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https://www.readbyqxmd.com/read/28934590/the-relationship-between-the-human-genome-and-microbiome-comes-into-view
#1
Julia K Goodrich, Emily R Davenport, Andrew G Clark, Ruth E Ley
The body's microbiome, composed of microbial cells that number in the trillions, is involved in human health and disease in ways that are just starting to emerge. The microbiome is assembled at birth, develops with its host, and is greatly influenced by environmental factors such as diet and other exposures. Recently, a role for human genetic variation has emerged as also influential in accounting for interpersonal differences in microbiomes. Thus, human genes may influence health directly or by promoting a beneficial microbiome...
September 20, 2017: Annual Review of Genetics
https://www.readbyqxmd.com/read/28934382/complete-genome-analysis-of-lactobacillus-fermentum-sk152-from-kimchi-reveals-genes-associated-with-its-antimicrobial-activity
#2
DongAhn Yoo, Bernadette B Bagon, Valerie Diane V Valeriano, Ju Kyoung Oh, Heebal Kim, Seoae Cho, Dae-Kyung Kang
Research findings on probiotics highlight their importance in repressing harmful bacteria, leading to more extensive research on their potential applications. We analysed the genome of Lactobacillus fermentum SK152, which was isolated from the Korean traditional fermented vegetable dish kimchi, to determine the genetic makeup and genetic factors responsible for the antimicrobial activity of L. fermentum SK152 and performed a comparative genome analysis with other L. fermentum strains. The genome of L. fermentum SK152 was found to comprise a complete circular chromosome of 2092 273 bp, with an estimated GC content of 51...
October 2, 2017: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/28934209/microbial-translocation-is-correlated-with-hiv-evolution-in-hiv-hcv-co-infected-patients
#3
Jean-Jacques Tudesq, Catherine Dunyach-Remy, Christophe Combescure, Régine Doncesco, Didier Laureillard, Jean-Philippe Lavigne, Albert Sotto
Microbial translocation (MT) is characterized by bacterial products passing into the blood through the gut barrier and is a key phenomenon in the pathophysiology of Human Immunodeficiency Virus (HIV) infection. MT is also associated with liver damage in Hepatitis C Virus (HCV) patients. The aim of the study was to assess MT in plasma of HIV-HCV co-infected patients. 16S rDNA (16 S Ribosomal DNA subunit) marker and other markers of MT such as Lipopolysaccharide (LPS)-binding protein (LBP), soluble CD14 (sCD14), intestinal fatty acid binding protein (I-FABP) were used...
2017: PloS One
https://www.readbyqxmd.com/read/28933074/-genomic-research-of-traditional-chinese-medicines-in-vivo-metabolism
#4
Shui-Ming Xiao, Rui Bai, Xiao-Yan Zhang
Gene is the base of in vivo metabolism and effectiveness for traditional Chinese medicines (TCM), and the gene expression, regulation and modification are used as the research directions to perform the TCM multi-component, multi-link and multi-target in vivo metabolism studies, which will improve the research on TCM metabolic proecess, effect target and molecular mechanism. Humans are superorganisms with 1% genes inherited from parents and 99% genes from various parts of the human body, mainly coming from the microorganisms in intestinal flora...
November 2016: Zhongguo Zhong Yao za Zhi, Zhongguo Zhongyao Zazhi, China Journal of Chinese Materia Medica
https://www.readbyqxmd.com/read/28932911/a-review-of-the-relationship-between-the-gut-microbiota-and-amino-acid-metabolism
#5
REVIEW
Rui Lin, Wentian Liu, Meiyu Piao, Hong Zhu
New evidence has emerged in recent years to suggest a strong link between the human gut microbiota, its metabolites, and various physiological aspects of hosts along with important pathophysiological dimensions of diseases. The research indicates that the gut microbiota can facilitate metabolite production in two ways: first, the resident species of the gut microbiota use the amino acids produced from food or the host as elements for protein synthesis, and second, conversion or fermentation are used to drive nutrient metabolism...
September 20, 2017: Amino Acids
https://www.readbyqxmd.com/read/28932814/the-gut-commensal-microbiome-of-drosophila-melanogaster-is-modified-by-the-endosymbiont-wolbachia
#6
Rama K Simhadri, Eva M Fast, Rong Guo, Michaela J Schultz, Natalie Vaisman, Luis Ortiz, Joanna Bybee, Barton E Slatko, Horacio M Frydman
Endosymbiotic Wolbachia bacteria and the gut microbiome have independently been shown to affect several aspects of insect biology, including reproduction, development, life span, stem cell activity, and resistance to human pathogens, in insect vectors. This work shows that Wolbachia bacteria, which reside mainly in the fly germline, affect the microbial species present in the fly gut in a lab-reared strain. Drosophila melanogaster hosts two main genera of commensal bacteria-Acetobacter and Lactobacillus. Wolbachia-infected flies have significantly reduced titers of Acetobacter...
September 2017: MSphere
https://www.readbyqxmd.com/read/28931541/molecular-mechanisms-involved-in-the-adaptive-regulation-of-colonic-thiamin-pyrophosphate-tpp-uptake-process
#7
Kasin Yadunandam Anandam, Padmanabhan Srinivasan, Veedamali S Subramanian, Hamid M Said
A considerable amount of the thiamin generated by gut microbiota exists in the form of thiamin pyrophosphate (TPP). We have previously shown that human colonocytes possess an efficient carrier-mediated uptake process for TPP that involves the SLC44A4 system and this uptake process is adaptively-regulated by prevailing extracellular TPP level. Little is known about the molecular mechanisms that mediate this adaptive regulation. We addressed this issue using human-derived colonic epithelial NCM460 cells and mouse colonoids as models...
September 20, 2017: American Journal of Physiology. Cell Physiology
https://www.readbyqxmd.com/read/28931466/1-alpha-25-dihydroxyvitamin-d3-up-regulates-the-expression-of-2-types-of-human-intestinal-alkaline-phosphatase-alternative-splicing-variants-in-caco-2-cells-and-may-be-an-important-regulator-of-their-expression-in-gut-homeostasis
#8
Seiko Noda, Asako Yamada, Kanae Nakaoka, Masae Goseki-Sone
Vitamin D insufficiency is associated with a greater risk of osteoporosis and also influences skeletal muscle functions, differentiation, and development. The principal function of vitamin D in calcium homeostasis is to increase the absorption of calcium from the intestine, and the level of alkaline phosphatase (ALP) activity, a differentiation marker for intestinal epithelial cells, is regulated by vitamin D. Intestinal-type ALP is expressed at a high concentration in the brush border membrane of intestinal epithelial cells, and is known to be affected by several kinds of nutrients...
August 4, 2017: Nutrition Research
https://www.readbyqxmd.com/read/28931076/ghrelin-mediated-inhibition-of-the-tsh-stimulated-function-of-differentiated-human-thyrocytes-ex-vivo
#9
Maria Barington, Marianne Møller Brorson, Jacob Hofman-Bang, Åse Krogh Rasmussen, Birgitte Holst, Ulla Feldt-Rasmussen
Ghrelin is a peptide hormone produced mainly in the gastrointestinal tract known to regulate several physiological functions including gut motility, adipose tissue accumulation and hunger sensation leading to increased bodyweight. Studies have found a correlation between the plasma levels of thyroid hormones and ghrelin, but an effect of ghrelin on the human thyroid has never been investigated even though ghrelin receptors are present in the thyroid. The present study shows a ghrelin-induced decrease in the thyroid-stimulating hormone (TSH)-induced production of thyroglobulin and mRNA expression of thyroperoxidase in a primary culture of human thyroid cells obtained from paranodular tissue...
2017: PloS One
https://www.readbyqxmd.com/read/28930572/immune-response-to-systemic-inflammation-in-the-intestinal-microcirculation
#10
Taylor Thorburn, Maral Aali, Christian Lehmann
Systemic inflammation is characterized by acute or chronic dysregulation of the host immune response. The intestine plays an important role in systemic inflammation. Disturbances in the intestinal microcirculation due to infiltration of immune cells during systemic inflammation can increase bacterial translocation from the gut to the circulation and aggravate the pathological condition. Therefore, the intestinal microcirculation is relevant with respect to two aspects - as pathophysiological trigger and therapeutic target in systemic inflammation...
January 1, 2018: Frontiers in Bioscience (Landmark Edition)
https://www.readbyqxmd.com/read/28929087/interactions-of-intestinal-bacteria-with-components-of-the-intestinal-mucus
#11
REVIEW
Jean-Félix Sicard, Guillaume Le Bihan, Philippe Vogeleer, Mario Jacques, Josée Harel
The human gut is colonized by a variety of large amounts of microbes that are collectively called intestinal microbiota. Most of these microbial residents will grow within the mucus layer that overlies the gut epithelium and will act as the first line of defense against both commensal and invading microbes. This mucus is essentially formed by mucins, a family of highly glycosylated protein that are secreted by specialize cells in the gut. In this Review, we examine how commensal members of the microbiota and pathogenic bacteria use mucus to their advantage to promote their growth, develop biofilms and colonize the intestine...
2017: Frontiers in Cellular and Infection Microbiology
https://www.readbyqxmd.com/read/28927397/detection-of-bacterial-pathogens-from-clinical-specimens-using-conventional-microbial-culture-and-16s-metagenomics-a-comparative-study
#12
Lalanika M Abayasekara, Jennifer Perera, Vishvanath Chandrasekharan, Vaz S Gnanam, Nisala A Udunuwara, Dileepa S Liyanage, Nuwani E Bulathsinhala, Subhashanie Adikary, Janith V S Aluthmuhandiram, Chrishanthi S Thanaseelan, D Portia Tharmakulasingam, Tharaga Karunakaran, Janahan Ilango
BACKGROUND: Infectious disease is the leading cause of death worldwide, and diagnosis of polymicrobial and fungal infections is increasingly challenging in the clinical setting. Conventionally, molecular detection is still the best method of species identification in clinical samples. However, the limitations of Sanger sequencing make diagnosis of polymicrobial infections one of the biggest hurdles in treatment. The development of massively parallel sequencing or next generation sequencing (NGS) has revolutionized the field of metagenomics, with wide application of the technology in identification of microbial communities in environmental sources, human gut and others...
September 19, 2017: BMC Infectious Diseases
https://www.readbyqxmd.com/read/28927251/fecal-microbiota-transplantation-past-present-and-future-perspectives
#13
Stefano Bibbò, Gianluca Ianiro, Antonio Gasbarrini, Giovanni Cammarota
Gut microbiota is known to play a main role in regulating both health and disease in humans. Strategies for the therapeutic modulation of gut microbiota are therefore expected to give a relevant contribution in the management of disorders associated with its impairment. Among these options, one of the most renowned is fecal microbiota transplantation (FMT). A growing body of evidence showed clearly that FMT is an effective treatment against recurrent Clostridium difficile infection. Moreover, it was shown to be a promising therapy for the management of several noncommunicable disorders, including inflammatory bowel diseases and metabolic disorders...
December 2017: Minerva Gastroenterologica e Dietologica
https://www.readbyqxmd.com/read/28926118/chop-induced-loss-of-intestinal-epithelial-stemness-contributes-to-bile-duct-ligation-induced-cholestatic-liver-injury
#14
Runping Liu, Xiaojiaoyang Li, Zhiming Huang, Derrick Zhao, Bhagyalaxmi Sukka Ganesh, Guanhua Lai, William M Pandak, Phillip B Hylemon, Jasmohan S Bajaj, Arun J Sanyal, Huiping Zhou
Impaired intestinal barrier function promotes the progression of various liver diseases including cholestatic liver disease. The close association of primary sclerosing cholangitis (PSC) with inflammatory bowel disease highlights the importance of the gut-liver axis. It has been reported that bile duct ligation (BDL)-induced liver fibrosis is significantly reduced in C/EBP homologous protein knock out (CHOP(-/-) ) mice. However, the underlying mechanisms remain unclear. In the current study, we demonstrate that BDL induces striking and acute hepatic ER stress responses after 1 day, which return to normal after 3 days...
September 19, 2017: Hepatology: Official Journal of the American Association for the Study of Liver Diseases
https://www.readbyqxmd.com/read/28925886/the-microbiota-gut-brain-axis-in-neuropsychiatric-disorders-pathophysiological-mechanisms-and-novel-treatments
#15
Yong-Ku Kim, Cheolmin Shin
BACKGROUND: The human gut microbiome comprise a huge number of microorganisms with co-evolutionary associations with humans. It has been repeatedly revealed that bidirectional communication exists between the brain and the gut and involves neural, hormonal, and immunological pathways. Evidences from neuroscience researches over the past few years suggest that microbiota is essential for the development and maturation of brain systems that are associated to stress responses. METHOD: This review provides that the summarization of the communication among microbiota, gut and brain and the results of preclinical and clinical studies on gut microbiota used in treatments for neuropsychiatric disorders...
September 15, 2017: Current Neuropharmacology
https://www.readbyqxmd.com/read/28925102/continued-alcohol-misuse-in-human-cirrhosis-is-associated-with-an-impaired-gut-liver-axis
#16
Jasmohan S Bajaj, Genta Kakiyama, Derrick Zhao, Hajime Takei, Andrew Fagan, Phillip Hylemon, Huiping Zhou, William M Pandak, Hiroshi Nittono, Oliver Fiehn, Nita Salzman, Mary Holtz, Pippa Simpson, Edith A Gavis, Douglas M Heuman, Runping Liu, Dae Joong Kang, Masoumeh Sikaroodi, Patrick M Gillevet
BACKGROUND: Cirrhosis and alcohol can independently affect the gut-liver axis with systemic inflammation. However their concurrent impact in humans is unclear. AIM: Determine the effect of continued alcohol misuse on the gut-liver axis in cirrhotic patients. METHODS: Age and MELD-balanced cirrhotic patients who were currently drinking (Alc) or abstinent (NAlc), and healthy controls underwent serum and stool collection. A subset underwent upper endoscopy and colonoscopy for biopsies and duodenal fluid collection...
September 19, 2017: Alcoholism, Clinical and Experimental Research
https://www.readbyqxmd.com/read/28923537/metagenomic-shotgun-sequencing-and-unbiased-metabolomic-profiling-identify-specific-human-gut-microbiota-and-metabolites-associated-with-immune-checkpoint-therapy-efficacy-in-melanoma-patients
#17
Arthur E Frankel, Laura A Coughlin, Jiwoong Kim, Thomas W Froehlich, Yang Xie, Eugene P Frenkel, Andrew Y Koh
This is the first prospective study of the effects of human gut microbiota and metabolites on immune checkpoint inhibitor (ICT) response in metastatic melanoma patients. Whereas many melanoma patients exhibit profound response to ICT, there are fewer options for patients failing ICT-particularly with BRAF-wild-type disease. In preclinical studies, specific gut microbiota promotes regression of melanoma in mice. We therefore conducted a study of the effects of pretreatment gut microbiota and metabolites on ICT Response Evaluation Criteria in Solid Tumors response in 39 metastatic melanoma patients treated with ipilimumab, nivolumab, ipilimumab plus nivolumab (IN), or pembrolizumab (P)...
September 14, 2017: Neoplasia: An International Journal for Oncology Research
https://www.readbyqxmd.com/read/28923468/immune-regulation-by-histamine-and-histamine-secreting-bacteria
#18
REVIEW
Weronika Barcik, Marcin Wawrzyniak, Cezmi A Akdis, Liam O'Mahony
Histamine is a biogenic amine with extensive effects on many immune cell types. Histamine and its four receptors (H1R-H4R) represent a complex system of immunoregulation with distinct effects dependent on receptor subtypes and their differential expression. In addition to mammalian cells, bacteria can also secrete histamine and the influence of microbiota-derived histamine on host immunological processes is only beginning to be described. However, it is clear that histamine-secreting microbes are present within the human gut microbiota and their levels are increased in asthma patients...
September 15, 2017: Current Opinion in Immunology
https://www.readbyqxmd.com/read/28921469/microbial-factors-in-inflammatory-diseases-and-cancers
#19
Hong Sheng Ong, Howard Chi Ho Yim
The intestinal microbes form a symbiotic relationship with their human host to harvest energy for themselves and their host and to shape the immune system of their host. However, alteration of this relationship, which is named as a dysbiosis, has been associated with the development of different inflammatory diseases and cancers. It is found that metabolites, cellular components, and virulence factors derived from the gut microbiota interact with the host locally or systemically to modulate the dysbiosis and the development of these diseases...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28920844/identification-of-genes-involved-in-galactooligosaccharide-utilization-in-bifidobacterium-breve-strain-yit-4014t
#20
Hidetsugu Sotoya, Akira Shigehisa, Taeko Hara, Hoshitaka Matsumoto, Hiroshi Hatano, Takahiro Matsuki
Galactooligosaccharides (GOS) are mixed oligosaccharides that are mainly composed of galactosyllactoses (GLs), which include 3'-GL, 4'-GL, and 6'-GL. Data from numerous in vitro and in vivo studies have shown that GOS selectively stimulate the growth of bifidobacteria. Previously, we identified the gene locus responsible for 4'-GL utilization, but the selective routes of uptake and catabolism of 3'- and 6'-GL remain to be elucidated. In this study, we used differential transcriptomics to identify the utilization pathways of these GLs within the Bifidobacterium breve YIT 4014T strain...
September 18, 2017: Microbiology
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