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This page is dedicated to an overview of publications at the Metabolism Lab and up-to-date article collections related to our research themes.
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- Isolation, Biochemical Characterization and Antagonistic Study of Pseudomonas Fluorescens in Soil Collected from Different Locations in Kerala Saturday 14 May 2022 … Growth Promoting Rhizobacteria (PGPR) is bacteria that populates roots and … promote plant growth directly by either increasing nutrient acquisition for example nitrogen, …
- The effects of root lesion nematodes (Pratylenchus thornei) on rhizobium bacteria of chickpea plant Tuesday 03 May 2022 … the interaction activity between legumes and nitrogen-fixing … plants and nitrogenfixing rhizobia bacteria. In this study chickpea that were infected by parasitic nematodes (P. …
- Microbial Biostimulants as Fungicides against Root-Borne Pathogens Sunday 08 May 2022 … of essential plant nutrients (ie, nitrogen, phosphorus, … , for studying the effect on metabolism in Aliivibrio fischeri and for … fungus and two plantparasitic nematodes on Musa …
- [PDF][PDF] The Effects of Root Lesion Nematodes (Pratylenchus thornei) on Rhizobium Bacteria of Chickpea Plant Tuesday 03 May 2022 … the interaction activity between legumes and nitrogen-fixing … plants and nitrogenfixing rhizobia bacteria. In this study chickpea that were infected by parasitic nematodes (P. …
- [PDF][PDF] Survey of plant-parasitic and free-living nematodes in New South Wales cane-growing areas Tuesday 03 May 2022 … on bacteria, fungi or on other nematodes. Free-living … involvement in mobilisation of nitrogen and carbon and are … the extent of plant-parasitic nematodes and their potential …
- The Impact of Cover Crops on Soil Microbial Population and Soil Physical and Chemical Properties Monday 02 May 2022 … , C:N ratio, compaction, bulk density, predator, and bacterial feeding nematodes by … and nitrogen, organic matter, plant parasitic nematode, fungal feeding nematode, and …
- A broad review of soybean research on the ongoing race to overcome soybean cyst nematode Saturday 29 January 2022 … SCN is a plant parasitic nematode … metabolism triggering H 2 O 2 regulation and induction of PR proteins which defend the integrity of the cell walls and hinder pathogen …
- ВЕСТНИК ЗКГУ Thursday 07 April 2022 … matter decay, plant feeding or the use of nitrogen fertilizers. … - they can feed also on plants, bacteria and fungi, and … and other animal groups eg nematodes). Some of the …
- Soil Microbes Determine Outcomes of Pathogenic Interactions Between Radopholus similis and Fusarium oxysporum V5w2 in Tissue Culture Banana Rhizospheres … Wednesday 02 March 2022 … complexes involving plantparasitic nematodes and numerous fungal pathogen strains … is among a complex of plant-parasitic nematodes that interact with the Fusarium of …
- Organic substitutions improve soil quality and maize yield through increasing soil microbial diversity Tuesday 15 March 2022 … competition of nitrogen between microorganisms and plants. … abundance of plant-parasitic nematodes but caused an … pattern between microbial and nematode taxa in the …
- Biological Control of Root-Knot Nematode Meloidogyne incognita in Psoralea corylifolia Plant by Enhancing the Biocontrol Efficacy of Trichoderma harzianum Using … Saturday 05 March 2022 … Meloidogyne incognita is a plant pathogen causing root-… an increase in nitrogen absorption efficiency of plants. In … defense and osmolyte metabolism to alleviate oxidative …
- Responses of Soil Microbial and Nematode Communities to Various Cover Crop Patterns in a Tea Garden of China Friday 31 December 2021 … and the percentage of plant parasitic nematodes in cover crop … promote soil microbial activities and nitrogen cycling [27]… As shown in Figure 5, the interaction of the monthly …
- Enrichment in biodiversity and maturation of the soil food web under conservation agriculture is associated with suppression of rice-parasitic nematodes Wednesday 23 February 2022 … are among the most damaging plant-parasitic nematodes (… the communities of bacteria, fungi and nematodes in the … including the support of nitrogen and carbon cycles. …
- A Broad Review of Soybean Research on the Ongoing Race to Overcome Soybean Cyst Nematode Saturday 29 January 2022 … Soybean cyst nematode, Heterodera glycines Ichinohe, is a plant parasitic nematode … the host–pathogen relationship in the hopes of overcoming this devastating nematode. … response, along with increased polyamine metabolism triggering H 2 O 2 regulation and …
- The soil microbiome increases plant survival and modifies interactions with root endosymbionts in the field Wednesday 26 January 2022 … We inoculated all plants with nitrogen-fixing bacteria and factorially manipulated the soil microbiome and nematode infection. We … : the mutualistic nitrogen-fixing bacteria commonly known as rhizobia and parasitic root-knot nematodes. Rhizobia fix atmospheric …
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- Root and soil health management approaches for control of plant-parasitic nematodes in sub-Saharan Africa Crop Protection, volume 152 Saturday 04 December 2021 Smallholder farmers in sub-Saharan Africa (SSA) face several challenges that include pests and diseases. Plant-parasitic nematodes (PPN) reduce crop yields and affect their quality. They are an emerging threat to smallholder agriculture with several species attacking economically important crops. In SSA, most PPN control strategi... Smallholder farmers in sub-Saharan Africa (SSA) face several challenges that include pests and diseases. Plant-parasitic nematodes (PPN) reduce crop yields and affect their quality. They are an emerging threat to smallholder agriculture with several species attacking economically important crops. In SSA, most PPN control strategies are therapeutic and therefore unsustainable. Cost-effective nematode management strategies that promote soil health and enhance soil suppressiveness against PPN are therefore needed. These strategies can fit into most smallholder cropping systems and in addition to controlling PPN, they also promote soil and plant health and tolerance to other diseases. Most smallholders in SSA still use traditional farming methods although some countries have adopted conservation agriculture (CA) and integrated soil fertility management (ISFM). This review analyzes the potential impact of CA and ISFM on PPN communities and it also provides a concise summary of low-cost PPN control strategies and their efficiency against specific nematode species. Variations in their efficacy is also discussed. The strategies are proposed for adoption across SSA based on site-specific conditions.
- Physiological and transcriptional response of carbohydrate and nitrogen metabolism in tomato plant leaves to nickel ion and nitrogen levels Scientia Horticulturae, volume 292 Friday 03 December 2021 This study investigated how nickel ion (Ni2+) improves carbohydrate and nitrogen (N) metabolism in tomato plant leaves under different N supply levels. We exposed the tomato plants to two levels of N (7.66 and 0.383 mmol•L−1) and two levels of Ni2+ (0 and 0.1 mg•L−1 NiSO4) under hydroponic conditions. After nine days of t... This study investigated how nickel ion (Ni2+) improves carbohydrate and nitrogen (N) metabolism in tomato plant leaves under different N supply levels. We exposed the tomato plants to two levels of N (7.66 and 0.383 mmol•L−1) and two levels of Ni2+ (0 and 0.1 mg•L−1 NiSO4) under hydroponic conditions. After nine days of treatments, we harvested the leaves for physiological, biochemical, and transcriptome sequencing analysis. Low N (LN) levels reduced the concentration of total N and the activities of enzymes; however, Ni2+ can regulate these levels. Leaf transcriptome analysis identified 3277 differentially expressed genes (DEGs). The DEGs associated with the glycolytic pathway-tricarboxylic acid (EMP pathway-TCA) cycle, biosynthesis of amino acids, and N metabolism were downregulated after low N application, whereas those regulated by Ni2+ showed high transcript abundances. This study provides valuable insights into the carbohydrate and N metabolism mechanism of tomato plant leaves in response to Ni2+ and N levels.
- Lipid accumulation by Coelastrella multistriata (Scenedesmaceae, Sphaeropleales) during nitrogen and phosphorus starvation Scientific Reports, volume 11 Friday 03 December 2021
- Genome-mining for stress-responsive genes, profiling of antioxidants and radical scavenging metabolism in hyperaccumulator medicinal and aromatic plants Industrial Crops and Products, volume 173 Wednesday 01 December 2021 Medicinal and aromatic plants (MAPs) possess phytoremediation potential owing to antioxidants, secondary metabolites, and morphological features. Moringa oleifera, Pelargonium graveolens, Tagetes patula, and Calotropis gigantea are known for their phytoremediation properties in heavy metals polluted soil. These plants with phytor... Medicinal and aromatic plants (MAPs) possess phytoremediation potential owing to antioxidants, secondary metabolites, and morphological features. Moringa oleifera, Pelargonium graveolens, Tagetes patula, and Calotropis gigantea are known for their phytoremediation properties in heavy metals polluted soil. These plants with phytoremediation properties due to antioxidants, specific secondary metabolites synthesis, and distinctive morphological characteristics ultimately become the ideal choice for effective remediation. The main aim of the current study is to provide a genetic evaluation using bioinformatics techniques, antioxidant compounds, metabolites, and their activity. Genomic and transcriptomic studies endorsed genes related to hyperaccumulation in these plant species having essential domains as catalase (CAT) and superoxide dismutase (SOD_Cu, SOD_Fe_C, and SOD_Fe_N). The phylogenetic study showed its close evolutionary relationship to other plant species. The accumulation of total photosynthetic pigments, carotenoids, non-enzymatic antioxidants, and enzymatic antioxidants determined spectrophotometrically, involved in stress tolerance and ROS homeostasis maintenance mechanisms. Tagetes leaves showed the highest proline, flavonoids, and phenolics content, while Moringa showed higher CAT, guaiacol peroxidase (G-POD), and glutathione peroxidase (GPX) activities. Results also revealed that plants accumulated more primary and secondary metabolites in young tissue to tackle pathogens, herbivores, attract pollinators, and in mature tissues to develop strong physiology. Total antioxidant activity, reducing power, and radical scavenging activities were observed. These MAPs have intriguing antioxidant characteristics and a phytochemical composition that might give scientific support for their stress tolerance and ROS management activities. The study establishes the groundwork for using MAPs as phytoremediators; further confirmatory research is required for their use in sustainable phytoremediation.
- Marasmius oreades agglutinin enhances resistance of Arabidopsis against plant-parasitic nematodes and a herbivorous insect BMC Plant Biology, volume 21 Tuesday 30 November 2021
- Alpha-tocopherol reinforce selenium efficiency to ameliorates salt stress in maize plants through carbon metabolism, enhanced photosynthetic pigments and ion uptake South African Journal of Botany, volume 144, pages 1-9 Monday 29 November 2021 Individually selenium and α-tocopherol showed a pivotal role in combating abiotic stresses in plants. However, there is no report on how selenium behaves in the presence or absence of α-tocopherol under salt stress in crop plants. With this view, the present study was undertaken to dissect the interaction between selenium... Individually selenium and α-tocopherol showed a pivotal role in combating abiotic stresses in plants. However, there is no report on how selenium behaves in the presence or absence of α-tocopherol under salt stress in crop plants. With this view, the present study was undertaken to dissect the interaction between selenium and α-tocopherol on growth performance, carbon metabolism, and uptake of different ions in maize plants grown under salt stress. This study was conducted with surface-sterilized seeds of maize that were soaked in deionized water (control), selenium (0.5 µM), and/or α-tocopherol (200 ppm) for 12 h before sowing and different salt levels (0, 100, 150, and 200 mM) in the form of NaCl was created in soil. A sample of maize plants from each treatment was collected 40 days after sowing. The results revealed that salinity lowered the growth performance, chlorophyll content, insoluble sugar, carbohydrate, phenolic, flavonoid content, and different ions uptake in concentration dependent manner whereas, soluble sugar, α-amylase activity, and sodium ion increased in comparison to control plants. Moreover, selenium and/or α-tocopherol treated plants without stress significantly amplified the growth performance, chlorophyll and carotenoid content, carbohydrate, phenolic, and flavonoid content, and improved the uptake of different concentrations ions (K+, Ca+2, K+/Na+, Ca+2/Na+, and Mg+2) over the control plants. Interestingly, treatment of combined selenium and α-tocopherol to the salt-stressed plants successfully recover the loss caused by increasing salt levels in maize plants through altered carbon metabolism and ions uptake reflected in improved growth performance and bigger growth leaf area of maize plants under salt stress. Selenium and α-tocopherol in combination also enhance the antioxidative defensive mechanism through the production of phenolics and flavonoids content in maize plants under salt stress. This approach could be an effective measure to lower salt stress and enhance the crop productivity of maize plants.
- Identification of key genes in the biosynthesis pathways related to terpenoids, alkaloids and flavonoids in fruits of Zanthoxylum armatum Scientia Horticulturae, volume 290 Sunday 28 November 2021 Zanthoxylum armatum is an important economic tree for the food and pharmaceutical industries, due to its the special numbing taste. Despite having highly volatile aromatic compounds, the cultivars of Z. armatum are underexplored for genetics and molecular breeding programs. In this study, we integrated the f... Zanthoxylum armatum is an important economic tree for the food and pharmaceutical industries, due to its the special numbing taste. Despite having highly volatile aromatic compounds, the cultivars of Z. armatum are underexplored for genetics and molecular breeding programs. In this study, we integrated the fruit development and maturation process across eight samples (Fr1 to Fr8) in Z. armatum. From the Fr1 to Fr4 stage, the fruit grew rapidly to a certain size, however, in subsequent stages (Fr5 to Fr8) the fruit size did not increase but inclusions began to accumulate within the oil vacuole. Additionally, the significantly differentially expressed genes in the fruit compared with other organs (root, stem, leaves, and bud) were screened and enriched in 17 KEGG pathways, including 28 genes for terpenoids, 5 genes for alkaloids and 7 genes for flavonoid biosynthesis processes. Furthermore, some bioinformatic analyses were performed to obtain more information about these genes. Moreover, the RT-qPCR results of all vital genes selected in present study showed that the Fr4 stage was the core phase for the biosynthesis of numbing taste compounds in Z. armatum. To the best of our knowledge, this study is the first comprehensive analysis to identify the key genes associated with terpenoid, alkaloid and flavonoid biosynthesis processes in the fruit of Z. armatum. Our results will provide an insight into explore the genetic mechanism of numbing taste in Zanthoxylum, which will be helpful for identifying and breeding some high-quality varieties.
- Arsenic transport and interaction with plant metabolism: Clues for improving agricultural productivity and food safety Environmental Pollution, volume 290 Saturday 27 November 2021 Arsenic (As) is a ubiquitous metalloid that is highly toxic to all living organisms. When grown in As-contaminated soils, plants may accumulate significant amounts of As in the grains or edible shoot parts which then enter a food chain. Plant growth and development per se are also both affected by arsenic. These effects are tradi... Arsenic (As) is a ubiquitous metalloid that is highly toxic to all living organisms. When grown in As-contaminated soils, plants may accumulate significant amounts of As in the grains or edible shoot parts which then enter a food chain. Plant growth and development per se are also both affected by arsenic. These effects are traditionally attributed to As-induced accumulation of reactive oxygen species (ROS) and a consequent lipid peroxidation and damage to cellular membranes. However, this view is oversimplified, as As exposure have a major impact on many metabolic processes in plants, including availability of essential nutrients, photosynthesis, carbohydrate metabolism, lipid metabolism, protein metabolism, and sulfur metabolism. This review is aimed to fill this gap in the knowledge. In addition, the molecular basis of arsenic uptake and transport in plants and prospects of creating low As-accumulating crop species, for both agricultural productivity and food safety, are discussed.
- Polyamine and nitrogen metabolism regulation by melatonin and salicylic acid combined treatment as a repressor for salt toxicity in wheat (Triticum aestivum L.) plants Plant Growth Regulation, volume 95, pages 315-329 Friday 26 November 2021
- Genetic response to nitrogen starvation in the aggressive Eucalyptus foliar pathogen Teratosphaeria destructans Current Genetics, volume 67, pages 981-990 Thursday 25 November 2021
- Biosynthesis and regulation of terpenoids from basidiomycetes: exploration of new research AMB Express, volume 11 Sunday 21 November 2021
- A KBase case study on genome-wide transcriptomics and plant primary metabolism in response to drought stress in Sorghum. Current Plant Biology, volume 28 Saturday 20 November 2021 A better understanding of the genetic and metabolic mechanisms that confer stress resistance and tolerance in plants is key to engineering new crops through advanced breeding technologies. This requires a systems biology approach that builds on a genome-wide understanding of the regulation of gene expression, plant metabolism, physiology and growth... A better understanding of the genetic and metabolic mechanisms that confer stress resistance and tolerance in plants is key to engineering new crops through advanced breeding technologies. This requires a systems biology approach that builds on a genome-wide understanding of the regulation of gene expression, plant metabolism, physiology and growth. In this study, we examine the response to drought stress in Sorghum, as we leverage the tools for transcriptomics and plant metabolic modeling we have implemented at the U.S. Department of Energy Systems Biology Knowledgebase (KBase). KBase enables researchers worldwide to collaborate and advance research by uploading private or public data into the KBase Narrative Interface, analyzing it using a rich, extensible array of computational and data-analytics tools, and securely sharing scientific workflows and conclusions. We demonstrate how to use the current RNA-seq tools in KBase, applicable to both plants and microbes, to assemble and quantify long transcripts and identify differentially expressed genes effectively. More specifically, we demonstrate the utility of the platform by identifying key genes differentially expressed during drought-stress in Sorghum bicolor, an important sustainable production crop plant. We then show how we can use KBase tools to predict the membership of genes in metabolic pathways and examine expression data in the context of metabolic subsystems. We demonstrate the power of the platform by making the data, analysis and interpretation available to the biologists in the reproducible, re-usable, point-and-click format of a KBase Narrative thus promoting FAIR (Findable, Accessible, Interoperable and Reusable) guiding principles for scientific data management and stewardship.
- Recent studies on terpenoids in Aspergillus fungi: Chemical diversity, biosynthesis, and bioactivity Phytochemistry, volume 193 Thursday 18 November 2021 Metabolites from fungi are a major source of natural small molecule drugs in addition to plants, while fungal derived terpenoids have been confirmed to have great potentials in many diseases. Aspergillus fungi are distributed in every corner of the earth, and their terpenoid metabolites exhibit promising diversity in term of both... Metabolites from fungi are a major source of natural small molecule drugs in addition to plants, while fungal derived terpenoids have been confirmed to have great potentials in many diseases. Aspergillus fungi are distributed in every corner of the earth, and their terpenoid metabolites exhibit promising diversity in term of both their chemistry and bioactivity. This review attempted to provide timely and comprehensive coverage of chemical, biosynthesis, and biological studies on terpenoids discovered from the genus Aspergillus, including mono-, sesqui-, di-, sester-, tri-, and meroterpenoids, in the last decade. The structural characteristics, biosynthesis, and pharmacological activities of 288 terpenoids were introduced.
- Calcium silicate ameliorates zinc deficiency and toxicity symptoms in barley plants through improvements in nitrogen metabolism and photosynthesis Acta Physiologiae Plantarum, volume 43 Wednesday 17 November 2021
- Plant Ingredient diet supplemented with lecithin as fish meal and fish oil alternative affects growth performance, serum biochemical, lipid metabolism and growth-related gene expression in Nile tilapia Aquaculture Research, volume 52, pages 6308-6321 Wednesday 17 November 2021
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