Histidine Biosynthesis

Ingle, Robert A.

doi:10.1199/tab.0141

Cited by 77 publications

(63 citation statements)

References 59 publications

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“…However, not only has it not been shown that HOL occurs in vivo at high concentration, but also HOL probably is rapidly converted to histidine by histidinol dehydrogenase. It is more likely that free His can suppress MtHPP activity, but the His concentration in chloroplast is unknown (10). Nevertheless, it would be disadvantageous for a cell to produce HOLP already with high effort and halt at this point.…”

Section: Holp Dephosphorylation Reaction Occurs At the Interface Betwmentioning

confidence: 99%

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Structural Studies of Medicago truncatula Histidinol Phosphate Phosphatase from Inositol Monophosphatase Superfamily Reveal Details of Penultimate Step of Histidine Biosynthesis in Plants

Ruszkowski

Dauter

2016

Journal of Biological Chemistry

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Section: Holp Dephosphorylation Reaction Occurs At the Interface Betwmentioning

confidence: 99%

“…Plants biosynthesize His similarly to prokaryotes (10). The 11-step pathway, which originates from 5Ј-phosphoribosyl 1-pyrophosphate, is catalyzed by eight enzymes, HISN1-8, three of which (HISN2, -4, and -8) are bifunctional.…”

mentioning

confidence: 99%

Structural Studies of Medicago truncatula Histidinol Phosphate Phosphatase from Inositol Monophosphatase Superfamily Reveal Details of Penultimate Step of Histidine Biosynthesis in Plants

Ruszkowski

Dauter

2016

Journal of Biological Chemistry

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“…His plays an essential role in plant reproduction, growth, chelation, and transport of metal ions. Blocking His biosynthesis in Arabidopsis leaves, for example, causes increased expression of several genes involved in other amino acid synthesis pathways and affects the levels of several FAAs (Guyer et al, 1995;Stepansky and Leustek, 2006;Ingle, 2011). Nevertheless, the regulation of His metabolism as well as its entire catabolic pathway remain unclear (Stepansky and Leustek, 2006;Ingle, 2011).…”

Section: Discussionmentioning

confidence: 99%

“…Still, the genetic control of FAA metabolism in seed remains poorly understood. One reason is that FAA metabolism is tightly intertwined with essential cellular processes in plants, and manipulating FAA levels can have strong deleterious, pleiotropic effects on the entire system (Guyer et al, 1995;Galili, 2011;Ingle, 2011;Pratelli and Pilot, 2014). For example, increasing Lys and Thr inhibits the activity of Asp kinase via a feedback inhibition loop (Clark and Lu, 2015).…”

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confidence: 99%

Network-Guided GWAS Improves Identification of Genes Affecting Free Amino Acids

et al. 2016

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Amino acids are essential for proper growth and development in plants. Amino acids serve as building blocks for proteins but also are important for responses to stress and the biosynthesis of numerous essential compounds. In seed, the pool of free amino acids (FAAs) also contributes to alternative energy, desiccation, and seed vigor; thus, manipulating FAA levels can significantly impact a seed's nutritional qualities. While genome-wide association studies (GWAS) on branched-chain amino acids have identified some regulatory genes controlling seed FAAs, the genetic regulation of FAA levels, composition, and homeostasis in seeds remains mostly unresolved. Hence, we performed GWAS on 18 FAAs from a 313-ecotype Arabidopsis (Arabidopsis thaliana) association panel. Specifically, GWAS was performed on 98 traits derived from known amino acid metabolic pathways (approach 1) and then on 92 traits generated from an unbiased correlation-based metabolic network analysis (approach 2), and the results were compared. The latter approach facilitated the discovery of additional novel metabolic interactions and singlenucleotide polymorphism-trait associations not identified by the former approach. The most prominent network-guided GWAS signal was for a histidine (His)-related trait in a region containing two genes: a cationic amino acid transporter (CAT4) and a polynucleotide phosphorylase resistant to inhibition with fosmidomycin. A reverse genetics approach confirmed CAT4 to be responsible for the natural variation of His-related traits across the association panel. Given that His is a semiessential amino acid and a potent metal chelator, CAT4 orthologs could be considered as candidate genes for seed quality biofortification in crop plants.Free amino acids (FAAs) play a pivotal role in the central metabolism of plants. FAAs serve as building blocks for protein synthesis and also are precursors for osmolytes, alternative energy, hormones, and key secondary metabolites (Rai, 2002; Araújo et al., 2010;Tzin and Galili, 2010; Angelovici et al., 2011). Studies of both developing and germinating seeds also have implicated FAAs in proper seed development and germination (Angelovici et al., 2010;Galili and Amir, 2013). Still, the genetic control of FAA metabolism in seed remains poorly understood. One reason is that FAA metabolism is tightly intertwined with essential cellular processes in plants, and manipulating FAA levels can have strong deleterious, pleiotropic effects on the entire system (Guyer et al., 1995;Galili, 2011;Ingle, 2011;Pratelli and Pilot, 2014). For example, increasing Lys and Thr inhibits the activity of Asp kinase via a feedback inhibition loop (Clark and Lu, 2015). At high concentrations, this inhibition can lead to starvation of a downstream metabolic product, Met, which inhibits plant growth (Bright et al., 1982;Rognes et al., 1983;Heremans and Jacobs, 1995). In addition, several amino acid catabolic products, such as those emanating from branched-chain amino acids (BCAAs) or Lys degradation pathways, can be chan...

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“…From SUBA, we only used data from GFP experiments, which are more reliable than the data from mass spectrometry experiments. Finally, from AraCyc, MaizeCyc, and CornCyc, many reactions are localized according to biochemical support such as the histidine pathway in plastids (Ingle, 2011). Even if the genes associated with these pathways do not have localization data, we considered them to be localized if there was experimental evidence for the genereaction associations.…”

Section: Compartmentsmentioning

confidence: 99%

Improved Evidence-Based Genome-Scale Metabolic Models for Maize Leaf, Embryo, and Endosperm

Seaver¹,

Bradbury²,

Frelin³

et al. 2016

Crop Breeding

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There is a growing demand for genome-scale metabolic reconstructions for plants, fueled by the need to understand the metabolic basis of crop yield and by progress in genome and transcriptome sequencing. Methods are also required to enable the interpretation of plant transcriptome data to study how cellular metabolic activity varies under different growth conditions or even within different organs, tissues, and developmental stages. Such methods depend extensively on the accuracy with which genes have been mapped to the biochemical reactions in the plant metabolic pathways. Errors in these mappings lead to metabolic reconstructions with an inflated number of reactions and possible generation of unreliable metabolic phenotype predictions. Here we introduce a new evidence-based genome-scale metabolic reconstruction of maize, with significant improvements in the quality of the gene-reaction associations included within our model. We also present a new approach for applying our model to predict active metabolic genes based on transcriptome data. This method includes a minimal set of reactions associated with low expression genes to enable activity of a maximum number of reactions associated with high expression genes. We apply this method to construct an organ-specific model for the maize leaf, and tissue specific models for maize embryo and endosperm cells. We validate our models using fluxomics data for the endosperm and embryo, demonstrating an improved capacity of our models to fit the available fluxomics data. All models are publicly available via the DOE Systems Biology Knowledgebase and PlantSEED, and our new method is generally applicable for analysis transcript profiles from any plant, paving the way for further in silico studies with a wide variety of plant genomes.

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Histidine Biosynthesis

Cited by 77 publications

References 59 publications

Structural Studies of Medicago truncatula Histidinol Phosphate Phosphatase from Inositol Monophosphatase Superfamily Reveal Details of Penultimate Step of Histidine Biosynthesis in Plants

Structural Studies of Medicago truncatula Histidinol Phosphate Phosphatase from Inositol Monophosphatase Superfamily Reveal Details of Penultimate Step of Histidine Biosynthesis in Plants

Network-Guided GWAS Improves Identification of Genes Affecting Free Amino Acids

Improved Evidence-Based Genome-Scale Metabolic Models for Maize Leaf, Embryo, and Endosperm

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