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nutrient-gene interaction

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https://www.readbyqxmd.com/read/28904137/seasonal-variation-in-nutrient-utilization-shapes-gut-microbiome-structure-and-function-in-wild-giant-pandas
#1
Qi Wu, Xiao Wang, Yun Ding, Yibo Hu, Yonggang Nie, Wei Wei, Shuai Ma, Li Yan, Lifeng Zhu, Fuwen Wei
Wild giant pandas use different parts of bamboo (shoots, leaves and stems) and different bamboo species at different times of the year. Their usage of bamboo can be classified temporally into a distinct leaf stage, shoot stage and transition stage. An association between this usage pattern and variation in the giant panda gut microbiome remains unknown. Here, we found associations using a gut metagenomic approach and nutritional analyses whereby diversity of the gut microbial community in the leaf and shoot stages was significantly different...
September 13, 2017: Proceedings. Biological Sciences
https://www.readbyqxmd.com/read/28889206/dietary-fatty-acid-composition-modulates-obesity-and-interacts-with-obesity-related-genes
#2
REVIEW
Shatha S Hammad, Peter J Jones
The prevalence of obesity is skyrocketing worldwide. The scientific evidence has associated obesity risk with many independent factors including the quality of dietary fat and genetics. Dietary fat exists as the main focus of dietary guidelines targeting obesity reduction. To prevent/minimize the adipogenic effect of dietary fatty acids (FA), intakes of long-chain saturated- and trans-FA should be reduced and substituted with unsaturated FA. The optimal proportions of dietary unsaturated FA are yet to be defined, along with a particular emphasis on the need to achieve a balanced ratio of n-3:n-6 polyunsaturated FA and to increase monounsaturated FA consumption at the expense of saturated FA...
September 9, 2017: Lipids
https://www.readbyqxmd.com/read/28882794/local-immune-response-of-two-mucosal-surfaces-of-the-european-seabass-dicentrarchus-labrax-fed-tryptophan-or-methionine-supplemented-diets
#3
R Azeredo, M Machado, F A Guardiola, R Cerezuela, A Afonso, H Peres, A Oliva-Teles, M A Esteban, B Costas
Immune responses relies on an adequate provision of multiple nutrients that sustain the synthesis of key effector molecules. These needs are depicted in the already reported increase of circulating free amino acids in fish under stressful conditions. Since aquaculture and the inherent fish welfare are an emergent call, the immunomodulatory effects of amino acids on gut- and skin-associated lymphoid tissues of the European seabass (Dicentrarchus labrax) were studied under unstressed conditions and after an inflammatory insult...
September 5, 2017: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/28878861/genome-sequence-of-the-sulfur-oxidizing-bathymodiolus-thermophilus-gill-endosymbiont
#4
Ruby Ponnudurai, Lizbeth Sayavedra, Manuel Kleiner, Stefan E Heiden, Andrea Thürmer, Horst Felbeck, Rabea Schlüter, Stefan M Sievert, Rolf Daniel, Thomas Schweder, Stephanie Markert
Bathymodiolus thermophilus, a mytilid mussel inhabiting the deep-sea hydrothermal vents of the East Pacific Rise, lives in symbiosis with chemosynthetic Gammaproteobacteria within its gills. The intracellular symbiont population synthesizes nutrients for the bivalve host using the reduced sulfur compounds emanating from the vents as energy source. As the symbiont is uncultured, comprehensive and detailed insights into its metabolism and its interactions with the host can only be obtained from culture-independent approaches such as genomics and proteomics...
2017: Standards in Genomic Sciences
https://www.readbyqxmd.com/read/28876333/folate-vitamin-b12-homocysteine-and-polymorphisms-in-folate-metabolizing-genes-in-children-with-congenital-heart-disease-and-their-mothers
#5
K E Elizabeth, S L Praveen, N R Preethi, V T Jissa, M R Pillai
BACKGROUND/OBJECTIVES: The objective of the study was to assess the role of variations in serum folate, vitamin B12, homocysteine and the presence of genetic polymorphisms as risk factors for congenital heart disease (CHD) in children. SUBJECTS/METHODS: A total of 32 children with CHD, and their mothers and 32 normal children and their mothers formed the study and control groups, respectively. Serum folate, vitamin B12 and homocysteine as well as genetic polymorphisms MTHFR C677→︀T, MTHFR A1298→︀C, MTR A2756→︀G and MTRR A66→︀G were assessed...
September 6, 2017: European Journal of Clinical Nutrition
https://www.readbyqxmd.com/read/28874509/the-maize-imprinted-gene-floury3-encodes-a-platz-protein-required-for-trna-and-5s-rrna-transcription-through-interaction-with-rna-polymerase-iii
#6
Qi Li, Jiechen Wang, Jianwei Ye, Xixi Zheng, Xiaoli Xiang, Changsheng Li, Miaomiao Fu, Qiong Wang, Zhi-Yong Zhang, Yongrui Wu
Maize (Zea mays) floury3 (fl3) is a classic semi-dominant negative mutant that exhibits severe defects in the endosperm but fl3 plants otherwise appear normal. We cloned the fl3 gene and determined that it encodes a PLATZ (plant AT-rich sequence- and zinc-binding) protein. The mutation in fl3 resulted in an Asn to His replacement in the conserved PLATZ domain, creating a dominant allele. Fl3 is specifically expressed in starchy endosperm cells and regulated by genomic imprinting, which leads to the suppressed expression of fl3 when transmitted through the male, perhaps as a consequence the semi-dominant behavior...
September 5, 2017: Plant Cell
https://www.readbyqxmd.com/read/28868220/evaluation-of-stress-effects-of-copper-oxide-nanoparticles-in-brassica-napus-l-seedlings
#7
Prakash M Gopalakrishnan Nair, Ill Min Chung
Rapid growth of nanotechnology has enabled the production and use of engineered nanoparticles (ENPs) in several industries as well as in agriculture areas. This has raised ecotoxicological concerns due to the release of ENPs to the environment. In the present study, we investigated the effects of interactions of copper oxide nanoparticles (CuO NPs) on physiological, biochemical, and molecular indices in seedlings of an important oil seed crop Brassica napus L. The seedlings were treated with 0, 20, 50, 100, 200, 400, and 500 mg/L of CuO NPs for 14 days in half-strength semi-solid Murashige and Skoog medium...
October 2017: 3 Biotech
https://www.readbyqxmd.com/read/28868061/genome-wide-identification-and-expression-analysis-of-nramp-family-genes-in-soybean-glycine-max-l
#8
Lu Qin, Peipei Han, Liyu Chen, Thomas C Walk, Yinshui Li, Xiaojia Hu, Lihua Xie, Hong Liao, Xing Liao
The NRAMP (natural resistance-associated macrophage protein) family of genes has been widely characterized in organisms ranging from bacteria to yeast, plants, mice, and humans. This gene family plays vital roles in divalent metal ion transport across cellular membranes. As yet, comprehensive analysis of NRAMP family genes has not been reported for soybean. In this study, bioinformatics analysis was conducted to identify 13 soybean NRAMP genes, along with their gene structures, phylogenetic relationships, and transmembrane domains...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28865861/liver-transcriptome-analysis-reveals-important-factors-involved-in-the-metabolic-adaptation-of-the-transition-cow
#9
N-T Ha, C Drögemüller, C Reimer, F Schmitz-Hsu, R M Bruckmaier, H Simianer, J J Gross
During early lactation, dairy cows experience a severe metabolic load often resulting in the development of various diseases. The inevitable deficiency in nutrients and energy at the onset of lactation requires an optimal adaptation of the hepatic metabolism to overcome metabolic stress. We conducted a whole-liver transcriptome analysis for the transition cow to identify novel factors crucial for metabolic adaptation. Liver samples were obtained from 6 Red Holstein dairy cows (parity 2 to 7, mean ± standard deviation: 3...
August 30, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28861526/metabolic-network-analysis-and-metatranscriptomics-reveal-auxotrophies-and-nutrient-sources-of-the-cosmopolitan-freshwater-microbial-lineage-aci
#10
Joshua J Hamilton, Sarahi L Garcia, Brittany S Brown, Ben O Oyserman, Francisco Moya-Flores, Stefan Bertilsson, Rex R Malmstrom, Katrina T Forest, Katherine D McMahon
An explosion in the number of available genome sequences obtained through metagenomics and single-cell genomics has enabled a new view of the diversity of microbial life, yet we know surprisingly little about how microbes interact with each other or their environment. In fact, the majority of microbial species remain uncultivated, while our perception of their ecological niches is based on reconstruction of their metabolic potential. In this work, we demonstrate how the "seed set framework," which computes the set of compounds that an organism must acquire from its environment (E...
July 2017: MSystems
https://www.readbyqxmd.com/read/28861048/long-term-fertilization-structures-bacterial-and-archaeal-communities-along-soil-depth-gradient-in-a-paddy-soil
#11
Yunfu Gu, Yingyan Wang, Sheng'e Lu, Quanju Xiang, Xiumei Yu, Ke Zhao, Likou Zou, Qiang Chen, Shihua Tu, Xiaoping Zhang
Soil microbes provide important ecosystem services. Though the effects of changes in nutrient availability due to fertilization on the soil microbial communities in the topsoil (tilled layer, 0-20 cm) have been extensively explored, the effects on communities and their associations with soil nutrients in the subsoil (below 20 cm) which is rarely impacted by tillage are still unclear. 16S rRNA gene amplicon sequencing was used to investigate bacterial and archaeal communities in a Pup-Calric-Entisol soil treated for 32 years with chemical fertilizer (CF) and CF combined with farmyard manure (CFM), and to reveal links between soil properties and specific bacterial and archaeal taxa in both the top- and subsoil...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28859085/plant-micrornas-in-larval-food-regulate-honeybee-caste-development
#12
Kegan Zhu, Minghui Liu, Zheng Fu, Zhen Zhou, Yan Kong, Hongwei Liang, Zheguang Lin, Jun Luo, Huoqing Zheng, Ping Wan, Junfeng Zhang, Ke Zen, Jiong Chen, Fuliang Hu, Chen-Yu Zhang, Jie Ren, Xi Chen
The major environmental determinants of honeybee caste development come from larval nutrients: royal jelly stimulates the differentiation of larvae into queens, whereas beebread leads to worker bee fate. However, these determinants are not fully characterized. Here we report that plant RNAs, particularly miRNAs, which are more enriched in beebread than in royal jelly, delay development and decrease body and ovary size in honeybees, thereby preventing larval differentiation into queens and inducing development into worker bees...
August 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28859076/developmental-programming-of-somatic-growth-behavior-and-endocannabinoid-metabolism-by-variation-of-early-postnatal-nutrition-in-a-cross-fostering-mouse-model
#13
Felix Schreiner, Merle Ackermann, Michael Michalik, Eva Hucklenbruch-Rother, Andras Bilkei-Gorzo, Ildiko Racz, Laura Bindila, Beat Lutz, Jörg Dötsch, Andreas Zimmer, Joachim Woelfle
BACKGROUND: Nutrient deprivation during early development has been associated with the predisposition to metabolic disorders in adulthood. Considering its interaction with metabolism, appetite and behavior, the endocannabinoid (eCB) system represents a promising target of developmental programming. METHODS: By cross-fostering and variation of litter size, early postnatal nutrition of CB6F1-hybrid mice was controlled during the lactation period (3, 6, or 10 pups/mother)...
2017: PloS One
https://www.readbyqxmd.com/read/28854676/bacterial-community-composition-and-diversity-in-kalakuli-an-alpine-glacial-fed-lake-in-muztagh-ata-of-the-westernmost-tibetan-plateau
#14
Keshao Liu, Yongqin Liu, Nianzhi Jiao, Baiqing Xu, Zhengquan Gu, Tingting Xing, Jinbo Xiong
It is widely accepted that bacterial community composition and diversity in remote alpine lakes are structured by environmental conditions such as nutrient status and temperature. However, the mechanisms that underlie and structure bacterial community composition and diversity in alpine lakes remain unclear. We used 16S rRNA gene-based Illumina MiSeq sequencing to investigate the complex ecological interactions between bacterial communities and nutrient status in Kalakuli Lake, an alpine glacial-fed lake in Muztagh Ata of the westernmost Tibetan Plateau...
July 1, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28851878/taxonomic-and-functional-shifts-in-the-beech-rhizosphere-microbiome-across-a-natural-soil-toposequence
#15
Y Colin, O Nicolitch, J D Van Nostrand, J Z Zhou, M-P Turpault, S Uroz
It has been rarely questioned as to whether the enrichment of specific bacterial taxa found in the rhizosphere of a given plant species changes with different soil types under field conditions and under similar climatic conditions. Understanding tree microbiome interactions is essential because, in contrast to annual plants, tree species require decades to grow and strongly depend on the nutritive resources of the soil. In this context, we tested using a natural toposequence the hypothesis that beech trees select specific taxa and functions in their rhizosphere based on the soil conditions and their nutritive requirements...
August 29, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28845460/integration-of-metabolomics-and-transcriptomics-reveals-a-complex-diet-of-mycobacterium-tuberculosis-during-early-macrophage-infection
#16
Michael Zimmermann, Maria Kogadeeva, Martin Gengenbacher, Gayle McEwen, Hans-Joachim Mollenkopf, Nicola Zamboni, Stefan Hugo Ernst Kaufmann, Uwe Sauer
Nutrient acquisition from the host environment is crucial for the survival of intracellular pathogens, but conceptual and technical challenges limit our knowledge of pathogen diets. To overcome some of these technical roadblocks, we exploited an experimentally accessible model for early infection of human macrophages by Mycobacterium tuberculosis, the etiological agent of tuberculosis, to study host-pathogen interactions with a multi-omics approach. We collected metabolomics and complete transcriptome RNA sequencing (dual RNA-seq) data of the infected macrophages, integrated them in a genome-wide reaction pair network, and identified metabolic subnetworks in host cells and M...
July 2017: MSystems
https://www.readbyqxmd.com/read/28842544/probing-the-genome-scale-metabolic-landscape-of-bordetella-pertussis-the-causative-agent-of-whooping-cough
#17
Filipe Branco Dos Santos, Brett G Olivier, Joost Boele, Vincent Smessaert, Philippe De Rop, Petra Krumpochova, Gunnar W Klau, Martin Giera, Philippe Dehottay, Bas Teusink, Philippe Goffin
Whooping cough is a highly-contagious respiratory disease caused by Bordetella pertussis. Despite vaccination, its incidence has been rising alarmingly, and yet, the physiology of B. pertussis remains poorly understood. We combined genome-scale metabolic reconstruction, a novel optimization algorithm and experimental data to probe the full metabolic potential of this pathogen, using strain Tohama I as a reference. Experimental validation showed that B. pertussis secretes a significant proportion of nitrogen as arginine and purine nucleosides, which may contribute to modulation of the host response...
August 25, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28835639/dietary-fat-intake-modulates-effects-of-a-frequent-ace-gene-variant-on-glucose-tolerance-with-association-to-type-2-diabetes
#18
Rita Schüler, Martin A Osterhoff, Turid Frahnow, Matthias Möhlig, Joachim Spranger, Darko Stefanovski, Richard N Bergman, Li Xu, Anne-Cathrin Seltmann, Stefan Kabisch, Silke Hornemann, Michael Kruse, Andreas F H Pfeiffer
The frequent ACE insertion/deletion polymorphism (I/D) is, albeit inconsistently, associated with impaired glucose tolerance and insulin resistance. We recently observed an enhanced upregulation of ACE by elevated fat intake in GG-carriers of the I/D-surrogate rs4343 variant and therefore investigated its potential nutrigenetic role in glucose metabolism. In this nutritional intervention study 46 healthy and non-obese twin pairs consumed recommended low fat diets for 6 weeks before they received a 6-week high fat (HF) diet under isocaloric conditions...
August 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28835260/genomic-insights-into-potential-interdependencies-in-microbial-hydrocarbon-and-nutrient-cycling-in-hydrothermal-sediments
#19
Nina Dombrowski, Kiley W Seitz, Andreas P Teske, Brett J Baker
BACKGROUND: Deep-sea hydrothermal vents are hotspots for productivity and biodiversity. Thermal pyrolysis and circulation produce fluids rich in hydrocarbons and reduced compounds that stimulate microbial activity in surrounding sediments. Several studies have characterized the diversity of Guaymas Basin (Gulf of California) sediment-inhabiting microorganisms; however, many of the identified taxa lack cultures or genomic representations. Here, we resolved the metabolic potential and community-level interactions of these diverse communities by reconstructing and analyzing microbial genomes from metagenomic sequencing data...
August 23, 2017: Microbiome
https://www.readbyqxmd.com/read/28831952/genomics-of-lactation-role-of-nutrigenomics-and-nutrigenetics-in-the-fatty-acid-composition-of-human-milk
#20
REVIEW
Elizabeth Sosa-Castillo, Maricela Rodríguez-Cruz, Carolina Moltó-Puigmartí
Human milk covers the infant's nutrient requirements during the first 6 months of life. The composition of human milk progressively changes during lactation and it is influenced by maternal nutritional factors. Nowadays, it is well known that nutrients have the ability to interact with genes and modulate molecular mechanisms impacting physiological functions. This has led to a growing interest among researchers in exploring nutrition at a molecular level and to the development of two fields of study: nutrigenomics, which evaluates the influence of nutrients on gene expression, and nutrigenetics, which evaluates the heterogeneous individual response to nutrients due to genetic variation...
August 2017: British Journal of Nutrition
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