving the functional properties of the resulting extracts in a fast and sustainable way compared to SLE. [ABSTRACT FROM AUTHOR]

Background: Studies have shown that plant endophytic microbial communities are ubiquitous and closely related to plant growth and health. To clarify the mechanism of the melon varieties with high resistant to wilt, the endophytic microbial compositions and metabolites in roots of melon varieties with high resistant ability to wilt were analyzed. Results: The results showed that the abundances of Firmicutes, Ascomycota, Bacillus, Bradyrhizobium, Amycolatopsis, Actinospica, and Catenulispora all increased in roots of wilt high resistant melon varieties (MT) which compared to wilt susceptible melon varieties (MS). Meanwhile, Ochrobactrum, Bordetella, Roseateles, Staphylococcus, Acidovorax, Amycolatopsis, Catenulispora, Promicromonospora, and Gymnopilus were the unique endophytic microbes in roots of MT. Moreover, in comparison with the MS varieties, the functions of Defense mechanisms, Secondary metabolites biosynthesis, transport and catabolism, Nucleotide transport and metabolism, Signal transduction mechanisms, Coenzyme transport and metabolism, Carbohydrate transport and metabolism and Amino acid transport and metabolism all increased in roots of MT varieties. Additionally, the nucleotide metabolism and biosynthesis of cofactors metabolic pathways were also significantly increased in roots of MT varieties. On the other hand, the untargeted metabolome results showed that Biosynthesis of various plant secondary metabolites, Nucleotide metabolism and Biosynthesis of cofactors metabolic pathways were significantly increased in the expression of MT varieties; and the content of metabolic compounds such as flavonoids, Cinnamic acid compounds, Organic acid compounds, and Nucleotides were increased. In addition, the correlation between microbiome and metabolome indicates a significant correlation between the two. Conclusions: All above results suggested that higher abundant antagonistic microbes and metabolic functions of endophytes in roots of wilt high resistant melon varieties (MT) were the important mechanisms for their high resistance to wilt. [ABSTRACT FROM AUTHOR]

Background: The plant root system is critical for the absorption of water and nutrients, and have a direct influence on growth and yield. In cucumber, a globally consumed crop, the molecular mechanism of root development remains unclear, and this has implications for developing stress tolerant varieties. This study sought to determine the genetic patterns and related genes of cucumber root weight. A core cucumber germplasms population was used to do the GWAS analysis in three environments. Results: Here, we investigated four root-weight related traits including root fresh weight (RFW), root dry weight (RDW), ratio of root dry weight to root fresh weight (RDFW) and the comprehensive evaluation index, D-value of root weight (DRW) deduced based on the above three traits for the core germplasm of the cucumber global repository. According to the D-value, we identified 21 and 16 accessions with light and heavy-root, respectively. We also found that the East Asian ecotype accessions had significantly heavier root than other three ecotypes. The genome-wide association study (GWAS) for these four traits reveals that 4 of 10 significant loci (gDRW3.1, gDRW3.2, gDRW4.1 and gDRW5.1) were repeatedly detected for at least two traits. Further haplotype and expression analysis for protein-coding genes positioned within these 4 loci between light and heavy-root accessions predicted five candidate genes (i.e., Csa3G132020 and Csa3G132520 both encoding F-box protein PP2-B1 for gDRW3.1, Csa3G629240 encoding a B-cell receptor-associated protein for gDRW3.2, Csa4G499330 encodes a GTP binding protein for gDRW4.1, and Csa5G286040 encodes a proteinase inhibitor for gDRW5.1). Conclusions: We conducted a systematic analysis of the root genetic basis and characteristics of cucumber core germplasms population. We detected four novel loci, which regulate the root weight in cucumber. Our study provides valuable candidate genes and haplotypes for the improvement of root system in cucumber breeding. [ABSTRACT FROM AUTHOR]

Background: Understanding the root canal morphology is essential for the success of root canal treatment. Therefore, this study aimed to evaluate and analyze the root canal configuration of maxillary premolars using Cone Beam Computed Tomography in the Pakistani subpopulation. Method: This cross-sectional study utilized CBCT scans from two distinct centres: Aga Khan University in Karachi and Jinnah MRI and Body Scans in Lahore. The CBCT images were visualized using GALAXIS version 1.9 (SICAT GmbH and Co. KG, Bonn, Germany), integrated within the Sirona Dental System (D-64625 Bensheim, Germany). The scanning parameters were standardized at 85 kV, 7 mA, with a 15-s exposure time and a voxel size of 0.16 mm. A total of 707 CBCT scans were collected, encompassing 2180 maxillary premolars. Root canal configurations were classified based on (Ahmed et al. Int Endod J. 2017;50(8):761–70). Statistical analyses were performed using SPSS version 26, employing the Chi-square test with a significance level set at p < 0.05. Results: The distribution of root canal morphologies varied significantly with age and gender. Among maxillary premolars, 50% exhibited the typical configuration of 2MPMB1 L1 (two roots, single canal in each buccal and lingual root), while 26% of maxillary right second premolars displayed 1MPM1 (one root, one canal). Overall, 1MPM1 accounted for 27.4% of the total cases in the second premolars. There was no statistically significant relationship between age and root canal distribution in either first premolars (p = 0.338) or second premolars (p = 0.833). Regarding gender, a significant difference was observed in the distribution of right maxillary 1st premolars (p = 0.022*), with a higher prevalence among females. Conclusion: This study offers significant insights into the anatomical variations of root canals in maxillary premolars across diverse regional subpopulations in Pakistan. While specific root canal configurations were prevalent, the findings indicate no statistically significant correlation between age and root canal morphology in maxillary premolars. However, a notable gender disparity was observed in the distribution of the right maxillary first premolars. [ABSTRACT FROM AUTHOR]

Aims: Our understanding of the rhizosphere is limited by the lack of techniques for in situ live microscopy. Current techniques are either destructive or unsuitable for observing chemical changes within the pore space. To address this limitation, we have developed artificial substrates, termed smart soils, that enable the acquisition and 3D reconstruction of chemical sensors attached to soil particles. Methods: The transparency of smart soils was achieved using polymer particles with refractive index matching that of water. The surface of the particles was modified both to retain water and act as a local sensor to report on pore space pH via fluorescence emissions. Multispectral signals were acquired from the particles using a light sheet microscope, and machine learning algorithms predicted the changes and spatial distribution in pH at the surface of the smart soil particles. Results: The technique was able to predict pH live and in situ within ± 0.5 units of the true pH value. pH distribution could be reconstructed across a volume of several cubic centimetres around plant roots at 10 μm resolution. Using smart soils of different composition, we revealed how root exudation and pore structure create variability in chemical properties. Conclusion: Smart soils captured the pH gradients forming around a growing plant root. Future developments of the technology could include the fine tuning of soil physicochemical properties, the addition of chemical sensors and improved data processing. Hence, this technology could play a critical role in advancing our understanding of complex rhizosphere processes. [ABSTRACT FROM AUTHOR]

Understanding how plant nutrient acquisition strategies respond to grazing at the community level is critical understanding ecosystem structure and functioning in grasslands. However, few studies have simultaneously compared the difference in above‐ground (leaf) and below‐ground (root) nutrient‐acquisition strategies in response to long‐term grazing, especially at the regional scale.Here, we measured a set of leaf and fine‐root traits that correspond to the fast‐slow economic spectrum at the community level in 10 experimental sites from paired grazed and ungrazed grasslands across a soil nutrient gradient covering three major types of grasslands in northern China.We found that patterns of variations of leaf and fine‐root traits were consistent with both a leaf and root economic spectrum at the community level for both grazed and non‐grazed plots. Grazing had minor effect on community‐level leaf nutrient‐acquisition strategies but strongly influenced community‐level root nutrient‐acquisition strategies. Specifically, root nutrient‐acquisition strategies were shifted to more exploitative resource use in grazed communities. Moreover, soil nutrient contributed to the changes in both leaf and root nutrient‐acquisition strategies, which tended towards a more resource acquisition strategy with increasing soil nutrient levels. Grazing significantly interacted with soil nutrient to affect root nutrient‐acquisition strategies, and grazing contributed more to root nutrient‐acquisition strategies than soil nutrient.Synthesis. Our results demonstrated completely inconsistent responses of community‐level above‐ and below‐ground resource acquisition strategies to long‐term grazing, and below‐ground acquisition strategies were more sensitive to long‐term grazing. Our findings also suggest that high intensity anthropogenic activities such as grazing may strongly modify below‐ground resource acquisition strategies. Read the free Plain Language Summary for this article on the Journal blog. [ABSTRACT FROM AUTHOR]

The yield of sweet potato [Ipomoea batatas (L.) Lam] can be easily threatened by drought stress. Typically, early stages like the seedling stage and tuber-root expansion stage are more vulnerable to drought stress. In this study, a highly drought-tolerant sweet potato cultivar "WanSu 63" was subjected to drought stress at both the seedling stage (15 days after transplanting, 15 DAT) and the tuber-root expansion stage (45 DAT). Twenty-four cDNA libraries were constructed from leaf segments and root tissues at 15 and 45 DAT for Next-Generation Sequencing. A total of 663, 063, and 218 clean reads were obtained and then aligned to the reference genome with a total mapped ratio greater than 82.73%. A sum of 7119, 8811, 5463, and 930 differentially expressed genes were identified from leaves in 15 days (L15), roots in 15 days (R15), leaves in 45 days (L45), and roots in 45 days (R45), respectively, in drought stress versus control. It was found that genes encoding heat shock proteins, sporamin, LEA protein dehydrin, ABA signaling pathway protein gene NCED1, as well as a group of receptor-like protein kinases genes were enriched in differentially expressed genes. ABA content was significantly higher in drought-treated tissues than in the control. The sweet potato biomass declined sharply to nearly one-quarter after drought stress. In conclusion, this study is the first to identify the differentially expressed drought-responsive genes and signaling pathways in the leaves and roots of sweet potato at the seedling and root expansion stages. The results provide potential resources for drought resistance breeding of sweet potato. [ABSTRACT FROM AUTHOR]

We introduce Alma (ﺍﺍ ﻠ ى), an open-source and state-of-the-art lemmatizer, POS tagger, and root tagger for Arabic, boasting both high speed and accuracy. Alma relies on a dictionary of morphological solutions ordered by the frequency of these solutions. This dictionary was developed based on the Qabas lexicographic database. Unlike many Arabic lemmatizers that return a lemma after stripping diacritics, shadda, and hamza (i.e., ambiguous lemma), Alma retrieves unambiguous lemmas (we called true lemmatization). Our POS tagger uses a rich tagset of 40 POS tags. Additionally, our root tagger is the first fully-featured tagger since it uses Qabas, the largest Arabic lexicographic database. We evaluated Alma on the LDC Arabic Treebank (ATB) that contains 339,710 tokens and achieved an 88% F1 score. We also evaluated Alma on the Salma corpus (34k tokens) and obtained a 90% F1 score. Compared to Farasa, MADAMIRA, and Camelira lemmatizers and POS taggers, Alma outperformed all of them in both tasks, excelling in both speed and accuracy. Alma demonstrated superior processing speed, handling 339k tokens in 10.00. Alma is open-source and publicly available at (https://sina.birzeit.edu/alma). [ABSTRACT FROM AUTHOR]

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