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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/28640599/a-high-throughput-dna-sequencing-approach-to-determine-sources-of-fecal-bacteria-in-a-lake-superior-estuary
#2
Clairessa M Brown, Christopher Staley, Ping Wang, Brent Dalzell, Chan Lan Chun, Michael J Sadowsky
Current microbial source tracking (MST) methods, employed to determine sources of fecal contamination in waterways, use molecular markers targeting host-associated bacteria in animal or human feces. However, there is a lack of knowledge about fecal microbiome composition in several animals and imperfect marker specificity and sensitivity. To overcome these issues, a community-based MST method has been developed. Here, we describe a study done in the Lake Superior-St. Louis River estuary using SourceTracker, a program that calculates the source contribution to an environment...
June 22, 2017: Environmental Science & Technology
https://www.readbyqxmd.com/read/28637338/complex-interactions-between-potentially-pathogenic-opportunistic-and-resident-bacteria-emerge-during-infection-on-a-reef-building-coral
#3
Sarah A Gignoux-Wolfsohn, Felicia M Aronson, Steven V Vollmer
Increased bacterial diversity on diseased corals can obscure disease etiology and complicate our understanding of pathogenesis. To untangle microbes that may cause white band disease signs from microbes responding to disease, we inoculated healthy Acropora cervicornis corals with an infectious dose from visibly diseased corals. We sampled these dosed corals and healthy controls over time for sequencing of the bacterial 16S region. Endozoicomonas were associated with healthy fragments from 4/10 colonies, dominating microbiomes before dosing and decreasing over time only in corals that displayed disease signs, suggesting a role in disease resistance...
June 15, 2017: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/28636959/the-enteric-network-interactions-between-the-immune-and-nervous-systems-of-the-gut
#4
REVIEW
Bryan B Yoo, Sarkis K Mazmanian
Interactions between the nervous and immune systems enable the gut to respond to the variety of dietary products that it absorbs, the broad spectrum of pathogens that it encounters, and the diverse microbiome that it harbors. The enteric nervous system (ENS) senses and reacts to the dynamic ecosystem of the gastrointestinal (GI) tract by translating chemical cues from the environment into neuronal impulses that propagate throughout the gut and into other organs in the body, including the central nervous system (CNS)...
June 20, 2017: Immunity
https://www.readbyqxmd.com/read/28636759/rosacea-and-its-association-with-enteral-microbiota-in-korean-females
#5
Jae-Hui Nam, Yeojun Yun, Han-Saem Kim, Han-Na Kim, Ho Joo Jung, Yoosoo Chang, Seungho Ryu, Hocheol Shin, Hyung-Lae Kim, Won-Serk Kim
BACKGROUND: Rosacea is a chronic inflammatory dermatosis affecting the face and eyes. An association between systemic comorbidities and rosacea has been reported, but the link to enteral microbiota is uncertain. OBJECTIVES: We aimed to investigate the link between rosacea and enteral microbiota. METHODS: A cross-sectional study was performed in a sample of Korean women who participated in a health checkup program at the Kangbuk Samsung Hospital Health Screening Center between 23 June 2014 and 5 September 2014...
June 21, 2017: Experimental Dermatology
https://www.readbyqxmd.com/read/28636668/microbiota-in-anorexia-nervosa-the-triangle-between-bacterial-species-metabolites-and-psychological-tests
#6
Francesca Borgo, Alessandra Riva, Alberto Benetti, Maria Cristina Casiraghi, Sara Bertelli, Stefania Garbossa, Simona Anselmetti, Silvio Scarone, Antonio E Pontiroli, Giulia Morace, Elisa Borghi
Anorexia nervosa (AN) is a psychiatric disease with devastating physical consequences, with a pathophysiological mechanism still to be elucidated. Metagenomic studies on anorexia nervosa have revealed profound gut microbiome perturbations as a possible environmental factor involved in the disease. In this study we performed a comprehensive analysis integrating data on gut microbiota with clinical, anthropometric and psychological traits to gain new insight in the pathophysiology of AN. Fifteen AN women were compared with fifteen age-, sex- and ethnicity-matched healthy controls...
2017: PloS One
https://www.readbyqxmd.com/read/28636585/microbiome-a-potential-component-in-the-origin-of-mental-disorders
#7
George B Stefano, Radek Ptacek, Jiri Raboch, Richard M Kream
It is not surprising to find microbiome abnormalities present in psychiatric disorders such as depressive disorders, bipolar disorders, etc. Evolutionary pressure may provide an existential advantage to the host eukaryotic cells in that it survives in an extracellular environment containing non-self cells (e.g., bacteria). This phenomenon is both positive and negative, as with other intercellular processes. In this specific case, the phenomenal amount of information gained from combined bacterial genome could enhance communication between self and non-self cells...
June 21, 2017: Medical Science Monitor: International Medical Journal of Experimental and Clinical Research
https://www.readbyqxmd.com/read/28634640/the-microbiome-of-eucalyptus-roots-under-different-management-conditions-and-its-potential-for-biological-nitrogen-fixation
#8
Eduardo da Siva Fonseca, Raquel Silva Peixoto, Alexandre Soares Rosado, Fabiano de Carvalho Balieiro, James M Tiedje, Caio Tavora Coelho da Costa Rachid
Eucalyptus plantations offer a cost-effective and renewable source of raw material. There is substantial interest in improving forestry production, especially through sustainable strategies such as the use of plant growth-promoting bacteria. However, little is known about Eucalyptus microbiology. In this study, the endophytic bacterial community was assessed in Eucalyptus urograndis roots using culture-dependent and culture-independent techniques with plants grown under different conditions. Three phyla accounted for approximately 95% of the community, with Actinobacteria corresponding to approximately 59%...
June 21, 2017: Microbial Ecology
https://www.readbyqxmd.com/read/28634475/cesarean-or-vaginal-birth-does-not-impact-the-longitudinal-development-of-the-gut-microbiome-in-a-cohort-of-exclusively-preterm-infants
#9
Christopher J Stewart, Nicholas D Embleton, Elizabeth Clements, Pamela N Luna, Daniel P Smith, Tatiana Y Fofanova, Andrew Nelson, Gillian Taylor, Caroline H Orr, Joseph F Petrosino, Janet E Berrington, Stephen P Cummings
The short and long-term impact of birth mode on the developing gut microbiome in neonates has potential implications for the health of infants. In term infants, the microbiome immediately following birth across multiple body sites corresponds to birth mode, with increased Bacteroides in vaginally delivered infants. We aimed to determine the impact of birth mode of the preterm gut microbiome over the first 100 days of life and following neonatal intensive care unit (NICU) discharge. In total, 867 stool samples from 46 preterm infants (21 cesarean and 25 vaginal), median gestational age 27 weeks, were sequenced (V4 region 16S rRNA gene, Illumina MiSeq)...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28633955/the-microbiome-and-transfusion-in-cancer-patients
#10
REVIEW
Hadi Goubran, Jerard Seghatchian, Julia Radosevic, Gaafar Ragab, Thierry Burnouf
Our microbiota is determined by many variables including ABO blood groups. The microbiota is not only confined to the gut and skin but is also recoverable from blood of healthy donors. The microbiota shape our immune system through cross reactivity with antigens, the expression of direct molecular patterns, the release of cytokines, the effects on nutrients and micronutrients and even through an interplay with epigenetics. It is likely, therefore, that a donor's microbiota could alter the antigenicity of blood and its components and potentially contribute to transfusion-related immune modulation [TRIM]...
June 3, 2017: Transfusion and Apheresis Science
https://www.readbyqxmd.com/read/28633864/perinatal-group-b-streptococcal-infections-virulence-factors-immunity-and-prevention-strategies
#11
REVIEW
Jay Vornhagen, Kristina M Adams Waldorf, Lakshmi Rajagopal
Group B streptococcus (GBS) or Streptococcus agalactiae is a β-hemolytic, Gram-positive bacterium that is a leading cause of neonatal infections. GBS commonly colonizes the lower gastrointestinal and genital tracts and, during pregnancy, neonates are at risk of infection. Although intrapartum antibiotic prophylaxis during labor and delivery has decreased the incidence of early-onset neonatal infection, these measures do not prevent ascending infection that can occur earlier in pregnancy leading to preterm births, stillbirths, or late-onset neonatal infections...
June 17, 2017: Trends in Microbiology
https://www.readbyqxmd.com/read/28633443/nod2-genetic-variants-predispose-one-of-two-familial-adenomatous-polyposis-siblings-to-pouchitis-through-microbiome-dysbiosis
#12
Kathleen M Schieffer, Justin R Wright, Leonard R Harris, Sue Deiling, Zhaohai Yang, Regina Lamendella, Gregory S Yochum, Walter A Koltun
Background and Aims: Individuals with familial adenomatous polyposis (FAP) may undergo a total proctocolectomy with ileal pouch-anal anastomosis (IPAA) to surgically treat their disease. Inflammation of the ileal pouch, termed pouchitis, is uncommon in FAP patients but prevalent in patients who received IPAA for ulcerative colitis, a type of inflammatory bowel disease (IBD). Methods and Results: We report on two FAP siblings, living in the same household, who underwent IPAA surgery within one week of each other...
June 19, 2017: Journal of Crohn's & Colitis
https://www.readbyqxmd.com/read/28632934/a-prospective-microbiome-wide-association-study-of-food-sensitization-and-food-allergy-in-early-childhood
#13
Jessica H Savage, Kathleen A Lee-Sarwar, Joanne Sordillo, Supinda Bunyavanich, Yanjiao Zhou, George O'Connor, Megan Sandel, Leonard Bacharier, Robert Zeiger, Erica Sodergren, George M Weinstock, Diane R Gold, Scott T Weiss, Augusto A Litonjua
BACKGROUND: Alterations in the intestinal microbiome are prospectively associated with the development of asthma; less is known regarding the role of microbiome alterations in food allergy development. METHODS: Intestinal microbiome samples were collected at age 3-6 months in children participating in the follow-up phase of an interventional trial of high dose Vitamin D given during pregnancy. At age 3, sensitization to foods (milk, egg, peanut, soy, wheat, walnut) was assessed...
June 20, 2017: Allergy
https://www.readbyqxmd.com/read/28632755/potassium-is-a-key-signal-in-host-microbiome-dysbiosis-in-periodontitis
#14
Susan Yost, Ana E Duran-Pinedo, Keerthana Krishnan, Jorge Frias-Lopez
Dysbiosis, or the imbalance in the structural and/or functional properties of the microbiome, is at the origin of important infectious inflammatory diseases such as inflammatory bowel disease (IBD) and periodontal disease. Periodontitis is a polymicrobial inflammatory disease that affects a large proportion of the world's population and has been associated with a wide variety of systemic health conditions, such as diabetes, cardiovascular and respiratory diseases. Dysbiosis has been identified as a key element in the development of the disease...
June 20, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28632732/fructo-oligosaccharides-and-intestinal-barrier-function-in-a-methionine-choline-deficient-mouse-model-of-nonalcoholic-steatohepatitis
#15
Kotaro Matsumoto, Mayuko Ichimura, Koichi Tsuneyama, Yuki Moritoki, Hiromichi Tsunashima, Katsuhisa Omagari, Masumi Hara, Ichiro Yasuda, Hiroshi Miyakawa, Kentaro Kikuchi
Impairments in intestinal barrier function, epithelial mucins, and tight junction proteins have been reported to be associated with nonalcoholic steatohepatitis. Prebiotic fructo-oligosaccharides restore balance in the gastrointestinal microbiome. This study was conducted to determine the effects of dietary fructo-oligosaccharides on intestinal barrier function and steatohepatitis in methionine-choline-deficient mice. Three groups of 12-week-old male C57BL/6J mice were studied for 3 weeks; specifically, mice were fed a methionine-choline-deficient diet, a methionine-choline-deficient diet plus 5% fructo-oligosaccharides in water, or a normal control diet...
2017: PloS One
https://www.readbyqxmd.com/read/28632016/the-bacteroides-fragilis-pathogenicity-island-links-virulence-and-strain-competition
#16
Benjamin W Casterline, Aaron L Hecht, Vivian M Choi, Juliane Bubeck Wardenburg
The mature microbiome is a stable ecosystem that resists perturbation despite constant host exposure to exogenous microbes. However, the microbial mechanisms determining microbiome development and composition are poorly understood. We recently demonstrated that a non-toxigenic B. fragilis (NTBF) strain restricts enteric colonization by an enterotoxigenic (ETBF) strain dependent on a type VI secretion system (T6SS). We show here that a second enterotoxigenic strain is competent to colonize, dependent on the Bacteroides fragilis pathogenicity island (BFPAI)...
February 23, 2017: Gut Microbes
https://www.readbyqxmd.com/read/28631353/microbiome-dynamics-in-early-life-stages-of-the-scleractinian-coral-acropora-gemmifera-in-response-to-elevated-pco2
#17
Guowei Zhou, Lin Cai, Tao Yuan, Renmao Tian, Haoya Tong, Weipeng Zhang, Lei Jiang, Minglan Guo, Sheng Liu, Pei-Yuan Qian, Hui Huang
Reef-building coral is a complex holobiont, harbouring diverse microorganisms that play essential roles in maintaining coral health. However, microbiome development in early life stages of coral remains poorly understood. Here, microbiomes of Acropora gemmifera were analysed during spawning and early developmental stages, and also under different seawater partial pressure of CO2 (pCO2 ) conditions, using amplicon sequencing of 16S rRNA gene for bacteria and archaea and of ITS2 for Symbiodinium. No remarkable microbiome shift was observed in adults before and after spawning...
June 19, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28631214/identification-of-bufadienolides-from-the-boreal-toad-anaxyrus-boreas-active-against-a-fungal-pathogen
#18
Kelly Barnhart, Megan E Forman, Thomas P Umile, Jordan Kueneman, Valerie McKenzie, Irene Salinas, Kevin P C Minbiole, Douglas C Woodhams
Amphibian granular glands provide a wide range of compounds on the skin that defend against pathogens and predators. We identified three bufadienolides-the steroid-like compounds arenobufagin, gamabufotalin, and telocinobufagin-from the boreal toad, Anaxyrus boreas, through liquid chromatography mass spectrometry (LC/MS). Compounds were detected both after inducing skin gland secretions and in constitutive mucosal rinses from toads. We described the antimicrobial properties of each bufadienolide against Batrachochytrium dendrobatidis (Bd), an amphibian fungal pathogen linked with boreal toad population declines...
June 19, 2017: Microbial Ecology
https://www.readbyqxmd.com/read/28631091/the-role-of-microbiota-and-probiotics-and-prebiotics-in-skin-health
#19
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/28630614/a-plant-based-diet-for-the-prevention-and-treatment-of-type-2-diabetes
#20
REVIEW
Michelle McMacken, Sapana Shah
The prevalence of type 2 diabetes is rising worldwide, especially in older adults. Diet and lifestyle, particularly plant-based diets, are effective tools for type 2 diabetes prevention and management. Plant-based diets are eating patterns that emphasize legumes, whole grains, vegetables, fruits, nuts, and seeds and discourage most or all animal products. Cohort studies strongly support the role of plant-based diets, and food and nutrient components of plant-based diets, in reducing the risk of type 2 diabetes...
May 2017: Journal of Geriatric Cardiology: JGC
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