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https://www.readbyqxmd.com/read/29452399/response-of-goose-intestinal-microflora-to-the-source-and-level-of-dietary-fiber
#1
Haizhu Zhou, Wei Guo, Tao Zhang, Bo Xu, Di Zhang, Zhanwei Teng, Dapeng Tao, Yujie Lou, Yunhang Gao
Geese are capable of digesting and making use of a high-fiber diet, but the mechanism is not well understood and would be of great significance for the development and utilization of roughage resources. In this study, we investigated the effect of dietary fiber (source: corn stover and alfalfa, included at 5% or 8%) on microflora in goose intestines. We used 35-day-old Carlos geese in which we first studied the influence of fiber ingestion on diet digestibility and immune organ indices of geese and found that high dietary fiber (8% content) significantly increased feed intake, the digestibility of neutral and acid detergent fiber, and thymus, bursa, and spleen size...
February 14, 2018: Poultry Science
https://www.readbyqxmd.com/read/29452392/pbrit-gene-prioritization-by-correlating-functional-and-phenotypic-annotations-through-integrative-data-fusion
#2
Ajay Anand Kumar, Lut Van Laer, Maaike Alaerts, Amin Ardeshirdavani, Yves Moreau, Kris Laukens, Bart Loeys, Geert Vandeweyer, Inanc Birol
Motivation: Computational gene prioritization can aid in disease gene identification. Here, we propose pBRIT (prioritization using Bayesian Ridge regression and Information Theoretic model), a novel adaptive and scalable prioritization tool, integrating Pubmed abstracts, Gene Ontology, Sequence similarities, Mammalian and Human Phenotype Ontology, Pathway, Interactions, Disease Ontology, Gene Association database and Human Genome Epidemiology database, into the prediction model.We explore and address effects of sparsity and inter-feature dependencies within annotation sources, and the impact of bias towards specific annotations...
February 14, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29452377/discordance-in-the-dependence-on-kisspeptin-signaling-in-mini-puberty-vs-adolescent-puberty-human-genetic-evidence
#3
Muhammad Shahab, Margaret Lippincott, Yee-Ming Chan, Addie Davies, Paulina M Merino, Lacey Plummer, Veronica Mericq, Stephanie Seminara
Context: Hypothalamic kisspeptin signaling plays a critical role in the initiation and maintenance of reproductive function. Biallelic mutations in the coding sequence of KISS1R (GPR54) have been identified in patients with idiopathic hypogonadotropic hypogonadism (IHH), but it is unknown whether biallelic variants can also be associated with related reproductive disorders. Case description: A missense homozygous variant (c.890G>T p.R297L) in KISS1R was identified in a child who presented with microphallus and bilateral cryptorchidism...
February 14, 2018: Journal of Clinical Endocrinology and Metabolism
https://www.readbyqxmd.com/read/29452367/variant-in-human-pofut1-reduces-enzymatic-activity-and-likely-causes-a-recessive-microcephaly-global-developmental-delay-with-cardiac-and-vascular-features
#4
Hideyuki Takeuchi, Derek Wong, Michael Schneider, Hudson H Freeze, Megumi Takeuchi, Steven J Berardinelli, Atsuko Ito, Hane Lee, Stanley F Nelson, Robert S Haltiwanger
Protein O-fucosyltransferase-1 (POFUT1) adds O-fucose monosaccharides to epidermal growth factor-like (EGF) repeats found on approximately 100 mammalian proteins, including Notch receptors. Haploinsufficiency of POFUT1 has been linked to adult-onset Dowling Degos Disease (DDD) with hyperpigmentation defects. Homozygous deletion of mouse Pofut1 results in embryonic lethality with severe Notch-like phenotypes including defects in somitogenesis, cardiogenesis, vasculogenesis, and neurogenesis, but the extent to which POFUT1 is required for normal human development is not yet understood...
February 14, 2018: Glycobiology
https://www.readbyqxmd.com/read/29452363/structuremapper-a-high-throughput-algorithm-for-analyzing-protein-sequence-locations-in-structural-data
#5
Anssi Nurminen, Vesa P Hytönen, Alfonso Valencia
Motivation: StructureMapper is a high-throughput algorithm for automated mapping of protein primary amino sequence locations to existing three-dimensional protein structures. The algorithm is intended for facilitating easy and efficient utilization of structural information in protein characterization and proteomics. StructureMapper provides an analysis of the identified structural locations that includes surface accessibility, flexibility, protein-protein interfacing, intrinsic disorder prediction, secondary structure assignment, biological assembly information, and sequence identity percentages, among other metrics...
February 14, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29452359/convergent-amino-acid-signatures-in-polyphyletic-campylobacter-jejuni-sub-populations-suggest-human-niche-tropism
#6
Guillaume Méric, Alan McNally, Alberto Pessia, Evangelos Mourkas, Ben Pascoe, Leonardos Mageiros, Minna Vehkala, Jukka Corander, Samuel K Sheppard
Human infection with the gastrointestinal pathogen C. jejuni is dependent upon the opportunity for zoonotic transmission and the ability of strains to colonize the human host. Certain lineages of this diverse organism are more common in human infection but the factors underlying this overrepresentation are not fully understood. We analysed 601 isolate genomes from agricultural animals and human clinical cases, including isolates from the multi-host (ecological generalist) ST-21 and ST-45 clonal complexes (CCs)...
February 14, 2018: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29452355/culture-facilitated-comparative-genomics-of-the-facultative-symbiont-hamiltonella-defensa
#7
Germain Chevignon, Bret M Boyd, Jayce W Brandt, Kerry M Oliver, Michael R Strand
Many insects host facultative, bacterial symbionts that confer conditional fitness benefits to their hosts. Hamiltonella defensa is a common facultative symbiont of aphids that provides protection against parasitoid wasps. Protection levels vary among strains of H. defensa that are also differentially infected by bacteriophages named APSEs. However, little is known about trait variation among strains because only one isolate has been fully sequenced. Generating complete genomes for facultative symbionts is hindered by relatively large genome sizes but low abundances in hosts like aphids that are very small...
February 14, 2018: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29452334/seed-2-a-user-friendly-platform-for-amplicon-high-throughput-sequencing-data-analyses
#8
Tomáš Vetrovský, Petr Baldrian, Daniel Morais, Bonnie Berger
Motivation: Modern molecular methods have increased our ability to describe microbial communities. Along with the advances brought by new sequencing technologies, we now require intensive computational resources to make sense of the large numbers of sequences continuously produced. The software developed by the scientific community to address this demand, although very useful, require experience of the command-line environment, extensive training and have steep learning curves, limiting their use...
February 14, 2018: Bioinformatics
https://www.readbyqxmd.com/read/29452319/-white-cord-syndrome-of-acute-hemiparesis-after-posterior-cervical-decompression-and-fusion-for-chronic-cervical-stenosis
#9
Prince Antwi, Ryan Grant, Gregory Kuzmik, Khalid Abbed
BACKGROUND: "White cord syndrome" is a very rare condition thought to be the result of acute reperfusion of chronically ischemic areas of the spinal cord. Its hallmark is the presence of intramedullary hyperintense signal on T2-weighted MRI sequences in a patient with unexplained neurologic deficits following a spinal cord decompression. The syndrome is rare and has been reported previously in two patients following anterior cervical decompression and fusion. CASE DESCRIPTION: Here, we report an additional case of this complication in a 68-year-old man who developed acute left-sided hemiparesis after posterior cervical decompression and fusion for cervical spondylotic myelopathy...
February 13, 2018: World Neurosurgery
https://www.readbyqxmd.com/read/29452293/genetic-diversity-and-functional-analysis-of-oipa-gene-in-association-with-other-virulence-factors-among-helicobacter-pylori-isolates-from-iranian-patients-with-different-gastric-diseases
#10
Nastaran Farzi, Abbas Yadegar, Hamid Asadzadeh Aghdaei, Yoshio Yamaoka, Mohammad Reza Zali
Helicobacter pylori (H. pylori) is one of the most genetically diverse bacterial pathogens that persistently colonizes the human gastric epithelium. This remarkable genomic plasticity may act as a driving force for successful adaptation and persistence of the bacteria in the harsh gastric environment. Outer inflammatory protein A (OipA) encoded by oipA gene (HP0638/hopH) is a member of the outer membrane proteins (OMPs) of H. pylori involved in induction of IL-8 secretion and is associated with development of peptic ulcer and gastric cancer...
February 13, 2018: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/29452230/a-regulatory-circuitry-between-mir-193a-mir-600-and-wt1-enhances-leukemogenesis-in-acute-myeloid-leukemia
#11
Haiying Li, Chongyun Xing, Bin Zhou, Haige Ye, Jianhua Feng, Jianbo Wu, Shenmeng Gao
The aberrant overexpression of the Wilm's tumor-1 (WT1) in acute myeloid leukemia (AML) plays an important role in blast cell survival through enhancing proliferation and inhibiting apoptosis. However, the mechanism underlying the overexpression of WT1 remains unclear. Here, we identified miR-193a (miR-193a-5p) and miR-600 targeting and degrading WT1. MiR-193a and miR-600 synergistically reduced WT1 expression and suppressed the activity of a luciferase reporter through binding coding sequence (CDS) and 3'-untranslated regions (3'UTR) of WT1 mRNA, respectively...
February 13, 2018: Experimental Hematology
https://www.readbyqxmd.com/read/29452199/establishment-of-the-nasal-microbiota-in-the-first-18-months-of-life-correlation-with-early-onset-rhinitis-and-wheezing
#12
Le Duc Huy Ta, Gaik Chin Yap, Carina Jing Xuan Tay, Alicia Shi Min Lim, Chiung Hui Huang, Collins Wenhan Chu, Paola Florez De Sessions, Lynette P Shek, Anne Goh, Hugo P S Van Bever, Oon Hoe Teoh, Jian Yi Soh, Biju Thomas, Mahesh Babu Ramamurthy, Daniel Y T Goh, Christophe Lay, Shu-E Soh, Yiong Huak Chan, Seang-Mei Saw, Kenneth Kwek, Yap-Seng Chong, Keith M Godfrey, Martin Lloyd Hibberd, Bee Wah Lee
BACKGROUND: The dynamic establishment of the nasal microbiota in early life influences local mucosal immune responses and the susceptibility to childhood respiratory disorders. OBJECTIVE: The aim of this case-control study was to monitor, evaluate and compare the development of the nasal microbiota of infants who developed rhinitis and wheeze in the first 18 months of life with those of healthy controls. METHODS: Anterior nasal swabs of 122 subjects belonging to the GUSTO birth cohort were collected longitudinally over seven time points in the first 18 months of life...
February 13, 2018: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/29452198/microbial-infection-pattern-pathogenic-features-and-resistance-mechanism-of-carbapenem-resistant-gram-negative-bacilli-during-long-term-hospitalization
#13
Shuxian Wen, Donghua Feng, Zerong Lu, Junyan Liu, Brian M Peters, Hailing Tang, Danhong Su, Yong-Ping Lin, Ling Yang, Zhenbo Xu, Mark E Shirtliff, Dingqiang Chen
BACKGROUND: Carbapenem-resistant Gram-negative bacilli (GNB) have become an important cause of nosocomial infections of hospitalized patients. METHODS: To investigate the microbial infection patterns and molecular epidemiology characteristics of the carbapenem-resistant GNB isolates from a long-term hospitalized patient, antimicrobial susceptibility testing, phenotypic screening test for carbapenemase production, PCR screening and DNA sequencing of carbapenemase genes, repetitive extragenic palindromic sequence-based PCR (REP-PCR), multilocus sequencing typing (MLST) and genetic environment analysis were performed...
February 13, 2018: Microbial Pathogenesis
https://www.readbyqxmd.com/read/29452187/purification-of-extra-cellular-poly-%C3%AE-glutamic-acid-as-an-antibacterial-agent-using-anion-exchange-chromatography
#14
M Ijadi Bajestani, S M Mousavi, S B Mousavi, A Jafari, S A Shojaosadati
BLAST analysis of the 16S rRNA gene sequence for the newly isolated bacterium, revealed significant identity (99.5%) with Bacillus sonorensis [Ijadi Bajestani, M., et al., International Journal of Biological Macromolecules, 2017. 96: p. 100-110]. According to the literature review for closely related species of Bacillus sonorensis, the production of poly-γ-glutamic acid (γ-PGA) as an extra cellular biopolymer was investigated for the isolated bacteria which is deposited in IBRC (Iranian Biological Resource Center) as Bacillus sp...
February 13, 2018: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/29452164/proposal-for-a-new-subtype-of-the-zoonotic-genotype-3-hepatitis-e-virus-hev-3l
#15
Luca De Sabato, Philippe Lemey, Bram Vrancken, Lebana Bonfanti, Letizia Ceglie, Gabriele Vaccari, Ilaria Di Bartolo
The near-complete genomic sequences of two hepatitis E virus (HEV) strains, detected from feces of infected pigs, were obtained. Phylogenetic analysis and p-distance comparisons of the complete coding regions showed a close relationship to the French swine strain FR-SHEV3c-like detected in 2006 (p-distance value 0.101), belonging to HEV-3 but not assigned to any known subtype. The three HEV sequences showed, relatively high nucleotide distances (p-distance >0.129) compared to the other defined HEV subtype references and unclassified strains...
February 13, 2018: Virus Research
https://www.readbyqxmd.com/read/29452048/high-frequency-of-metronidazole-and-clarithromycin-resistant-helicobacter-pylori-in-formalin-fixed-paraffin-embedded-gastric-biopsies
#16
B Pourakbari, S Mahmoudi, J Parhiz, R H Sadeghi, M Monajemzadeh, S Mamishi
BACKGROUND: Clarithromycin and metronidazole resistance of Helicobacter pylori is increasing worldwide and has resulted in a loss in the effectiveness of therapeutic regimens. We aimed to evaluate common mutations of resistance genes to clarithromycin (A2143G, A2142G and A2142C) and metronidazole (rdxA and frxA) in H. pylori strains in formalin-fixed, paraffin-embedded gastric biopsies. METHODS: A total of 110 tissue blocks from children suspected of H. pylori infection were included...
February 16, 2018: British Journal of Biomedical Science
https://www.readbyqxmd.com/read/29452030/comparative-phylogenetic-and-expression-analysis-of-small-gtpases-families-in-legume-and-non-legume-plants
#17
Ana Claudia Flores, Virginia Dalla Via, Virginia Savy, Ulises Mancini Villagra, María Eugenia Zanetti, Flavio Blanco
BACKGROUND: Small monomeric GTPases act as molecular switches in several processes that involve polar cell growth, participating mainly in vesicle trafficking and cytoskeleton rearrangements. This gene superfamily has largely expanded in plants through evolution as compared with other Kingdoms, leading to the suggestion that members of each subfamily might have acquired new functions associated to plant-specific processes. Legume plants engage in a nitrogen-fixing symbiotic interaction with rhizobia in a process that involves polar growth processes associated with the infection throughout the root hair...
February 16, 2018: Plant Signaling & Behavior
https://www.readbyqxmd.com/read/29451955/relationship-between-subchondral-bone-microstructure-and-articular-cartilage-in-the-osteoarthritic-knee-using-3t-mri
#18
Chenglei Liu, Chang Liu, Liping Si, Hao Shen, Qian Wang, Weiwu Yao
BACKGROUND: The importance of subchondral bone in the pathogenesis of osteoarthritis (OA) has drawn interest. PURPOSE: To investigate subregional trabecular bone microstructural features and to determine the relationship between cartilage and trabecular bone in the osteoarthritic human knee. STUDY TYPE: Prospective study. SUBJECTS: In all, 92 knees were enrolled and divided into three groups: without OA, mild OA, and severe OA...
February 16, 2018: Journal of Magnetic Resonance Imaging: JMRI
https://www.readbyqxmd.com/read/29451920/an-upstream-sequence-modulates-phenazine-production-at-the-level-of-transcription-and-translation-in-the-biological-control-strain-pseudomonas-chlororaphis-30-84
#19
Jun Myoung Yu, Dongping Wang, Tessa R Ries, Leland S Pierson, Elizabeth A Pierson
Phenazines are bacterial secondary metabolites and play important roles in the antagonistic activity of the biological control strain P. chlororaphis 30-84 against take-all disease of wheat. The expression of the P. chlororaphis 30-84 phenazine biosynthetic operon (phzXYFABCD) is dependent on the PhzR/PhzI quorum sensing system located immediately upstream of the biosynthetic operon as well as other regulatory systems including Gac/Rsm. Bioinformatic analysis of the sequence between the divergently oriented phzR and phzX promoters identified features within the 5'-untranslated region (5'-UTR) of phzX that are conserved only among 2OHPCA producing Pseudomonas...
2018: PloS One
https://www.readbyqxmd.com/read/29451918/manipulation-of-the-rhizosphere-microbial-community-through-application-of-a-new-bio-organic-fertilizer-improves-watermelon-quality-and-health
#20
Jia Zhao, Jiang Liu, Hong Liang, Jing Huang, Zhe Chen, Yuanjun Nie, Changbiao Wang, Yuguo Wang
Bio-organic fertilizers (BOFs) combine functional microbes with a suitable substrate and have been shown to effectively suppress soil-borne diseases and promote plant growth. Here, we developed a novel bio-organic fertilizer (BOF) by fermentation of a cow plus chicken manure (M) compost using Fen-liquor Daqu (FLD) as a fermentation starter and compared the compositions of bacterial and fungal communities in the rhizosphere soil of watermelon plants after treatment with different fertilizers. Further, we aimed to explore the mechanisms underlying plant-promoting and disease (Fusarium wilt)-suppressing activities of each rhizosphere microbial community...
2018: PloS One
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