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Human microbiome

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https://www.readbyqxmd.com/read/29453448/the-gastrointestinal-tract-microbiota-of-northern-white-cheeked-gibbons-nomascus-leucogenys-varies-with-age-and-captive-condition
#1
Ting Jia, Sufen Zhao, Katrina Knott, Xiaoguang Li, Yan Liu, Ying Li, Yuefei Chen, Minghai Yang, Yanping Lu, Junyi Wu, Chenglin Zhang
Nutrition and health of northern white-cheeked gibbons (Nomascus leucogenys) are considered to be primarily influenced by the diversity of their gastrointestinal tract (GIT) microbiota. However, the precise composition, structure, and role of the gibbon GIT microbiota remain unclear. Microbial communities from the GITs of gibbons from Nanning (NN, n = 36) and Beijing (BJ, n = 20) Zoos were examined through 16S rRNA sequencing. Gibbon's GITs microbiomes contained bacteria from 30 phyla, dominated by human-associated microbial signatures: Firmicutes, Bacteroidetes, and Proteobacteria...
February 16, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29453029/systems-biology-of-the-human-microbiome
#2
REVIEW
Beatriz Peñalver Bernabé, Lauren Cralle, Jack A Gilbert
Recent research has shown that the microbiome-a collection of microorganisms, including bacteria, fungi, and viruses, living on and in a host-are of extraordinary importance in human health, even from conception and development in the uterus. Therefore, to further our ability to diagnose disease, to predict treatment outcomes, and to identify novel therapeutics, it is essential to include microbiome and microbial metabolic biomarkers in Systems Biology investigations. In clinical studies or, more precisely, Systems Medicine approaches, we can use the diversity and individual characteristics of the personal microbiome to enhance our resolution for patient stratification...
February 13, 2018: Current Opinion in Biotechnology
https://www.readbyqxmd.com/read/29452584/high-phosphorus-intake-and-gut-related-parameters-results-of-a-randomized-placebo-controlled-human-intervention-study
#3
Ulrike Trautvetter, Amélia Camarinha-Silva, Gerhard Jahreis, Stefan Lorkowski, Michael Glei
BACKGROUND: In recent years, high phosphate intakes were discussed critically. In the small intestine, a part of the ingested phosphate and calcium precipitates to amorphous calcium phosphate (ACP), which in turn can precipitate other intestinal substances, thus leading to a beneficial modulation of the intestinal environment. Therefore, we analysed faecal samples obtained from a human intervention study regarding gut-related parameters. METHODS: Sixty-two healthy subjects (men, n = 30; women, n = 32) completed the double-blind, placebo-controlled and parallel designed study (mean age: 29 ± 7 years; mean BMI: 24 ± 3 kg/m 2 )...
February 16, 2018: Nutrition Journal
https://www.readbyqxmd.com/read/29452420/gut-microbiomics-a-solution-to-unloose-the-gordian-knot-of-biological-effects-of-ionizing-radiation
#4
Amy Zhang, Tomoko Y Steen
The Chernobyl and Fukushima nuclear accidents have called forth a growing body of research on their biological aftermaths. A variety of wild organisms, including primates, birds, fish, insects, and worms are being studied in the affected areas, with emerging morphological, physiological, and genetic aberrations ascribed to ionizing radiation. Despite the effort in surveying Chernobyl and Fukushima wildlife, little is known about the microorganisms associated with these radiation-contaminated animals. The microbiota, especially the gut commensal, plays an important role in shaping the metabolic reservoir and immune system of the host, and is sensitive to a wide array of environmental factors, including ionizing radiation...
February 14, 2018: Journal of Heredity
https://www.readbyqxmd.com/read/29452257/microbiota-changes-impact-on-sexually-transmitted-infections-and-the-development-of-pelvic-inflammatory-disease
#5
Nathalie Loeper, Simon Graspeuntner, Jan Rupp
The integrity of the human urogenital microbiome is crucial for women's health and well-being. An imbalance of the urogenital microbiota increases the risk for sexually transmitted infections. In this review, we discuss the microbiota composition of the female urogenital tract and its role in protecting from sexually transmitted infections and the emergence of pelvic inflammatory disease.
February 13, 2018: Microbes and Infection
https://www.readbyqxmd.com/read/29447847/perinatal-selective-serotonin-reuptake-inhibitor-ssri-effects-on-body-weight-at-birth-and-beyond-a-review-of-animal-and-human-studies
#6
REVIEW
Sarah M Hutchison, Louise C Mâsse, Jodi L Pawluski, Tim F Oberlander
The long-term impact of selective serotonin reuptake inhibitor (SSRI) antidepressant treatment during pregnancy and postpartum on offspring outcomes is still not clear. Specifically, perinatal SSRI exposure may have long-term consequences for body weight and related health outcomes in the newborn period and beyond. This review focuses on the impact of perinatal SSRI exposure on weight using human and animal findings. The impact of maternal mood is also explored. We propose potential mechanisms for weight changes, including how early alterations in serotonin signaling may have implications for weight via changes in metabolism and motor development...
February 12, 2018: Reproductive Toxicology
https://www.readbyqxmd.com/read/29447696/strain-tracking-reveals-the-determinants-of-bacterial-engraftment-in-the-human-gut-following-fecal-microbiota-transplantation
#7
Christopher S Smillie, Jenny Sauk, Dirk Gevers, Jonathan Friedman, Jaeyun Sung, Ilan Youngster, Elizabeth L Hohmann, Christopher Staley, Alexander Khoruts, Michael J Sadowsky, Jessica R Allegretti, Mark B Smith, Ramnik J Xavier, Eric J Alm
Fecal microbiota transplantation (FMT) from healthy donor to patient is a treatment for microbiome-associated diseases. Although the success of FMT requires donor bacteria to engraft in the patient's gut, the forces governing engraftment in humans are unknown. Here we use an ongoing clinical experiment, the treatment of recurrent Clostridium difficile infection, to uncover the rules of engraftment in humans. We built a statistical model that predicts which bacterial species will engraft in a given host, and developed Strain Finder, a method to infer strain genotypes and track them over time...
February 14, 2018: Cell Host & Microbe
https://www.readbyqxmd.com/read/29447695/cervicovaginal-microbiota-and-reproductive-health-the-virtue-of-simplicity
#8
REVIEW
Melis N Anahtar, David B Gootenberg, Caroline M Mitchell, Douglas S Kwon
Cervicovaginal microbiota play a critical role in women's health and reproductive outcomes. Despite being one of the simplest commensal bacterial communities in the human body, we are only beginning to appreciate its complex dynamic nature and important role in host immune modulation. In this review, we discuss the "optimal" cervicovaginal bacterial community composition, the impact of microbiota on gynecologic and obstetric outcomes, and the hurdles to developing a deeper mechanistic understanding of the function of the cervicovaginal microbiome...
February 14, 2018: Cell Host & Microbe
https://www.readbyqxmd.com/read/29447350/soil-protists-a-fertile-frontier-in-soil-biology-research
#9
Stefan Geisen, Edward A D Mitchell, Sina Adl, Michael Bonkowski, Micah Dunthorn, Flemming Ekelund, Leonardo D Fernández, Alexandre Jousset, Valentyna Krashevska, David Singer, Frederick W Spiegel, Julia Walochnik, Enrique Lara
Protists include all eukaryotes except plants, fungi and animals. They are an essential, yet often forgotten, component of the soil microbiome. Method developments have now furthered our understanding of the real taxonomic and functional diversity of soil protists. They occupy key roles in microbial foodwebs as consumers of bacteria, fungi and other small eukaryotes. As parasites of plants, animals and even of larger protists, they regulate populations and shape communities. Pathogenic forms play a major role in public health issues as human parasites, or act as agricultural pests...
February 13, 2018: FEMS Microbiology Reviews
https://www.readbyqxmd.com/read/29447068/microbial-culturomics-broadens-human-vaginal-flora-diversity-genome-sequence-and-description-of-prevotella-lascolaii-sp-nov-isolated-from-a-patient-with-bacterial-vaginosis
#10
Khoudia Diop, Awa Diop, Anthony Levasseur, Oleg Mediannikov, Catherine Robert, Nicholas Armstrong, Carine Couderc, Florence Bretelle, Didier Raoult, Pierre-Edouard Fournier, Florence Fenollar
Microbial culturomics is a new subfield of postgenomic medicine and omics biotechnology application that has broadened our awareness on bacterial diversity of the human microbiome, including the human vaginal flora bacterial diversity. Using culturomics, a new obligate anaerobic Gram-stain-negative rod-shaped bacterium designated strain khD1 T was isolated in the vagina of a patient with bacterial vaginosis and characterized using taxonogenomics. The most abundant cellular fatty acids were C 15:0 anteiso (36%), C 16:0 (19%), and C 15:0 iso (10%)...
February 15, 2018: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/29445132/microbiome-assembly-of-avian-eggshells-and-their-potential-as-transgenerational-carriers-of-maternal-microbiota
#11
H Pieter J van Veelen, Joana Falcão Salles, B Irene Tieleman
The microbiome is essential for development, health and homeostasis throughout an animal's life. Yet, the origins and transmission processes governing animal microbiomes remain elusive for non-human vertebrates, oviparous vertebrates in particular. Eggs may function as transgenerational carriers of the maternal microbiome, warranting characterisation of egg microbiome assembly. Here, we investigated maternal and environmental contributions to avian eggshell microbiota in wild passerine birds: woodlark Lullula arborea and skylark Alauda arvensis...
February 14, 2018: ISME Journal
https://www.readbyqxmd.com/read/29444477/the-microbiome-in-chronic-kidney-disease-patients-undergoing-hemodialysis-and-peritoneal-dialysis
#12
REVIEW
Liliana Simões-Silva, Ricardo Araujo, Manuel Pestana, Isabel Soares-Silva, Benedita Sampaio-Maia
Chronic kidney disease (CKD) is associated with an imbalanced human microbiome due not only to CKD-associated factors such as uremia, increased inflammation and immunosuppression, but also to pharmacological therapies and dietary restrictions. End-stage renal disease patients require renal replacement therapies commonly in the form of hemodialysis (HD) or peritoneal dialysis (PD). HD implies the existence of a vascular access, such as an arteriovenous fistula/graft or a venous catheter, whereas PD implies a long-term peritoneal catheter and the constant inflow of peritoneal dialysate...
February 11, 2018: Pharmacological Research: the Official Journal of the Italian Pharmacological Society
https://www.readbyqxmd.com/read/29444186/identification-of-fungi-in-shotgun-metagenomics-datasets
#13
Paul D Donovan, Gabriel Gonzalez, Desmond G Higgins, Geraldine Butler, Kimihito Ito
Metagenomics uses nucleic acid sequencing to characterize species diversity in different niches such as environmental biomes or the human microbiome. Most studies have used 16S rRNA amplicon sequencing to identify bacteria. However, the decreasing cost of sequencing has resulted in a gradual shift away from amplicon analyses and towards shotgun metagenomic sequencing. Shotgun metagenomic data can be used to identify a wide range of species, but have rarely been applied to fungal identification. Here, we develop a sequence classification pipeline, FindFungi, and use it to identify fungal sequences in public metagenome datasets...
2018: PloS One
https://www.readbyqxmd.com/read/29441232/detection-of-stable-community-structures-within-gut-microbiota-co-occurrence-networks-from-different-human-populations
#14
Matthew A Jackson, Marc Jan Bonder, Zhana Kuncheva, Jonas Zierer, Jingyuan Fu, Alexander Kurilshikov, Cisca Wijmenga, Alexandra Zhernakova, Jordana T Bell, Tim D Spector, Claire J Steves
Microbes in the gut microbiome form sub-communities based on shared niche specialisations and specific interactions between individual taxa. The inter-microbial relationships that define these communities can be inferred from the co-occurrence of taxa across multiple samples. Here, we present an approach to identify comparable communities within different gut microbiota co-occurrence networks, and demonstrate its use by comparing the gut microbiota community structures of three geographically diverse populations...
2018: PeerJ
https://www.readbyqxmd.com/read/29438631/plasma-endocannabinoid-levels-in-lean-overweight-and-obese-humans-relationships-with-intestinal-permeability-markers-inflammation-and-incretin-secretion
#15
Tanya J Little, Nada Cvijanovic, Nicholas V DiPatrizio, Donovan A Argueta, Christopher K Rayner, Christine Feinle-Bisset, Richard L Young
INTRODUCTION/AIMS: Intestinal production of endocannabinoid and oleoylethanolamide (OEA) is impaired in high-fat diet/obese rodents, leading to reduced satiety. Such diets also alter the intestinal microbiome in association with enhanced intestinal permeability and inflammation, however little is known of these effects in humans. This study aimed to: (i) evaluate effects of lipid on plasma anandamide (AEA), 2-arachidonyl-sn-glycerol (2-AG) and OEA in humans, and (ii) examine relationships with intestinal permeability, inflammation markers and incretin hormone secretion...
February 13, 2018: American Journal of Physiology. Endocrinology and Metabolism
https://www.readbyqxmd.com/read/29436707/the-molecular-pathology-of-cancer-from-pan-genomics-to-post-genomics
#16
REVIEW
David G Huntsman, Marc Ladanyi
As the cancer genomics of most major cancer types have been comprehensively catalogued over the past decade through a variety of national and international efforts, the delineation of cancer subtypes has been refined, and our understanding of critical cancer drivers and of the potentially targetable vulnerabilities they create has grown tremendously. The 2018 Annual Review Issue of The Journal of Pathology provides in-depth assessments of how these pan-genomic approaches have enabled advances in cancer classification, targeted therapy selection, and assessment of cancer progression, all of which are now genomically informed, using several cancer types as examples...
February 13, 2018: Journal of Pathology
https://www.readbyqxmd.com/read/29434408/infection-and-microbiome-impact-of-tuberculosis-on-human-gut-microbiome-of-indian-cohort
#17
Utkarsh Sood, Abhay Bajaj, Roshan Kumar, Sachin Khurana, Vipin Chandra Kalia
No abstract text is available yet for this article.
March 2018: Indian Journal of Microbiology
https://www.readbyqxmd.com/read/29434391/gut-bioreactor-and-human-health-in-future
#18
Hemant J Purohit
Gut-microbiome provides the complementary metabolic potential to the human system. To understand the active participation and the performance of the microbial community in human health, the concept of gut as a plug-flow reactor with the fed-batch mode of operation can provide better insight. The concept suggests the virtual compartmentalized gut with sequential stratification of the microbial community in response to a typical host genotype. It also provides the analysis plan for gut microbiome; and its relevance in developing health management options under the identified clinical conditions...
March 2018: Indian Journal of Microbiology
https://www.readbyqxmd.com/read/29434314/elevated-circulating-levels-of-succinate-in-human-obesity-are-linked-to-specific-gut-microbiota
#19
Carolina Serena, Victoria Ceperuelo-Mallafré, Noelia Keiran, Maria Isabel Queipo-Ortuño, Rosa Bernal, Ricardo Gomez-Huelgas, Mireia Urpi-Sarda, Mónica Sabater, Vicente Pérez-Brocal, Cristina Andrés-Lacueva, Andres Moya, Francisco J Tinahones, Jose Manuel Fernández-Real, Joan Vendrell, Sonia Fernández-Veledo
Gut microbiota-related metabolites are potential clinical biomarkers for cardiovascular disease (CVD). Circulating succinate, a metabolite produced by both microbiota and the host, is increased in hypertension, ischemic heart disease, and type 2 diabetes. We aimed to analyze systemic levels of succinate in obesity, a major risk factor for CVD, and its relationship with gut microbiome. We explored the association of circulating succinate with specific metagenomic signatures in cross-sectional and prospective cohorts of Caucasian Spanish subjects...
February 12, 2018: ISME Journal
https://www.readbyqxmd.com/read/29432296/gut-microbiota-puppeteer-of-the-host-juvenile-growth
#20
Martin Schwarzer
PURPOSE OF REVIEW: This review focuses on the recent discoveries about the impact of intestinal microbiota on mammalian host juvenile growth. RECENT FINDINGS: Intestinal microbiota is a powerful modulator of many facets of multicellular host's physiology. Recent results from human field studies and animal research have clearly shown that not only the nutrition, but also the intestinal microbiota impacts host postnatal growth kinetics. Absence of microbiome leads to stunted growth in mammalian gnotobiotic models and changes in the composition of the intestinal microbiota can impact the postnatal growth kinetics both positively and negatively under normal nutritional conditions as well as in undernutrition...
February 9, 2018: Current Opinion in Clinical Nutrition and Metabolic Care
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