Biology subjects

Fernie, A. R.

Publications and source records attributed to Fernie, A. R..

At least 19 recordsLinked to original sources

bioRxiv2026

Phosphate Deficiency Attenuates SnRK1 Activity to Modulate the Phosphate Starvation Response in Arabidopsis thaliana

Phosphate starvation requires extensive metabolic and developmental reprogramming, yet how this response is coordinated with cellular energy status remains poorly understood. The energy sensor SnRK1 regulates plant growth and metabolism in response to energy availability, but its contribution to the regulation and deployment of the phosphate starvation response (PSR) remains unclear. To address this, we combined physiological, proteomic and metabolomic analyses with genetic manipulation of SnRK1 activity in Arabidopsis thaliana to determine how SnRK1 influences plant responses to phosphate starvation. We found that phosphate starvation reduced SnRK1 activity and activation-loop (T-loop) phosphorylation, while altering SnRK1 activity changed the timing and magnitude of physiological, proteomic and metabolic responses to phosphate limitation. Reduced SnRK1 activity was generally associated with earlier and stronger deployment of PSR-associated responses, whereas increased SnRK1 activity delayed or attenuated several components of the response. These effects were tissue- and time-dependent and were accompanied by distinct metabolic configurations. Our findings support a model in which SnRK1 acts as a quantitative metabolic brake on the PSR, coordinating the metabolic investment required for phosphate-starvation adaptation with growth.

plant biology↗

bioRxiv2026

Sugarcane's drought memory legacy: how past stress shapes future resilience

Plants frequently experience recurrent drought events separated by periods of rehydration. Although drought imposes strong constraints on plant physiology, prior exposure may alter subsequent stress responsiveness through memory-based mechanisms. Here, we investigated whether recurrent drought at distinct developmental stages establishes stress memory in sugarcane and whether this response persists across vegetative propagation. Two genotypes contrasting in drought tolerance and productivity (IACCTC07-8008 and IACSP95-5000, respectively) were grown under greenhouse conditions and subjected to three drought cycles imposed either at tillering or maturation stage. Gas exchange, photochemical performance, leaf water status, primary metabolite profile, and growth traits were assessed across cycles, and vegetative propagules were subsequently evaluated under renewed drought. The first drought cycle imposed strong limitations on carbon assimilation and photochemistry in both genotypes and developmental stages. However, subsequent cycles resulted in attenuated reductions in A and g, improved intrinsic water use efficiency, and partial stabilization of PSII performance, indicating a modified stress-response trajectory. Young plants displayed earlier improvements (from the second cycle), whereas in mature plants this shift was evident mainly during the third cycle. Recurrent drought promoted sustained reorganization of amino acid, carbohydrate, organic acid and polyol metabolism alongside increased root biomass and higher relative water content during later cycles. Importantly, propagules derived from drought-conditioned plants exhibited faster recovery of photosynthetic performance and reduced cumulative physiological impairment under renewed drought, despite showing similar stress sensitivity at maximum water deficit. This persistence of enhanced recovery capacity across vegetative propagation indicates that drought-induced memory was maintained beyond the initially stressed plants. Together, our findings demonstrate that recurrent drought establishes a metabolically imprinted state in clonal sugarcane, integrating physiological adjustment, metabolic reprogramming, and whole-plant acclimation. These results highlight the potential of stress memory as a mechanism supporting resilience in perennial crops exposed to increasingly recurrent drought events.

plant biology↗

bioRxiv2026

High-resolution mapping and epistatic QTL of tomato fruit metabolism

Tomato wild relatives are valuable genetic resources for trait discovery and understanding the genetic basis of fruit metabolism and quality. Yet, only a fraction of naturally occurring variation has been exploited. Here, we performed metabolite profiling of two large Backcross Inbred Line populations derived from crosses between the wild species S. pennellii accession LA5240 (Lost) and cultivated genotypes LEA (determinate) and TOP (indeterminate), including [~]1400 and [~]500 lines, respectively. High-resolution mapping identified enormous metabolic quantitative trait loci (mQTL), including a new locus on chromosome 12 associated with fruit sucrose accumulation that harbours INVERTASE INHIBITOR 3 (SlINVINH3) protein. Comparative analysis indicated that SlINVINH3 is highly expressed in wild S. pennellii 0716 fruit, whereas a six-amino acid deletion is present in its coding sequence compared with S.pennellii LA5240 and S. lycopersicum. We further demonstrated that in SlINVINH3-overexpressing tomato plants, only the S. pennellii LA5240 allele led to increased sucrose, accompanied by reduced fructose and glucose levels. Furthermore, the large population size enabled us to assess the epistatic interactions, with approximately 40% of interactions being more-than-additive and 60% less-than-additive. Our results demonstrate the power of permanent exotic populations to reveal hidden metabolic diversity and provide an approach for improving fruit quality through targeted breeding and metabolic engineering.

plant biology↗

bioRxiv2026

Multi-tissue metabolic GWAS and drought-responsive multi-omics reveal the genetic basis of the quinoa metabolome

Quinoa (Chenopodium quinoa) is a nutrient-rich pseudocereal with diverse specialized metabolites, yet the genetic basis of this metabolic diversity is poorly understood. Here we integrate whole-genome sequencing and multi-tissue metabolic profiling of 603 quinoa accessions. We detected 4,688 metabolic features and identified over 1,000 metabolites in seeds, leaves, and roots. Using multi-tissue genome-wide association, we mapped the genetic architecture of quinoa metabolome by identifying 584 quantitative trait loci (QTL) and prioritized 219 candidate genes across 58 major QTL governing saponin, betalain, and flavonoid biosynthesis. Moreover, we constructed a drought-responsive multi-omics regulatory network and uncovered additional key genes involved in quinoa stress signalling and metabolic pathways. Finally, we cloned and functional validated the roles of CYP76AD1 in betalamate accumulation, UGT91C1 in flavonoid glycosylation, and CYP72A154 and soyasapogenol B glucuronide galactosyltransferase (SGT) in saponin biosynthesis. This multi-omic framework provides a high-resolution map of the quinoa metabolome and a foundation for breeding nutrient-rich and stress-resilient quinoa cultivars.

plant biology↗

bioRxiv2026

Enhanced phenylalanine biosynthesis amplifies light-stress-driven phenylpropanoid production in Arabidopsis

Phenylpropanoids are L-phenylalanine (Phe)-derived specialized metabolites with crucial roles in plant stress adaptation. Among various abiotic stresses, high-light (HL) is a major threat that leads to oxidative damage and therefore upregulates the biosynthesis of antioxidant phenylpropanoids, including anthocyanins, in plants. Phenylpropanoid production is initiated by the conversion of Phe by phenylalanine ammonia-lyase (PAL) enzyme, which acts as the key gatekeeper controlling carbon influx from the Phe pool into phenylpropanoid biosynthesis. Despite the importance of Phe as a precursor for phenylpropanoid production, we have limited knowledge of how Phe precursor availability influences downstream pathways, particularly in the context of stress adaptation. To tackle this question, Arabidopsis thaliana wild-type and production of anthocyanin pigment 1 dominant (pap1D) mutant, a line genetically enhanced for anthocyanin production, were subjected to HL treatment, followed by proteome and metabolome analyses. Our multi-omics data indicated that Phe biosynthesis was insufficiently responsive to meet the increased precursor demand from the downstream phenylpropanoid pathway, likely making Phe availability a rate-limiting factor for HL-induced phenylpropanoid production. We then generated pap1D double mutants with Phe-overaccumulating mutants. Untargeted metabolomics revealed that enhanced Phe availability had little impact on phenylpropanoid accumulation under standard growth conditions but additively promoted the accumulation of specific phenylpropanoid intermediates and anthocyanin species under HL stress. This metabolic difference between light treatment and genotypes was correlated with the activation of PAL enzymatic activity. This study demonstrates that enhanced Phe biosynthesis amplifies HL-induced phenylpropanoid biosynthesis.

plant biology↗

bioRxiv2026

Multi-omic analysis reveals the genetic architecture of water-deficit stress in Phaseolus vulgaris

Common bean (Phaseolus vulgaris L.) is one of the most important grain legumes for direct human consumption. Currently, 60% of its production is estimated to be at risk due to drought. However, the genetic basis of common beans drought resistance is poorly understood. To this end, we assessed the genetic architecture of drought-responsive changes in a whole genome-sequenced population of 218 common bean accessions. Using multi-omics-based trait evaluation, including lipidomics, photosynthetic and agronomic traits, followed by multi-omics genome-wide association studies (moGWAS), yielded in the detection of a myriad of moQTL for photosynthesis and yield, as well as the levels of various lipids. QTL associated with glycolipids, which are integral to photosynthesis, since they constitute the major membrane components of chloroplasts, were identified. In addition, we molecularly validated several lipid-related candidate genes via P. vulgaris hairy root transformation as well as transient expression in tobacco. In particular, a lipoxygenase and an allene oxide synthase were identified as explaining the variation in triacylglycerol by oxylipin production. These data provide a blueprint for multi-omics-assisted improvement of crop water stress resilience.

plant biology↗

bioRxiv2025

Identification of dehydrin protein complexes in vivo reveals functional interactions of LEA5 with OSCA3, PIP2B and PLDα1 in plant water-deficit stress

Climate change and especially the concomitant increasing frequency of drought and salinity induced water-deficit stresses, is a major limiting factor of plant growth and crop productivity worldwide. Understanding the adaptive responses of plants to water-deficit stress has therefore become a central challenge in plant biotechnology. Considerable evidence indicates that late embryogenesis abundant (LEA) proteins contribute to water-deficit stress tolerance and the stabilization of metabolic enzymes, yet the molecular basis of these responses remains unknown. To date, limited direct evidence for specific in vivo interactions between LEA proteins and their molecular targets has been reported. Here, we identify for the first time the native in vivo interactome of three Arabidopsis dehydrin LEA proteins - LEA4 (COR47), LEA5 (ERD10), and LEA10 (ERD14) - expressed under their own promoters and in response to salt stress. Our results show that LEA4, LEA5, and LEA10 dehydrins interact with each other, and share six common candidate protein interactors, suggesting that they form a core protein complex in salt stress conditions. We confirmed the direct protein-protein interaction between LEA5 with LEA4, LEA10, OSCA3, PLD1, PIP2B and OST1/AHA1 at the biochemical level. Phenotypic analyses of loss-of-function genetic mutants revealed that the interactions of LEA5 with OSCA3 and PIP2B promote seed germination under salt stress. LEA5 interaction with PLD1 promotes root growth under salt stress, while its interaction with PIP2B enhances root growth under osmotic stress, indicating distinct stress-specific functional roles for each interaction. In conclusion, this study identifies the native in vivo interactions of three dehydrin proteins, while uncovering the functional relevance of these interactions under salt and osmotic stress conditions, thus providing novel mechanistic insights into the role of LEA proteins in water-deficit stress adaptation.

plant biology↗

bioRxiv2025

Cell-specific regulation of TCA cycle and cell division related genes at roots following aluminium exposure

Aluminium (Al) toxicity is a critical factor that limits plant growth in acidic soils (pH < 5.5) worldwide. Intracellular Al can bind to various biomolecules and significantly affect gene expression, protein biosynthesis, and cell membrane integrity, ultimately inhibiting nutrients and water uptake. This leads to the arrest of root cell divisions and growth. Organic acids (OAs) produced in mitochondrial-related reactions are strongly linked to Al tolerance, as they bind to Al and neutralize its toxic effects. Recently, the manipulation of root cell divisions through DNA checkpoints has been proposed as an alternative to increase Al tolerance. In this context, molecular interactions between these two mechanisms could potentially enhance plant tolerance to Al toxicity. Here, we investigate this topic using a translatome approach, which enables specific analyses of root cell types (namely, whole root, the quiescent centre region, and the cortical region). This approach offers a promising tool for unravelling how mitochondrial metabolism, particularly the TCA cycle, and the DNA damage response (DDR) pathway are interconnected in Al-mitigation process. Our results revealed that the TCA cycle is induced in differentiated cells, with no significant alteration in meristematic cells, while genes associated with cell cycle progression and DNA checkpoints show differential expression across the distinct cell types. Collectively, our data contribute to understand cell-specific internal detoxification mechanism related to Al tolerance in plants. This knowledge could assist crop breeding by providing a better understanding of the cellular physiological responses to Al toxicity.

plant biology↗

bioRxiv2025

Impaired lysine biosynthesis drives constitutive energy stress priming and darkness stress responses

Plant survival under prolonged darkness relies on dynamic metabolic reprogramming that redirects limited carbon resources toward mitochondrial respiration and nutrient remobilization. Although amino acids function as alternative respiratory substrates during carbon starvation, how their biosynthesis integrates into this metabolic adjustment remains poorly understood. Here, we investigated the role of lysine biosynthesis using the dapat mutant, which exhibits photoperiod-dependent hypersensitivity to extended darkness. Under short-day conditions, dapat plants exhibited accelerated senescence. reduced photosystem II maximum quantum efficiency, pronounced protein degradation, and accumulation of amino acid, ultimately failing to recover after nine days of darkness. By contrast, survival was largely restored under neutral-day conditions, indicating that restricted carbohydrate reserves during short-day growth exacerbate the mutant phenotype. Remarkably, transcript profiling further revealed that reduced DAPAT activity constitutively activates a catabolic program, including genes associated with amino acid degradation, alternative respiratory pathways, senescence, and autophagy, even under non-stress conditions. Together, these findings identify DAPAT-mediated lysine biosynthesis as a central metabolic hub linking carbon availability to energy and stress signaling. Disruption of this pathway compromises metabolic flexibility and limits the capacity to withstand prolonged carbon starvation. Our results provide new insights into how primary metabolism coordinates stress responses to extended darkness and highlight amino acid biosynthesis as an important component of plant resilience under energy-deprived darkness conditions.

plant biology↗

bioRxiv2025

Exploring the diversity of the CO2-concentrating mechanism (CCM) in different C4 subtypes

C4 plants have traditionally been classified into NADP-malic enzyme (NADP-ME), NAD-malic enzyme (NAD-ME) and PEP carboxykinase (PEPCK) subtypes based on the predominant C4-acid decarboxylating enzyme. To investigate the relative contributions of malate and aspartate to C4-pathway fluxes in each subtype, we performed 13CO2 pulse and pulse-chase labelling experiments on four C4 grass species: Zea mays and Setaria viridis (NADP-ME), Panicum miliaceum (NAD-ME) and Megathyrsus maximus (PEPCK). Only a proportion (8-50%) of the total malate pool in the leaves is photosynthetically active whereas essentially all of the aspartate pool is photosynthetically active. Estimates of metabolic fluxes indicate that approximately two thirds of the C4 pathway flux is via malate in Z. mays and the remaining third via aspartate, while in S. viridis 50% of the flux is via malate and 50% via aspartate. In P. miliaceum and M. maximus, 91% and 85% of the flux is via aspartate and the remaining 5% and 15% via malate, respectively. The results reveal greater complexity of C4 pathway fluxes than is usually represented in textbook diagrams, and demonstrate the feasibility of using non-radioactive 13CO2 in pulse-chase labelling experiments to study C4 photosynthesis and to detect C4 pathway fluxes in C3 plants engineered to perform C4 photosynthesis. Highlight StatementPhotosynthetic fluxes in C4 species are more complex than most textbook models show, with malate and aspartate both carrying C4 cycle fluxes in all three subtypes (NADP-ME, NAD-ME and PEPCK).

plant biology↗

bioRxiv2025

Metabolite-based genome-wide association studies enable the dissection of the genetic bases of bioactive compounds in Chickpea seeds

Chickpea, is the second most consumed food legume, and significantly contributes to the human diet. Chickpea seeds are rich in a wide range of metabolites including bioactive specialized metabolites influencing nutritional qualities and human health. However, the genetic basis underlying the metabolite-based nutrient quality in chickpea remains poorly understood. Here we dissected the genetic architecture of seed metabolic diversity and explored how domestication shaped the chickpea metabolome. Through UPLC-MS we quantify over 3400 metabolic features in 509 chickpea seeds accessions from three independent multi-location field trials. The metabolite genome-wide association study (mGWAS) detected around 130,000 leading SNPs corresponding to 1890 metabolites across different environments. We further found and functionally validated a gene cluster of three CabHLH transcription factors that regulate soyasaponin biosynthesis in chickpea seeds. Our results reveal new insights on the effects of domestication process on chickpea metabolome. and provide valuable resources for the genetic improvement of the bioactive compounds in chickpea seeds.

plant biology↗

bioRxiv2025

Metabolite profiling reveals slow and uncoordinated adjustment of C4 photosynthesis to sudden changes in irradiance

In the field plants continually experience changes in irradiance. Research in C3 species has revealed that whilst the Carbon-Benson cycle (CBC) adjusts rapidly to changing irradiance, there is substantial loss of photosynthesis efficiency due to slow adjustment of energy dissipation and stomatal conductance. Less is known about the impact of changing irradiance on photosynthetic efficiency in C4 species. We have subjected maize to a sudden increase or decrease of irradiance in the non-saturating range and performed time-resolved measurement of photosynthetic rate and profiling of metabolites from the CBC, the CO2-concentrating mechanism (CCM), photorespiration and end-product biosynthesis. After a decrease in irradiance, photosynthesis is transiently buffered by energy delivered by transformations in the large pools of metabolites that are involved in intercellular shuttles. During the subsequent decline in photosynthesis, metabolism transitions to a sub-optimal state for photosynthesis in low irradiance, from which it takes several minutes to recover. One reason is that the large pools of metabolites that facilitate intercellular shuttles run down too far and it takes time to build them up again. After an increase in irradiance, there is a long delay until a new steady rate of photosynthesis is achieved. The delay is partly due to regulation of enzymes in the CBC and CCM, but also to the need to build up large pools of metabolites to drive intercellular shuttles. In addition, in both transitions, transient imbalances between the pumping and utilization of CO2 lead to increased back-leakage of CO2 or to photorespiration, further decreasing photosynthetic efficiency.

plant biology↗

bioRxiv2025

A biGWAS strategy reveals the genetic architecture of the interaction between wheat and Blumeria graminis f. sp. tritici

BackgroundWheat powdery mildew, caused by Blumeria graminis f. sp. tritici (Bgt) is one of the most significant diseases affecting global wheat production. Breeding for disease resistance (R) genes against Bgt often follows a boom-bust cycles, where cultivars with effective resistance are widely deployed on an expanding area until virulence emerges in the avirulence (Avr) pathogen population. While extensive effort has been devoted to identifying and cloning R genes, Avr genes remain relatively understudied, limiting our understanding of R-Avr interactions. That said, understanding R-Avr interactions is crucial for developing durable resistance strategies. ResultsWe conducted whole genome sequencing on 245 Bgt isolates collected from major wheat-growing regions in China, identifying 120 genetically unique isolates. Each of these unique isolates was inoculated and phenotyped on a diverse panel of wheat germplasm. Through Genome-Wide Association Analysis (GWAS) in both Bgt and wheat, we identified 65 Avr loci and 251 R loci overlapping with nine and eight cloned Avr or R genes, respectively. On average, each isolate carries eight Avr alleles, ranging from one to 17. Little geographical preference for Avr alleles or their combinations was observed, suggesting that disease resistance breeding against this pathogen should be coordinated at the national level. The level of resistance level is positively correlated with the number of R alleles carried by a wheat line, and the average frequency of an R allele is 2% among the wheat panel, indicating the potential for accumulating R alleles in breeding programs. We mapped 212 R-Avr interactions based on joint GWAS using both plant and pathogen genomes and cross-species epistasis, where a network of interactions was formed between wheat and Bgt. These interactions indicate that pyramiding five major R loci has the potential to confer resistance to half of the Avr loci. As a proof of concept, we successfully verified two previously described R-Avr pairs using tobacco experiments. Furthermore, we provided molecular validation evidence for three new Avr genes, including Bgt-50651, BgtE-5826 and BgtE-20009, and two new R-Avr interactions. Among them, Bgt-50651 interacts with Pm1a, Pm2a, and another unidentified R gene located near the Pm6/Pm52 interval. ConclusionOur study provides a framework for understanding the genetic interaction between plants and pathogens. The discovery of novel R/Avr loci and their complex interaction network underscores the need to integrate crop and pathogen genetic background, particularly the R/Avr allele composition, into breeding program design. These findings have significant implications for developing durable resistance strategies in wheat alongside offering valuable insights into the broader dynamics of plant-pathogen interactions.

genomics↗

bioRxiv2025

Activation of alternative oxidase ensures carbon supply for ethylene and carotenoid biosynthesis during tomato fruit ripening

Tomato (Solanum lycopersicum) is a climacteric fruit displaying a peak of respiration at the onset of ripening accompanied by increased synthesis of ethylene and carotenoid pigments. Chromoplast and mitochondrial respiration participate at different stages of fruit ripening, but their in vivo regulation and function remains unclear. We determined the in vivo activities of the mitochondrial alternative oxidase (AOX) and cytochrome oxidase pathways and quantified the levels of respiratory- and ripening-related gene transcripts, primary metabolites and carotenoids in ripening tomato fruits with or without a functional chromorespiration. Furthermore, we carried out physiological, molecular and metabolic analyses of CRISPR-Cas9 mutants defective in AOX1a, the main AOX isoform up-regulated during tomato fruit ripening. We confirmed that PTOX-dependent chromorespiration is only relevant at late stages of ripening and found that in vivo AOX activity significantly increased at the breaker stage, becoming the main contributor to climacteric respiration when ripening is unleashed. This activation did not correlate with gene expression but was likely due to increased levels of AOX activators such as pyruvate (a metabolic precursor of carotenoids), 2-oxoglutarate and succinate. A strong alteration of ripening-related metabolites was observed in aox1a mutant fruits, highlighting a key role of the AOX pathway at the onset of ripening. Our data suggest that increased supply of TCA cycle intermediates at climacteric stage allosterically enhance AOX activity, thus allowing the reoxidation of NAD(P)H to ensure carbon supply for triggering ethylene and carotenoid biosynthesis.

plant biology↗

bioRxiv2024

Modulating activity of the APC/C regulator SlSAMBA improves the sugar and antioxidant content of tomato fruits

The Anaphase-Promoting Complex/Cyclosome (APC/C) is an E3 ubiquitin ligase that plays a crucial role in ubiquitin-dependent proteolysis of key cell cycle regulators, which is completed by 26S proteasome. Previously, SAMBA, a plant-specific regulator of the APC/C, was identified in Arabidopsis as a critical factor controlling organ size through the regulation of cell proliferation. Here, by assessing its role in the crop tomato (Solanum lycopersicum), we confirm that SAMBA is a conserved APC/C regulator in plants. Two slsamba genome-edited lines were characterized showing delayed growth, reduced plant size and altered fruit morphology, which were linked to changes in cell division and expansion. Notably, untargeted metabolomics revealed altered flavonoid profiles, along with elevated Brix values in the fruits, indicating a sweeter taste. Accordingly, transcriptomics uncovered a change in temporal gene expression gradients during early fruit development, correlating with the alterations in sugar metabolism and revealing changes in cell wall biosynthesis genes. This study provides the first evidence of SAMBAs role in regulating fruit development, metabolic content, and, ultimately, quality. These important findings offer potential applications for improving the nutritional quality and overall performance of tomato.

plant biology↗

bioRxiv2024

Morphological and molecular effects of short-term water deficiency in barley stamen maturation

Water deficiency at the reproductive stage of cereal crops mainly affects the development or function of male organs, which causes strong losses in grain yield. We investigated the effects of short-term drought on the post-meiotic maturation of stamens in barley cultivar Scarlett, where it leads to a stage-dependent decline in fertility. Water deficiency neither affects pollen viability nor the formation of trinuclear pollen. However, it completely blocks pollen starch accumulation. Metabolite profiling suggests that this is due to decreased sugar content at starch-filling stages, probably reflecting impaired carbon supply from photosynthetic tissues to anther sinks. Accordingly, transcriptomic analysis shows that drought reduces the expression of stamen sugar transporters. Moreover, drought causes a strong downregulation of the pollen transcriptional network of auxin signalling and central carbon metabolism genes that controls barley pollen starch production. This wider model of the molecular effects of water deficiency on cereal pollen provides a solid foundation to characterize tolerance mechanisms in potential drought-resistant germplasm.

plant biology↗

bioRxiv2024

Integration of the DD-genome reshapes gene transcription, chromatin architecture and metabolome of allohexaploid wheat leading to enhanced adaptability

The integration, through hybridization, of the DD genome into domesticated tetraploid wheat gave rise to allohexaploid wheat, the most cultivated wheat globally growing across diverse environmental conditions. However, the regulatory basis of this integration on increased environmental adaptability in allohexaploid remains largely unexplored. Here, we investigated the change of transcriptome, epigenome as well as the chromatin interactome, and metabolome in three independent polyploidization events representing DD genome integration. Our findings reveal that polyploidization events induce the activation of defense-related genes through comprehensive reorganization of epigenome and chromatin architecture. DD integration not only brings an additional gene copy but also activates the homoeologs existing in the A and B subgenomes through chromatin interactions. Furthermore, secondary metabolites represented by alkaloids and flavonoids that are crucial for environmental adaptation, are significantly enriched following polyploidization. Thus, hexaploid wheat exhibits enhanced tolerance to alkalinity, UV-B light stress and high salt conditions was observed. These results highlight the indispensable role of DD genome integration in the adaptability of allohexaploid wheat during its evolution.

plant biology↗

bioRxiv2024

GCS-H2 is essential for growth as it acts as the main relay for mitochondrial lipoylation in heterotrophic tissues of Arabidopsis thaliana

H-protein is part of the multi-protein glycine cleavage system found in both prokaryotes and eukaryotes. The Arabidopsis thaliana genome contains three loci for genes encoding H-protein. We show that in land plants, there are two clades of mitochondrial H-proteins; one that clusters with H1 and H3, and another that clusters with H2, an isoform mostly expressed in heterotrophic tissue and for which a null mutation results in a >99% impeded growth. After showing that all three isoforms fulfill the same metabolic function, we evidenced that the impaired root growth in h2 results from an altered cell cycle progression concomitant to a lower Target Of Rapamycin kinase activity. Subsequent metabolomic approaches revealed an accumulation of storage sugars and a significant decrease of the TCA intermediates and several vitamins in the h2 root cells as compared to the wild-type ones. Additional investigations evidenced that H2 acts as the main relay for lipoylation in root mitochondria, which diverges from the current lipoylation model proposed for photosynthetic tissues. Together, this work provides new insight on the control of the cell cycle by mitochondrial metabolism, and also challenges the current dogma for lipoylation in mitochondria of plant cells. Once sentence summaryThe absence of GCS-H2, an isoform of H-protein found in heterotrophic tissue, impedes the cell cycle, and drastically affects plant growth as it acts as the main relay for mitochondrial lipoylation.

plant biology↗