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One carbon metabolism

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https://www.readbyqxmd.com/read/29453804/probiotics-affect-one-carbon-metabolites-and-catecholamines-in-a-genetic-rat-model-of-depression
#1
Sandra Tillmann, Hussain M Awwad, Amanda R Eskelund, Giulia Treccani, Juergen Geisel, Gregers Wegener, Rima Obeid
SCOPE: Probiotics may influence one-carbon (C1) metabolism, neurotransmitters, liver function markers, or behavior. METHODS AND RESULTS: Male adult Flinders Sensitive Line rats (model of depression, FSL; n = 22) received Lactobacillus helveticus R0052 and Bifidobacterium longum R0175 (10 9 or 10 10 colony-forming units/d) or vehicle for 10 weeks. The controls, Flinders Resistant Line rats (FRL, n = 8), only received vehicle. C1-related metabolites were measured in plasma, urine, and different tissues...
February 17, 2018: Molecular Nutrition & Food Research
https://www.readbyqxmd.com/read/29453395/the-genes-of-the-sulphoquinovose-catabolism-in-escherichia-coli-are-also-associated-with-a-previously-unknown-pathway-of-lactose-degradation
#2
Anna Kaznadzey, Pavel Shelyakin, Evgeniya Belousova, Aleksandra Eremina, Uliana Shvyreva, Darya Bykova, Vera Emelianenko, Anastasiya Korosteleva, Maria Tutukina, Mikhail S Gelfand
Comparative genomics analysis of conserved gene cassettes demonstrated resemblance between a recently described cassette of genes involved in sulphoquinovose degradation in Escherichia coli K-12 MG1655 and a Bacilli cassette linked with lactose degradation. Six genes from both cassettes had similar functions related to carbohydrate metabolism, namely, hydrolase, aldolase, kinase, isomerase, transporter, and transcription factor. The Escherichia coli sulphoglycolysis cassette was thus predicted to be associated with lactose degradation...
February 16, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29453262/insights-into-the-fundamental-physiology-of-the-uncultured-fe-oxidizing-bacterium-leptothrix-ochracea
#3
E J Fleming, T Woyke, A R Donatello, M M M Kuypers, A Sczyrba, S Littmann, D Emerson
Leptothrix ochracea is known for producing large volumes of iron-oxyhydroxide sheaths that alter wetland biogeochemistry. For over a century, these delicate structures have fascinated microbiologists and geoscientists. Because L. ochracea still resists long-term in vitro culture, the debate regarding its metabolic classification dates back to 1885. We developed a novel culturing technique for L. ochracea using in situ natural waters, and coupled this with single cell genomics and nanoscale secondary ion mass spectrophotometry (nanoSIMS) to probe L...
February 16, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29452849/bacterial-communities-in-mining-soils-and-surrounding-areas-under-regeneration-process-in-a-former-ore-mine
#4
Camila Cesário Fernandes, Luciano Takeshi Kishi, Erica Mendes Lopes, Wellington Pine Omori, Jackson Antonio Marcondes de Souza, Lucia Maria Carareto Alves, Eliana Gertrudes de Macedo Lemos
Human activities on the Earth's surface change the landscape of natural ecosystems. Mining practices are one of the most severe human activities, drastically altering the chemical, physical and biological properties of the soil environment. Bacterial communities in soil play an important role in the maintenance of ecological relationships. This work shows bacterial diversity, metabolic repertoire and physiological behavior in five ecosystems samples with different levels of impact. These ecosystems belong to a historical area in Iron Quadrangle, Minas Gerais, Brazil, which suffered mining activities until its total depletion without recovery since today...
February 13, 2018: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/29452640/serine-catabolism-by-shmt2-is-required-for-proper-mitochondrial-translation-initiation-and-maintenance-of-formylmethionyl-trnas
#5
Denise R Minton, Minwoo Nam, Daniel J McLaughlin, Jong Shin, Erol C Bayraktar, Samantha W Alvarez, Vladislav O Sviderskiy, Thales Papagiannakopoulos, David M Sabatini, Kıvanç Birsoy, Richard Possemato
Upon glucose restriction, eukaryotic cells upregulate oxidative metabolism to maintain homeostasis. Using genetic screens, we find that the mitochondrial serine hydroxymethyltransferase (SHMT2) is required for robust mitochondrial oxygen consumption and low glucose proliferation. SHMT2 catalyzes the first step in mitochondrial one-carbon metabolism, which, particularly in proliferating cells, produces tetrahydrofolate (THF)-conjugated one-carbon units used in cytoplasmic reactions despite the presence of a parallel cytoplasmic pathway...
February 15, 2018: Molecular Cell
https://www.readbyqxmd.com/read/29451408/single-nucleotide-polymorphisms-in-key-one-carbon-metabolism-genes-and-their-association-with-blood-folate-and-homocysteine-levels-in-a-chinese-population-in-yunnan
#6
Juan Ni, Yaoxian Liu, Tao Zhou, Xiayu Wu, Xu Wang
OBJECTIVE: One-carbon metabolism (OCM) is essential for DNA synthesis and methylation. Single nucleotide polymorphisms (SNPs) within OCM genes may affect folic acid (FA) metabolism, disrupt homocysteine (Hcy) homeostasis, and increase the risk of disease. This study investigated the relationship between SNPs in key OCM genes and their association with blood FA and Hcy levels in a healthy population in Yunnan, China. METHODS: Six SNPs within five key OCM genes (MTHFR C677T, MTHFR A1298C, MS A2756G, MTRR A66G, CBS T833C, and SHMT C1420T) were genotyped in 300 healthy volunteers (148 males and 152 females) using polymerase chain reaction/restriction fragment length polymorphism...
February 16, 2018: Genetic Testing and Molecular Biomarkers
https://www.readbyqxmd.com/read/29447214/high-efficiency-classification-of-children-with-autism-spectrum-disorder
#7
Genyuan Li, Olivia Lee, Herschel Rabitz
Autism spectrum disorder (ASD) is a wide-ranging collection of developmental diseases with varying symptoms and degrees of disability. Currently, ASD is diagnosed mainly with psychometric tools, often unable to provide an early and reliable diagnosis. Recently, biochemical methods are being explored as a means to meet the latter need. For example, an increased predisposition to ASD has been associated with abnormalities of metabolites in folate-dependent one carbon metabolism (FOCM) and transsulfuration (TS)...
2018: PloS One
https://www.readbyqxmd.com/read/29446079/dietary-intake-of-nutrients-involved-in-one-carbon-metabolism-and-risk-of-urothelial-cell-carcinoma-a-prospective-cohort-study
#8
Pierre-Antoine Dugué, Maree T Brinkman, Allison M Hodge, Julie K Bassett, Damien Bolton, Anthony Longano, John L Hopper, Melissa C Southey, Dallas R English, Roger L Milne, Graham G Giles
Nutrients involved in one-carbon metabolism may play a role in carcinogenesis through DNA replication, repair and methylation mechanisms. Most studies on urothelial cell carcinoma (UCC) have focused on folate. We sought to examine the association between B-group vitamins and methionine intake and UCC risk, overall and by subtype, and to test whether these associations are different for population subgroups whose nutritional status may be compromised. We followed participants in the Melbourne Collaborative Cohort Study (N=41,513) for over 20 years, and observed 500 UCC cases (89% originating in the bladder; superficial: 279, invasive: 221)...
February 15, 2018: International Journal of Cancer. Journal International du Cancer
https://www.readbyqxmd.com/read/29438850/secreted-protein-extract-analyses-present-the-plant-pathogen-alternaria-alternata-as-a-suitable-industrial-enzyme-toolbox
#9
L García-Calvo, R V Ullán, M Fernández-Aguado, A M García-Lino, R Balaña-Fouce, C Barreiro
Lignocellulosic plant biomass is the most abundant carbon source in the planet, which makes it a potential substrate for biorefinery. It consists of polysaccharides and other molecules with applications in pharmaceutical, food and feed, cosmetics, paper and textile industries. The exploitation of these resources requires the hydrolysis of the plant cell wall, which is a complex process. Aiming to discover novel fungal natural isolates with lignocellulolytic capacities, a screening for feruloyl esterase activity was performed in samples taken from different metal surfaces...
February 10, 2018: Journal of Proteomics
https://www.readbyqxmd.com/read/29437021/homocysteine-levels-in-autism-spectrum-disorder-a-clinical-update
#10
Milagros Fuentes-Albero, Omar Cauli
Homocysteine (Hcy) is a non-protein α-amino acid, which plays several important roles in human physiology and in the central nervous system. Although Hcy has several known biological properties in one-carbon metabolism, its overproduction might be harmful and could add to the pathophysiology associated with autism spectrum disorder (ASD). This review presents updated information about alterations in the concentration of this amino acid in biological fluids (blood and urine) in patients with ASD. In addition, we assessed its clinical significance by analyzing if there are any potential associations between abnormal Hcy levels and the severity ASD or any of its symptoms...
February 12, 2018: Endocrine, Metabolic & Immune Disorders Drug Targets
https://www.readbyqxmd.com/read/29434055/assessing-metabolic-rate-and-indoor-air-quality-with-passive-environmental-sensors
#11
Iván Ruiz, Mark Sprowls, Yue Deng, Doina Kulick, Hugo Destaillats, Erica S Forzani
The present work introduces the use of environmental sensors to assess indoor air quality (IAQ) in combination with human biometrics. The sensor array included temperature, relative humidity, carbon dioxide, and noise sensors. The array was used in a classroom as well as in a vehicle cabin to assess the indoor air quality and carbon dioxide production rate of individuals in a closed ventilation environment. Analysis of carbon dioxide production allowed for the quantification of the average metabolic rate of the group of individuals in the classroom, and for one individual in the vehicle cabin...
February 13, 2018: Journal of Breath Research
https://www.readbyqxmd.com/read/29423909/perinatal-high-fat-diet-and-early-life-methyl-donor-supplementation-alter-one-carbon-metabolism-and-dna-methylation-in-the-brain
#12
S E McKee, S Zhang, L Chen, J D Rabinowitz, T M Reyes
One carbon metabolism is regulated by the availability of nutrients known as methyl donors, and disruption of this pathway can affect multiple physiological systems. DNA methylation, critical for the regulation of gene expression, is linked to one carbon metabolism, and can be altered by perinatal diet. In the current study, dams (n=12/group) were fed HF or standard control (SC) diet through pregnancy and lactation, and male and female offspring were then fed either SC or methyl donor supplemented diet (MDS) between 3 and 6 weeks of age (n=20-26/group)...
February 9, 2018: Journal of Neurochemistry
https://www.readbyqxmd.com/read/29421402/serum-homocysteine-arsenic-methylation-and-arsenic-induced-skin-lesion-incidence-in-bangladesh-a-one-carbon-metabolism-candidate-gene-study
#13
Megan M Niedzwiecki, Xinhua Liu, Huiping Zhu, Megan N Hall, Vesna Slavkovich, Vesna Ilievski, Diane Levy, Abu B Siddique, Muhammad G Kibriya, Faruque Parvez, Tariqul Islam, Alauddin Ahmed, Ana Navas-Acien, Joseph H Graziano, Richard H Finnell, Habibul Ahsan, Mary V Gamble
BACKGROUND: Inorganic arsenic (As) is methylated via one carbon metabolism (OCM) to mono- and dimethylated arsenicals (MMA and DMA), facilitating urinary excretion. Hyperhomocysteinemia (HHcys), a marker of impaired OCM, is a risk factor for As-induced skin lesions, but the influences of single nucleotide polymorphisms (SNPs) in OCM genes on Hcys, As metabolism and skin lesion risk is unclear. OBJECTIVES: To (i) explore genetic sources of Hcys and the causal role of HHcys in As-induced skin lesion development using OCM genetic proxies for HHcys and (ii) identify OCM SNPs associated with urinary As metabolite proportions and/or skin lesion incidence...
February 2, 2018: Environment International
https://www.readbyqxmd.com/read/29420962/activation-of-serine-one-carbon-metabolism-by-calcineurin-a%C3%AE-1-reduces-myocardial-hypertrophy-and-improves-ventricular-function
#14
Laura Padrón-Barthe, María Villalba-Orero, Jesús M Gómez-Salinero, Rebeca Acín-Pérez, Sara Cogliati, Marina López-Olañeta, Paula Ortiz-Sánchez, Elena Bonzón-Kulichenko, Jesús Vázquez, Pablo García-Pavía, Nadia Rosenthal, José Antonio Enríquez, Enrique Lara-Pezzi
BACKGROUND: In response to pressure overload, the heart develops ventricular hypertrophy that progressively decompensates and leads to heart failure. This pathological hypertrophy is mediated, among others, by the phosphatase calcineurin and is characterized by metabolic changes that impair energy production by mitochondria. OBJECTIVES: The authors aimed to determine the role of the calcineurin splicing variant CnAβ1 in the context of cardiac hypertrophy and its mechanism of action...
February 13, 2018: Journal of the American College of Cardiology
https://www.readbyqxmd.com/read/29420625/effects-of-ocean-acidification-and-hydrodynamic-conditions-on-carbon-metabolism-and-dissolved-organic-carbon-doc-fluxes-in-seagrass-populations
#15
Luis G Egea, Rocío Jiménez-Ramos, Ignacio Hernández, Tjeerd J Bouma, Fernando G Brun
Global change has been acknowledged as one of the main threats to the biosphere and its provision of ecosystem services, especially in marine ecosystems. Seagrasses play a critical ecological role in coastal ecosystems, but their responses to ocean acidification (OA) and climate change are not well understood. There have been previous studies focused on the effects of OA, but the outcome of interactions with co-factors predicted to alter during climate change still needs to be addressed. For example, the impact of higher CO2 and different hydrodynamic regimes on seagrass performance remains unknown...
2018: PloS One
https://www.readbyqxmd.com/read/29420286/a-primordial-and-reversible-tca-cycle-in-a-facultatively-chemolithoautotrophic-thermophile
#16
Takuro Nunoura, Yoshito Chikaraishi, Rikihisa Izaki, Takashi Suwa, Takaaki Sato, Takeshi Harada, Koji Mori, Yumiko Kato, Masayuki Miyazaki, Shigeru Shimamura, Katsunori Yanagawa, Aya Shuto, Naohiko Ohkouchi, Nobuyuki Fujita, Yoshihiro Takaki, Haruyuki Atomi, Ken Takai
Inorganic carbon fixation is essential to sustain life on Earth, and the reductive tricarboxylic acid (rTCA) cycle is one of the most ancient carbon fixation metabolisms. A combination of genomic, enzymatic, and metabolomic analyses of a deeply branching chemolithotrophic Thermosulfidibacter takaii ABI70S6T revealed a previously unknown reversible TCA cycle whose direction was controlled by the available carbon source(s). Under a chemolithoautotrophic condition, a rTCA cycle occurred with the reverse reaction of citrate synthase (CS) and not with the adenosine 5'-triphosphate-dependent citrate cleavage reactions that had been regarded as essential for the conventional rTCA cycle...
February 2, 2018: Science
https://www.readbyqxmd.com/read/29411778/erratum-mammals-divert-endogenous-genotoxic-formaldehyde-into-one-carbon-metabolism
#17
Guillermo Burgos-Barragan, Niek Wit, Johannes Meiser, Felix A Dingler, Matthias Pietzke, Lee Mulderrig, Lucas B Pontel, Ivan V Rosado, Thomas F Brewer, Rebecca L Cordell, Paul S Monks, Christopher J Chang, Alexei Vazquez, Ketan J Patel
This corrects the article DOI: 10.1038/nature23481.
August 31, 2017: Nature
https://www.readbyqxmd.com/read/29410706/enhanced-isopropanol-butanol-ethanol-mixture-production-through-manipulation-of-intracellular-nad-p-h-level-in-the-recombinant-clostridium-acetobutylicum-xy16
#18
Chao Wang, Fengxue Xin, Xiangping Kong, Jie Zhao, Weiliang Dong, Wenming Zhang, Jiangfeng Ma, Hao Wu, Min Jiang
Background: The formation of by-products, mainly acetone in acetone-butanol-ethanol (ABE) fermentation, significantly affects the solvent yield and downstream separation process. In this study, we genetically engineered Clostridium acetobutylicum XY16 isolated by our lab to eliminate acetone production and altered ABE to isopropanol-butanol-ethanol (IBE). Meanwhile, process optimization under pH control strategies and supplementation of calcium carbonate were adopted to investigate the interaction between the reducing force of the metabolic networks and IBE production...
2018: Biotechnology for Biofuels
https://www.readbyqxmd.com/read/29410419/methane-utilization-in-methylomicrobium-alcaliphilum-20zr-a-systems-approach
#19
Ilya R Akberdin, Merlin Thompson, Richard Hamilton, Nalini Desai, Danny Alexander, Calvin A Henard, Michael T Guarnieri, Marina G Kalyuzhnaya
Biological methane utilization, one of the main sinks of the greenhouse gas in nature, represents an attractive platform for production of fuels and value-added chemicals. Despite the progress made in our understanding of the individual parts of methane utilization, our knowledge of how the whole-cell metabolic network is organized and coordinated is limited. Attractive growth and methane-conversion rates, a complete and expert-annotated genome sequence, as well as large enzymatic, 13C-labeling, and transcriptomic datasets make Methylomicrobium alcaliphilum 20ZR an exceptional model system for investigating methane utilization networks...
February 6, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29409445/integrative-analysis-of-methylomic-and-transcriptomic-data-in-fetal-sheep-muscle-tissues-in-response-to-maternal-diet-during-pregnancy
#20
Hadjer Namous, Francisco Peñagaricano, Marcello Del Corvo, Emanuele Capra, David L Thomas, Alessandra Stella, John L Williams, Paolo Ajmone Marsan, Hasan Khatib
BACKGROUND: Numerous studies have established a link between maternal diet and the physiological and metabolic phenotypes of their offspring. In previous studies in sheep, we demonstrated that different maternal diets altered the transcriptome of fetal tissues. However, the mechanisms underlying transcriptomic changes are poorly understood. DNA methylation is an epigenetic mark regulating transcription and is largely influenced by dietary components of the one-carbon cycle that generate the methyl group donor, SAM...
February 6, 2018: BMC Genomics
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