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https://www.readbyqxmd.com/read/28342734/integration-of-microbiome-and-epigenome-to-decipher-the-pathogenesis-of-autoimmune-diseases
#1
REVIEW
Beidi Chen, Luxi Sun, Xuan Zhang
The interaction between genetic predisposition and environmental factors are of great significance in the pathogenesis and development of autoimmune diseases (AIDs). The human mucosa is the most frequent site that interacts with the exterior environment, and commensal microbiota at the gut and other human mucosal cavities play a crucial role in the regulation of immune system. Growing evidence has shown that the compositional and functional changes of mucosal microbiota are closely related to AIDs. Gut dysbiosis not only influence the expression level of Toll-like receptors (TLRs) of antigen presenting cells, but also contribute to Th17/Treg imbalance...
March 22, 2017: Journal of Autoimmunity
https://www.readbyqxmd.com/read/28338677/integrated-metabolism-in-sponge-microbe-symbiosis-revealed-by-genome-centered-metatranscriptomics
#2
Lucas Moitinho-Silva, Cristina Díez-Vives, Giampiero Batani, Ana Is Esteves, Martin T Jahn, Torsten Thomas
Despite an increased understanding of functions in sponge microbiomes, the interactions among the symbionts and between symbionts and host are not well characterized. Here we reconstructed the metabolic interactions within the sponge Cymbastela concentrica microbiome in the context of functional features of symbiotic diatoms and the host. Three genome bins (CcPhy, CcNi and CcThau) were recovered from metagenomic data of C. concentrica, belonging to the proteobacterial family Phyllobacteriaceae, the Nitrospira genus and the thaumarchaeal order Nitrosopumilales...
March 24, 2017: ISME Journal
https://www.readbyqxmd.com/read/28324102/duodenal-mucosa-of-patients-with-type-1-diabetes-shows-distinctive-inflammatory-profile-and-microbiota
#3
Silvia Pellegrini, Valeria Sordi, Andrea Mario Bolla, Diego Saita, Roberto Ferrarese, Filippo Canducci, Massimo Clementi, Francesca Invernizzi, Alberto Mariani, Riccardo Bonfanti, Graziano Barera, Pier Alberto Testoni, Claudio Doglioni, Emanuele Bosi, Lorenzo Piemonti
Context: Increasing evidences suggest a correlation between gut and type 1 diabetes (T1D). Objective: The objective of this study is to evaluate the gut inflammatory profile and microbiota in patients with T1D, compared to healthy controls (CTRL) and patients with celiac disease (CD) as gut inflammatory disease controls. Design/Setting/Participants: The inflammatory status and microbiome composition were evaluated in biopsies of the duodenal mucosa of patients with T1D (n=19), CD (n=19) and CTRL (n=16), recruited at San Raffaele Scientific Institute, in Milan, Italy, between 2009 and 2015...
January 19, 2017: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/28322790/short-chain-fatty-acids-gpr41-and-gpr43-ligands-inhibit-tnf-%C3%AE-induced-mcp-1-expression-by-modulating-p38-and-jnk-signaling-pathways-in-human-renal-cortical-epithelial-cells
#4
Mamiko Kobayashi, Daisuke Mikami, Hideki Kimura, Kazuko Kamiyama, Yukie Morikawa, Seiji Yokoi, Kenji Kasuno, Naoki Takahashi, Takanobu Taniguchi, Masayuki Iwano
Short-chain fatty acids (SCFAs), such as acetate, propionate, and butyrate, are produced predominantly by gut microbiota fermentation of dietary fiber. SCFAs are newly identified as endogenous ligands of two orphan G protein-coupled receptors, GPR41 and GPR43, which have the potential to modulate inflammation. Therefore, GPR41 and GPR43 may mediate the link between the gut microbiome status and various disease conditions including renal inflammation. This study aimed at investigating whether SCFAs activate GPR41 and GPR43, and thereby exert anti-inflammatory effects in human renal cortical epithelial cells (HRCEs) as a main component of kidney tissue...
March 17, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28322134/reproductive-microbiomes
#5
Michael L Power, Caroline Quaglieri, Jay Schulkin
Almost every part of our body has a coevolved microbial community. The expressed microbial genes comprise the various microbiomes that play important roles in normal physiology and development. The various microbiomes are separate, yet often connected, with the species composition of one affecting others. The female reproductive system microbiomes (eg, vaginal, placental, and mammary/milk) remain less well explored than the gut microbiome although they comprise a large proportion of the female microbial network...
January 1, 2017: Reproductive Sciences
https://www.readbyqxmd.com/read/28320784/mechanisms-to-mitigate-the-tradeoff-between-growth-and-defense
#6
Talia Karasov, Eunyoung Chae, Jacob Herman, Joy Bergelson
Plants have evolved an array of defenses against pathogens. However, mounting a defense response frequently comes with the cost of a reduction in growth and reproduction, carrying critical implications for natural and agricultural populations. How costs are generated, and whether and how they can be mitigated is the focus of this review. Most well-characterized growth-defense tradeoffs stem from antagonistic crosstalk among hormones rather than an identified metabolic expenditure. A primary way plants mitigate such costs is through restricted expression of resistance; this can be achieved through inducible expression of defense genes or by the concentration of defense to particular times or tissues...
March 20, 2017: Plant Cell
https://www.readbyqxmd.com/read/28320314/quorum-sensing-of-streptococcus-mutans-is-activated-by-aggregatibacter-actinomycetemcomitans-and-by-the-periodontal-microbiome
#7
Szymon P Szafrański, Zhi-Luo Deng, Jürgen Tomasch, Michael Jarek, Sabin Bhuju, Manfred Rohde, Helena Sztajer, Irene Wagner-Döbler
BACKGROUND: The oral cavity is inhabited by complex microbial communities forming biofilms that can cause caries and periodontitis. Cell-cell communication might play an important role in modulating the physiologies of individual species, but evidence so far is limited. RESULTS: Here we demonstrate that a pathogen of the oral cavity, Aggregatibacter actinomycetemcomitans (A. act.), triggers expression of the quorum sensing (QS) regulon of Streptococcus mutans, a well-studied model organism for cariogenic streptococci, in dual-species biofilms grown on artificial saliva...
March 20, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28320307/perturbation-of-microbiota-in-one-day-old-broiler-chickens-with-antibiotic-for-24-hours-negatively-affects-intestinal-immune-development
#8
Dirkjan Schokker, Alfons J M Jansman, Gosse Veninga, Naomi de Bruin, Stephanie A Vastenhouw, Freddy M de Bree, Alex Bossers, Johanna M J Rebel, Mari A Smits
BACKGROUND: Gut microbial colonization and development of immune competence are intertwined and are influenced by early-life nutritional, environmental, and management factors. Perturbation of the gut microbiome at young age affects the crosstalk between intestinal bacteria and host cells of the intestinal mucosa. RESULTS: We investigated the effect of a perturbation of the normal early life microbial colonization of the jejunum in 1-day old chickens. Perturbation was induced by administering 0...
March 20, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28319100/metagenomic-discovery-of-polybrominated-diphenyl-ether-biosynthesis-by-marine-sponges
#9
Vinayak Agarwal, Jessica M Blanton, Sheila Podell, Arnaud Taton, Michelle A Schorn, Julia Busch, Zhenjian Lin, Eric W Schmidt, Paul R Jensen, Valerie J Paul, Jason S Biggs, James W Golden, Eric E Allen, Bradley S Moore
Naturally produced polybrominated diphenyl ethers (PBDEs) pervade the marine environment and structurally resemble toxic man-made brominated flame retardants. PBDEs bioaccumulate in marine animals and are likely transferred to the human food chain. However, the biogenic basis for PBDE production in one of their most prolific sources, marine sponges of the order Dysideidae, remains unidentified. Here, we report the discovery of PBDE biosynthetic gene clusters within sponge-microbiome-associated cyanobacterial endosymbionts through the use of an unbiased metagenome-mining approach...
March 20, 2017: Nature Chemical Biology
https://www.readbyqxmd.com/read/28301775/the-microbiome-and-host-behavior
#10
Helen E Vuong, Jessica M Yano, Thomas C Fung, Elaine Y Hsiao
The microbiota is increasingly recognized for its ability to influence the development and function of the nervous system and several complex host behaviors. In this review, we discuss emerging roles for the gut microbiota in modulating host social and communicative behavior, stressor-induced behavior, and performance in learning and memory tasks. We summarize effects of the microbiota on host neurophysiology, including brain microstructure, gene expression, and neurochemical metabolism across regions of the amygdala, hippocampus, frontal cortex, and hypothalamus...
March 8, 2017: Annual Review of Neuroscience
https://www.readbyqxmd.com/read/28301545/implication-of-the-intestinal-microbiome-as-a-potential-surrogate-marker-of-immune-responsiveness-to-experimental-therapies-in-autoimmune-diabetes
#11
James C Needell, Charles A Dinarello, Diana Ir, Charles E Robertson, Sarah M Ryan, Miranda E Kroehl, Daniel N Frank, Danny Zipris
Type 1 diabetes (T1D) is an autoimmune proinflammatory disease with no effective intervention. A major obstacle in developing new immunotherapies for T1D is the lack of means for monitoring immune responsiveness to experimental therapies. The LEW1.WR1 rat develops autoimmunity following infection with the parvovirus Kilham rat virus (KRV) via mechanisms linked with activation of proinflammatory pathways and alterations in the gut bacterial composition. We used this animal to test the hypothesis that intervention with agents that block innate immunity and diabetes is associated with a shift in the gut microbiota...
2017: PloS One
https://www.readbyqxmd.com/read/28295177/a-fast-small-sample-kernel-independence-test-for-microbiome-community-level-association-analysis
#12
Xiang Zhan, Anna Plantinga, Ni Zhao, Michael C Wu
To fully understand the role of microbiome in human health and diseases, researchers are increasingly interested in assessing the relationship between microbiome composition and host genomic data. The dimensionality of the data as well as complex relationships between microbiota and host genomics pose considerable challenges for analysis. In this article, we apply a kernel RV coefficient (KRV) test to evaluate the overall association between host gene expression and microbiome composition. The KRV statistic can capture nonlinear correlations and complex relationships among the individual data types and between gene expression and microbiome composition through measuring general dependency...
March 10, 2017: Biometrics
https://www.readbyqxmd.com/read/28294281/mice-exposed-to-infant-formula-enriched-with-polyamines-impact-on-host-transcriptome-and-microbiome
#13
Carlos Gómez-Gallego, María García Romo, Rafael Frías, María Jesús Periago, Gaspar Ros, Seppo Salminen, Maria C Collado
Previous studies using a BALB/cOlaHsd model have shown the impact that the supplementation of infant formula with polyamines has on the modulation of microbial colonization and immune system development. To contribute to deciphering and identifying new complex interactions underlying the host response to polyamines, a systems biology approach integrating data from microbiota along the gastrointestinal tract, lymphocyte populations and immune system gene expression analysis of a lactating mice model fed different diets was carried out...
March 15, 2017: Food & Function
https://www.readbyqxmd.com/read/28293222/characterization-of-batrachochytrium-dendrobatidis-inhibiting-bacteria-from-amphibian-populations-in-costa-rica
#14
Joseph D Madison, Elizabeth A Berg, Juan G Abarca, Steven M Whitfield, Oxana Gorbatenko, Adrian Pinto, Jacob L Kerby
Global amphibian declines and extinction events are occurring at an unprecedented rate. While several factors are responsible for declines and extinction, the fungal pathogen Batrachochytrium dendrobatidis (Bd) has been cited as a major constituent in these events. While the effects of this chytrid fungus have been shown to cause broad scale population declines and extinctions, certain individuals and relict populations have shown resistance. This resistance has been attributed in part to the cutaneous bacterial microbiome...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28281639/influence-of-dairy-by-product-waste-milk-on-the-microbiomes-of-different-gastrointestinal-tract-components-in-pre-weaned-dairy-calves
#15
Y F Deng, Y J Wang, Y Zou, A Azarfar, X L Wei, S K Ji, J Zhang, Z H Wu, S X Wang, S Z Dong, Y Xu, D F Shao, J X Xiao, K L Yang, Z J Cao, S L Li
The community structure of colonised bacteria in the gastrointestinal tracts (GITs) of pre-weaned calves is affected by extrinsic factors, such as the genetics and diet of the calves; however, the dietary impact is not fully understood and warrants further research. Our study revealed that a total of 6, 5, 2 and 10 bacterial genera showed biologically significant differences in the GITs of pre-weaned calves fed four waste-milk diets: acidified waste milk, pasteurised waste milk, untreated bulk milk, and untreated waste milk, respectively...
March 10, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28275113/potential-mechanisms-of-effects-of-serum-derived-bovine-immunoglobulin-protein-isolate-therapy-in-patients-with-diarrhea-predominant-irritable-bowel-syndrome
#16
Nelson Valentin, Michael Camilleri, Paula Carlson, Sean C Harrington, Deborah Eckert, Jessica O'Neill, Duane Burton, Jun Chen, Audrey L Shaw, Andres Acosta
Serum-derived bovine immunoglobulin/protein isolate (SBI), an oral nutritional therapy, is efficacious in diverse diarrheal diseases. In an open-label study in 15 patients with irritable bowel syndrome-diarrhea (IBS-D), we evaluated effects of SBI (5.0 g, twice a day) for 8 weeks on safety, on bowel function and abdominal pain, tryptophan metabolism (K:T ratio), intestinal permeability ((13)C-mannitol and lactulose excretion), bile acid synthesis (fasting serum FGF-19 and C4), duodenal and stool microbiome, and the expression of 90 genes related to inflammation, immune function, and tight junctions in duodenal mucosa...
March 2017: Physiological Reports
https://www.readbyqxmd.com/read/28263462/omics-for-understanding-the-gut-liver-microbiome-axis-and-precision-medicine
#17
Jag Khalsa, Linda C Duffy, Gabriela Riscuta, Pamela Starke-Reed, Van S Hubbard
Human metabolic disease opens a new view to understanding the contribution of the intestinal microbiome to drug metabolism and drug-induced toxicity in gut-liver function. The gut microbiome, a key determinant of intestinal inflammation, also plays a direct role in chronic inflammation and liver disease. Gut bacterial communities directly metabolize certain drugs, reducing their bioavailability and influencing individual variation in drug response. In addition, some microbiome-produced compounds may affect drug pharmacokinetics and pharmacodynamics via altered expression of metabolizing enzymes and drug transporters or genes coding for drug target proteins, drug response phenotypes, and disease states...
March 2017: Clinical Pharmacology in Drug Development
https://www.readbyqxmd.com/read/28245427/microbe-microbe-and-host-microbe-interactions-drive-microbiome-dysbiosis-and-inflammatory-processes
#18
Amy D Proal, Inge A Lindseth, Trevor G Marshall
An extensive microbiome comprised of bacteria, viruses, bacteriophages, and fungi is now understood to persist in nearly every human body site, including tissue and blood. The genomes of these microbes continually interact with the human genome in order to regulate host metabolism. Many components of this microbiome are capable of both commensal and pathogenic activity. They are additionally able to persist in both 'acute' and chronic forms. Inflammatory conditions historically studied separately (autoimmune, neurological and malignant) are now repeatedly tied to a common trend: imbalance or dysbiosis of these microbial ecosystems...
January 2017: Discovery Medicine
https://www.readbyqxmd.com/read/28242013/targeting-the-microbiota-gut-brain-axis-prebiotics-have-anxiolytic-and-antidepressant-like-effects-and-reverse-the-impact-of-chronic-stress-in-mice
#19
Aurelijus Burokas, Silvia Arboleya, Rachel D Moloney, Veronica L Peterson, Kiera Murphy, Gerard Clarke, Catherine Stanton, Timothy G Dinan, John F Cryan
BACKGROUND: The realization that the microbiota-gut-brain axis plays a critical role in health and disease, including neuropsychiatric disorders, is rapidly advancing. Nurturing a beneficial gut microbiome with prebiotics, such as fructo-oligosaccharides (FOS) and galacto-oligosaccharides (GOS), is an appealing but underinvestigated microbiota manipulation. Here we tested whether chronic prebiotic treatment modifies behavior across domains relevant to anxiety, depression, cognition, stress response, and social behavior...
February 24, 2017: Biological Psychiatry
https://www.readbyqxmd.com/read/28241430/the-importance-of-endophenotypes-to-evaluate-the-relationship-between-genotype-and-external-phenotype
#20
REVIEW
Marinus F W Te Pas, Ole Madsen, Mario P L Calus, Mari A Smits
With the exception of a few Mendelian traits, almost all phenotypes (traits) in livestock science are quantitative or complex traits regulated by the expression of many genes. For most of the complex traits, differential expression of genes, rather than genomic variation in the gene coding sequences, is associated with the genotype of a trait. The expression profiles of the animal's transcriptome, proteome and metabolome represent endophenotypes that influence/regulate the externally-observed phenotype. These expression profiles are generated by interactions between the animal's genome and its environment that range from the cellular, up to the husbandry environment...
February 22, 2017: International Journal of Molecular Sciences
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