Gene Expression in Secondary Metabolism and Metabolic Switching Phase of Phanerochaete chrysosporium

2010 ◽  
Vol 162 (7) ◽  
pp. 1961-1977 ◽  
Author(s):  
Jin-Ming Wu ◽  
Yi-zheng Zhang
Keyword(s):  
Gene Expression ◽  
Secondary Metabolism ◽  
Phanerochaete Chrysosporium ◽  
Metabolic Switching

Long serial analysis of gene expression for transcriptome profiling during the initiation of ligninolytic enzymes production in Phanerochaete chrysosporium

2007 ◽  
Vol 75 (3) ◽  
pp. 609-618 ◽  
Author(s):  
Masahiko Minami ◽  
Orie Kureha ◽  
Mari Mori ◽  
Hisatoshi Kamitsuji ◽  
Kazumi Suzuki ◽  
...  
Keyword(s):  
Gene Expression ◽  
Phanerochaete Chrysosporium ◽  
Ligninolytic Enzymes ◽  
Transcriptome Profiling

scholarly journals Differential Response to Water Deficit in Chili Pepper (Capsicum annuum L.) Growing in Two Types of Soil Under Different Irrigation Regimes

Agriculture ◽  
2020 ◽  
Vol 10 (9) ◽  
pp. 381
Author(s):  
Israel Macias-Bobadilla ◽  
Marcela Vargas-Hernandez ◽  
Ramon G. Guevara-Gonzalez ◽  
Enrique Rico-Garcia ◽  
Rosalia V. Ocampo-Velazquez ◽  
...  
Keyword(s):  
Gene Expression ◽  
Secondary Metabolism ◽  
Water Deficit ◽  
Crop Production ◽  
Differential Response ◽  
Chili Pepper ◽  
Water Deficits ◽  
Irrigation Regimes ◽  
Pharmaceutical Industries ◽  
Pepper Plants

Chili pepper (Capsicum spp.) is one of the most economically important horticultural crops in the world; its production for the food and pharmaceutical industries has been increasing worldwide. The economic importance of this crop is due, in part, to the nutraceutical properties derived from its secondary metabolism. Drought is the main environmental factor that affects crop production. Nevertheless, studies involving water deficit have considered short-term responses to sharp water deficit rather than long-term acclimation processes through moderate and gradually increasing water deficits, which omitted the dynamics and profile of the secondary metabolism that are part of the plant’s defence system against this stress factor. The present study aimed to identify the different mechanisms that chili pepper plants use to cope with drought stress using a progressive decrease and increase of water availability, conditions that commonly occur for crops in open fields. Four treatments were applied as follows: gradual water deficit (GWD), initial waterlogging with gradual water deficit (IWGD), sudden water deficit with gradual recovery (SWDR), and no deficit of water (NDW). These conditions should represent a more real situation similar to that faced by plants in the agricultural environment. In order to evaluate the response mechanisms associated with these water deficits, changes in phenological variables, proline accumulation, and the gene expression of phenylalanine ammonia-lyase (PAL), chalcone synthase (CHS), peroxidase (POD), and superoxide dismutase (SOD) were measured in chili pepper plants growing on land under different irrigation regimes in two contrasting soil types in areas where chili pepper plants are cultivated in central Mexico. The variables evaluated showed a differentiated response of the mechanisms in plants growing under different levels of water deficit. Given the differential response observed for the gene expression and morphological and biochemical variables studied in chili pepper plants against different water regimes, in this work, this may have implications for more efficient use of water in crops with high nutraceutical content, in addition to prospects for using products derived from secondary metabolism in the pharmaceutical industry.

scholarly journals Significant Alteration of Gene Expression in Wood Decay Fungi Postia placenta and Phanerochaete chrysosporium by Plant Species

2011 ◽  
Vol 77 (13) ◽  
pp. 4499-4507 ◽  
Author(s):  
Amber Vanden Wymelenberg ◽  
Jill Gaskell ◽  
Michael Mozuch ◽  
Sandra Splinter BonDurant ◽  
Grzegorz Sabat ◽  
...  
Keyword(s):  
Gene Expression ◽  
Carbon Source ◽  
Phanerochaete Chrysosporium ◽  
Wood Decay ◽  
Hydrolytic Cleavage ◽  
Decay Fungi ◽  
Transcript Levels ◽  
Content Type ◽  
Postia Placenta ◽  
Wood Decay Fungi

ABSTRACTIdentification of specific genes and enzymes involved in conversion of lignocellulosics from an expanding number of potential feedstocks is of growing interest to bioenergy process development. The basidiomycetous wood decay fungiPhanerochaete chrysosporiumandPostia placentaare promising in this regard because they are able to utilize a wide range of simple and complex carbon compounds. However, systematic comparative studies with different woody substrates have not been reported. To address this issue, we examined gene expression of these fungi colonizing aspen (Populus grandidentata) and pine (Pinus strobus). Transcript levels of genes encoding extracellular glycoside hydrolases, thought to be important for hydrolytic cleavage of hemicelluloses and cellulose, showed little difference forP. placentacolonizing pine versus aspen as the sole carbon source. However, 164 genes exhibited significant differences in transcript accumulation for these substrates. Among these, 15 cytochrome P450s were upregulated in pine relative to aspen. Of 72P. placentaextracellular proteins identified unambiguously by mass spectrometry, 52 were detected while colonizing both substrates and 10 were identified in pine but not aspen cultures. Most of the 178P. chrysosporiumglycoside hydrolase genes showed similar transcript levels on both substrates, but 13 accumulated >2-fold higher levels on aspen than on pine. Of 118 confidently identified proteins, 31 were identified in both substrates and 57 were identified in pine but not aspen cultures. Thus,P. placentaandP. chrysosporiumgene expression patterns are influenced substantially by wood species. Such adaptations to the carbon source may also reflect fundamental differences in the mechanisms by which these fungi attack plant cell walls.

scholarly journals Phylogenomic Analyses of Non-Dikarya Fungi Supports Horizontal Gene Transfer Driving Diversification of Secondary Metabolism in the Amphibian Gastrointestinal Symbiont, Basidiobolus

2020 ◽  
Vol 10 (9) ◽  
pp. 3417-3433
Author(s):  
Javier F Tabima ◽  
Ian A Trautman ◽  
Ying Chang ◽  
Yan Wang ◽  
Stephen Mondo ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Transfer ◽  
Horizontal Gene Transfer ◽  
Secondary Metabolism ◽  
Gene Clusters ◽  
Biologically Active ◽  
Constitutive Gene Expression ◽  
Gut Symbionts ◽  
Phylogenomic Analyses ◽  
Siderophore Activity

Abstract Research into secondary metabolism (SM) production by fungi has resulted in the discovery of diverse, biologically active compounds with significant medicinal applications. The fungi rich in SM production are taxonomically concentrated in the subkingdom Dikarya, which comprises the phyla Ascomycota and Basidiomycota. Here, we explore the potential for SM production in Mucoromycota and Zoopagomycota, two phyla of nonflagellated fungi that are not members of Dikarya, by predicting and identifying core genes and gene clusters involved in SM. The majority of non-Dikarya have few genes and gene clusters involved in SM production except for the amphibian gut symbionts in the genus Basidiobolus. Basidiobolus genomes exhibit an enrichment of SM genes involved in siderophore, surfactin-like, and terpene cyclase production, all these with evidence of constitutive gene expression. Gene expression and chemical assays also confirm that Basidiobolus has significant siderophore activity. The expansion of SMs in Basidiobolus are partially due to horizontal gene transfer from bacteria, likely as a consequence of its ecology as an amphibian gut endosymbiont.

scholarly journals Spatiotemporal gating of SIRT1 functions by O-GlcNAcylation is essential for liver metabolic switching and prevents hyperglycemia

2020 ◽  
Vol 117 (12) ◽  
pp. 6890-6900 ◽  
Author(s):  
Tandrika Chattopadhyay ◽  
Babukrishna Maniyadath ◽  
Hema P. Bagul ◽  
Arindam Chakraborty ◽  
Namrata Shukla ◽  
...  
Keyword(s):  
Gene Expression ◽  
Transcription Factors ◽  
Nutrient Inputs ◽  
Fed State ◽  
Physiological Fitness ◽  
Metabolic Switching ◽  
Nuclear Exclusion ◽  
Aberrant Gene Expression ◽  
Systemic Insulin Resistance ◽  
Aberrant Gene

Inefficient physiological transitions are known to cause metabolic disorders. Therefore, investigating mechanisms that constitute molecular switches in a central metabolic organ like the liver becomes crucial. Specifically, upstream mechanisms that control temporal engagement of transcription factors, which are essential to mediate physiological fed–fast–refed transitions are less understood. SIRT1, a NAD+-dependent deacetylase, is pivotal in regulating hepatic gene expression and has emerged as a key therapeutic target. Despite this, if/how nutrient inputs regulate SIRT1 interactions, stability, and therefore downstream functions are still unknown. Here, we establish nutrient-dependent O-GlcNAcylation of SIRT1, within its N-terminal domain, as a crucial determinant of hepatic functions. Our findings demonstrate that during a fasted-to-refed transition, glycosylation of SIRT1 modulates its interactions with various transcription factors and a nodal cytosolic kinase involved in insulin signaling. Moreover, sustained glycosylation in the fed state causes nuclear exclusion and cytosolic ubiquitin-mediated degradation of SIRT1. This mechanism exerts spatiotemporal control over SIRT1 functions by constituting a previously unknown molecular relay. Of note, loss of SIRT1 glycosylation discomposed these interactions resulting in aberrant gene expression, mitochondrial dysfunctions, and enhanced hepatic gluconeogenesis. Expression of nonglycosylatable SIRT1 in the liver abrogated metabolic flexibility, resulting in systemic insulin resistance, hyperglycemia, and hepatic inflammation, highlighting the physiological costs associated with its overactivation. Conversely, our study also reveals that hyperglycosylation of SIRT1 is associated with aging and high-fat–induced obesity. Thus, we establish that nutrient-dependent glycosylation of SIRT1 is essential to gate its functions and maintain physiological fitness.

scholarly journals Systems Metabolic Alteration in a Semi-Dwarf Rice Mutant Induced by OsCYP96B4 Gene Mutation

2020 ◽  
Vol 21 (6) ◽  
pp. 1924 ◽  
Author(s):  
Limiao Jiang ◽  
Rengasamy Ramamoorthy ◽  
Srinivasan Ramachandran ◽  
Prakash P. Kumar
Keyword(s):  
Gene Expression ◽  
Amino Acids ◽  
Secondary Metabolism ◽  
Gene Mutation ◽  
Gene Function ◽  
Nucleotide Metabolism ◽  
Expression Levels ◽  
Rice Mutant ◽  
Choline Metabolism ◽  
Gene Expression Levels

Dwarfism and semi-dwarfism are among the most valuable agronomic traits in crop breeding, which were adopted by the “Green Revolution”. Previously, we reported a novel semi-dwarf rice mutant (oscyp96b4) derived from the insertion of a single copy of Dissociator (Ds) transposon into the gene OsCYP96B4. However, the systems metabolic effect of the mutation is not well understood, which is important for understanding the gene function and developing new semi-dwarf mutants. Here, the metabolic phenotypes in the semi-dwarf mutant (M) and ectopic expression (ECE) rice line were compared to the wild-type (WT) rice, by using nuclear magnetic resonance (NMR) metabolomics and quantitative real-time polymerase chain reaction (qRT-PCR). Compared with WT, ECE of the OsCYP96B4 gene resulted in significant increase of γ-aminobutyrate (GABA), glutamine, and alanine, but significant decrease of glutamate, aromatic and branched-chain amino acids, and some other amino acids. The ECE caused significant increase of monosaccharides (glucose, fructose), but significant decrease of disaccharide (sucrose); induced significant changes of metabolites involved in choline metabolism (phosphocholine, ethanolamine) and nucleotide metabolism (adenosine, adenosine monophosphate, uridine). These metabolic profile alterations were accompanied with changes in the gene expression levels of some related enzymes, involved in GABA shunt, glutamate and glutamine metabolism, choline metabolism, sucrose metabolism, glycolysis/gluconeogenesis pathway, tricarboxylic acid (TCA) cycle, nucleotide metabolism, and shikimate-mediated secondary metabolism. The semi-dwarf mutant showed corresponding but less pronounced changes, especially in the gene expression levels. It indicates that OsCYP96B4 gene mutation in rice causes significant alteration in amino acid metabolism, carbohydrate metabolism, nucleotide metabolism, and shikimate-mediated secondary metabolism. The present study will provide essential information for the OsCYP96B4 gene function analysis and may serve as valuable reference data for the development of new semi-dwarf mutants.

scholarly journals The Green Fluorescent Protein Gene Functions as a Reporter of Gene Expression in Phanerochaete chrysosporium

2001 ◽  
Vol 67 (2) ◽  
pp. 948-955 ◽  
Author(s):  
Biao Ma ◽  
Mary B. Mayfield ◽  
Michael H. Gold
Keyword(s):  
Gene Expression ◽  
Green Fluorescent Protein ◽  
Phanerochaete Chrysosporium ◽  
Fluorescent Protein ◽  
Schizophyllum Commune ◽  
Extracellular Fluid ◽  
Gene Promoter ◽  
Green Fluorescent Protein Gene ◽  
Cell Extracts ◽  
Green Fluorescent

ABSTRACT The enhanced green fluorescent protein (GFP) gene (egfp) was used as a reporter of gene expression driven by the glyceraldehyde-p-dehydrogenase (gpd) gene promoter and the manganese peroxidase isozyme 1 (mnp1) gene promoter in Phanerochaete chrysosporium. Four different constructs were prepared. pUGGM3′ and pUGiGM3′ contain the P. chrysosporium gpd promoter fused upstream of the egfpcoding region, and pUMGM3′ and pUMiGM3′ contain the P. chrysosporium mnp1 promoter fused upstream of theegfp gene. In all constructs, the egfp gene was followed by the mnp1 gene 3′ untranslated region. In pUGGM3′ and pUMGM3′, the promoters were fused directly withegfp, whereas in pUGiGM3′ and pUMiGM3′, following the promoters, the first exon (6 bp), the first intron (55 bp), and part of the second exon (9 bp) of the gpd gene were inserted at the 5′ end of the egfp gene. All constructs were ligated into a plasmid containing the ura1 gene of Schizophyllum commune as a selectable marker and were used to transform a Ural1 auxotrophic strain of P. chrysosporium to prototrophy. Crude cell extracts were examined for GFP fluorescence, and where appropriate, the extracellular fluid was examined for MnP activity. The transformants containing a construct with an intron 5′ of theegfp gene (pUGiGM3′ and pUMiGM3′) exhibited maximal fluorescence under the appropriate conditions. The transformants containing constructs with no introns exhibited minimal or no fluorescence. Northern (RNA) blots indicated that the insertion of a 5′ intron resulted in more egfp RNA than was found in transformants carrying an intronless egfp. These results suggest that the presence of a 5′ intron affects the expression of theegfp gene in P. chrysosporium. The expression of GFP in the transformants carrying pUMiGM3′ paralled the expression of endogenous mnp with respect to nitrogen and Mn levels, suggesting that this construct will be useful in studyingcis-acting elements in the mnp1 gene promoter.

Sign in / Sign up

Export Citation Format

Share Document