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Microbiome programming

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https://www.readbyqxmd.com/read/28920414/metagenomic-analysis-of-bacterial-community-structure-and-diversity-of-lignocellulolytic-bacteria-in-vietnamese-native-goat-rumen
#1
Huyen Thi Do, Khoa Trong Dao, Viet Khanh Hoang Nguyen, Giang Ngoc Le, Phuong Thi Mai Nguyen, Lam Tung Le, Nguyet Thu Phung, Nico van Straalen, Dick Roelofs, Hai Nam Truong
Objective: In a previous study, analysis of Illumina sequenced metagenomic DNA data of bacteria in Vietnamese goats' rumen showed a high diversity of putative lignocellulolytic genes. In this study, taxonomy speculation of microbial community and lignocellulolytic bacteria population in the rumen was conducted to elucidate a role of bacterial structure for effective degradation of plant materials. Methods: The metagenomic data had been subjected into Basic Local Alignment Search Tool (BLASTX) algorithm and the National Center for Biotechnology Information (NCBI) non-redundant (NR) sequence database...
September 18, 2017: Asian-Australasian Journal of Animal Sciences
https://www.readbyqxmd.com/read/28901864/prenatal-stress-enhances-susceptibility-to-allergic-diseases-of-offspring
#2
Maria Moustaki, Sophia Tsabouri, Kostas Priftis, Konstantinos Douros
BACKGROUND AND OBJECTIVES: Maternal prenatal stress (MPS) may result in a range of long-term consequences in the offspring among which is susceptibility to allergic diseases. This review presents the current knowledge on the pathways through which MPS may affect the fetus, and the existing evidence regarding the association between MPS and development of allergy in the offspring. RESULT AND DISCUSSION: A pivotal mediator triggered in response to stress is the release of glucocorticoids (GC)...
September 12, 2017: Endocrine, Metabolic & Immune Disorders Drug Targets
https://www.readbyqxmd.com/read/28894921/structural-and-functional-variability-in-root-associated-bacterial-microbiomes-of-cd-zn-hyperaccumulator-sedum-alfredii
#3
Jipeng Luo, Qi Tao, Keren Wu, Jinxing Li, Jie Qian, Yongchao Liang, Xiaoe Yang, Tingqiang Li
Interactions between roots and microbes affect plant's resistance to abiotic stress. However, the structural and functional variation of root-associated microbiomes and their effects on metal accumulation in hyperaccumulators remain poorly understood. Here, we characterize the root-associated microbiota of a hyperaccumulating (HP) and a non-hyperaccumulating (NHP) genotype of Sedum alfredii by 16S ribosomal RNA gene profiling. We show that distinct microbiomes are observed in four spatially separable compartments: the bulk soil, rhizosphere, rhizoplane, and endosphere...
September 11, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/28889823/epigenetics-and-dohad-from-basics-to-birth-and-beyond
#4
T Bianco-Miotto, J M Craig, Y P Gasser, S J van Dijk, S E Ozanne
Developmental origins of health and disease (DOHaD) is the study of how the early life environment can impact the risk of chronic diseases from childhood to adulthood and the mechanisms involved. Epigenetic modifications such as DNA methylation, histone modifications and non-coding RNAs are involved in mediating how early life environment impacts later health. This review is a summary of the Epigenetics and DOHaD workshop held at the 2016 DOHaD Society of Australia and New Zealand Conference. Our extensive knowledge of how the early life environment impacts later risk for chronic disease would not have been possible without animal models...
September 11, 2017: Journal of Developmental Origins of Health and Disease
https://www.readbyqxmd.com/read/28879172/epigenetic-matters-the-link-between-early-nutrition-microbiome-and-long-term-health-development
#5
REVIEW
Flavia Indrio, Silvia Martini, Ruggiero Francavilla, Luigi Corvaglia, Fernanda Cristofori, Salvatore Andrea Mastrolia, Josef Neu, Samuli Rautava, Giovanna Russo Spena, Francesco Raimondi, Giuseppe Loverro
Epigenetic modifications are among the most important mechanisms by which environmental factors can influence early cellular differentiation and create new phenotypic traits during pregnancy and within the neonatal period without altering the deoxyribonucleic acid sequence. A number of antenatal and postnatal factors, such as maternal and neonatal nutrition, pollutant exposure, and the composition of microbiota, contribute to the establishment of epigenetic changes that can not only modulate the individual adaptation to the environment but also have an influence on lifelong health and disease by modifying inflammatory molecular pathways and the immune response...
2017: Frontiers in Pediatrics
https://www.readbyqxmd.com/read/28875499/the-intestinal-microbiota-determines-the-colitis-inducing-potential-of-t-bet-deficient-th-cells-in-mice
#6
Jakob Zimmermann, Pawel Durek, Anja A Kühl, Florian Schattenberg, Patrick Maschmeyer, Francesco Siracusa, Katrin Lehmann, Kerstin Westendorf, Melanie Weber, René Riedel, Susann Müller, Andreas Radbruch, Hyun-Dong Chang
Conflicting evidence has been provided as to whether induction of intestinal inflammation by adoptive transfer of naïve T cells into Rag(-/-) mice requires expression of the transcription factor T-bet by the T cells. Here, we formally show that the intestinal microbiota composition of the Rag(-/-) recipient determines whether or not T-bet-deficient Th cells can induce colitis and we have resolved the differences of the two microbiomes, permissive or non-permissive to T-bet-independent colitis. Our data highlight the dominance of the microbiota over particular T cell differentiation programs in the pathogenesis of chronic intestinal inflammation...
September 6, 2017: European Journal of Immunology
https://www.readbyqxmd.com/read/28855974/the-skin-microbiome-impact-of-modern-environments-on-skin-ecology-barrier-integrity-and-systemic-immune-programming
#7
REVIEW
Susan L Prescott, Danica-Lea Larcombe, Alan C Logan, Christina West, Wesley Burks, Luis Caraballo, Michael Levin, Eddie Van Etten, Pierre Horwitz, Anita Kozyrskyj, Dianne E Campbell
Skin barrier structure and function is essential to human health. Hitherto unrecognized functions of epidermal keratinocytes show that the skin plays an important role in adapting whole-body physiology to changing environments, including the capacity to produce a wide variety of hormones, neurotransmitters and cytokine that can potentially influence whole-body states, and quite possibly, even emotions. Skin microbiota play an integral role in the maturation and homeostatic regulation of keratinocytes and host immune networks with systemic implications...
2017: World Allergy Organization Journal
https://www.readbyqxmd.com/read/28822770/regulation-of-autoimmune-myocarditis-by-host-responses-to-the-microbiome
#8
Jobert G Barin, Monica V Talor, Nicola L Diny, SuFey Ong, Julie A Schaub, Elizabeth Gebremariam, Djahida Bedja, Guobao Chen, Hee Sun Choi, Xuezhou Hou, Lei Wu, Ashley B Cardamone, Daniel A Peterson, Noel R Rose, Daniela Čiháková
The extensive, diverse communities that constitute the microbiome are increasingly appreciated as important regulators of human health and disease through inflammatory, immune, and metabolic pathways. We sought to elucidate pathways by which microbiota contribute to inflammatory, autoimmune cardiac disease. We employed an animal model of experimental autoimmune myocarditis (EAM), which results in inflammatory and autoimmune pathophysiology and subsequent maladaptive cardiac remodeling and heart failure. Antibiotic dysbiosis protected mice from EAM and fibrotic cardiac dysfunction...
August 16, 2017: Experimental and Molecular Pathology
https://www.readbyqxmd.com/read/28815459/a-roadmap-for-reducing-cardiac-device-infections-a-review-of-epidemiology-pathogenesis-and-actionable-risk-factors-to-guide-the-development-of-an-infection-prevention-program-for-the-electrophysiology-laboratory
#9
REVIEW
Westyn Branch-Elliman
PURPOSE OF REVIEW: Cardiovascular implantable electronic device (CIED) infections are highly morbid, common, and costly, and rates are increasing (Sohail et al. Arch Intern Med 171(20):1821-8 2011; Voigt et al. J Am Coll Cardiol 48(3):590-1 2006). Factors that contribute to the development of CIED infections include patient factors (comorbid conditions, self-care, microbiome), procedural details (repeat procedure, contamination during procedure, appropriate pre-procedural prep, and antimicrobial use), environmental and organizational factors (patient safety culture, facility barriers, such as lack of space to store essential supplies, quality of environmental cleaning), and microbial factors (type of organism, virulence of organism)...
August 16, 2017: Current Infectious Disease Reports
https://www.readbyqxmd.com/read/28811339/heritable-bovine-rumen-bacteria-are-phylogenetically-related-and-correlated-with-the-cow-s-capacity-to-harvest-energy-from-its-feed
#10
Goor Sasson, Sheerli Kruger Ben-Shabat, Eyal Seroussi, Adi Doron-Faigenboim, Naama Shterzer, Shamay Yaacoby, Margret E Berg Miller, Bryan A White, Eran Halperin, Itzhak Mizrahi
Ruminants sustain a long-lasting obligatory relationship with their rumen microbiome dating back 50 million years. In this unique host-microbiome relationship, the host's ability to digest its feed is completely dependent on its coevolved microbiome. This extraordinary alliance raises questions regarding the dependent relationship between ruminants' genetics and physiology and the rumen microbiome structure, composition, and metabolism. To elucidate this relationship, we examined the association of host genetics with the phylogenetic and functional composition of the rumen microbiome...
August 15, 2017: MBio
https://www.readbyqxmd.com/read/28789673/gene-and-transcript-abundances-of-bacterial-type-iii-secretion-systems-from-the-rumen-microbiome-are-correlated-with-methane-yield-in-sheep
#11
Janine Kamke, Priya Soni, Yang Li, Siva Ganesh, William J Kelly, Sinead C Leahy, Weibing Shi, Jeff Froula, Edward M Rubin, Graeme T Attwood
BACKGROUND: Ruminants are important contributors to global methane emissions via microbial fermentation in their reticulo-rumens. This study is part of a larger program, characterising the rumen microbiomes of sheep which vary naturally in methane yield (g CH4/kg DM/day) and aims to define differences in microbial communities, and in gene and transcript abundances that can explain the animal methane phenotype. METHODS: Rumen microbiome metagenomic and metatranscriptomic data were analysed by Gene Set Enrichment, sparse partial least squares regression and the Wilcoxon Rank Sum test to estimate correlations between specific KEGG bacterial pathways/genes and high methane yield in sheep...
August 8, 2017: BMC Research Notes
https://www.readbyqxmd.com/read/28767318/the-gut-microbiome-and-mental-health-implications-for-anxiety-and-trauma-related-disorders
#12
Stefanie Malan-Muller, Mireia Valles-Colomer, Jeroen Raes, Christopher A Lowry, Soraya Seedat, Sian M J Hemmings
Biological psychiatry research has long focused on the brain in elucidating the neurobiological mechanisms of anxiety- and trauma-related disorders. This review challenges this assumption and suggests that the gut microbiome and its interactome also deserve attention to understand brain disorders and develop innovative treatments and diagnostics in the 21st century. The recent, in-depth characterization of the human microbiome spurred a paradigm shift in human health and disease. Animal models strongly suggest a role for the gut microbiome in anxiety- and trauma-related disorders...
August 2, 2017: Omics: a Journal of Integrative Biology
https://www.readbyqxmd.com/read/28760826/commensal-microbiota-induced-microrna-modulates-intestinal-epithelial-permeability-through-a-small-gtpase-arf4
#13
Kazuaki Nakata, Yutaka Sugi, Hikari Narabayashi, Tetsuro Kobayakawa, Yusuke Nakanishi, Masato Tsuda, Akira Hosono, Shuichi Kaminogawa, Shigemasa Hanazawa, Kyoko Takahashi
The intestinal tract contains many commensal bacteria that modulate various physiological host functions. Dysbiosis of commensal bacteria triggers dysfunction of the intestinal epithelial barrier, leading to the induction or aggravation of intestinal inflammation. To elucidate whether miRNA plays a role in the commensal microbiome-dependent intestinal epithelial barrier regulation, here we compared transcripts in intestinal epithelial cells (IECs) from conventional (CV) and germ-free (GF) mice and found that commensal bacteria induced the expression of miR-21-5p in IECs...
July 31, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28735809/antibiotic-stewardship-in-perinatal-and-neonatal-care
#14
REVIEW
Jayashree Ramasethu, Tetsuya Kawakita
The spread of antibiotic resistance due to the use and misuse of antibiotics around the world is now a major health crisis. Neonates are exposed to antibiotics both before and after birth, often empirically because of risk factors for infection, or for non-specific signs which may or may not indicate sepsis. There is increasing evidence that, apart from antibiotic resistance, the use of antibiotics in pregnancy and in the neonatal period alters the microbiome in the fetus and neonate with an increased risk of immediate and long-term adverse effects...
October 2017: Seminars in Fetal & Neonatal Medicine
https://www.readbyqxmd.com/read/28727206/the-mother-offspring-dyad-microbial-transmission-immune-interactions-and-allergy-development
#15
REVIEW
Maria C Jenmalm
The increasing prevalence of allergy in affluent countries may be caused by reduced intensity and diversity of microbial stimulation, resulting in abnormal postnatal immune maturation. Most studies investigating the underlying immunomodulatory mechanisms have focused on postnatal microbial exposure, for example demonstrating that the gut microbiota differs in composition and diversity during the first months of life in children who later do or do not develop allergic disease. However, it is also becoming increasingly evident that the maternal microbial environment during pregnancy is important in childhood immune programming, and the first microbial encounters may occur already in utero...
July 20, 2017: Journal of Internal Medicine
https://www.readbyqxmd.com/read/28726511/how-do-probiotics-and-prebiotics-function-at-distant-sites
#16
G Reid, T Abrahamsson, M Bailey, L B Bindels, R Bubnov, K Ganguli, C Martoni, C O'Neill, H M Savignac, C Stanton, N Ship, M Surette, K Tuohy, S van Hemert
The realisation that microbes regarded as beneficial to the host can impart effects at sites distant from their habitat, has raised many possibilities for treatment of diseases. The objective of a workshop hosted in Turku, Finland, by the International Scientific Association for Probiotics and Prebiotics, was to assess the evidence for these effects and the extent to which early life microbiome programming influences how the gut microbiota communicates with distant sites. In addition, we examined how probiotics and prebiotics might affect the skin, airways, heart, brain and metabolism...
August 24, 2017: Beneficial Microbes
https://www.readbyqxmd.com/read/28713365/what-s-normal-immune-profiling-of-human-milk-from-healthy-women-living-in-different-geographical-and-socioeconomic-settings
#17
Lorena Ruiz, Irene Espinosa-Martos, Cristina García-Carral, Susana Manzano, Michelle K McGuire, Courtney L Meehan, Mark A McGuire, Janet E Williams, James Foster, Daniel W Sellen, Elizabeth W Kamau-Mbuthia, Egidioh W Kamundia, Samwel Mbugua, Sophie E Moore, Linda J Kvist, Gloria E Otoo, Kimberly A Lackey, Katherine Flores, Rossina G Pareja, Lars Bode, Juan M Rodríguez
Human milk provides a very wide range of nutrients and bioactive components, including immune factors, human milk oligosaccharides, and a commensal microbiota. These factors are essential for interconnected processes including immunity programming and the development of a normal infant gastrointestinal microbiome. Newborn immune protection mostly relies on maternal immune factors provided through milk. However, studies dealing with an in-depth profiling of the different immune compounds present in human milk and with the assessment of their natural variation in healthy women from different populations are scarce...
2017: Frontiers in Immunology
https://www.readbyqxmd.com/read/28713344/outer-membrane-proteome-of-veillonella-parvula-a-diderm-firmicute-of-the-human-microbiome
#18
Daniel I Poppleton, Magalie Duchateau, Véronique Hourdel, Mariette Matondo, Jennifer Flechsler, Andreas Klingl, Christophe Beloin, Simonetta Gribaldo
Veillonella parvula is a biofilm-forming commensal found in the lungs, vagina, mouth, and gastro-intestinal tract of humans, yet it may develop into an opportunistic pathogen. Furthermore, the presence of Veillonella has been associated with the development of a healthy immune system in infants. Veillonella belongs to the Negativicutes, a diverse clade of bacteria that represent an evolutionary enigma: they phylogenetically belong to Gram-positive (monoderm) Firmicutes yet maintain an outer membrane (OM) with lipopolysaccharide similar to classic Gram-negative (diderm) bacteria...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28702033/how-streptomyces-anulatus-primes-grapevine-defenses-to-cope-with-gray-mold-a-study-of-the-early-responses-of-cell-suspensions
#19
Parul Vatsa-Portugal, Aziz Aziz, Marine Rondeau, Sandra Villaume, Hamid Morjani, Christophe Clément, Essaid Ait Barka
Gray mold, caused by Botrytis cinerea, is one of the most destructive diseases of grapevine and is controlled with an intense application of fungicides. As alternatives to chemicals, beneficial microbes may promote plant health by stimulating the plant's immune system. An actinomycete, Streptomyces anulatus S37, has been screened from the rhizosphere microbiome of healthy Vitis vinifera on the basis of its ability to promote grapevine growth and to induce resistance against various phytopathogens, including B...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28700948/peripartum-antibiotics-promote-gut-dysbiosis-loss-of-immune-tolerance-and-inflammatory-bowel-disease-in-genetically-prone-offspring
#20
Jun Miyoshi, Alexandria M Bobe, Sawako Miyoshi, Yong Huang, Nathaniel Hubert, Tom O Delmont, A Murat Eren, Vanessa Leone, Eugene B Chang
Factors affecting the developing neonatal gut microbiome and immune networks may increase the risk of developing complex immune disorders such as inflammatory bowel diseases (IBD). In particular, peripartum antibiotics have been suggested as risk factors for human IBD, although direct evidence is lacking. Therefore, we examined the temporal impact of the commonly used antibiotic cefoperazone on both maternal and offspring microbiota when administered to dams during the peripartum period in the IL-10-deficient murine colitis model...
July 11, 2017: Cell Reports
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