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One-carbon metabolism

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https://www.readbyqxmd.com/read/28928387/bi-directional-effects-of-vitamin-b12-and-methotrexate-on-daphnia-magna-fitness-and-genomic-methylation
#1
Fitore Kusari, Alan M O'Doherty, Nikolas J Hodges, Marcin W Wojewodzic
Here we interrogated, using three separate but complementary experimental approaches, the impact of vitamin B12 availability and methotrexate exposure on Daphnia magna, which we hypothesised should have an opposite effect on One carbon metabolism (OCM). OCM is a vital biological process supporting a variety of physiological processes, including DNA methylation. Contrary to mammalian models, this process remains largely unexplored in invertebrates. The purpose of this study was to elucidate the impact of OCM short-term alteration on the fitness and epigenome of the keystone species, Daphnia...
September 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28926956/carbonic-anhydrase-inhibition-and-the-management-of-hypoxic-tumors
#2
REVIEW
Claudiu T Supuran
Hypoxia and acidosis are salient features of many tumors, leading to a completely different metabolism compared to normal cells. Two of the simplest metabolic products, protons and bicarbonate, are generated by the catalytic activity of the metalloenzyme carbonic anhydrase (CA, EC 4.2.1.1), with at least two of its isoforms, CA IX and XII, mainly present in hypoxic tumors. Inhibition of tumor-associated CAs leads to an impaired growth of the primary tumors, metastases and reduces the population of cancer stem cells, leading thus to a complex and beneficial anticancer action for this class of enzyme inhibitors...
September 16, 2017: Metabolites
https://www.readbyqxmd.com/read/28926680/formic-acid-as-a-secondary-substrate-for-succinic-acid-production-by-metabolically-engineered-mannheimia-succiniciproducens
#3
Jung Ho Ahn, Junho Bang, Won Jun Kim, Sang Yup Lee
There has been much effort exerted to reduce one carbon (C1) gas emission to address climate change. As one promising way to more conveniently utilize C1 gas, several technologies have been developed to convert C1 gas into useful chemicals such as formic acid (FA). In this study, systems metabolic engineering was utilized to engineer Mannheimia succiniciproducens to efficiently utilize FA. (13) C isotope analysis of M. succiniciproducens showed that FA could be utilized through formate dehydrogenase (FDH) reaction and/or the reverse reaction of pyruvate formate lyase (PFL)...
September 19, 2017: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/28925544/metaproteomics-of-marine-viral-concentrates-reveals-key-viral-populations-and-abundant-periplasmic-proteins-in-the-oligotrophic-deep-chlorophyll-maximum-of-the-south-china-sea
#4
Zhang-Xian Xie, Feng Chen, Shu-Feng Zhang, Ming-Hua Wang, Hao Zhang, Ling-Fen Kong, Min-Han Dai, Hua-Sheng Hong, Lin Lin, Da-Zhi Wang
Viral concentrates (VCs), containing bio-informative DNA and proteins, have been used to study viral diversity, viral metagenomics and virus-host interactions in natural ecosystems. Besides viruses, VCs also contain many non-cellular biological components including diverse functional proteins. Here, we used a shotgun proteomic approach to characterize the proteins of VCs collected from the oligotrophic deep chlorophyll maximum (DCM) of the South China Sea. Proteins of viruses infecting picophytoplankton, i...
September 19, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28924029/circuitry-linking-the-global-csr-and-%C3%AF-e-dependent-cell-envelope-stress-response-systems
#5
Helen Yakhnin, Robert Aichele, Sarah E Ades, Tony Romeo, Paul Babitzke
CsrA of Escherichia coli is an RNA-binding protein that globally regulates a wide variety of cellular processes and behaviors including carbon metabolism, motility, biofilm formation, and the stringent response. CsrB and CsrC are sRNAs that sequester CsrA, thereby preventing CsrA-mRNA interaction. RpoE (σ(E)) is the extracytoplasmic stress response sigma factor of E. coli Previous RNA-seq studies identified rpoE mRNA as a CsrA target. Here we explored the regulation of rpoE by CsrA and found that CsrA represses rpoE translation...
September 18, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28923945/antagonism-correlates-with-metabolic-similarity-in-diverse-bacteria
#6
Jakob Russel, Henriette L Røder, Jonas S Madsen, Mette Burmølle, Søren J Sørensen
In the Origin of Species, Charles R. Darwin [Darwin C (1859) On the Origin of Species] proposed that the struggle for existence must be most intense among closely related species by means of their functional similarity. It has been hypothesized that this similarity, which results in resource competition, is the driver of the evolution of antagonism among bacteria. Consequently, antagonism should mostly be prevalent among phylogenetically and metabolically similar species. We tested the hypothesis by screening for antagonism among all possible pairwise interactions between 67 bacterial species from 8 different environments: 2,211 pairs of species and 4,422 interactions...
September 18, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28922778/circulating-folate-vitamin-b6-and-methionine-in-relation-to-lung-cancer-risk-in-the-lung-cancer-cohort-consortium-lc3
#7
Anouar Fanidi, David C Muller, Jian-Min Yuan, Victoria L Stevens, Stephanie J Weinstein, Demetrius Albanes, Ross Prentice, Cynthia A Thomsen, Mary Pettinger, Qiuyin Cai, William J Blot, Jie Wu, Alan A Arslan, Anne Zeleniuch-Jacquotte, Marjorie L McCullough, Loic Le Marchand, Lynne R Wilkens, Christopher A Haiman, Xuehong Zhang, Jiali Han, Meir J Stampfer, Stephanie A Smith-Warner, Edward Giovannucci, Graham G Giles, Allison M Hodge, Gianluca Severi, Mikael Johansson, Kjell Grankvist, Arnulf Langhammer, Steinar Krokstad, Marit Næss, Renwei Wang, Yu-Tang Gao, Lesley M Butler, Woon-Puay Koh, Xiao-Ou Shu, Yong-Bing Xiang, Honglan Li, Wei Zheng, Qing Lan, Kala Visvanathan, Judith Hoffman Bolton, Per Magne Ueland, Øivind Midttun, Arve Ulvik, Neil E Caporaso, Mark Purdue, Regina G Ziegler, Neal D Freedman, Julie E Buring, I-Min Lee, Howard D Sesso, J Michael Gaziano, Jonas Manjer, Ulrika Ericson, Caroline Relton, Paul Brennan, Mattias Johansson
Background: Circulating concentrations of B vitamins and factors related to one-carbon metabolism have been found to be strongly inversely associated with lung cancer risk in the European Prospective Investigation into Cancer and Nutrition (EPIC) study. The extent to which these associations are present in other study populations is unknown. Methods: Within 20 prospective cohorts from the National Cancer Institute Cohort Consortium, a nested case-control study was designed including 5364 incident lung cancer case patients and 5364 control subjects who were individually matched to case patients by age, sex, cohort, and smoking status...
January 1, 2018: Journal of the National Cancer Institute
https://www.readbyqxmd.com/read/28921786/lipid-production-and-characterization-by-mortierella-umbelopsis-isabellina-cultivated-on-lignocellulosic-sugars
#8
Chryssavgi Gardeli, Maria Athenaki, Evangelos Xenopoulos, Athanasios Mallouchos, Apostolis A Koutinas, George Aggelis, Seraphim Papanikolaou
AIMS: To study and characterize the lipids produced by Mortierella (Umbelopsis) isabellina, during its growth on mixtures of glucose and xylose. METHODS AND RESULTS: Glucose and xylose were utilized as carbon sources, solely or in blends, under nitrogen limited conditions, in batch-flask trials (initial sugars at 80 g l(-1) ). Significant lipid production (maximum lipid 17.8 g l(-1) ; lipid in DCW 61.0% w/w; lipid on glucose consumed 0.23 g g(-1) ) occurred on glucose employed solely, while glucose concentration in the growth medium was conversely correlated with lipid accumulation...
September 16, 2017: Journal of Applied Microbiology
https://www.readbyqxmd.com/read/28921561/the-ribokinases-of-arabidopsis-thaliana-and-saccharomyces-cerevisiae-are-required-for-ribose-recycling-from-nucleotide-catabolism-which-in-plants-is-not-essential-to-survive-prolonged-dark-stress
#9
Rebekka Y Schroeder, Anting Zhu, Holger Eubel, Kathleen Dahncke, Claus-Peter Witte
Nucleotide catabolism in Arabidopsis thaliana and Saccharomyces cerevisiae leads to the release of ribose, which requires phosphorylation to ribose-5-phosphate mediated by ribokinase (RBSK). We aimed to characterize RBSK in plants and yeast, to quantify the contribution of plant nucleotide catabolism to the ribose pool, and to investigate whether ribose carbon contributes to dark stress survival of plants. We performed a phylogenetic analysis and determined the kinetic constants of plant-expressed Arabidopsis and yeast RBSKs...
September 18, 2017: New Phytologist
https://www.readbyqxmd.com/read/28912798/comparative-genomic-analysis-of-the-human-gut-microbiome-reveals-a-broad-distribution-of-metabolic-pathways-for-the-degradation-of-host-synthetized-mucin-glycans-and-utilization-of-mucin-derived-monosaccharides
#10
Dmitry A Ravcheev, Ines Thiele
The colonic mucus layer is a dynamic and complex structure formed by secreted and transmembrane mucins, which are high-molecular-weight and heavily glycosylated proteins. Colonic mucus consists of a loose outer layer and a dense epithelium-attached layer. The outer layer is inhabited by various representatives of the human gut microbiota (HGM). Glycans of the colonic mucus can be used by the HGM as a source of carbon and energy when dietary fibers are not sufficiently available. Both commensals and pathogens can utilize mucin glycans...
2017: Frontiers in Genetics
https://www.readbyqxmd.com/read/28912786/co-infection-of-sweet-orange-with-severe-and-mild-strains-of-citrus-tristeza-virus-is-overwhelmingly-dominated-by-the-severe-strain-on-both-the-transcriptional-and-biological-levels
#11
Shimin Fu, Jonathan Shao, Changyong Zhou, John S Hartung
Citrus tristeza is one of the most destructive citrus diseases and is caused by the phloem-restricted Closterovirus, Citrus tristeza virus. Mild strain CTV-B2 does not cause obvious symptoms on indicators whereas severe strain CTV-B6 causes symptoms, including stem pitting, cupping, yellowing, and stiffening of leaves, and vein corking. Our laboratory has previously characterized changes in transcription in sweet orange separately infected with CTV-B2 and CTV-B6. In the present study, transcriptome analysis of Citrus sinensis in response to double infection by CTV-B2 and CTV-B6 was carried out...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28904994/n-acetylglucosamine-metabolism-promotes-survival-of-candida-albicans-in-the-phagosome
#12
Elisa M Vesely, Robert B Williams, James B Konopka, Michael C Lorenz
Phagocytosis by innate immune cells is one of the most effective barriers against the multiplication and dissemination of microbes within the mammalian host. Candida albicans, a pathogenic yeast, has robust mechanisms that allow survival upon macrophage phagocytosis. C. albicans survives in part because it can utilize the alternative carbon sources available in the phagosome, including carboxylic acids and amino acids. Furthermore, metabolism of these compounds raises the pH of the extracellular environment, which combats the acidification and maturation of the phagolysosome...
September 2017: MSphere
https://www.readbyqxmd.com/read/28904640/short-term-dietary-methionine-supplementation-affects-one-carbon-metabolism-and-dna-methylation-in-the-mouse-gut-and-leads-to-altered-microbiome-profiles-barrier-function-gene-expression-and-histomorphology
#13
Isabelle R Miousse, Rupak Pathak, Sarita Garg, Charles M Skinner, Stepan Melnyk, Oleksandra Pavliv, Howard Hendrickson, Reid D Landes, Annie Lumen, Alan J Tackett, Nicolaas E P Deutz, Martin Hauer-Jensen, Igor Koturbash
BACKGROUND: Methionine, a central molecule in one-carbon metabolism, is an essential amino acid required for normal growth and development. Despite its importance to biological systems, methionine is toxic when administered at supra-physiological levels. The aim of this study was to investigate the effects of short-term methionine dietary modulation on the proximal jejunum, the section of the gut specifically responsible for amino acid absorption, in a mouse model. Eight-week-old CBA/J male mice were fed methionine-adequate (MAD; 6...
2017: Genes & Nutrition
https://www.readbyqxmd.com/read/28903606/metabolic-profile-of-oxazepam-and-related-benzodiazepines-clinical-and-forensic-aspects
#14
Ricardo Jorge Dinis-Oliveira
Anxiolytic drugs, namely benzodiazepines, are the most commonly used psychoactive substances since anxiety disorders are prevalent mental disorders particularly in the Western world. Oxazepam is a short-acting benzodiazepine and one of the most frequently prescribed anxiolytic drugs. It is also the active metabolite of a wide range of other benzodiazepines, such as diazepam, ketazolam, temazepam, chlordiazepoxide, demoxazepam, halazepam, medazepam, prazepam, pinazepam, and chlorazepate. Therefore, relevant clinical and forensic outocomes may arise, namely those related to interference in driving performance...
September 14, 2017: Drug Metabolism Reviews
https://www.readbyqxmd.com/read/28903415/a-missense-mutation-in-tcn2-is-associated-with-decreased-risk-for-congenital-heart-defects-and-may-increase-cellular-uptake-of-vitamin-b12-via-megalin
#15
Peiqiang Li, Lijuan Huang, Yufang Zheng, Xuedong Pan, Rui Peng, Yueming Jiang, Richard H Finnell, Haijie Li, Bin Qiao, Hong-Yan Wang
Deregulation of folate and vitamin B12 (VB12) metabolism contributes to the risk of congenital heart defects (CHDs). Transcobalamin (TCN2) is essential for transporting VB12 from blood to cells as TCN2-bound VB12 (holo-TC) is the only form for somatic cellular uptake. In this study, we performed an association study between common polymorphisms in 46 one carbon metabolism genes and CHD in 412 CHDs and 213 controls. Only two significant association signals in coding regions were identified: FTCD c.1470C>T & TCN2 c...
August 15, 2017: Oncotarget
https://www.readbyqxmd.com/read/28900375/expression-and-purification-of-untagged-glnk-proteins-from-actinobacteria
#16
Edileusa C M Gerhardt, Vivian R Moure, Andrey W Souza, Fabio O Pedrosa, Emanuel M Souza, Lautaro Diacovich, Hugo Gramajo, Luciano F Huergo
The PII protein family constitutes one of the most conserved and well distributed family of signal transduction proteins in nature. These proteins play key roles in nitrogen and carbon metabolism. PII function has been well documented in Gram-negative bacteria. However, there are very few reports describing the in vitro properties and function of PII derived from Gram-positive bacteria. Here we present the heterologous expression and efficient purification protocols for untagged PII from three Actinobacteria of medical and biotechnological interest namely: Mycobacterium tuberculosis, Rhodococcus jostii and Streptomyces coelicolor...
2017: EXCLI journal
https://www.readbyqxmd.com/read/28900024/metabolic-roles-of-uncultivated-bacterioplankton-lineages-in-the-northern-gulf-of-mexico-dead-zone
#17
J Cameron Thrash, Kiley W Seitz, Brett J Baker, Ben Temperton, Lauren E Gillies, Nancy N Rabalais, Bernard Henrissat, Olivia U Mason
Marine regions that have seasonal to long-term low dissolved oxygen (DO) concentrations, sometimes called "dead zones," are increasing in number and severity around the globe with deleterious effects on ecology and economics. One of the largest of these coastal dead zones occurs on the continental shelf of the northern Gulf of Mexico (nGOM), which results from eutrophication-enhanced bacterioplankton respiration and strong seasonal stratification. Previous research in this dead zone revealed the presence of multiple cosmopolitan bacterioplankton lineages that have eluded cultivation, and thus their metabolic roles in this ecosystem remain unknown...
September 12, 2017: MBio
https://www.readbyqxmd.com/read/28899391/mixomics-analysis-of-bacillus-subtilis-effect-of-oxygen-availability-on-riboflavin-production
#18
Junlang Hu, Pan Lei, Ali Mohsin, Xiaoyun Liu, Mingzhi Huang, Liang Li, Jianhua Hu, Haifeng Hang, Yingping Zhuang, Meijin Guo
BACKGROUND: Riboflavin, an intermediate of primary metabolism, is one kind of important food additive with high economic value. The microbial cell factory Bacillus subtilis has already been proven to possess significant importance for the food industry and have become one of the most widely used riboflavin-producing strains. In the practical fermentation processes, a sharp decrease in riboflavin production is encountered along with a decrease in the dissolved oxygen (DO) tension. Influence of this oxygen availability on riboflavin biosynthesis through carbon central metabolic pathways in B...
September 12, 2017: Microbial Cell Factories
https://www.readbyqxmd.com/read/28894153/molecular-insights-into-photosynthesis-and-carbohydrate-metabolism-in-jatropha-curcas-grown-under-elevated-co2-using-transcriptome-sequencing-and-assembly
#19
Sumit Kumar, Rachapudi Venkata Sreeharsha, Shalini Mudalkar, Prasad M Sarashetti, Attipalli Ramachandra Reddy
Jatropha curcas L. (Family - Euphorbiaceae) is a perennial tree of special interest due to its potential as a biofuel plant with high carbon sequestration. In this study, physiological investigations coupled with transcriptomics in relation to photosynthesis were evaluated in Jatropha grown under ambient (395 ppm) and elevated (550 ppm) CO2 atmosphere. Morphophysiological analysis revealed that Jatropha sustained enhanced photosynthesis during its growth under elevated CO2 for one year which might be linked to improved CO2 assimilation physiology and enhanced sink activity...
September 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28890761/hypothetical-protein-bpsl3393-of-burkholderia-pseudomallei-is-involved-in-ethanolamine-catabolism
#20
Ooi Gim Luan, Hokchai Yam, Razip Samian, Mustafa Fadzil Farid Wajidi, Nor Muhammad Mahadi, Suriani Mohamad, Nazalan Najimudin
Burkholderia pseudomallei is a soil-dwelling bacterium that causes a globally emerging disease called melioidosis. Approximately one third of the in silico annotated genes in its genome are classified as hypothetical genes. This group of genes is difficult to be functionally characterised partly due to the absence of noticeable phenotypes under conventional laboratory settings. A bioinformatic survey of hypothetical genes revealed a gene designated as BPSL3393 that putatively encodes a small protein of 11 kDA with a CoA binding domain...
July 2017: Tropical Life Sciences Research
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