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Human gut microbiome

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https://www.readbyqxmd.com/read/28640804/boolean-analysis-reveals-systematic-interactions-among-low-abundance-species-in-the-human-gut-microbiome
#1
Jens Christian Claussen, Jurgita Skiecevičienė, Jun Wang, Philipp Rausch, Tom H Karlsen, Wolfgang Lieb, John F Baines, Andre Franke, Marc-Thorsten Hütt
The analysis of microbiome compositions in the human gut has gained increasing interest due to the broader availability of data and functional databases and substantial progress in data analysis methods, but also due to the high relevance of the microbiome in human health and disease. While most analyses infer interactions among highly abundant species, the large number of low-abundance species has received less attention. Here we present a novel analysis method based on Boolean operations applied to microbial co-occurrence patterns...
June 2017: PLoS Computational Biology
https://www.readbyqxmd.com/read/28631091/the-role-of-microbiota-and-probiotics-and-prebiotics-in-skin-health
#2
Mia Maguire, Greg Maguire
During the past decade, scientists have made great strides in understanding the microbiome's role in human health. Today, the microbiome has become key in scientific research, therapeutic development, medical treatment, and as a news feature in the media. Most studies have focused on the microbiome of our gut, but recently researchers have turned their attention to other microbiomes, including that of the skin. These studies of gut and skin microbiomes are yielding very informative results, new treatment strategies, and the development of new prebiotic and probiotic products for the treatment of many skin conditions...
June 19, 2017: Archives of Dermatological Research
https://www.readbyqxmd.com/read/28628333/coupling-targeted-and-untargeted-mass-spectrometry-for-metabolome-microbiome-wide-association-studies-of-human-fecal-samples
#3
Alexey V Melnik, Pieter C Dorrestein, Ricardo R da Silva, Embriette R Hyde, Alexander A Aksenov, Fernando Vargas, Amina Bouslimani, Ivan Protsyuk, Alan Jarmusch, Anupriya Tripathi, Theodore Alexandrov, Rob Knight
Increasing appreciation of the gut microbiome's role in health motivates understanding the molecular composition of human feces. To analyze such complex samples, we developed a platform coupling targeted and untargeted metabolomics. The approach is facilitated through split flow from one UPLC, joint timing triggered by contact closure relays and a script to retrieve the data. It is designed to detect specific metabolites of interest with high sensitivity, allows for correction of targeted information, enables better quantitation thus providing an advanced analytical tool for exploratory studies...
June 19, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28628112/gut-microbiome-and-serum-metabolome-alterations-in-obesity-and-after-weight-loss-intervention
#4
Ruixin Liu, Jie Hong, Xiaoqiang Xu, Qiang Feng, Dongya Zhang, Yanyun Gu, Juan Shi, Shaoqian Zhao, Wen Liu, Xiaokai Wang, Huihua Xia, Zhipeng Liu, Bin Cui, Peiwen Liang, Liuqing Xi, Jiabin Jin, Xiayang Ying, Xiaolin Wang, Xinjie Zhao, Wanyu Li, Huijue Jia, Zhou Lan, Fengyu Li, Rui Wang, Yingkai Sun, Minglan Yang, Yuxin Shen, Zhuye Jie, Junhua Li, Xiaomin Chen, Huanzi Zhong, Hailiang Xie, Yifei Zhang, Weiqiong Gu, Xiaxing Deng, Baiyong Shen, Xun Xu, Huanming Yang, Guowang Xu, Yufang Bi, Shenghan Lai, Jian Wang, Lu Qi, Lise Madsen, Jiqiu Wang, Guang Ning, Karsten Kristiansen, Weiqing Wang
Emerging evidence has linked the gut microbiome to human obesity. We performed a metagenome-wide association study and serum metabolomics profiling in a cohort of lean and obese, young, Chinese individuals. We identified obesity-associated gut microbial species linked to changes in circulating metabolites. The abundance of Bacteroides thetaiotaomicron, a glutamate-fermenting commensal, was markedly decreased in obese individuals and was inversely correlated with serum glutamate concentration. Consistently, gavage with B...
June 19, 2017: Nature Medicine
https://www.readbyqxmd.com/read/28626612/postmortem-succession-of-gut-microbial-communities-in-deceased-human%C3%A2-subjects
#5
Jennifer M DeBruyn, Kathleen A Hauther
The human microbiome has demonstrated an importance for the health and functioning in living individuals. However, the fate of the microbiome after death is less understood. In addition to a better understanding of microbe-mediated decomposition processes, postmortem succession of human-associated microbial communities has been suggested as a possible forensic tool for estimating time since death, or postmortem interval (PMI). The objective of our study was to document postmortem changes in human gut bacterial communities...
2017: PeerJ
https://www.readbyqxmd.com/read/28625867/understanding-the-holobiont-how-microbial-metabolites-affect-human-health-and-shape-the-immune-system
#6
REVIEW
Thomas Siegmund Postler, Sankar Ghosh
The human gastrointestinal tract is populated by a diverse, highly mutualistic microbial flora, which is known as the microbiome. Disruptions to the microbiome have been shown to be associated with severe pathologies of the host, including metabolic disease, cancer, and inflammatory bowel disease. Mood and behavior are also susceptible to alterations in the gut microbiota. A particularly striking example of the symbiotic effects of the microbiome is the immune system, whose cells depend critically on a diverse array of microbial metabolites for normal development and behavior...
June 14, 2017: Cell Metabolism
https://www.readbyqxmd.com/read/28624847/the-microbiome-gut-brain-axis-implications-for-schizophrenia-and-antipsychotic-induced-weight-gain
#7
REVIEW
S Kanji, T M Fonseka, V S Marshe, V Sriretnakumar, M K Hahn, D J Müller
With the emergence of knowledge implicating the human gut microbiome in the development and regulation of several physiological systems, evidence has accumulated to suggest a role for the gut microbiome in psychiatric conditions and drug response. A complex relationship between the enteric nervous system, the gut microbiota and the central nervous system has been described which allows for the microbiota to influence and respond to a variety of behaviors and psychiatric conditions. Additionally, the use of pharmaceuticals may interact with and alter the microbiota to potentially contribute to adverse effects of the drug...
June 17, 2017: European Archives of Psychiatry and Clinical Neuroscience
https://www.readbyqxmd.com/read/28624575/intestinal-fungal-dysbiosis-associates-with-visceral-hypersensitivity-in-patients-with-irritable-bowel-syndrome-and-rats
#8
Sara Botschuijver, Guus Roeselers, Evgeni Levin, Daisy M Jonkers, Olaf Welting, Sigrid Em Heinsbroek, Heleen H de Weerd, Teun Boekhout, Matteo Fornai, Ad A Masclee, Frank H J Schuren, Wouter J de Jonge, Jurgen Seppen, Rene M van den Wijngaard
BACKGROUND & AIMS: Visceral hypersensitivity is one feature of irritable bowel syndrome (IBS). Bacterial dysbiosis might be involved in activation of nociceptive sensory pathways, but there have been few studies of the role of the mycobiome (the fungal microbiome) in development of IBS. We analyzed intestinal mycobiomes of patients with IBS and a rat model of visceral hypersensitivity. METHODS: We used internal transcribed spacer 1-based metabarcoding to compare fecal mycobiomes of 18 healthy volunteers with those of 39 patients with IBS (with visceral hypersensitivity or normal levels of sensitivity)...
June 14, 2017: Gastroenterology
https://www.readbyqxmd.com/read/28622501/microbiome-and-longevity-gut-microbes-send-signals-to-host-mitochondria
#9
Jan Gruber, Brian K Kennedy
The microbiome has emerged as a major determinant of the functioning of host organisms, affecting both health and disease. Here, Han et al. use the workhorse of aging research, C. elegans, to identify specific mechanisms by which gut bacteria influence mitochondrial dynamics and aging, a first step toward analogous manipulations to modulate human aging.
June 15, 2017: Cell
https://www.readbyqxmd.com/read/28621726/microbiota-and-probiotics-in-health-and-hiv-infection
#10
REVIEW
Chiara D'Angelo, Marcella Reale, Erica Costantini
Microbiota play a key role in various body functions, as well as in physiological, metabolic, and immunological processes, through different mechanisms such as the regulation of the development and/or functions of different types of immune cells in the intestines. Evidence indicates that alteration in the gut microbiota can influence infectious and non-infectious diseases. Bacteria that reside on the mucosal surface or within the mucus layer interact with the host immune system, thus, a healthy gut microbiota is essential for the development of mucosal immunity...
June 16, 2017: Nutrients
https://www.readbyqxmd.com/read/28618173/inter-individual-differences-determine-the-outcome-of-wheat-bran-colonization-by-the-human-gut-microbiome
#11
Kim De Paepe, Frederiek-Maarten Kerckhof, Joran Verspreet, Christophe M Courtin, Tom Van de Wiele
Gut microbiota research reveals a vital role for the luminal and mucosal gut microbiota in human health. Fewer studies, however, have characterized the microbiome associated with undigested, insoluble dietary particles in the gut. These particles can act as a food source for bacteria and offer a physical platform to which they can attach. In this study, the microbiome colonizing wheat bran particles was analyzed. In a batch experiment, wheat bran particles were separately incubated with the fecal microbiota derived from ten donors and washed after 48h to remove loosely attached bacteria...
June 15, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28611768/innate-immunity-and-breast-milk
#12
REVIEW
Nicole Theresa Cacho, Robert M Lawrence
Human milk is a dynamic source of nutrients and bioactive factors; unique in providing for the human infant's optimal growth and development. The growing infant's immune system has a number of developmental immune deficiencies placing the infant at increased risk of infection. This review focuses on how human milk directly contributes to the infant's innate immunity. Remarkable new findings clarify the multifunctional nature of human milk bioactive components. New research techniques have expanded our understanding of the potential for human milk's effect on the infant that will never be possible with milk formulas...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28609785/comprehensive-analysis-of-microorganisms-accompanying-human-archaeological-remains
#13
Anna Philips, Ireneusz Stolarek, Bogna Kuczkowska, Anna Juras, Luiza Handschuh, Janusz Piontek, Piotr Kozlowski, Marek Figlerowicz
Background.: Metagenome analysis has become a common source of information about microbial communities that occupy a wide range of niches, including archaeological specimens. It has been shown that vast majority of DNA extracted from ancient samples come from bacteria (presumably modern contaminants). However, characterization of microbial DNA accompanying human remains has never been done systematically for a wide range of different samples. Findings.: We used metagenomic approaches to perform comparative analyses of microorganism communities present in 161 archaeological human remains...
June 13, 2017: GigaScience
https://www.readbyqxmd.com/read/28606169/profound-perturbation-induced-by-triclosan-exposure-in-mouse-gut-microbiome-a-less-resilient-microbial-community-with-elevated-antibiotic-and-metal-resistomes
#14
Bei Gao, Pengcheng Tu, Xiaoming Bian, Liang Chi, Hongyu Ru, Kun Lu
BACKGROUND: Environmental chemical-induced perturbations of gut microbiome are associated with a series of adverse health outcomes. The effects of triclosan on human health have been controversial in recent years. The purpose of this study is to investigate the functional impact of triclosan on the mouse gut microbiome and the link between triclosan exposure and resistomes in gut bacteria. METHODS: We combined 16S rRNA gene sequencing and shotgun metagenomics sequencing to examine the compositional and functional impact of triclosan exposure on the gut microbiota of C57BL/6 mice...
June 12, 2017: BMC Pharmacology & Toxicology
https://www.readbyqxmd.com/read/28602746/role-of-oral-and-gut-microbiome-in-nitric-oxide-mediated-colon-motility
#15
REVIEW
Miriam Y Walker, Pratap S, Janet H Southerland, C Farmer-Dixon, L Kesavalu, P Gangula
Periodontal disease (PD), a severe form of gum disease, is among the most prevalent chronic infection in humans and is associated with complex microbial synergistic dysbiosis in the subgingival cavity. The immune system of the body interacts with the microbes as the plaque extends and propagates below the gingival sulcus. Once bacteria reach the gingival sulcus, it can enter the blood stream and affect various areas of the human body. The polymicrobial nature of periodontal disease, if left untreated, promotes chronic inflammation, not only within the oral cavity, but also throughout the human body...
June 7, 2017: Nitric Oxide: Biology and Chemistry
https://www.readbyqxmd.com/read/28594855/the-artificial-sweetener-acesulfame-potassium-affects-the-gut-microbiome-and-body-weight-gain-in-cd-1-mice
#16
Xiaoming Bian, Liang Chi, Bei Gao, Pengcheng Tu, Hongyu Ru, Kun Lu
Artificial sweeteners have been widely used in the modern diet, and their observed effects on human health have been inconsistent, with both beneficial and adverse outcomes reported. Obesity and type 2 diabetes have dramatically increased in the U.S. and other countries over the last two decades. Numerous studies have indicated an important role of the gut microbiome in body weight control and glucose metabolism and regulation. Interestingly, the artificial sweetener saccharin could alter gut microbiota and induce glucose intolerance, raising questions about the contribution of artificial sweeteners to the global epidemic of obesity and diabetes...
2017: PloS One
https://www.readbyqxmd.com/read/28594392/the-human-gut-phage-community-and-its-implications-for-health-and-disease
#17
REVIEW
Pilar Manrique, Michael Dills, Mark J Young
In this review, we assess our current understanding of the role of bacteriophages infecting the human gut bacterial community in health and disease. In general, bacteriophages contribute to the structure of their microbial communities by driving host and viral diversification, bacterial evolution, and by expanding the functional diversity of ecosystems. Gut bacteriophages are an ensemble of unique and shared phages in individuals, which encompass temperate phages found predominately as prophage in gut bacteria (prophage reservoir) and lytic phages...
June 8, 2017: Viruses
https://www.readbyqxmd.com/read/28591831/the-gut-metagenome-changes-in-parallel-to-waist-circumference-brain-iron-deposition-and-cognitive-function
#18
Gerard Blasco, José Maria Moreno-Navarrete, Mireia Rivero, Vicente Pérez-Brocal, Josep Garre-Olmo, Josep Puig, Pepus Daunis-I-Estadella, Carles Biarnés, Jordi Gich, Fernando Fernández-Aranda, Ángel Alberich-Bayarri, Andrés Moya, Salvador Pedraza, Wifredo Ricart, Miguel López, Manuel Portero-Otin, José-Manuel Fernandez-Real
Context: Microbiota perturbations seem to exert modulatory effects on emotional behavior, stress- and pain-modulation systems in adult animals; however, limited information is available in humans. Objective: To study potential relationships among the gut metagenome, brain microstructure and cognitive performance in middle-aged, apparently healthy, obese and nonobese subjects, after weight changes. Design: This is a longitudinal study over a 2-year period...
June 7, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/28589613/the-role-of-the-microbiome-and-the-use-of-probiotics-in-gastrointestinal-disorders-in-adults-in-the-asia-pacific-region
#19
REVIEW
Uday C Ghoshal, Kok-Ann Gwee, Gerald Holtmann, Yanmei Li, Soo Jung Park, Marcellus Simadibrata, Kentaro Sugano, Kaichun Wu, Eamonn M M Quigley, Henry Cohen
The Asia-Pacific region is diverse, with regard to ethnicity, culture and economic development incorporating some of the world's least and most developed nations. Gastrointestinal diseases are common in the Asia-Pacific region and their prevalence, presentation, and management vary considerably within the region. There is growing evidence for an important role for the human gut microbiota in gastrointestinal health. As a consequence, geographic variations in the composition of the gut microbiota may contribute to variations in both the prevalence and response to therapy of specific diseases...
June 6, 2017: Journal of Gastroenterology and Hepatology
https://www.readbyqxmd.com/read/28586253/characterization-of-recombinant-trypanosoma-brucei-gambiense-translationally-controlled-tumor-protein-rtbgtctp-and-its-interaction-with-glossina-midgut-bacteria
#20
Géraldine Bossard, Manon Bartoli, Marie-Laure Fardeau, Philippe Hozmuller, Bernard Ollivier, Anne Geiger
In humans, sleeping sickness (i.e. Human African Trypanosomiasis) is caused by the protozoan parasites Trypanosoma brucei gambiense (Tbg) in West and Central Africa, and T. b. rhodesiense in East Africa. We previously showed in vitro that Tbg is able to excrete/secrete a large number of proteins, including Translationally Controlled Tumour Protein (TCTP). Moreover, the tctp gene was previously described to be expressed in Tbg-infected flies. Aside from its involvement in diverse cellular processes, we have investigated a possible alternative role within the interactions occurring between the trypanosome parasite, its tsetse fly vector, and the associated midgut bacteria...
June 6, 2017: Gut Microbes
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