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https://www.readbyqxmd.com/read/29168291/the-col5a3-and-mmp9-genes-interact-in-eczema-susceptibility
#1
Patricia Margaritte-Jeannin, Marie-Claude Babron, Catherine Laprise, Nolwenn Lavielle, Chloé Sarnowski, Myriam Brossard, Miriam Moffatt, Valérie Gagné-Ouellet, Adrien Etcheto, Mark Lathrop, Jocelyne Just, William O Cookson, Emmanuelle Bouzigon, Florence Demenais, Marie-Hélène Dizier
BACKGROUND: Genetic studies of eczema have identified many genes, which explain only 14% of the heritability. Missing heritability may be partly due to ignored Gene-Gene (G-G) interactions. OBJECTIVE: Our aim was to detect new interacting genes involved in eczema. METHODS: The search for G-G interaction in eczema was conducted using a two-step approach, which included as a first step, a biological selection of genes, which are involved either in the skin or epidermis development or in the collagen metabolism, and as a second-step, an interaction analysis of the selected genes...
November 23, 2017: Clinical and Experimental Allergy: Journal of the British Society for Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/29162549/diversification-dynamics-and-transoceanic-eurasian-australian-disjunction-in-the-genus-picris-compositae-induced-by-the-interplay-of-shifts-in-intrinsic-extrinsic-traits-and-paleoclimatic-oscillations
#2
Marek Slovák, Jaromír Kučera, Hans Walter Lack, Jotham Ziffer-Berger, Andrea Melicharková, Eliška Záveská, Peter Vďačný
Understanding transcontinental biogeographic patterns has been one of the main foci of the field of biogeography. While multiple explanations for transcontinental disjunctions have been proposed, little is still known about the relative importance of intrinsic and extrinsic traits for the diversification dynamics of disjunct taxa. Here, we study the evolutionary history of the genus Picris L. (Compositae), a great model for investigating the diversification dynamics of transoceanic bipolar disjunct organisms...
November 18, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/29029112/diversity-and-regulation-of-intrinsic-%C3%AE-lactamases-from-non-fermenting-and-other-gram-negative-opportunistic-pathogens
#3
Carlos Juan, Gabriel Torrens, Mar González-Nicolau, Antonio Oliver
This review deeply addresses for the first time the diversity, regulation and mechanisms leading to mutational overexpression of intrinsic β-lactamases from non-fermenting and other non-Enterobacteriaceae Gram-negative opportunistic pathogens. After a general overview of the intrinsic β-lactamases described so far in these microorganisms, including circa. 60 species and 100 different enzymes, we review the wide array of regulatory pathways of these β-lactamases. They include diverse LysR-type regulators, which control the expression of β-lactamases from relevant nosocomial pathogens such as Pseudomonas aeruginosa or Stenothrophomonas maltophilia or two-component regulators, with special relevance in Aeromonas spp...
November 1, 2017: FEMS Microbiology Reviews
https://www.readbyqxmd.com/read/28887206/reproducibility-and-relative-stability-in-magnetic-resonance-imaging-indices-of-tumor-vascular-physiology-over-a-period-of-24h-in-a-rat-9l-gliosarcoma-model
#4
Tavarekere N Nagaraja, Rasha Elmghirbi, Stephen L Brown, Lonni R Schultz, Ian Y Lee, Kelly A Keenan, Swayamprava Panda, Glauber Cabral, Tom Mikkelsen, James R Ewing
PURPOSE: The objective was to study temporal changes in tumor vascular physiological indices in a period of 24h in a 9L gliosarcoma rat model. METHODS: Fischer-344 rats (N=14) were orthotopically implanted with 9L cells. At 2weeks post-implantation, they were imaged twice in a 24h interval using dynamic contrast enhanced magnetic resonance imaging (DCE-MRI). Data-driven model-selection-based analysis was used to segment tumor regions with varying vascular permeability characteristics...
December 2017: Magnetic Resonance Imaging
https://www.readbyqxmd.com/read/28863156/molecular-characterization-and-epidemic-history-of-hepatitis-c-virus-using-core-sequences-of-isolates-from-central-province-saudi-arabia
#5
Medhat K Shier, James C Iles, Mohammad S El-Wetidy, Hebatallah H Ali, Mohammad M Al Qattan
The source of HCV transmission in Saudi Arabia is unknown. This study aimed to determine HCV genotypes in a representative sample of chronically infected patients in Saudi Arabia. All HCV isolates were genotyped and subtyped by sequencing of the HCV core region and 54 new HCV isolates were identified. Three sets of primers targeting the core region were used for both amplification and sequencing of all isolates resulting in a 326 bp fragment. Most HCV isolates were genotype 4 (85%), whereas only a few isolates were recognized as genotype 1 (15%)...
2017: PloS One
https://www.readbyqxmd.com/read/28861525/impacts-of-penicillin-binding-protein-2-inactivation-on-%C3%AE-lactamase-expression-and-muropeptide-profile-in-stenotrophomonas-maltophilia
#6
Yi-Wei Huang, Yu Wang, Yun Lin, Chin Lin, Yi-Tsung Lin, Cheng-Chih Hsu, Tsuey-Ching Yang
Penicillin binding proteins (PBPs) are involved in peptidoglycan synthesis, and their inactivation is linked to β-lactamase expression in ampR-β-lactamase module-harboring Gram-negative bacteria. There are seven annotated PBP genes, namely, mrcA, mrcB, pbpC, mrdA, ftsI, dacB, and dacC, in the Stenotrophomonas maltophilia genome, and these genes encode PBP1a, PBP1b, PBP1c, PBP2, PBP3, PBP4, and PBP6, respectively. In addition, S. maltophilia harbors two β-lactamase genes, L1 and L2, whose expression is induced via β-lactam challenge...
July 2017: MSystems
https://www.readbyqxmd.com/read/28827175/from-discovery-to-spread-the-evolution-and-phylogeny-of-getah-virus
#7
Yuan-Yuan Li, Hong Liu, Shi-Hong Fu, Xiao-Long Li, Xiao-Fang Guo, Ming-Hua Li, Yun Feng, Wei-Xin Chen, Li-Hua Wang, Wen-Wen Lei, Xiao-Yan Gao, Zhi Lv, Ying He, Huan-Yu Wang, Hong-Ning Zhou, Gui-Qin Wang, Guo-Dong Liang
Getah virus (GETV) was first isolated in Malaysia in 1955. Since then, epidemics in horses and pigs caused by GETV have resulted in huge economic losses. At present, GETV has spread across Eurasia and Southeast Asia, including mainland China, Korea, Japan, Mongolia, and Russia. Data show that the Most Recent Common Ancestor (MRCA) of GETV existed about 145years ago (95% HPD: 75-244) and gradually evolved into four distinct evolutionary populations: Groups I-IV. The MRCA of GETVs in Group III, which includes all GETVs isolated from mosquitoes, pigs, horses, and other animals since the 1960s (from latitude 19°N to 60°N), existed about 51years ago (95% HPD: 51-72)...
August 19, 2017: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/28811619/comparative-mitogenomic-analysis-of-aposthonia-borneensis-and-aposthonia-japonica-embioptera-oligotomidae-reveals-divergent-evolution-of-webspinners
#8
Zhi-Teng Chen, Liang Lü, Ming-Xing Lu, Yu-Zhou Du
In this study, we report the complete mitochondrial genome (mitogenome, mtDNA) of Aposthonia borneensis and compare it with another sequenced webspinner, Aposthonia japonica. The A. borneensis mitogenome is smaller than A. japonica, but the size of each gene and the A + T content of protein-coding genes (PCGs) are almost identical in the two mitogenomes. Among the PCGs, atp6 shows the highest evolutionary rate and cox1 the lowest. The mtDNA map in A. borneensis is similar to Drosophila yakuba, but distinctly different from A...
August 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28739370/molecular-systematics-species-delimitation-and-diversification-patterns-of-the-phyllodactylus-lanei-complex-gekkota-phyllodactylidae-in-mexico
#9
Tonatiuh Ramírez-Reyes, Daniel Piñero, Oscar Flores-Villela, Ella Vázquez-Domínguez
The description of cryptic gecko species worldwide has revealed both that many putative species are, in fact, conformed by a complex of morphologically conserved species that are genetically distinct and highly divergent, and that gecko species diversity could be underestimated. The taxonomy and species delimitation of geckos belonging to the genus Phyllodactylus is still controversial, 16 of which are distributed in Mexico and 13 are endemic. Although the large morphological variation shown by the Phyllodactylus species from Mexico has been amply documented, little is known about their genetic diversity and evolutionary relationships, and much less regarding cryptic speciation...
July 21, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28645326/improving-visualization-of-4d-flow-cardiovascular-magnetic-resonance-with-four-dimensional-angiographic-data-generation-of-a-4d-phase-contrast-magnetic-resonance-cardioangiography-4d-pc-mrca
#10
Mariana Bustamante, Vikas Gupta, Carl-Johan Carlhäll, Tino Ebbers
Magnetic Resonance Angiography (MRA) and Phase-Contrast MRA (PC-MRA) approaches used for assessment of cardiovascular morphology typically result in data containing information from the entire cardiac cycle combined into one 2D or 3D image. Information specific to each timeframe of the cardiac cycle is, however, lost in this process. This study proposes a novel technique, called Phase-Contrast Magnetic Resonance CardioAngiography (4D PC-MRCA), that utilizes the full potential of 4D Flow CMR when generating temporally resolved PC-MRA data to improve visualization of the heart and major vessels throughout the cardiac cycle...
June 23, 2017: Journal of Cardiovascular Magnetic Resonance
https://www.readbyqxmd.com/read/28592495/genomes-of-the-mouse-collaborative-cross
#11
Anuj Srivastava, Andrew P Morgan, Maya L Najarian, Vishal Kumar Sarsani, J Sebastian Sigmon, John R Shorter, Anwica Kashfeen, Rachel C McMullan, Lucy H Williams, Paola Giusti-Rodríguez, Martin T Ferris, Patrick Sullivan, Pablo Hock, Darla R Miller, Timothy A Bell, Leonard McMillan, Gary A Churchill, Fernando Pardo-Manuel de Villena
The Collaborative Cross (CC) is a multiparent panel of recombinant inbred (RI) mouse strains derived from eight founder laboratory strains. RI panels are popular because of their long-term genetic stability, which enhances reproducibility and integration of data collected across time and conditions. Characterization of their genomes can be a community effort, reducing the burden on individual users. Here we present the genomes of the CC strains using two complementary approaches as a resource to improve power and interpretation of genetic experiments...
June 2017: Genetics
https://www.readbyqxmd.com/read/28553725/biotransformation-of-ursolic-acid-by-alternaria-longipes-as3-2875
#12
Chen-Xi Zhang, Wei-Jun Ma, Dai-Lin Liu, Xiu-Juan Jia, Yan-Min Zhao
Microbial transformation of ursolic acid (1) was carried out by Alternaria longipes AS 3.2875. Six transformed products (2-7) from 1 were isolated and their structures were identified as 3-carbonyl ursolic acid 28-O-β-D-glucopyranosyl ester (2), ursolic acid 3-O-β-D-glucopyranoside (3), ursolic acid 28-O-β-D-glucopyranosyl ester (4), 2α, 3β-dihydroxy ursolic acid 28-O-β-D-glucopyranosyl ester (5), 3β, 21β dihydroxy ursolic acid 28-O-β-D-glucopyranosyl ester (6), and 3-O-(β-D-glucopyranosyl)- ursolic acid 28-O-(β-D-glucopyranosyl) ester (7) based on the analysis of 1D NMR, 2DNMR and MS data...
May 29, 2017: Natural Product Research
https://www.readbyqxmd.com/read/28487172/prediction-of-vaccine-candidates-against-pseudomonas-aeruginosa-an-integrated-genomics-and-proteomics-approach
#13
Muhammad Ibrahim Rashid, Anam Naz, Amjad Ali, Saadia Andleeb
Pseudomonas aeruginosa is among top critical nosocomial infectious agents due to its persistent infections and tendency for acquiring drug resistance mechanisms. To date, there is no vaccine available for this pathogen. We attempted to exploit the genomic and proteomic information of P. aeruginosa though reverse-vaccinology approaches to unveil the prospective vaccine candidates. P. aeruginosa strain PAO1 genome was subjected to sequential prioritization approach following genomic, proteomics and structural analyses...
July 2017: Genomics
https://www.readbyqxmd.com/read/28467422/the-mitochondrial-ancestor-of-bonobos-and-the-origin-of-their-major-haplogroups
#14
Hiroyuki Takemoto, Yoshi Kawamoto, Shoko Higuchi, Emiko Makinose, John A Hart, Térese B Hart, Tetsuya Sakamaki, Nahoko Tokuyama, Gay E Reinartz, Patrick Guislain, Jef Dupain, Amy K Cobden, Mbangi N Mulavwa, Kumugo Yangozene, Serge Darroze, Céline Devos, Takeshi Furuichi
We report here where the most recent common ancestor (MRCA) of bonobos (Pan paniscus) ranged and how they dispersed throughout their current habitat. Mitochondrial DNA (mtDNA) molecular dating to analyze the time to MRCA (TMRCA) and the major mtDNA haplogroups of wild bonobos were performed using new estimations of divergence time of bonobos from other Pan species to investigate the dispersal routes of bonobos over the forest area of the Congo River's left bank. The TMRCA of bonobos was estimated to be 0.64 or 0...
2017: PloS One
https://www.readbyqxmd.com/read/28295896/assessing-the-colonic-microbiome-hydrogenogenic-and-hydrogenotrophic-genes-transit-and-breath-methane-in-constipation
#15
P G Wolf, G Parthasarathy, J Chen, H M O'Connor, N Chia, A E Bharucha, H R Gaskins
BACKGROUND: Differences in the gut microbiota and breath methane production have been observed in chronic constipation, but the relationship between colonic microbiota, transit, and breath tests remains unclear. METHODS: In 25 healthy and 25 constipated females we evaluated the sigmoid colonic mucosal and fecal microbiota using 16S rRNA gene sequencing, abundance of hydrogenogenic FeFe (FeFe-hydA) and hydrogenotrophic (methyl coenzyme M reductase A [mrcA] and dissimilatory sulfite reductase A [dsrA]) genes with real-time qPCR assays, breath hydrogen and methane levels after oral lactulose, and colonic transit with scintigraphy...
October 2017: Neurogastroenterology and Motility: the Official Journal of the European Gastrointestinal Motility Society
https://www.readbyqxmd.com/read/28288112/reconstructing-the-genome-of-the-most-recent-common-ancestor-of-flowering-plants
#16
Florent Murat, Alix Armero, Caroline Pont, Christophe Klopp, Jérôme Salse
We describe here the reconstruction of the genome of the most recent common ancestor (MRCA) of modern monocots and eudicots, accounting for 95% of extant angiosperms, with its potential repertoire of 22,899 ancestral genes conserved in present-day crops. The MRCA provides a starting point for deciphering the reticulated evolutionary plasticity between species (rapidly versus slowly evolving lineages), subgenomes (pre- versus post-duplication blocks), genomic compartments (stable versus labile loci), genes (ancestral versus species-specific genes) and functions (gained versus lost ontologies), the key mutational forces driving the success of polyploidy in crops...
April 2017: Nature Genetics
https://www.readbyqxmd.com/read/28049761/an-evolutionary-framework-for-carpel-developmental-control-genes
#17
Kai C Pfannebecker, Matthias Lange, Oliver Rupp, Annette Becker
Carpels are the female reproductive organs of flowering plants (angiosperms), enclose the ovules, and develop into fruits. The presence of carpels unites angiosperms, and they are suggested to be the most important autapomorphy of the angiosperms, e.g., they prevent inbreeding and allow efficient seed dispersal. Many transcriptional regulators and coregulators essential for carpel development are encoded by diverse gene families and well characterized in Arabidopsis thaliana. Among these regulators are AGAMOUS (AG), ETTIN (ETT), LEUNIG (LUG), SEUSS (SEU), SHORT INTERNODE/STYLISH (SHI/STY), and SEPALLATA1, 2, 3, 4 (SEP1, 2, 3, 4)...
February 1, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/27748767/genome-scale-analysis-of-the-non-cultivable-treponema-pallidum-reveals-extensive-within-patient-genetic-variation
#18
Miguel Pinto, Vítor Borges, Minia Antelo, Miguel Pinheiro, Alexandra Nunes, Jacinta Azevedo, Maria José Borrego, Joana Mendonça, Dina Carpinteiro, Luís Vieira, João Paulo Gomes
Insights into the genomic adaptive traits of Treponema pallidum, the causative bacterium of syphilis, have long been hampered due to the absence of in vitro culture models and the constraints associated with its propagation in rabbits. Here, we have bypassed the culture bottleneck by means of a targeted strategy never applied to uncultivable bacterial human pathogens to directly capture whole-genome T. pallidum data in the context of human infection. This strategy has unveiled a scenario of discreet T. pallidum interstrain single-nucleotide-polymorphism-based microevolution, contrasting with a rampant within-patient genetic heterogeneity mainly targeting multiple phase-variable loci and a major antigen-coding gene (tprK)...
October 17, 2016: Nature Microbiology
https://www.readbyqxmd.com/read/27746295/turkish-and-japanese-mycobacterium-tuberculosis-sublineages-share-a-remote-common-ancestor
#19
Guislaine Refrégier, Edgar Abadia, Tomoshige Matsumoto, Hiromi Ano, Tetsuya Takashima, Izuo Tsuyuguchi, Elif Aktas, Füsun Cömert, Michel Kireopori Gomgnimbou, Stefan Panaiotov, Jody Phelan, Francesc Coll, Ruth McNerney, Arnab Pain, Taane G Clark, Christophe Sola
Two geographically distant M. tuberculosis sublineages, Tur from Turkey and T3-Osaka from Japan, exhibit partially identical genotypic signatures (identical 12-loci MIRU-VNTR profiles, distinct spoligotyping patterns). We investigated T3-Osaka and Tur sublineages characteristics and potential genetic relatedness, first using MIRU-VNTR locus analysis on 21 and 25 samples of each sublineage respectively, and second comparing Whole Genome Sequences of 8 new samples to public data from 45 samples uncovering human tuberculosis diversity...
November 2016: Infection, Genetics and Evolution
https://www.readbyqxmd.com/read/27731913/effect-of-nitroglycerin-on-the-performance-of-mr-coronary-angiography
#20
Tobias Heer, Stephanie Reiter, Markus Trißler, Berthold Höfling, Florian von Knobelsdorff-Brenkenhoff, Günter Pilz
PURPOSE: To systematically investigate the effect of sublingual glyceryl trinitrate (nitroglycerin=nitro=glyceryl trinitrate=GTN=C3 H5 N3 O9 [NTG]) on the diagnostic performance of MR coronary artery imaging (MRCA) to detect relevant coronary artery disease (CAD). MATERIALS AND METHODS: Thirty-five healthy volunteers and 25 patients with suspected or proven CAD (all in sinus rhythm) underwent MRCA before and after NTG using a contrast-agent free, three-dimensional, navigator-based, steady state free precession acquisition (voxel size 1...
May 2017: Journal of Magnetic Resonance Imaging: JMRI
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