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https://www.readbyqxmd.com/read/28107502/rnai-based-functional-genomics-identifies-new-virulence-determinants-in-mucormycosis
#1
Trung Anh Trieu, María Isabel Navarro-Mendoza, Carlos Pérez-Arques, Marta Sanchis, Javier Capilla, Patricia Navarro-Rodriguez, Loida Lopez-Fernandez, Santiago Torres-Martínez, Victoriano Garre, Rosa María Ruiz-Vázquez, Francisco E Nicolás
Mucorales are an emerging group of human pathogens that are responsible for the lethal disease mucormycosis. Unfortunately, functional studies on the genetic factors behind the virulence of these organisms are hampered by their limited genetic tractability, since they are reluctant to classical genetic tools like transposable elements or gene mapping. Here, we describe an RNAi-based functional genomic platform that allows the identification of new virulence factors through a forward genetic approach firstly described in Mucorales...
January 20, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28100589/meiotic-consequences-of-genetic-divergence-across-the-murine-pseudoautosomal-region
#2
Beth L Dumont
The production of haploid gametes during meiosis is dependent on the homology-driven processes of pairing, synapsis, and recombination. On the mammalian heterogametic sex chromosomes, these key meiotic activities are confined to the pseudoautosomal region (PAR), a short region of near-perfect sequence homology between the X and Y chromosomes. Despite its established importance for meiosis, the PAR is rapidly evolving, raising the question of how proper X/Y segregation is buffered against the accumulation of homology-disrupting mutations...
January 18, 2017: Genetics
https://www.readbyqxmd.com/read/28096855/helminth-infections-of-meriones-persicus-persian-jird-mus-musculus-house-mice-and-cricetulus-migratorius-grey-hamster-a-cross-sectional-study-in-meshkin-shahr-district-northwest-iran
#3
Zabiholah Zarei, Mehdi Mohebali, Zahra Heidari, Jaber Davoodi, Afshin Shabestari, Afsaneh Motevalli Haghi, Khadijeh Khanaliha, Eshrat Beigom Kia
BACKGROUND: Rodents have important role as reservoirs of different parasites. The aim of this study was to determine helminth parasites of abundant rodents in Meshkin-Shahr, Ardabil Province northwest Iran. METHODS: From April 2014 to March 2015; 205 rodents including 118 Meriones persicus, 63 Mus musculus and 24 Cricetulus migratorius were collected, using live traps. All rodents were dissected and their different tissues examined for infectivity with helminth parasites...
April 2016: Iranian Journal of Parasitology
https://www.readbyqxmd.com/read/28095659/molecular-characterization-of-nippostrongylus-brasiliensis-nematoda-heligmosomatidae-from-mus-musculus-in-india
#4
Anshu Chaudhary, Urvashi Goswami, Hridaya Shanker Singh
Mus musculus (Rodentia: Muridae) has generally been infected with a rodent hookworm Nippostrongylus brasiliensis. In this report, we present morphological and molecular identification of N. brasiliensis by light and scanning electron microscopy and PCR amplification of mitochondrial cytochrome c oxidase subunit 1 (cox1) gene and the protein sequences encoded by cox1 gene, respectively. Despite the use of N. brasiliensis in many biochemistry studies from India, their taxonomic identification was not fully understood, especially at the species level, and no molecular data is available in GenBank from India...
December 2016: Korean Journal of Parasitology
https://www.readbyqxmd.com/read/28088356/advancing-the-prediction-accuracy-of-protein-protein-interactions-by-utilizing-evolutionary-information-from-position-specific-scoring-matrix-and-ensemble-classifier
#5
Lei Wang, Zhu-Hong You, Shi-Xiong Xia, Feng Liu, Xing Chen, Xin Yan, Yong Zhou
Protein-Protein Interactions (PPIs) are essential to most biological processes and play a critical role in most cellular functions. With the development of high-throughput biological techniques and in silico methods, a large number of PPI data have been generated for various organisms, but many problems remain unsolved. These factors promoted the development of the in silico methods based on machine learning to predict PPIs. In this study, we propose a novel method by combining ensemble Rotation Forest (RF) classifier and Discrete Cosine Transform (DCT) algorithm to predict the interactions among proteins...
January 11, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28081160/estimates-of-abundance-and-trend-of-chilean-blue-whales-off-isla-de-chilo%C3%A3-chile
#6
Barbara Galletti Vernazzani, Jennifer A Jackson, Elsa Cabrera, Carole A Carlson, Robert L Brownell
Since 1970, blue whales (Balaenoptera musculus) have been seen feeding in the waters off southern Chile during the summer and autumn (December to May). Investigation of the genetic, acoustic and morphological characteristics of these blue whales shows that they are a distinct but unnamed subspecies, called the Chilean blue whales. Photo-identification surveys have been conducted in the waters off northwestern Isla Grande de Chiloé, southern Chile from 2004-2012 and Isla Chañaral, central Chile in 2012. Over this time, 1,070 blue whales were encountered yielding, after photo-quality control, 318 and 267 unique photographs of the left and right side of the flank respectively...
2017: PloS One
https://www.readbyqxmd.com/read/28065723/social-context-dependent-relationships-between-mouse-dominance-rank-and-plasma-hormone-levels
#7
Cait M Williamson, Won Lee, Russell D Romeo, James P Curley
The associations between social status and endogenous testosterone and corticosterone have been well-studied across taxa, including rodents. Dominant social status is typically associated with higher levels of circulating testosterone and lower levels of circulating corticosterone but findings are mixed and depend upon numerous contextual factors. Here, we determine that the social environment is a key modulator of these relationships in Mus musculus. In groups of outbred CD-1 mice living in stable dominance hierarchies, we found no evidence of simple linear associations between social rank and corticosterone or testosterone plasma levels...
January 6, 2017: Physiology & Behavior
https://www.readbyqxmd.com/read/28063600/rna-in-situ-hybridization-characterization-of-non-enzymatic-derived-bovine-intervertebral-disc-cell-lineages-suggests-progenitor-cell-potential
#8
Petra Kraus, Rachel Yerden, Victoria Kocsis, Thomas Lufkin
Degeneration of the intervertebral disc (IVD) is a meritorious target for therapeutic cell based regenerative medicine approaches, however, controversy over what defines the precise identity of mature IVD cells and lack of single cell based quality control measures is of concern. Bos taurus and human IVDs are histologically more similar than is Mus musculus. The mature bovine IVD is well suited as model system for technology development to be translated into therapeutic cell based regenerative medicine applications...
January 4, 2017: Acta Histochemica
https://www.readbyqxmd.com/read/28062648/dual-chemistry-catalyzed-by-human-acireductone-dioxygenase
#9
Aditi R Deshpande, Thomas C Pochapsky, Gregory A Petsko, Dagmar Ringe
Acireductone dioxygenase (ARD) from the methionine salvage pathway of Klebsiella oxytoca is the only known naturally occurring metalloenzyme that catalyzes different reactions in vivo based solely on the identity of the divalent transition metal ion (Fe(2+) or Ni(2+)) bound in the active site. The iron-containing isozyme catalyzes the cleavage of substrate 1,2-dihydroxy-3-keto-5-(thiomethyl)pent-1-ene (acireductone) by O2 to formate and the ketoacid precursor of methionine, whereas the nickel-containing isozyme uses the same substrates to catalyze an off-pathway shunt to form methylthiopropionate, carbon monoxide and formate...
January 5, 2017: Protein Engineering, Design & Selection: PEDS
https://www.readbyqxmd.com/read/28058796/hox-gene-expression-in-the-specialized-limbs-of-the-iberian-mole-talpa-occidentalis
#10
Constanze Bickelmann, Wessel van der Vos, Merijn A G de Bakker, Rafael Jiménez, Saskia Maas, Marcelo R Sánchez-Villagra
Fossorial talpid moles use their limbs predominantly for digging, which explains their highly specialized anatomy. The humerus is particularly short and dorsoventrally rotated, with broadened distal and proximal parts where muscles attach and which facilitate powerful abductive movements. The radius and ulna are exceptionally robust and short. The ulna has an expanded olecranon process. The femur is generalized, but the fused tibia-fibula complex is short and robust. To understand the developmental bases of these specializations, we studied expression patterns of four 5' Hox genes in the fossorial Iberian mole (Talpa occidentalis)...
January 2017: Evolution & Development
https://www.readbyqxmd.com/read/28058793/effects-of-selection-for-ethanol-preference-on-gene-expression-in-the-nucleus-accumbens-of-hs-cc-mice
#11
Alexandre M Colville, Ovidiu D Iancu, Denesa L Oberbeck, Priscila Darakjian, Christina L Zheng, Nicole A R Walter, Christina A Harrington, Robert P Searles, Shannon McWeeney, Robert J Hitzemann
Previous studies on changes in murine brain gene expression associated with the selection for ethanol preference have used F2 intercross or heterogeneous stock (HS) founders, derived from standard laboratory strains. However, these populations represent only a small proportion of the genetic variance available in Mus musculus. To investigate a wider range of genetic diversity, we selected mice for ethanol preference using a HS derived from the eight strains of the Collaborative Cross. These heterogeneous stock mice were selectively bred (four generations) for High and Low ethanol preference...
January 6, 2017: Genes, Brain, and Behavior
https://www.readbyqxmd.com/read/28056078/early-life-social-isolation-influences-mouse-ultrasonic-vocalizations-during-male-male-social-encounters
#12
Sarah M Keesom, Caitlyn J Finton, Gabrielle L Sell, Laura M Hurley
Early-life social isolation has profound effects on adult social competence. This is often expressed as increased aggression or inappropriate displays of courtship-related behaviors. The social incompetence exhibited by isolated animals could be in part due to an altered ability to participate in communicatory exchanges. House mice (Mus musculus) present an excellent model for exploring this idea, because social isolation has a well-established influence on their social behavior, and mice engage in communication via multiple sensory modalities...
2017: PloS One
https://www.readbyqxmd.com/read/28049628/initiation-of-mtdna-transcription-is-followed-by-pausing-and-diverge-across-human-cell-types-and-during-evolution
#13
Amit Blumberg, Edward J Rice, Anshul Kundaje, Charles G Danko, Dan Mishmar
Mitochondrial DNA (mtDNA) genes are long known to be co-transcribed in polycistrones, yet it remains impossible to study nascent mtDNA transcripts quantitatively in vivo using existing tools. To this end we used deep sequencing (GRO-seq and PRO-seq) and analyzed nascent mtDNA-encoded RNA transcripts in diverse human cell lines and metazoan organisms. Surprisingly, accurate detection of human mtDNA transcription initiation sites (TIS) in the heavy and light strands revealed a novel conserved transcription pausing site near the light strand TIS...
January 3, 2017: Genome Research
https://www.readbyqxmd.com/read/28048969/on-the-developmental-self-regulatory-dynamics-and-evolution-of-individuated-multicellular-organisms
#14
Felipe A Veloso
Changes in gene expression are thought to regulate the cell differentiation process intrinsically through complex epigenetic mechanisms. In fundamental terms, however, this assumed regulation refers only to the intricate propagation of changes in gene expression or else leads to non-explanatory regresses. The developmental self-regulatory dynamics and evolution of individuated multicellular organisms also lack a unified and falsifiable description. To fill this gap, I computationally analyzed publicly available high-throughput data of histone H3 post-translational modifications and mRNA abundance for different Homo sapiens, Mus musculus, and Drosophila melanogaster cell-type/developmental-period samples...
December 31, 2016: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28046912/su-f-e-04-a-paris-system-based-implant-approach-to-hyperthermia-cancer-tumor-with-gold-seeds-and-ultrasound
#15
C Austerlitz, A Barros, I Gkigkitzis, I Haranas, D Zhu, D Campos
PURPOSE: To apply the Paris system-based implant for an uniform bio-heat distribution from implanted gold rods in tissue insonated with ultrasound. METHODS: Experiments with single-plane implants using parallel equidistant 1.018 ± 0.015 cm height and 0.136 ± 0.001 cm diameter 24-K gold rods) arranged in triangular and square shapes were performed in Mus Musculus white mice (medial dorsal region). The mice were anesthetized and gold rods were implanted by means of a trocar needle and the implanted region was insonated with a 4-cm diameter transducer oscillating with a nominal frequency of 1 MHz and power of about 75 W...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28046255/su-f-e-05-determination-of-breakeven-points-of-in-vitro-meats-and-in-vivo-mice-based-on-tissue-temperature-enhancement-pattern
#16
C Austerlitz, A Barros, I Gkigkitzis, I Haranas, D Zhu, D Campos
PURPOSE: To determine the breakeven points in fresh commercial meat and in vivo mice using the tissue temperature enhancement pattern. METHODS: A 1 cm length and 0.1 cm diameter gold rod were implanted in fresh chicken breast, beef, fish, in vivo Mus Musculus white mice (medial dorsal region) and insonated with ultrasound. The temperature enhancement of gold rods was measured with a needle type thermistor over a temperature range from 35-50 oC. From these results the breakeven points were determined by plotting the gold rod temperature versus ultrasound exposure time and determining the interception point of two curves fitted by a linear regression of thermal response above and below 43 °C...
June 2016: Medical Physics
https://www.readbyqxmd.com/read/28033112/three-dimensional-ultrasound-strain-imaging-of-skeletal-muscles
#17
K Gijsbertse, A M J Sprengers, M M Nillesen, H H G Hansen, R G P Lopata, N Verdonschot, C L de Korte
In this study, a multi-dimensional strain estimation method is presented to assess local relative deformation in three orthogonal directions in 3D space of skeletal muscles during voluntary contractions. A rigid translation and compressive deformation of a block phantom, that mimics muscle contraction, is used as experimental validation of the 3D technique and to compare its performance with respect to a 2D based technique. Axial, lateral and (in case of 3D) elevational displacements are estimated using a cross-correlation based displacement estimation algorithm...
January 21, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28025199/computational-prediction-of-species-specific-malonylation-sites-via-enhanced-characteristic-strategy
#18
Li-Na Wang, Shao-Ping Shi, Hao-Dong Xu, Ping-Ping Wen, Jian-Ding Qiu
MOTIVATION: Protein malonylation is a novel post-translational modification (PTM) which orchestrates a variety of biological processes. Annotation of malonylation in proteomics is the first-crucial step to decipher its physiological roles which are implicated in the pathological processes. Comparing with the expensive and laborious experimental research, computational prediction can provide an accurate and effective approach to the identification of many types of PTMs sites. However, there is still no online predictor for lysine malonylation...
December 23, 2016: Bioinformatics
https://www.readbyqxmd.com/read/28011166/hyperglycemia-and-high-nitric-oxide-level-induced-oxidative-stress-in-the-brain-and-molecular-alteration-in-the-neurons-and-glial-cells-of-laboratory-mouse-mus-musculus
#19
Rashmi Richa, Arun Kumar Yadawa, Chandra Mohini Chaturvedi
Chronic hyperglycemia (glucotoxicity) is reported to have detrimental effects on various brain functions leading to neurodegenerative changes. However, the effect of hyperglycemia in combination with high nitric oxide (NO) level (reported to be increased during glucotoxicity), on brain functions is not clear yet. The present study was designed to investigate the effects of hyperglycemic drug Streptozotocin (STZ) and NO donor Sodium nitroprusside (SNP) on the brain of laboratory mouse, Mus musculus. Effects of these conditions were studied on the markers of oxidative stress, NF-κB signalling and the markers of neuronal and glial cell activation/inflammation...
December 20, 2016: Neurochemistry International
https://www.readbyqxmd.com/read/27998929/slice-determining-cell-differentiation-and-lineage-based-on-single-cell-entropy
#20
Minzhe Guo, Erik L Bao, Michael Wagner, Jeffrey A Whitsett, Yan Xu
A complex organ contains a variety of cell types, each with its own distinct lineage and function. Understanding the lineage and differentiation state of each cell is fundamentally important for the ultimate delineation of organ formation and function. We developed SLICE, a novel algorithm that utilizes single-cell RNA-seq (scRNA-seq) to quantitatively measure cellular differentiation states based on single cell entropy and predict cell differentiation lineages via the construction of entropy directed cell trajectories...
December 19, 2016: Nucleic Acids Research
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