Secondary cell wall biosynthesis

When Nano- and Microplastics Meet Taro (Colocasia esculenta) Roots: Their Size-Dependent Adsorption, Penetration, and Promotion on Secondary Wall Reinforcement

Nano/microplastics (N/MPs) induce phytotoxicity and represent a significant global threat to terrestrial and agricultural ecosystems. However, the defense mechanisms of plants against different-sized N/MPs remain largely unknown. To address this knowledge gap, we investigated the interactions between polystyrene (PS) NPs (50 and 100 nm) and PS-MPs (200 and 500 nm) with taro (Colocasia esculenta). We found that PS particles of varying sizes exhibited differential root adsorption and penetration, with PS-NPs capable of penetrating the root epidermis, whereas PS-MPs were totally excluded. Notably, taro demonstrated the capacity to recognize different sizes of N/MPs and responded with varying degrees of resistance. In reaction to the more toxic and penetrating 50 nm PS-NPs, the roots mobilized a robust defense mechanism with three levels: molecular, compositional, and ultrastructural. This defense was achieved by activating lignin synthesis, carbohydrate metabolism, and lipid transport, resulting in a doubling of the lignified region of the root and increases in cell wall thickness of 116%, 56.3%, and 22.5% in the epidermis, exodermis, and cortex, respectively. Consequently, roots excluded all four sizes of N/MPs outside the vascular tissue and prevented the contamination of the corms. Our study provides new insights into the interaction mechanisms of N/MPs with plants and demonstrates the crucial role of root barriers in sustaining food safety.

Trans-zeatin modulates shade stress adaptation in soybean through transcription associated metabolic network

This study explores the molecular mechanisms by which trans-zeatin (tZ), a cytokinin, influences shade stress responses in shade-sensitive and shade-tolerant recombinant inbred lines (RILs) 160 and 165 of soybean (Glycine max) under varied light conditions. Using an integrative multi-omics approach combining metabolomics and transcriptomics, we elucidate the regulatory networks underlying soybean adaptation to shade stress. Using an integrative multi-omics approach that combines metabolomics and transcriptomics, we dissect the complex regulatory networks that enable soybean plants to adapt to shade stress. Our results demonstrate that tZ significantly affects growth, biomass accumulation, photosynthetic efficiency, and yield in soybean plants. Metabolomic analysis revealed that shade stress impacts key metabolic pathways, including phenylpropanoids, flavonoids, flavone and flavonol, anthocyanin, and brassinosteroid biosynthesis, with tZ treatment enhances the adaptive responses of soybean plants. Transcriptomic data further identified differential gene expression in these pathways, alongside those related to hormone-mediated signaling pathway, cell wall biogenesis, and defence response pathways underlining the molecular adjustments to tZ and shade stress. Importantly, the integration of metabolomics and transcriptomics data revealed key KEGG pathways and genes regulated by tZ treatment in RIL 160 under shade stress, including significant alterations in phenylpropanoids, flavonoids, hormone-mediated signaling pathway, cell wall biogenesis and defence response, anthocyanin biosynthesis, and fatty acid degradation pathways as well key responsive transcription factors. This study provides insights into the role of tZ in mediating soybean responses to shade stress at the molecular level, offering insights into improving soybean resilience to low light conditions and informing future agricultural practices for optimizing crop yield.

TCP23-WRKY15 module negatively regulates lignin deposition and xylem development of wood formation in Populus

Secondary wall, a critical component of wood, is influenced by multiple factors during its formation. The TCP family encodes plant-specific transcription factors (TFs) that play key roles in multiple aspects of plant development. In this study, we identified all TCP TFs in five poplar species and analyzed their evolutionary relationships, gene structures, tissue-specific expression patterns, and potential interactions with microRNAs. Additionally, we screened for TCP proteins associated with secondary wall development that are independent of miRNA regulation. Three candidate TFs were identified, with TCP23 showing high conservation across poplar species and the highest expression levels in the xylem of Populus trichocarpa and Populus wilsonii. The overexpression of TCP23 in poplar inhibited the expression of MYB TFs and structural genes involved in xylem biosynthesis, thereby reducing the lignin content within the stems. By contrast, CRISPR/Cas9-mediated knockout of TCP23 resulted in the opposite effect. Furthermore, we successfully identified WRKY15 as an interaction partner of TCP23 via a yeast two-hybrid library and demonstrated that TCP23 negatively regulates lignin synthesis and xylem development by enhancing the inhibitory function of WRKY15. Our study provides new insights into the transcriptional regulatory mechanisms underlying secondary wall formation.

GhMYB102 affects cotton fibre elongation and secondary wall thickening by regulating GhIRX10 in cotton

Upland cotton (Gossypium hirsutum) is a principal economic crop and a fundamental raw material for the textile industry. The quality of cotton fibres is significantly influenced by the synthesis of cell wall polysaccharides. This study focuses on GhIRX10, a beta-1,4-xylosyltransferase crucial for xylan backbone synthesis. Overexpression of GhIRX10 enhances xylan synthesis, which impacts fibre elongation and secondary cell wall thickening. GhMYB102, identified as a direct regulator of GhIRX10 expression, was confirmed through comprehensive validation. Overexpression of GhMYB102 resulted in a similar phenotype as OE-GhIRX10: increased cell wall thickness and reduced fibre length. Overexpression of GhMYB102 upregulated the expression of key cell wall synthesis-related genes, including GhCESA4/7/8, GhIRXs, GhCESAs, GhGUXs, GhTBLs, GhXTHs, and GhXXTs. Consequently, the cellulose and hemicellulose contents in OE-GhMYB102 lines were significantly increased. GhMYB102 was also validated as a target gene regulated by GhFSN1 and GhMYB7, with the ability to reciprocally regulate GhFSN1 expression. In summary, we propose a regulatory model where GhMYB102 promotes the expression of GhIRX10 and other cell wall-related genes, thereby affecting fibre quality. This study elucidates the regulatory network of secondary cell wall synthesis in cotton and provides potential targets for improving fibre quality through molecular breeding.

Modulation of morphogenesis and metabolism by plant cell biomechanics: from model plants to traditional herbs

The quality of traditional herbs depends on organ morphogenesis and the accumulation of active pharmaceutical ingredients. While recent research highlights the significance of cell mechanobiology in model plant morphogenesis, our understanding of mechanical signal initiation and transduction in traditional herbs remains incomplete. Recent studies reveal a close correlation between cell wall (CW) biosynthesis and active ingredient production, yet the role of cell mechanics in balancing morphogenesis and secondary metabolism is often overlooked. This review explores how the cell wall, plasma membrane, cytoskeleton, and vacuole collaborate to regulate cell mechanics and respond to mechanical changes. We propose CW biosynthesis as a hub in connecting cell mechanics with secondary metabolism and emphasize that understanding the relationship between mechanical remodeling and secondary metabolism could provide new insights into plant cell mechanobiology and the breeding of high-quality herbs.

Melatonin enhances salt tolerance by promoting CcCAD10-mediated lignin biosynthesis in pigeon pea

Melatonin plays a crucial role in enhancing plant resistance to salt stress by regulating biosynthesis of specialized metabolites. Phenylpropanoids, especially lignin, contribute to all aspects of plant responses toward biotic and abiotic stresses. However, the crosstalk between melatonin and lignin is largely unknown in pigeon pea under salt stress. In this study, the cinnamyl alcohol dehydrogenase CcCAD10 was identified to be involved in melatonin treatment and salt stress. The content of lignin was significantly increased in CcCAD10 over-expression (OE) lines, the enhanced antioxidant enzyme activities, indicating enhanced salt resistance. As a parallel branch of the lignin synthesis pathway, the content of flavonoids was further determined. The accumulations of luteolin, genistin, genistein, biochain A, apigenin and isovitexin were down-regulated in CcCAD10-OE hairy root. The results indicate that CcCAD10-OE mediated carbon flow from the phenylalanine pathway is redirected to the lignin pathway at the expense of less carbon flow in the flavonoid pathway, enhancing the salt-tolerance. Furthermore, we found the exogenous melatonin stimulated endogenous melatonin production mainly by upregulating the expression of CcASMT2 gene. This study reveals a novel mechanism by which melatonin enhances salt tolerance in pigeon pea, which laid a foundation for exploring the molecular mechanism of melatonin in salt stress response.

Asynchronous xylogenesis among and within tree species in the central Congo Basin

BACKGROUND

Xylogenesis is synchronous among trees in regions with a distinct growing season, leading to a forest-wide time lag between growth and carbon uptake. In contrast, little is known about interspecific or even intraspecific variability of xylogenesis in tropical forests. Yet an understanding of xylogenesis patterns is key to successfully combine bottom-up (e.g., from permanent forest inventory plots) and top-down (e.g., from eddy covariance flux towers) carbon flux estimates.

METHODS

Here, we monitor xylogenesis development of 18 trees belonging to 6 abundant species during 8 weeks at the onset of the rainy season from March to April 2022 in a semideciduous rainforest in the Yangambi reserve (central Democratic Republic of the Congo). For each tree, the weekly cambial state (dormant or active) was determined by epifluorescence microscopy.

RESULTS

We find interspecific variability in the cambial phenology, with two species showing predominant cambial dormancy and two species showing predominant cambial activity during the monitoring period. We also find intraspecific variability in two species where individuals either display cambial dormancy or cambial activity. All trees kept > 60% of their leaves throughout the dry season and the monitoring period, suggesting a weak relationship between the phenology of the cambial and foliar. Our results suggest that individual trees in Yangambi asynchronously activate their cambial growth throughout the year, regardless of leaf phenology or seasonal rainfall.

CONCLUSION

These results are consistent with global analysis of gross primary productivity estimates from eddy covariance flux towers, showing that tropical biomes lack a synchronous dormant period. However, a longer-term monitoring experiment, including more species, is necessary to confirm this for the Congo Basin. As Yangambi is equipped with facilities for microscopic wood analysis, a network of inventory plots and a flux tower, further research in this site will reveal how xylogenesis patterns drive annual variability in carbon fluxes and how ground-based and top-down measurements can be combined for robust upscaling analysis of Congo basin carbon budgets.

A high-resolution model of gene expression during Gossypium hirsutum (cotton) fiber development

BACKGROUND

Cotton fiber development relies on complex and intricate biological processes to transform newly differentiated fiber initials into the mature, extravagantly elongated cellulosic cells that are the foundation of this economically important cash crop. Here we extend previous research into cotton fiber development by employing controlled conditions to minimize variability and utilizing time-series sampling and analyses to capture daily transcriptomic changes from early elongation through the early stages of secondary wall synthesis (6 to 24 days post anthesis; DPA).

RESULTS

A majority of genes are expressed in fiber, largely partitioned into two major coexpression modules that represent genes whose expression generally increases or decreases during development. Differential gene expression reveals a massive transcriptomic shift between 16 and 17 DPA, corresponding to the onset of the transition phase that leads to secondary wall synthesis. Subtle gene expression changes are captured by the daily sampling, which are discussed in the context of fiber development. Coexpression and gene regulatory networks are constructed and associated with phenotypic aspects of fiber development, including turgor and cellulose production. Key genes are considered in the broader context of plant secondary wall synthesis, noting their known and putative roles in cotton fiber development.

CONCLUSIONS

The analyses presented here highlight the importance of fine-scale temporal sampling on understanding developmental processes and offer insight into genes and regulatory networks that may be important in conferring the unique fiber phenotype.

Comparative transcriptome analysis reveals potential regulatory genes involved in the development and strength formation of maize stalks

BACKGROUND

Stalk strength is a critical trait in maize that influences plant architecture, lodging resistance and grain yield. The developmental stage of maize, spanning from the vegetative stage to the reproductive stage, is critical for determining stalk strength. However, the dynamics of the genetic control of this trait remains unclear.

RESULTS

Here, we report a temporal resolution study of the maize stalk transcriptome in one tropical line and one non-stiff-stalk line using 53 transcriptomes collected covering V7 (seventh leaf stage) through silking stage. The time-course transcriptomes were categorized into four phases corresponding to stalk early development, stalk early elongation, stalk late elongation, and stalk maturation. Fuzzy c-means clustering and Gene Ontology (GO) analyses elucidated the chronological sequence of events that occur at four phases of stalk development. Gene Ontology analysis suggests that active cell division occurs in the stalk during Phase I. During Phase II, processes such as cell wall extension, lignin deposition, and vascular cell development are active. In Phase III, lignin metabolic process, secondary cell wall biogenesis, xylan biosynthesis process, cell wall biogenesis, and polysaccharide biosynthetic process contribute to cell wall strengthening. Defense responses, abiotic stresses, and transport of necessary nutrients or substances are active engaged during Phase IV. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis showed that the two maize lines presented significant gene expression differences in the phenylpropanoid biosynthesis pathway and the flavonoid biosynthesis pathway. Certain differentially expressed genes (DEGs) encoding transcription factors, especially those in the NAC and MYB families, may be involved in stalk development. In addition, six potential regulatory genes associated with stalk strength were identified through weighted gene co-expression network analysis (WGCNA).

CONCLUSION

The data set provides a high temporal-resolution atlas of gene expression during maize stalk development. These phase-specific genes, differentially expressed genes, and potential regulatory genes reported in this study provide important resources for further studies to elucidate the genetic control of stalk development and stalk strength formation in maize.

Rice THIN CULM 4 (TC4) modulates culm strength by regulating morphology, structure, and development

Culm strength is crucial for rice growth, nutrition transportation, and structural resilience, which are essential for lodging resistance and stable production. In this study, we identified a rice thin culm mutant tc4, characterized by thinner culms and thicker cavity walls, resulting in weakened culm mechanical strength. Using map-based cloning, the candidate gene was isolated, and complementation and CRISPR/Cas9 experiments confirmed that a single nucleotide substitution in TC4 is responsible for the thin and brittle culm phenotype. TC4, a homolog of the FLORICAULA/LEAFY gene, localizes to the nucleus and cytoplasm. Further research revealed that TC4 regulates culm development by influencing plant hormones and sugar transport. This research not only advances our understanding of rice culm regulation, but also provides valuable insights for breeding lodging-resistant rice varieties.

From glycans to green biotechnology: exploring cell wall dynamics and phytobiota impact in plant glycopathology

Filamentous plant pathogens, including fungi and oomycetes, pose significant threats to cultivated crops, impacting agricultural productivity, quality and sustainability. Traditionally, disease control heavily relied on fungicides, but concerns about their negative impacts motivated stakeholders and government agencies to seek alternative solutions. Biocontrol agents (BCAs) have been developed as promising alternatives to minimize fungicide use. However, BCAs often exhibit inconsistent performances, undermining their efficacy as plant protection alternatives. The eukaryotic cell wall of plants and filamentous pathogens contributes significantly to their interaction with the environment and competitors. This highly adaptable and modular carbohydrate armor serves as the primary interface for communication, and the intricate interplay within this compartment is often mediated by carbohydrate-active enzymes (CAZymes) responsible for cell wall degradation and remodeling. These processes play a crucial role in the pathogenesis of plant diseases and contribute significantly to establishing both beneficial and detrimental microbiota. This review explores the interplay between cell wall dynamics and glycan interactions in the phytobiome scenario, providing holistic insights for efficiently exploiting microbial traits potentially involved in plant disease mitigation. Within this framework, the incorporation of glycobiology-related functional traits into the resident phytobiome can significantly enhance the plant's resilience to biotic stresses. Therefore, in the rational engineering of future beneficial consortia, it is imperative to recognize and leverage the understanding of cell wall interactions and the role of the glycome as an essential tool for the effective management of plant diseases.

Control of plasma membrane-associated actin polymerization specifies the pattern of the cell wall in xylem vessels

Cell wall patterning is central to determining the shape and function of plant cells. Protoxylem and metaxylem vessel cells deposit banded and pitted cell walls, respectively, which enable their distinctive water transport capabilities. Here, we show that the pitted cell wall pattern in metaxylem vessels is specified by transcriptional control of actin polymerization. A newly isolated allele of KNOTTED-LIKE HOMEOBOX TRANSCRIPTION FACTOR 7 (KNAT7) was associated with the formation of banded cell walls in metaxylem vessels. Loss of KNAT7 caused misexpression of FORMIN HOMOLOGY DOMAIN CONTAINING PROTEIN11 (FH11) in the metaxylem, which in turn caused rearrangements of ROP GTPases and microtubules in banded patterns. FH11 function required its plasma membrane anchoring and actin polymerization activity. These results suggest that excessive actin polymerization at the plasma membrane abolishes the pitted cell wall formation and promotes banded cell wall formation in metaxylem vessels. This study unveils the importance of proper control of actin polymerization for cell wall pattern determination.

CRISPR-Cas9-mediated deletions of FvMYB46 in Fragaria vesca reveal its role in regulation of fruit set and phenylpropanoid biosynthesis

The phenylpropanoid pathway, regulated by transcription factors of the MYB family, produces secondary metabolites that play important roles in fertilization and early phase of fruit development. The MYB46 transcription factor is a key regulator of secondary cell wall structure, lignin and flavonoid biosynthesis in many plants, but little is known about its activity in flowers and berries in F. vesca. For functional analysis of FvMYB46, we designed a CRISPR-Cas9 construct with an endogenous F. vesca-specific U6 promoter for efficient and specific expression of two gRNAs targeting the first exon of FvMYB46. This generated mutants with an in-frame 81-bp deletion of the first conserved MYB domain or an out-of-frame 82-bp deletion potentially knocking out gene function. In both types of mutant plants, pollen germination and fruit set were significantly reduced compared to wild type. Transcriptomic analysis of flowers revealed that FvMYB46 positively regulates the expression of genes involved in processes like xylan biosynthesis and metabolism, homeostasis of reactive oxygen species (ROS) and the phenylpropanoid pathway, including secondary cell wall biosynthesis and flavonoid biosynthesis. Genes regulating carbohydrate metabolism and signalling were also deregulated, suggesting that FvMYB46 might regulate the crosstalk between carbohydrate metabolism and phenylpropanoid biosynthesis. In the FvMYB46-mutant flowers, the flavanol and flavan-3-ol contents, especially epicatechin, quercetin-glucoside and kaempferol-3-coumaroylhexoside, were reduced, and we observed a local reduction in the lignin content in the anthers. Together, these results suggest that FvMYB46 controls fertility and efficient fruit set by regulating the cell wall structure, flavonoid biosynthesis, carbohydrate metabolism, and sugar and ROS signalling in flowers and early fruit development in F. vesca.

CYP75B4-Mediated Tricin and Lignin Accumulation Improve Salt Tolerance in Rice

Salt stress limits plant growth and agricultural productivity and plants have evolved suitable mechanisms to adapt to salinity environments. It is important to characterize genes involved in plant salt tolerance, which will advance our understanding of mechanisms mediating salt tolerance and help researchers design ways to improve crop performances under high salinity environments. Here, we reported a CYP450 family member, CYP75B4, improves salt tolerance of rice seedlings by inducing flavonoid tricin and cell wall lignin accumulation. The CYP75B4 is highly expressed in tissues rich in cell walls and induced by salt treatment. Subcellular localization analysis revealed that CYP75B4 is localized in the endoplasmic reticulum (ER). The CYP75B4 overexpressing (CYP75B4-OE) lines showed significant enhancement in stem mechanical strength, whereas the cyp75b4 null mutants displayed weaker stems, as compared to the wild-type. Notably, the cyp75b4 and CYP75B4-OE lines showed decreased and improved, respectively, salt tolerance performances in terms of survival rate, ROS accumulation, and Na+/ K+ homeostasis. Additionally, the cyp75b4 mutants had a decreased tricin level, whereas CYP75B4-OE lines showed an increased tricin content, under both control or salinity conditions. Furthermore, treating the cyp75b4 mutants with tricin partly resorted salt stress tolerance to the wild-type levels, indicating a role of CYP75B4-mediated tricin production in rice response to salinity. Consistently, another tricin-deficient mutant cyp93g1 also displayed salt sensitivity and the tricin application could partly restore its salt-sensitive phenotypes. Moreover, the CYP75B4 significantly promotes lignin deposition in cell walls of mature stems and seedlings under salinity conditions, which probably contributes to the enhanced stem mechanical strength and improved salt tolerance in CYP75B4-OE plants. Our findings reveal a novel function of CYP75B4 in rice salt tolerance and lodging resistance by inducing tricin accumulation and lignin deposition in cell walls.

Enhancing maize resistance to Fusarium verticillioides through modulation of cell wall structure and components by ZmXYXT2

INTRODUCTION

Fusarium verticillioides (F. verticillioides) is a prevalent phytopathogen that incites severe diseases in maize, resulting in substantial reductions in grain yield and quality. Despite its widespread impact, the genetic mechanisms underlying resistance to this pathogen remain elusive, with only a limited of resistant genes having been identified to date.

OBJECTIVES

Characterize the function of ZmXYXT2 encoding a putative xylan xylosyltransferase in maize defense against F. verticillioides-induced diseases.

METHODS

Real-time quantitative PCR and transitory transformation of maize protoplasts were conducted to analyze the expression pattern and subcellular localization of ZmXYXT2. The zmxyxt2 mutant, sourced from an ethyl methanesulfonate mutagenesis library, and the ZmXYXT2-overexpressing plants, generated via Agrobacterium tumefaciens-mediated transformation, were utilized for artificial inoculation with F. verticillioides followed by disease severity assessments. Phenotypic assessments, cytological observations, analysis of cell wall components, and histochemical staining were performed to elucidate the regulatory mechanisms of ZmXYXT2.

RESULTS

The absence of ZmXYXT2 renders maize vulnerable to F. verticillioides-caused seedling blight, stalk rot, ear rot and seed rot, along with a notable increase in fumonisin B1 accumulation. Conversely, maize plants overexpressing ZmXYXT2 exhibited significantly heightened immunity to these diseases. Moreover, overexpression of ZmXYXT2 results in notable changes in the composition of maize cell walls, specifically increasing the levels of arabinose, xylose and ferulic acid. These alterations lead to cell wall thickening, effectively barring the intracellular invasion and colonization of F. verticillioides, thereby halting pathogen dissemination between cells. Intriguingly, maize plants overexpressing ZmXYXT2 exhibit enhanced stem strength without compromising yield-related traits.

CONCLUSION

ZmXYXT2 provides maize with resistance to multiple diseases triggered by F. verticillioides and mitigates the accumulation of fumonisin B1. Our study presents a novel approach to bolster maize comprehensive resistance against F. verticillioides-induced diseases by modifying cell wall composition to strengthen its natural defenses.

ZINC FINGER PROTEIN2 suppresses funiculus lignification to ensure seed loading efficiency in Arabidopsis

The plant funiculus anchors the developing seed to the placenta within the inner dorsal pod strands of the silique wall and directly transports nutrients to the seeds. The lignified vasculature critically supports nutrient transport through the funiculus. However, molecular mechanisms underlying lignified secondary cell wall (SCW) biosynthesis in the funiculus remain elusive. Here, we show that the transcription factor ZINC FINGER PROTEIN2 (ZFP2) represses SCW formation in the cortex cells that surround the vasculature. This function is essential for efficient nutrient loading into the seeds. Notably, ZFP2 directly acts on the SCW transcription factor NAC SECONDARY WALL THICKENING PROMOTING FACTOR1 (NST1) to repress cortex cell lignification, providing a mechanism of how SCW biosynthesis is restricted to the vasculature of the funiculus to ensure proper seed loading in Arabidopsis.

NAC transcription factor GbNTL9 modifies the accumulation and organization of cellulose microfibrils to enhance cotton fiber strength

INTRODUCTION

Fiber strength is a critical determinant of fiber quality, with stronger fibers being highly preferred in the cotton textile industry. However, the genetic basis and the specific regulatory mechanism underlying the formation of cotton fiber strength remain largely unknown.

OBJECTIVES

To explore fiber strength-related genes, QTL mapping, map-based cloning, and gene function verification were conducted in a backcross inbred line BS41 derived from interspecific hybridization between upland cotton and sea-island cotton.

METHODS

Upland cotton Emian22 (E22) and an interspecific backcross inbred line (BIL) BS41 were used as parents to construct secondary segregation populations for BSA and QTL mapping of fiber strength. The candidate gene GbNTL9 was identified through map-based cloning and expression analysis. The function of NTL9 was determined through transgenic experiments and cytological observations. The regulatory mechanisms of NTL9 were explored using RNA-seq, RT-qPCR, yeast two-hybrid, bimolecular fluorescence complementation, and yeast one-hybrid.

RESULTS

A major QTL for fiber strength, qFS-A11-1, was mapped to a 14.6-kb genomic region using segregating populations from E22 × BS41. GbNTL9, which encodes a NAC transcription factor, was identified as the candidate gene. Overexpression of both upland cotton genotype NTL9E22 and sea-island genotype NTL9BS41 in upland cotton enhanced fiber strength by facilitating the dense accumulation and orderly organization of cellulose microfibrils within the cell wall. Transcriptomic analysis revealed that NTL9 inhibited the expression of genes involved in secondary wall synthesis, such as CESA4, CESA7, and CESA8, thereby delaying cell wall cellulose deposition and altering the microfibril deposition pattern. NTL9 interacted with MYB6 and functioned as a downstream gene in the ethylene signaling pathway. Additionally, an effective gene marker NTL9-24 was developed to distinguish haplotypes from G. barbadense and G. hirsutum for fiber quality breeding program.

CONCLUSION

Our findings demonstrate that GbNTL9 positively regulates fiber strength through altering the microfibril deposition pattern, and provide a new insight into the molecular mechanism underlying fiber strength.

Transcriptomic analysis reveals potential roles of polyamine and proline metabolism in waterlogged peach roots inoculated with Funneliformis mosseae and Serendipita indica

Root-associated endophytic fungi can create symbiotic relationships with trees to enhance stress tolerance, but the underlying mechanisms, especially with regard to waterlogging tolerance, remain unclear. This study aimed to elucidate the effects of Funneliformis mosseae and Serendipita indica on the growth, root cross-section structure, and root transcriptional responses of peach under waterlogging stress, with a focus on polyamine and proline metabolism. Genes and transcription factors associated with secondary cell wall biosynthesis were selected, and their expression profiles were analyzed. Funneliformis mosseae significantly increased the height, stem diameter and leaf number of peach seedlings subjected to 2 weeks of waterlogging stress, whereas S. indica only significantly improved stem diameter. Both fungal species substantially increased root diameter, stele diameter, the number of late metaxylem inside the stele and late metaxylem diameter, thus improving aeration within inoculated roots under waterlogging stress. Transcriptomic analysis of waterlogged roots identified 5425 and 5646 differentially expressed genes following inoculation with F. mosseae and S. indica, respectively. The arginine and proline metabolism and arginine biosynthesis pathways were enriched following fungal inoculations. Both fungi reduced the conversion of glutamate and ornithine for proline synthesis. However, S. indica promoted peptide-to-proline conversion by up-regulating the expression of PIPs. Although both fungi promoted the expression of genes involved in arginine and ornithine synthesis pathway, only F. mosseae led to increased levels of arginine and ornithine. Additionally, F. mosseae promoted the accumulation of putrescine and maintained polyamine homeostasis by down-regulating PAO2 and SAMDC. Moreover, F. mosseae facilitated the metabolism of cadaverine. In conclusion, both F. mosseae and S. indica formed symbiotic relationships with peach plants, with F. mosseae primarily improving polyamine accumulation and S. indica predominantly facilitating proline accumulation for enhanced waterlogging resistance.

Xylan structural diversity, biosynthesis, and functional regulation in plants

Xylan is a vital component of plant cell walls, contributing to their structural integrity and flexibility through interactions with other polymers. Its structure varies among plant species, influencing the mechanical properties of cell walls. Xylan also has significant industrial potential, including in biofuels, biomaterials, food, and pharmaceuticals, due to its ability to be converted into valuable bioproducts. However, key aspects of xylan biosynthesis, regulation, and structural impact on plant growth and structures remain unclear. This review highlights current researches on xylan biosynthesis, modification, and applications, identifying critical gaps in knowledge. Meanwhile the review proposes new approaches to regulate xylan synthesis and understand its role in cell wall assembly and interactions with other polymers. Addressing these gaps could unlock the full industrial potential of xylan, leading to more sustainable applications.

Identification and characterization of the auxin-response factor family in moso bamboo reveals that PeARF41 negatively regulates second cell wall formation

Auxin response factors (ARFs) are key transcriptional factors mediating the transcriptional of auxin-related genes that play crucial roles in a range of plant metabolic activities. The characteristics of 47 PeARFs, identified in moso bamboo and divided into three classes, were evaluated. Structural feature analysis showed that intron numbers ranged from 3 to 14, while Motif 1, 2, 7 and 10 were highly conserved, altogether forming DNA-binding and ARF domains. Analysis of RNA-seq from different tissues revealed that PeARFs showed tissue-specificity. Additionally, abundant hormone-response and stress-related elements were enriched in promoters of PeARFs, supporting the hypothesis that the expression of PeARFs was significantly activated or inhibited by ABA and cold treatments. Further, PeARF41 overexpression inhibited SCW formation by reducing hemicellulose, cellulose and lignin contents. Moreover, a co-expression network, containing 28 genes with PeARF41 at its core was predicted, and the results of yeast one hybridization (Y1H), electrophoretic mobility shift assay (EMSA) and dual-luciferase (Dul-LUC) assays showed that PeARF41 bound the PeSME1 promoter to inhibit its expression. We conclude that a 'PeARF41-PeSME1' regulatory cascade mediates SCW formation. Our findings provided a solid theoretical foundation for further research on the role of PeARFs.

A cell fractionation and quantitative proteomics pipeline to enable functional analyses of cotton fiber development

Cotton fibers are aerial trichoblasts that employ a highly polarized diffuse growth mechanism to emerge from the developing ovule epidermis. After executing a complicated morphogenetic program, the cells reach lengths over 2 cm and serve as the foundation of a multi-billion-dollar textile industry. Important traits such as fiber diameter, length, and strength are defined by the growth patterns and cell wall properties of individual cells. At present, the ability to engineer fiber traits is limited by our lack of understanding regarding the primary controls governing the rate, duration, and patterns of cell growth. To gain insights into the compartmentalized functions of proteins in cotton fiber cells, we developed a label-free liquid chromatography mass spectrometry method for systems-level analyses of fiber proteome. Purified fibers from a single locule were used to fractionate the fiber proteome into apoplast (APOT), membrane-associated (p200), and crude cytosolic (s200) fractions. Subsequently, proteins were identified, and their localizations and potential functions were analyzed using combinations of size exclusion chromatography, statistical and bioinformatic analyses. This method had good coverage of the p200 and APOT fractions, the latter of which was dominated by proteins associated with particulate membrane-enclosed compartments. The apoplastic proteome was diverse, the proteins were not degraded, and some displayed distinct multimerization states compared to their cytosolic pool. This quantitative proteomic pipeline can be used to improve coverage and functional analyses of the cotton fiber proteome as a function of developmental time or differing genotypes.

The GhCEWT1-GhCEWT2-GhCes4D/GhCOBL4D module orchestrates plant cell elongation and cell wall thickness

Cell elongation defines cell size and shape, whereas the cell wall supports and protects it. However, the mechanism regulating cell elongation and cell wall thickness remains unknown. Here, taking advantage of a model for both cell elongation and cell wall biogenesis, cotton fiber, we identified a basic-helix-loop-helix (bHLH) factor, GhCEWT1, that contributes to both fiber cell elongation and cell wall thickness. Loss of function of GhCEWT1 reduced the fiber length and cell wall thickness. GhCEWT1 induced transcription of GhCEWT2. We also identified two target genes of GhCEWT2, cellulose synthase 4D (GhCes4D) and COBRA-LIKE 4D (GhCOBL4D). GhCEWT2 enhanced the transcription of GhCes4D and GhCOBL4D. GhCOBL4D overexpression significantly enhanced cotton fiber cell length and cell wall thickness. Our results revealed a GhCEWT1-GhCEWT2-GhCes4D/GhCOBL4D cascade functioning in both fiber cell elongation and cell wall thickness. These findings provide a comprehensive understanding of plant cell elongation and cell wall formation, as well as a theoretical basis for boosting the biomass on Earth.

Multiprotein Complexes of Plant Glycosyltransferases Involved in Their Function and Trafficking

Plant cells utilize protein oligomerization for their functions in numerous important cellular processes. Protein-protein interactions are necessary to stabilize, optimize, and activate enzymes, as well as localize proteins to specific organelles and membranes. Glycosyltransferases-enzymes that attach sugars to polysaccharides, proteins, lipids, and RNA-across multiple plant biosynthetic processes have been demonstrated to interact with one another. The mechanisms behind these interactions are still unknown, but recent research has highlighted extensive examples of protein-protein interactions, specifically in the plant cell wall hemicellulose and pectin biosynthesis that takes place in the Golgi apparatus. In this review, we will discuss what is known so far about the interactions among Golgi-localized glycosyltransferases that are important for their functioning, trafficking, as well as structural aspects.

Dynamic changes of heterogeneous cell wall macromolecules in differentiating conifer xylem using cytochemical localization

Tracing dynamic changes of heterogeneous cell wall components during xylem differentiation is essential for understanding the intricate architecture of wood cell walls at the individual secondary cell wall layer level. Here we employ histochemical- and immunological approaches to visualize the deposition of cellular polymers during xylem differentiation in Pinus bungeana. In axial tracheids, deposition of crystalline cellulose and glucomannan preceded xylan and lignin. Lignification was initiated in primary cell wall corners during development of the S1 layer and intensified with cell wall thickening. Immunofluorescence labeling showed an earlier deposition of glucomannan than xylan with strong presence in S1 layer corner regions at early stages of differentiation. Quantification of immunogold-labeled xylan and glucomannan showed distinct increasing trends during thickening of tracheid wall layers with xylan labeling of the S1 and S2 layers at the S3 stage greater than the S2 stage. Differential cell wall polymer deposition was evident in mature tracheid areas with glucomannan absent in warty layers. Pectins were highly concentrated in unlignified primary cell walls but decreased with axial tracheid wall differentiation. The sequence of polymer deposition in ray cells was similar but lagged behind axial tracheids with ray parenchyma remaining unlignified with thinner cell walls than ray tracheids.

PagNAC2a promotes phloem fiber development by regulating PagATL2 in poplar

Phloem fiber is a key component of phloem tissue and is involved in supporting its structural integrity. NAC domain transcription factors are master switches that regulate secondary cell wall (SCW) biosynthesis in xylem fibers, but the mechanism by which NACs regulate phloem fiber development remains unexplored. Here, a NAC2-like gene in poplar, PagNAC2a, was shown to be involved in phloem fiber differentiation. qRT-PCR and GUS staining revealed that PagNAC2a was specifically expressed in the phloem zone of poplar stems. The overexpression of PagNAC2a in poplar increased plant biomass by increasing plant height, stem diameter, and leaf area. Stem anatomy analysis revealed that overexpression of PagNAC2a resulted in enhanced phloem fiber differentiation and cell wall deposition. In addition, PagNAC2a directly upregulated the expression of PagATL2, a gene involved in phloem development, as revealed by yeast one hybrid (Y1H) and electrophoretic mobility shift assay (EMSA) assays. Overall, we proposed that the PagNAC2a was a positive regulator of phloem fiber development in poplar, and these results provided insights into the molecular mechanisms involved in the differentiation of phloem fibers.

NST3 induces ectopic transdifferentiation, forming secondary walls with diverse patterns and composition in Arabidopsis thaliana

BACKGROUND AND AIMS

The master transcription factor NAC SECONDARY WALL THICKENING PROMOTING FACTOR3 (NST3), also known as SND1, plays a pivotal role in regulating secondary cell wall (SCW) development in interfascicular and xylary fibres in Arabidopsis thaliana. Despite progress in understanding SCW assembly in xylem vessel-like cells, the mechanisms behind its assembly across different cell types remain unclear. Overexpression of NST3 or its homologue NST1 leads to reduced fertility, posing challenges for studying their impact on secondary wall formation. This study aimed to develop a tightly regulated dexamethasone (DEX)-inducible expression system for NST3 and NST1 to elucidate the structure and assembly of diverse SCWs.

METHODS

Using the DEX-inducible system, we characterized ectopically formed SCWs for their diverse patterns, mesoscale organization, cellulose microfibril orientation and molecular composition using spinning disc confocal microscopy, field emission scanning electron microscopy, vibrational sum-frequency generation spectroscopy, and histochemical staining and time-of-flight secondary ion mass spectrometry, respectively.

KEY RESULTS

Upon DEX treatment, NST3 and NST1 transgenic hypocotyls underwent time-dependent transdifferentiation, progressing from protoxylem-like to metaxylem-like cells. NST3-induced plants exhibited normal growth but had rough secondary wall surfaces with delaminating S2 and S3 layers. Mesoscale examination of induced SCWs in epidermal cells revealed that macrofibril thickness and orientation were comparable to xylem vessels, while wall thickness resembled that of interfascicular fibres. Additionally, induced epidermal cells formed SCWs with altered cellulose and lignin contents.

CONCLUSIONS

These findings suggest NST3 and/or NST1 induce SCWs with shared characteristics of both xylem and fibre-like cells forming loosely arranged cell wall layers and cellulose organized at multiple angles relative to the cell growth axis and with varied cellulose and lignin abundance. This inducible system opens avenues to explore ectopic SCWs for bioenergy and bioproducts, offering valuable insights into SCW patterning across diverse cell types and developmental stages.

Cell walls, a comparative view of the composition of cell surfaces of plants, algae and microorganisms

While evolutionary studies indicate that the most ancient groups of organisms on Earth likely descended from a common wall-less ancestor, contemporary organisms lacking a carbohydrate-rich cell surface are exceedingly rare. By developing a cell wall to cover the plasma membrane, cells were able to withstand higher osmotic pressures, colonise new habitats and develop complex multicellular structures. This way, the cells of plants, algae and microorganisms are covered by a cell wall, which can generally be defined as a highly complex structure whose main framework is usually composed of carbohydrates. Rather than static structures, they are highly dynamic and serve a multitude of functions that modulate vital cellular processes, such as growth and interactions with neighbouring cells or the surrounding environment. Thus, despite its vital importance for many groups of life, it is striking that there are few comprehensive documents comparing the cell wall composition of these groups. Thus, the aim of this review was to compare the cell walls of plants with those of algae and microorganisms, paying particular attention to their polysaccharide components. It should be highlighted that, despite the important differences in composition, we have also found numerous common aspects and functionalities.

Artificial Biopolymers Derived from Transgenic Plants: Applications and Properties-A Review

Biodegradable materials are currently one of the main focuses of research and technological development. The significance of these products grows annually, particularly in the fight against climate change and environmental pollution. Utilizing artificial biopolymers offers an opportunity to shift away from petroleum-based plastics with applications spanning various sectors of the economy, from the pharmaceutical and medical industries to food packaging. This paper discusses the main groups of artificial biopolymers. It emphasizes the potential of using genetically modified plants for its production, describing the primary plant species involved in these processes and the most common genetic modifications. Additionally, the paper explores the potential applications of biobased polymers, highlighting their key advantages and disadvantages in specific context.

How Can RuBisCO Be Released from the Mesophyll Cells of Green Tea Residue?

Although ribulose-1,5-bisphosphate carboxylase/oxygenase (RuBisCO) has been obtained from green tea residue mesophyll cells (TRMCs), its intact release has not yet been achieved. To release RuBisCO, this study employed a combination or sequential treatments using urea, β-mercaptoethanol, sodium dodecyl sulfate (SDS), and enzymes. Factors that hindered RuBisCO release from TRMCs were investigated through SDS-PAGE analysis, protein release quantification, and electron microscopy techniques. Alkali treatment of TRMCs at 95 °C facilitated protein release, while also causing protein modification or degradation. Conversely, the combined treatment of β-mercaptoethanol with urea and/or SDS could effectively disrupt the disulfide bonds, hydrogen bonds, and/or hydrophobic interactions within the cells, leading to the release of 40% or more of the proteins. This treatment showed strong electrophoretic bands at 55 and 15 kDa, indicating that RuBisCO was completely released. No protein was released during the treatment with SDS and pepsin/papain/alkaline protease, indicating that RuBisCO was hindered by the presence of cellulose and hemicellulose. Sequential treatment with SDS and Viscozyme L dissolved TRMC lignocellulose without releasing RuBisCO, suggesting the low solubility of RuBisCO. Overall, the presence of lignocellulose in the cell wall and the low solubility of RuBisCO were identified as key factors hindering its release from the TRMCs.

Genome-wide identification and expression analysis of SpUGE gene family and heterologous expression-mediated Arabidopsis thaliana tolerance to Cd stress

The UDP-glucose 4-epimerase (UGE) enzyme plays a critical role in plant growth and responses to abiotic stressors, such as heavy metal exposure. However, UGE-mediated remodeling of cell wall polysaccharides in response to these stressors remains poorly understood in willow. This study investigated the structure, function, and expression patterns of the UGE gene family in willow, focusing on cadmium treatment to elucidate how SpUGE1 enhances Cd resistance. Six SpUGE genes were identified through whole-genome sequencing and bioinformatics analysis, and they were mapped across five chromosomes. Quantitative PCR analysis revealed that, with the exception of SpUGE3, all genes showed their highest relative expression in the leaves. Under Cd treatment, members of the SpUGE gene family displayed varying levels of responsiveness, with SpUGE1 showing a marked increase in expression over time. In transgenic Arabidopsis thaliana overexpressing SpUGE1, the cellulose, hemicellulose, lignin, and pectin content significantly increased, with cellulose levels rising by >50 % and pectin by approximately 30 %. This overexpression conferred enhanced Cd resistance by increasing cell wall thickness through elevated cell wall polysaccharides, which reduced Cd uptake. Consequently, Cd content in the cell wall, chloroplasts, and mitochondria was significantly lower than that in wild-type plants, reducing cellular damage and improving Cd resistance. Overall, this study provides valuable theoretical and experimental insights into the role of the SpUGE1 gene family in willow.

Exogenous silicon improved the cell wall stability by activating non-structural carbohydrates and structural carbohydrates metabolism in salt and drought stressed Glycyrrhiza uralensis stem

The plant cell wall is a crucial barrier against environmental stress, mainly composed of lignin and carbohydrates such as cellulose, hemicellulose, and pectin. This study explored the direct regulatory mechanism of silicon (Si) on cell wall components of Glycyrrhiza uralensis (G. uralensis) stems under salt and drought (S + D) stress and the indirect regulatory mechanism of non-structural carbohydrates on structural carbohydrates, mediated by uridine diphosphate glucose (UDPG), through joint physiological, biochemical, and transcriptomic analyses. Under S + D stress, Si increased the contents of cell wall components, altered the structure of cell wall, and directly promoted cell wall re-construction by regulating gene expression levels and enzyme activities related to cell wall biosynthesis. Meanwhile, Si facilitated the accumulation of carbohydrates by regulating enzyme activities and gene expression levels in the anabolic pathway of polysaccharides, thereby promoting UDPG conversion and indirectly providing substrates for cell wall synthesis. In conclusion, Si directly and indirectly facilitates the synthesis of cell wall components by regulating both cell wall metabolism and non-structural carbohydrates metabolism, thus reinforcing the cell wall, enhancing its stability, and improving the salt and drought tolerance of G. uralensis stems.

A peptide-receptor module links cell wall integrity sensing to pattern-triggered immunity

Plants employ cell-surface receptors to perceive non- or altered-self, including the integrity of their cell wall. Here we identify a specific ligand-receptor module responsive to cell wall damage that potentiates immunity in Arabidopsis. Disruption of cell wall integrity by inhibition of cellulose biosynthesis promotes pattern-triggered immunity transcriptionally in a manner dependent on the receptor kinase MALE DISCOVERER 1-INTERACTING RECEPTOR-LIKE KINASE 2 (MIK2). Notably, while MIK2 can perceive peptides of the large SERINE RICH ENDOGENOUS PEPTIDE family, a single member of this family, SCOOP18, is transcriptionally induced upon cell wall damage and is required for subsequent responses such as lignification and immunity potentiation. Collectively, our results identify the SCOOP18-MIK2 ligand-receptor module as an important central hub, connecting plant cell wall integrity sensing with immunity.

Characterization of Cell Wall Compositions of Sodium Azide-Induced Brittle Mutant Lines in IR64 Variety and Its Potential Application

The rice brittle culm is a cell wall composition changed mutant suitable for studying mechanical strength in rice. However, a thorough investigation of brittle culm has been limited due to the lack of diverse brittle mutants on similar genetic backgrounds in cell walls. In this study, we obtained 45 various brittle mutant lines (BMLs) from the IR64 mutant pool induced by sodium azide mutagenesis using the finger-bending method and texture profile analysis. The first scoring method was established to differentiate the levels of brittleness in rice tissues. The variation of cell wall compositions of BMLs showed that the brittleness in rice primarily correlated with cellulose content supported by high correlation coefficients (R = -0.78) and principal component analysis (PCA = 81.7%). As demonstrated using PCA, lower correlation with brittleness, hemicellulose, lignin, and silica were identified as minor contributors to the overall balance of cell wall compositions and brittleness. The analysis of hydrolysis and feeding indexes highlighted the importance of diversities of brittleness and cell wall compositions of BMLs and their potential applications in ruminant animals and making bioenergy. These results contributed to the comprehension of brittleness and mechanical strength in rice and also extended the applications of rice straw.

Integrating QTL mapping and transcriptome analysis to provide molecular insights into gynophore-pod strength in cultivated peanut (Arachis hypogaea L.)

Introduction

Gynophore-pod strength is one of important mechanical properties that affect mechanized harvesting quality in peanut. Yet its molecular regulation remains elusive.

Methods

We measured gynophore-pod strength across three environments using a recombinant inbred line (RIL) population derived from a cross between Yuanza9102 and Xuzhou68-4, followed by QTL mapping. Lines with extreme gynophore-pod strength from the RILs were selected to perform anatomical analysis and transcriptome analysis to elucidate the underlying molecular mechanisms governing gynophore-pod strength.

Results and discussion

Both genotypic factor and environments affected gynophore-pod strength significantly, and its broad sense heritability (h2 ) was estimated as 0.77. Two QTLs that were stable in at least two environments were detected. qGPS.A05-1 was mapped 4cM (about 1.09Mb) on chromosome A05, and qGPS.B02-1 was mapped 3cM (about 1.71Mb) on chromosome B02. Anatomical analysis showed higher lignin content in lines with extreme high gynophore-pod strength compared to those with extreme low gynophore-pod strength. Additionally, comparative transcriptome analysis unveiled that phenylpropanoid biosynthesis was the main pathway associated with high gynophore-pod strength. Further, we predicted VJ8B3Q and H82QG0 as the candidate genes for qGPS.A05-1 and qGPS.B02-1, respectively. The two stable QTLs and their associated markers could help modify gynophore-pod strength. Our findings may offer genetic resources for the molecular-assisted breeding of new peanut varieties with improved mechanized harvesting quality.

The rice R2R3 MYB transcription factor FOUR LIPS connects brassinosteroid signaling to lignin deposition and leaf angle

Leaf angle is an important agronomic trait for crop architecture and yield. In rice (Oryza sativa), the lamina joint is a unique structure connecting the leaf blade and sheath that determines leaf angle. Brassinosteroid (BR) signaling involving GLYCOGEN SYNTHASE KINASE-3 (GSK3)/SHAGGY-like kinases and BRASSINAZOLE-RESISTANT1 (BZR1) has a central role in regulating leaf angle in rice. In this study, we identified the atypical R2R3-MYB transcription factor FOUR LIPS (OsFLP), the rice homolog of Arabidopsis (Arabidopsis thaliana) AtFLP, as a participant in BR-regulated leaf angle formation. The spatiotemporal specificity of OsFLP expression in the lamina joint was closely associated with lignin deposition in vascular bundles and sclerenchyma cells. OsFLP mutation caused loose plant architecture with droopy flag leaves and hypersensitivity to BRs. OsBZR1 directly targeted OsFLP, and OsFLP transduced BR signals to lignin deposition in the lamina joint. Moreover, OsFLP promoted the transcription of the phenylalanine ammonia-lyase family genes OsPAL4 and OsPAL6. Intriguingly, OsFLP feedback regulated OsGSK1 transcription and OsBZR1 phosphorylation status. In addition, an Ala-to-Thr substitution within the OsFLP R3 helix-turn-helix domain, an equivalent mutation to that in Osflp-1, affected the DNA-binding ability and transcriptional activity of OsFLP. Our results reveal that OsFLP functions with OsGSK1 and OsBZR1 in BR signaling to maintain optimal leaf angle by modulating the lignin deposition in mechanical tissues of the lamina joint.

Photodegradation in terrestrial ecosystems

The first step in carbon (C) turnover, where senesced plant biomass is converted through various pathways into compounds that are released to the atmosphere or incorporated into the soil, is termed litter decomposition. This review is focused on recent advances of how solar radiation can affect this important process in terrestrial ecosystems. We explore the photochemical degradation of plant litter and its consequences for biotic decomposition and C cycling. The ubiquitous presence of lignin in plant tissues poses an important challenge for enzymatic litter decomposition due to its biological recalcitrance, creating a substantial bottleneck for decomposer organisms. The recognition that lignin is also photolabile and can be rapidly altered by natural doses of sunlight to increase access to cell wall carbohydrates and even bolster the activity of cell wall degrading enzymes highlights a novel role for lignin in modulating rates of litter decomposition. Lignin represents a key functional connector between photochemistry and biochemistry with important consequences for our understanding of how sunlight exposure may affect litter decomposition in a wide range of terrestrial ecosystems. A mechanistic understanding of how sunlight controls litter decomposition and C turnover can help inform management and other decisions related to mitigating human impact on the planet.

Aspartic proteases gene family: Identification and expression profiles during stem vascular development in tobacco

Aspartic proteases (APs) constitute a large family in plants and are widely involved in diverse biological processes, like chloroplast metabolism, biotic and abiotic stress responses, and reproductive development. In this study, we focused on overall analysis of the APs genes in tobacco. Our analysis included the phylogeny and cis-elements in the cell wall-associated promoters of these genes. To characterize the expression patterns of APs genes in stem vascular development. The tissue expression analysis showed that NtAED3-like was preferentially expressed in the differentiating xylem and phloem cells of the vascular system. Based on histochemical staining analysis showed that the NtAED3-like gene was specifically expressed in stem vascular tissue, root vascular tissue, and petiole vascular tissue. The TdT-mediated dUTP nick-end labeling (TUNEL) assay illustrated a delayed progression of programmed cell death (PCD) within the xylem of the ko-ntaed3a-like mutant, relative to the wild type. The mutant ko-ntaed3a-like exhibited a phenotype of thinning stem circumference and changed in xylem structure and lignin content. In addition, the two-dimension heteronuclear single quantum coherent nuclear magnetic resonance (2D-HSQC) analysis of three milled wood lignins (MWLs) showed that the content of β-O-4 connection in ko-ntaed3a-like decreased slightly compared with wild type. In conclusion, this study provides our understanding of the regulation of vascular tissue development by the NtAED3-like gene in tobacco and provides a better basis for determining the molecular mechanism of the aspartic protease in secondary cell wall (SCW) development.

Second-generation biorefineries: single platform for the conversion of lignocellulosic wastes to environmentally important biofuels

The continuously increasing demands for various fossil fuels to achieve the day-to-day needs of the human population are growing and causing adverse effects on the environment and leading to the depletion of their natural resources. To overcome such drastic problems and minimize the production of greenhouse gases, lignocellulose biomass, which is an abundant and bio-renewable source present on earth with excellent properties and composition, has been used for decades to develop biofuels that can easily take over the place of conventional fuels. Lignocellulose biomass comprises polymeric sugars, i.e., cellulose and hemicellulose, and aromatic polymer, lignin, which are responsible for producing various bio-based products. However, utilizing lignocellulosic wastes for such purposes is needed but their recalcitrant structure makes it difficult to achieve their full usage. For this, several pretreatment approaches are developed to loosen the complexity between sugars and lignin. In some way, few of the conventional pretreatment methods are expensive, non-eco-friendly, and produce undesired by-products, causing a lower yield and reusability of enzymes used in the reaction. Utilizing novel pretreatment strategies that are cost-effective, help in increasing the yield of products, and are environment-friendly is required. Thus, incorporating nanoparticles and nanomaterials in the development of pretreatment and other strategies for the production of bio-based products is currently thriving. This review is designed in such a way that the readers can easily get brief knowledge about the production of important biofuels developed within second-generation biorefineries using lignocellulosic biomass. It also summarizes the importance of nanotechnology in different steps of biofuel development.

Advancing plant cell wall modelling: Atomistic insights into cellulose, disordered cellulose, and hemicelluloses - A review

The complexity of plant cell walls on different hierarchical levels still impedes the detailed understanding of biosynthetic pathways, interferes with processing in industry and finally limits applicability of cellulose materials. While there exist many challenges to readily accessing these hierarchies at (sub-) angström resolution, the development of advanced computational methods has the potential to unravel important questions in this field. Here, we summarize the contributions of molecular dynamics simulations in advancing the understanding of the physico-chemical properties of natural fibres. We aim to present a comprehensive view of the advancements and insights gained from molecular dynamics simulations in the field of carbohydrate polymers research. The review holds immense value as a vital reference for researchers seeking to undertake atomistic simulations of plant cell wall constituents. Its significance extends beyond the realm of molecular modeling and chemistry, as it offers a pathway to develop a more profound comprehension of plant cell wall chemistry, interactions, and behavior. By delving into these fundamental aspects, the review provides invaluable insights into future perspectives for exploration. Researchers within the molecular modeling and carbohydrates community can greatly benefit from this resource, enabling them to make significant strides in unraveling the intricacies of plant cell wall dynamics.

Transcriptomic Remodeling Occurs During Cambium Activation and Xylem Cell Development in Taxodium ascendens

Taxodium ascendens has been extensively cultivated in the wetlands of the Yangtze River in south China and has significantly contributed to ecology and timber production. Until now, research on T. ascendens genomics has yet to be conducted due to its large and complex genome, which hinders the development of T. ascendens genomic resources. Combined with the microstructural changes during cambium cell differentiation across various growth periods, we investigate the transcriptome expression and regulatory mechanisms governing cambium activity in T. ascendens. Using RNA sequencing (RNA-Seq) technology, we identified the genes involved in the cambium development of cells at three stages (dormancy, reactivation, and activity). These genes encode the regulatory and control factors associated with the cambial activity, cell division, cell expansion, and biosynthesis of cell wall components. Blast comparison revealed that three genes (TR_DN69961_c0_g1, TRINITY_DN17100_c1_g1, TRINITY_DN111727_c0_g1) from the MYB and NAC families might regulate transcription during lignin formation in wood thickening. These results illustrate the dynamic changes in the transcriptional network during vascular cambium development. Additionally, they shed light on the genetic regulation mechanism of secondary growth in T. ascendens and guide further elucidation of the candidate genes involved in regulating cambium differentiation and wood formation.

Physiological and biochemical responses in a cadmium accumulator of traditional Chinese medicine Ligusticum sinense cv. Chuanxiong under cadmium condition

Ligusticum sinense cv. Chuanxiong (L. Chuanxiong), one of the widely used traditional Chinese medicines (TCM), is currently facing the problem of excessive cadmium (Cd) content. This problem has significantly affected the quality and safety of L. Chuanxiong and become a vital factor restricting its clinical application and international trade development. Currently, to solve the problem of excessive Cd, it is essential to research the response mechanisms of L. Chuanxiong to Cd stress. However, there are few reports on its physiological and biochemical responses under Cd stress. In this study, we conducted the hydroponic experiment under 25 μM Cd stress, based on the Cd content of the genuine producing areas soil. The results showed that 25 μM Cd stress not only had no significant inhibitory effect on the growth of L. Chuanxiong seedlings but also significantly increased the chlorophyll a content (11.79%) and root activity (51.82%) compared with that of the control, which might be a hormesis effect. Further results showed that the absorption and assimilation of NH4+ increased in seedlings under 25 μM Cd stress, which was associated with high photosynthetic pigments. Here, we initially hypothesized and confirmed that Cd exceedance in the root system of L. Chuanxiong was due to the thickening of the root cell wall, changes in the content of the cell wall components, and chelation of Cd by GSH. There was an increase in cell wall thickness (57.64 %) and a significant increase in cellulose (25.48%) content of roots under 25 μM Cd stress. In addition, L. Chuanxiong reduced oxidative stress caused by 25 μM Cd stress mainly through the GSH/GSSG cycle. Among them, GSH-Px (48.26%) and GR (42.64%) activities were significantly increased, thereby maintaining a high GSH/GSSG ratio. This study preliminarily reveals the response of L. Chuanxiong to Cd stress and the mechanism of Cd enrichment. It provides a theoretical basis for solving the problem of Cd excessive in L. Chuanxiong.

The structure and interaction of polymers affects secondary cell wall banding patterns in Arabidopsis

Xylem tracheary elements (TEs) synthesize patterned secondary cell walls (SCWs) to reinforce against the negative pressure of water transport. VASCULAR-RELATED NAC-DOMAIN 7 (VND7) induces differentiation, accompanied by cellulose, xylan, and lignin deposition into banded domains. To investigate the effect of polymer biosynthesis mutations on SCW patterning, we developed a method to induce tracheary element transdifferentiation of isolated protoplasts, by transient transformation with VND7. Our data showed that proper xylan elongation is necessary for distinct cellulose bands, cellulose-xylan interactions are essential for coincident polymer patterns, and cellulose deposition is needed to override the intracellular organization that yields unique xylan patterns. These data indicate that a properly assembled cell wall network acts as a scaffold to direct polymer deposition into distinctly banded domains. We describe the transdifferentiation of protoplasts into TEs, providing an avenue to study patterned SCW biosynthesis in a tissue-free environment and in various mutant backgrounds.

Hydrogen isotope fractionation in plants with C3, C4, and CAM CO2 fixation

Measurements of stable isotope ratios in organic compounds are widely used tools for plant ecophysiological studies. However, the complexity of the processes involved in shaping hydrogen isotope values (δ2H) in plant carbohydrates has limited its broader application. To investigate the underlying biochemical processes responsible for 2H fractionation among water, sugars, and cellulose in leaves, we studied the three main CO2 fixation pathways (C3, C4, and CAM) and their response to changes in temperature and vapor pressure deficit (VPD). We show significant differences in autotrophic 2H fractionation (εA) from water to sugar among the pathways and their response to changes in air temperature and VPD. The strong 2H depleting εA in C3 plants is likely driven by the photosynthetic H+ production within the thylakoids, a reaction that is spatially separated in C4 and strongly reduced in CAM plants, leading to the absence of 2H depletion in the latter two types. By contrast, we found that the heterotrophic 2H-fractionation (εH) from sugar to cellulose was very similar among the three pathways and is likely driven by the plant's metabolism, rather than by isotopic exchange with leaf water. Our study offers new insights into the biochemical drivers of 2H fractionation in plant carbohydrates.

Cortical parenchyma wall width regulates root metabolic cost and maize performance under suboptimal water availability

We describe how increased root cortical parenchyma wall width (CPW) can improve tolerance to drought stress in maize by reducing the metabolic costs of soil exploration. Significant variation (1.0-5.0 µm) for CPW was observed in maize germplasm. The functional-structural model RootSlice predicts that increasing CPW from 2 µm to 4 µm is associated with a ~15% reduction in root cortical cytoplasmic volume, respiration rate, and nitrogen content. Analysis of genotypes with contrasting CPW grown with and without water stress in the field confirms that increased CPW is correlated with an ~32-42% decrease in root respiration. Under water stress in the field, increased CPW is correlated with 125% increased stomatal conductance, 325% increased leaf CO2 assimilation rate, 73-78% increased shoot biomass, and 92-108% increased yield. CPW was correlated with leaf mesophyll midrib parenchyma wall width, indicating pleiotropy. Genome-wide association study analysis identified candidate genes underlying CPW. OpenSimRoot modeling predicts that a reduction in root respiration due to increased CPW would also benefit maize growth under suboptimal nitrogen, which requires empirical testing. We propose CPW as a new phene that has utility under edaphic stress meriting further investigation.

Structural characterization and Bacteroides proliferation promotion activity of a novel homogeneous arabinoglucuronoxylan from Commelina communis L

Commelina communis L., a functional food and herbal plant in Asia, has been used against obesity, diabetes, and infections for centuries. A growing body of studies has demonstrated that indigestible polysaccharides are significant in obesity management. However, the structures and bioactivities of homogeneous polysaccharides from C. communis remain unclear. This study presented the structural characterization, simulated digestion, and human gut Bacteroides proliferation promotion activity of a novel homogeneous polysaccharide (CCB-3) from C. communis. The results showed that CCB-3 was an arabinoglucuronoxylan, primarily composed of arabinose, galactose, xylose, glucuronic acid (GlcA), and 4-O-methyl GlcA with a molecular weight (Mw) of 58.8 kDa. Following a 6-hour exposure to simulated gastrointestinal fluid, the Mw of CCB-3 remained unchanged, revealing that CCB-3 was an indigestible polysaccharide. Notably, CCB-3 could promote the proliferation of B. thetaiotaomicron, B. ovatus, and B. cellulosilyticus and produce short-chain fatty acids (SCFAs) and 1,2-propanediol. These findings might shed light on the discovery of polysaccharide-based leading compounds from C. communis against obesity.

A sucrose ferulate cycle linchpin for ferulyolation of arabinoxylans in plant commelinids

A transformation in plant cell wall evolution marked the emergence of grasses, grains and related species that now cover much of the globe. Their tough, less digestible cell walls arose from a new pattern of cross-linking between arabinoxylan polymers with distinctive ferulic acid residues. Despite extensive study, the biochemical mechanism of ferulic acid incorporation into cell walls remains unknown. Here we show that ferulic acid is transferred to arabinoxylans via an unexpected sucrose derivative, 3,6-O-diferuloyl sucrose (2-feruloyl-O-α-D-glucopyranosyl-(1'→2)-3,6-O-feruloyl-β-D-fructofuranoside), formed by a sucrose ferulate cycle. Sucrose gains ferulate units through sequential transfers from feruloyl-CoA, initially at the O-3 position of sucrose catalysed by a family of BAHD-type sucrose ferulic acid transferases (SFT1 to SFT4 in maize), then at the O-6 position by a feruloyl sucrose feruloyl transferase (FSFT), which creates 3,6-O-diferuloyl sucrose. An FSFT-deficient mutant of maize, disorganized wall 1 (dow1), sharply decreases cell wall arabinoxylan ferulic acid content, causes accumulation of 3-O-feruloyl sucrose (α-D-glucopyranosyl-(1'→2)-3-O-feruloyl-β-D-fructofuranoside) and leads to the abortion of embryos with defective cell walls. In vivo, isotope-labelled ferulic acid residues are transferred from 3,6-O-diferuloyl sucrose onto cell wall arabinoxylans. This previously unrecognized sucrose ferulate cycle resolves a long-standing mystery surrounding the evolution of the distinctive cell wall characteristics of cereal grains, biofuel crops and related commelinid species; identifies an unexpected role for sucrose as a ferulate group carrier in cell wall biosynthesis; and reveals a new paradigm for modifying cell wall polymers through ferulic acid incorporation.

Unraveling interspecies cross-feeding during anaerobic lignin degradation for bioenergy applications

Lignin, a major component of plant biomass, remains underutilized for renewable biofuels due to its complex and heterogeneous structure. Although investigations into depolymerizing lignin using fungi are well-established, studies of microbial pathways that enable anaerobic lignin breakdown linked with methanogenesis are limited. Through an enrichment cultivation approach with inoculation of freshwater sediment, we enriched a microbial community capable of producing methane during anaerobic lignin degradation. We reconstructed the near-complete population genomes of key lignin degraders and methanogens using metagenome-assembled genomes finally selected in this study (MAGs; 92 bacterial and 4 archaeal MAGs affiliated into 45 and 2 taxonomic groups, respectively). This study provides genetic evidence of microbial interdependence in conversion of lignin to methane in a syntrophic community. Metagenomic analysis revealed metabolic linkages, with lignin-hydrolyzing and/or fermentative bacteria such as the genera Alkalibaculum and Propionispora transforming lignin breakdown products into compounds such as acetate to feed methanogens (two archaeal MAGs classified into the genus Methanosarcina or UBA6 of the family Methanomassiliicoccaceae). Understanding the synergistic relationships between microbes that convert lignin could inform strategies for producing renewable bioenergy and treating aromatic-contaminated environments through anaerobic biodegradation processes. Overall, this study offers fundamental insights into complex community-level anaerobic lignin metabolism, highlighting hitherto unknown players, interactions, and pathways in this biotechnologically valuable process.

Morphological diversity of the velamen radicum in the genus Anthurium (Araceae)

Epiphytes develop anatomical features to improve efficiency of the uptake of water and nutrients, such as absorptive foliar scales or a velamen radicum. Despite substantial studies on the occurrence, morphology, development and phylogeny of the velamen, most of the available literature is focused on Orchidaceae, making current knowledge on velamen clearly biased. A recent publication firmly established that velamina are common in Anthurium species. Thus, this study provides further insights by describing velamen morphological characteristics of Anthurium species and classifying them into different velamen types. Furthermore, we investigate if the different velamen morphological traits are clade-specific and phylogenetically conserved within the genus. Using SEM, we performed a morphological study on 89 Anthurium species, describing six micromorphological traits of velamen and exodermis, following traits used to classify Orchidaceae velamen by Porembski & Barthlott (1988). We distinguished nine velamen types, including two that are unique to Anthurium and not similar to any type found in Orchidaceae. Comparing velamen morphology within the phylogenetic tree of Anthurium revealed clear phylogenetic signals. This study provides detailed morphological descriptions among 89 species of Anthurium from the Araceae, and substantially broadens our knowledge of this tissue. However, velamen function has been even less studied, with hardly anything known about functional significance of having secondary cell wall thickening and perforations on velamen cell walls. Therefore, a logical next step would be to connect these anatomical features to their functions.

Full-length agave transcriptome reveals candidate glycosyltransferase genes involved in hemicellulose biosynthesis

Agave species are typical crassulacean acid metabolism (CAM) plants commonly cultivated to produce beverages, fibers, and medicines. To date, few studies have examined hemicellulose biosynthesis in Agave H11648, which is the primary cultivar used for fiber production. We conducted PacBio sequencing to obtain full-length transcriptome of five agave tissues: leaves, shoots, roots, flowers, and fruits. A total of 41,807 genes were generated, with a mean length of 2394 bp and an annotation rate of 97.12 % using public databases. We identified 42 glycosyltransferase genes related to hemicellulose biosynthesis, including mixed-linkage glucan (1), glucomannan (5), xyloglucan (16), and xylan (20). Their expression patterns were examined during leaf development and fungal infection, together with hemicellulose content. The results revealed four candidate glycosyltransferase genes involved in xyloglucan and xylan biosynthesis, including glucan synthase (CSLC), xylosyl transferase (XXT), xylan glucuronyltransferase (GUX), and xylan α-1,3-arabinosyltransferase (XAT). These genes can be potential targets for manipulating xyloglucan and xylan traits in agaves, and can also be used as candidate enzymatic tools for enzyme engineering. We have provided the first full-length transcriptome of agave, which will be a useful resource for gene identification and characterization in agave species. We also elucidated the hemicellulose biosynthesis machinery, which will benefit future studies on hemicellulose traits in agave.

Genome-wide analysis of cellulose synthase (CesA) and cellulose synthase-like (Csl) proteins in Cannabis sativa L

The cellulose and hemicellulose components of plant cell walls are synthesized by the cellulose synthase (CESA) and cellulose synthase-like (CSL) gene families and regulated in response to growth, development, and environmental stimuli. In this study, a total of 29 CESA/CSL family members were identified in Cannabis sativa and were grouped into seven subfamilies (CESA, CSLA, CSLB, CSLC, CSLD, CSLE and CSLG) according to phylogenetic relationships. The CESA/CESA proteins of C. sativa were closely related phylogenetically to the members of the subfamily of other species. The CESA/CSL subfamily members of C. sativa have unique gene structures. In addition, the expressions of four CESA and 10 CsCSL genes in flower, leaf, root, and stem organs of cannabis were detected using RT-qPCR. The results showed that CESA and CSL genes are expressed at varying levels in several organs. This detailed knowledge of the structural, evolutionary, and functional properties of cannabis CESA/CSL genes will provide a basis for designing advanced experiments for genetic manipulation of cell wall biogenesis to improve bast fibers and biofuel production.