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https://www.readbyqxmd.com/read/28343372/east-of-the-andes-the-genetic-profile-of-the-peruvian-amazon-populations
#1
T Di Corcia, C Sanchez Mellado, T J Davila Francia, G Ferri, S Sarno, D Luiselli, O Rickards
OBJECTIVES: Assuming that the differences between the Andes and the Amazon rainforest at environmental and historical levels have influenced the distribution patterns of genes, languages, and cultures, the maternal and paternal genetic reconstruction of the Peruvian Amazon populations was used to test the relationships within and between these two extreme environments. MATERIALS AND METHODS: We analyzed four Peruvian Amazon communities (Ashaninka, Huambisa, Cashibo, and Shipibo) for both Y chromosome (17 STRs and 8 SNPs) and mtDNA data (control region sequences, two diagnostic sites of the coding region, and one INDEL), and we studied their variability against the rest of South America...
March 25, 2017: American Journal of Physical Anthropology
https://www.readbyqxmd.com/read/28343367/magnetic-resonance-imaging-features-of-leukoaraiosis-in-elderly-dogs
#2
Elena Scarpante, Giunio Bruto Cherubini, Alberta de Stefani, Olivier Taeymans
Leukoaraiosis is a descriptive term used to designate bilateral, symmetrical, white matter lesions identified in brains of elderly human patients. These lesions are isointense to normal in magnetic resonance imaging (MRI) T1-weighted pulse sequences, non-contrast enhancing, and hyperintense in T2-weighted and FLAIR pulse sequences. Pathophysiologic mechanisms for leukoaraiosis remain incompletely understood; however, an ischemic origin is currently being favored. Age-related changes, such as brain atrophy, ventricular enlargement, and well-demarcated sulci, have also been previously described in dogs over 9 years of age...
March 26, 2017: Veterinary Radiology & Ultrasound
https://www.readbyqxmd.com/read/28343268/cytogenetic-comparison-of-heteromorphic-and-homomorphic-sex-chromosomes-in-coccinia-cucurbitaceae-points-to-sex-chromosome-turnover
#3
Aretuza Sousa, Jörg Fuchs, Susanne S Renner
Our understanding of the evolution of plant sex chromosomes is increasing rapidly due to high-throughput sequencing data and phylogenetic and molecular-cytogenetic approaches that make it possible to infer the evolutionary direction and steps leading from homomorphic to heteromorphic sex chromosomes. Here, we focus on four species of Coccinia, a genus of 25 dioecious species, including Coccinia grandis, the species with the largest known plant Y chromosome. Based on a phylogeny for the genus, we selected three species close to C...
March 25, 2017: Chromosome Research
https://www.readbyqxmd.com/read/28343263/genotypic-and-pathogenic-characterization-of-genotype-vii-newcastle-disease-viruses-isolated-from-commercial-farms-in-egypt-and-evaluation-of-heterologous-antibody-responses
#4
A M Saad, Ahmed Samy, M A Soliman, A Arafa, A Zanaty, M K Hassan, A H Sultan, A I Bazid, A H Hussein
Newcastle disease viruses (NDV) represent a major threat to poultry production worldwide. Recently in Egypt NDV circulated extensively, even in vaccinated farms. In the present study samples were collected from sixteen vaccinated broiler farms in animals exhibiting the typical gross lesions of NDV. Virus isolation and pathogenicity studies for positive samples were carried out in accordance to reference procedures and phylogenetic analysis was carried out based on partial sequences of the Fusion gene. Furthermore, in vivo investigation of the ability of heterologous antibody, induced by commercially available lentogenic strain-based vaccines, to efficiently reduce viral shedding was examined...
March 25, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28343250/apparent-diffusion-coefficient-changes-predict-survival-after-intra-arterial-bevacizumab-treatment-in-recurrent-glioblastoma
#5
Naveen Galla, Gloria Chiang, Shamik Chakraborty, Ranjodh Singh, A John Tsiouris, John Boockvar, Ilhami Kovanlikaya
PURPOSE: Superselective intra-arterial cerebral infusion (SIACI) of bevacizumab (BV) has emerged as a novel therapy in the treatment of recurrent glioblastoma (GB). This study assessed the use of apparent diffusion coefficient (ADC) in predicting length of survival after SIACI BV and overall survival in patients with recurrent GB. METHODS: Sixty-five patients from a cohort enrolled in a phase I/II trial of SIACI BV for treatment of recurrent GB were retrospectively included in this analysis...
March 25, 2017: Neuroradiology
https://www.readbyqxmd.com/read/28343239/improved-full-length-killer-cell-immunoglobulin-like-receptor-transcript-discovery-in-mauritian-cynomolgus-macaques
#6
Trent M Prall, Michael E Graham, Julie A Karl, Roger W Wiseman, Adam J Ericsen, Muthuswamy Raveendran, R Alan Harris, Donna M Muzny, Richard A Gibbs, Jeffrey Rogers, David H O'Connor
Killer cell immunoglobulin-like receptors (KIRs) modulate disease progression of pathogens including HIV, malaria, and hepatitis C. Cynomolgus and rhesus macaques are widely used as nonhuman primate models to study human pathogens, and so, considerable effort has been put into characterizing their KIR genetics. However, previous studies have relied on cDNA cloning and Sanger sequencing that lack the throughput of current sequencing platforms. In this study, we present a high throughput, full-length allele discovery method utilizing Pacific Biosciences circular consensus sequencing (CCS)...
March 25, 2017: Immunogenetics
https://www.readbyqxmd.com/read/28343216/susceptibility-weighted-imaging-identifies-iron-oxide-labeled-human-neural-stem-cells-automated-computational-detection
#7
Mohsen Baghchechi, Amy Plaia, Mary Hamer, Nirmalya Ghosh, Stephen Ashwal, Andre Obenaus
Neonatal hypoxic-ischemic brain injury (HII) can lead to devastating neurological outcomes such as cerebral palsy, epilepsy, and mental retardation. Human neural stem cell (hNSC) therapy provides new hope for the treatment of neonatal HII. These multipotent cells can aid in HII recovery by activating multiple reparative mechanisms including secretion of neurotrophic factors that enhance brain repair and plasticity. For clinical use of implanted hNSCs, methods are required to identify, quantify, track, and visualize migration and replication in an automated and reproducible fashion...
March 25, 2017: Developmental Neuroscience
https://www.readbyqxmd.com/read/28343170/mirnas-single-nucleotide-polymorphisms-snps-and-age-related-macular-degeneration-amd
#8
John Paul SanGiovanni, Peter M SanGiovanni, Przemysław Sapieha, Vincent De Guire
Advanced age-related macular degeneration (AAMD) is a complex sight-threating disease of public health significance. Micro RNAs (miRNAs) have been proposed as biomarkers for AAMD. The presence of certain single nucleotide polymorphisms (SNPs) may influence the explanatory value of these biomarkers. Here we present findings from an integrated approach used to determine whether AAMD-associated SNPs have the capacity to influence miRNA-mRNA pairing and, if so, to what extent such pairing may be manifested in a discrete AAMD transcriptome...
March 27, 2017: Clinical Chemistry and Laboratory Medicine: CCLM
https://www.readbyqxmd.com/read/28343148/de-novo-mutations-in-cbl-causing-early-onset-paediatric-moyamoya-angiopathy
#9
Stéphanie Guey, Lou Grangeon, Francis Brunelle, Françoise Bergametti, Jeanne Amiel, Stanislas Lyonnet, Audrey Delaforge, Minh Arnould, Béatrice Desnous, Céline Bellesme, Dominique Hervé, Jan C Schwitalla, Markus Kraemer, Elisabeth Tournier-Lasserve, Manoelle Kossorotoff
BACKGROUND: Moyamoya angiopathy (MMA) is characterised by a progressive stenosis of the terminal part of the internal carotid arteries and the development of abnormal collateral deep vessels. Its pathophysiology is unknown. MMA can be the sole manifestation of the disease (moyamoya disease) or be associated with various conditions (moyamoya syndrome) including some Mendelian diseases. We aimed to investigate the genetic basis of moyamoya using a whole exome sequencing (WES) approach conducted in sporadic cases without any overt symptom suggestive of a known Mendelian moyamoya syndrome...
March 25, 2017: Journal of Medical Genetics
https://www.readbyqxmd.com/read/28343140/sequence-encoded-material-properties-dictate-the-structure-and-function-of-nuclear-bodies
#10
REVIEW
Stephanie C Weber
Concomitant with packaging the genome, the cell nucleus must also spatially organize the nucleoplasm. This complex mixture of proteins and nucleic acids partitions into a variety of phase-separated, membraneless organelles called nuclear bodies. Significant progress has been made in understanding the relationship between the material properties of nuclear bodies and their structural and functional consequences. Furthermore, the molecular basis of these condensed phases is beginning to emerge. Here, I review the latest work in this exciting field, highlighting recent advances and new challenges...
March 23, 2017: Current Opinion in Cell Biology
https://www.readbyqxmd.com/read/28343125/structural-modeling-of-human-organic-cation-transporters
#11
Tikam Chand Dakal, Rajender Kumar, Dindial Ramotar
Human organic cation transporters (hOCTs) belong to solute carriers (SLC) 22 family of membrane proteins that play a central role in transportation of chemotherapeutic drugs for several clinical and pathological conditions, including cancer and diabetes. These transporters mediate drug transport; however, the precise mechanism of drug-binding and transport by them is not fully uncovered yet, partly due to unavailability of any crystal structure record. In this work, we performed a multi-phasic approach to compute the 3D structural models of seven human organic cation transporters (hOCTs) starting from primary protein sequence...
March 18, 2017: Computational Biology and Chemistry
https://www.readbyqxmd.com/read/28343122/genetic-and-epigenetic-variation-of-transposable-elements-in-arabidopsis
#12
REVIEW
Charles J Underwood, Ian R Henderson, Robert A Martienssen
Transposable elements are mobile genetic elements that are prevalent in plant genomes and are silenced by epigenetic modification. Different epigenetic modification pathways play distinct roles in the control of transposable element transcription, replication and recombination. The Arabidopsis genome contains families of all of the major transposable element classes, which are differentially enriched in particular genomic regions. Whole genome sequencing and DNA methylation profiling of hundreds of natural Arabidopsis accessions has revealed that transposable elements exhibit significant intraspecific genetic and epigenetic variation, and that genetic variation often underlies epigenetic variation...
March 23, 2017: Current Opinion in Plant Biology
https://www.readbyqxmd.com/read/28343121/phylogeny-and-systematics-of-leptomyxid-amoebae-amoebozoa-tubulinea-leptomyxida
#13
Alexey Smirnov, Elena Nassonova, Stefan Geisen, Michael Bonkowski, Alexander Kudryavtsev, Cedric Berney, Anna Glotova, Natalya Bondarenko, Iva Dyková, Martin Mrva, Jose Fahrni, Jan Pawlowski
We describe four new species of Flabellula, Leptomyxa and Rhizamoeba and publish new SSU rRNA gene and actin gene sequences of leptomyxids. Using these data we provide the most comprehensive SSU phylogeny of leptomyxids to date. Based on the analyses of morphological data and results of the SSU rRNA gene phylogeny we suggest changes in the systematics of the order Leptomyxida (Amoebozoa: Lobosa: Tubulinea). We propose to merge the genera Flabellula and Paraflabellula (the genus Flabellula remains valid by priority rule)...
October 26, 2016: Protist
https://www.readbyqxmd.com/read/28343104/localized-surface-plasmon-resonance-mediated-fluorescence-signals-in-plasmonic-nanoparticle-quantum-dot-hybrids-for-ultrasensitive-zika-virus-rna-detection-via-hairpin-hybridization-assays
#14
Oluwasesan Adegoke, Masahiro Morita, Tatsuya Kato, Masahito Ito, Tetsuro Suzuki, Enoch Y Park
The current epidemic caused by the Zika virus (ZIKV) and the devastating effects of this virus on fetal development, which result in an increased incidence of congenital microcephaly symptoms, have prompted the World Health Organization (WHO) to declare the ZIKV a public health issue of global concern. Efficient probes that offer high detection sensitivity and specificity are urgently required to aid in the point-of-care treatment of the virus. In this study, we show that localized surface plasmon resonance (LSPR) signals from plasmonic nanoparticles (NPs) can be used to mediate the fluorescence signal from semiconductor quantum dot (Qdot) nanocrystals in a molecular beacon (MB) biosensor probe for ZIKV RNA detection...
March 22, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28343097/strait-razor-v2s-advancing-sequence-based-str-allele-reporting-and-beyond-to-other-marker-systems
#15
Jonathan L King, Frank R Wendt, Jie Sun, Bruce Budowle
STRait Razor has provided the forensic community a free-to-use, open-source tool for short tandem repeat (STR) analysis of massively parallel sequencing (MPS) data. STRait Razor v2s (SRv2s) allows users to capture physically phased haplotypes within the full amplicon of both commercial (ForenSeq) and "early access" panels (PowerSeq, Mixture ID). STRait Razor v2s may be run in batch mode to facilitate population-level analysis and is supported by all Unix distributions (including MAC OS). Data are reported in tables in string (haplotype), length-based (e...
March 12, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28343064/a-barley-homolog-of-yeast-atg6-is-involved-in-multiple-abiotic-stress-responses-and-stress-resistance-regulation
#16
Xiaowei Zeng, Zhanghui Zeng, Cuicui Liu, Weiyi Yuan, Ning Hou, Hongwu Bian, Muyuan Zhu, Ning Han
Autophagy is a highly conserved degradation pathway among eukaryote cells, which can recycle damaged or unwanted cell materials upon encountering stress conditions. As a key component of the Class III PI3K kinase complex, ATG6/Beclin-1 is essential for autophagosome formation. In this study, we isolated a putative HvATG6 gene in barley genome. The protein encoded by HvATG6 shares high sequence identity to ATG6 orthologs in rice and wheat, and has a typical autophagy-specific domain containing segments of repeated β-sheet-α-helix...
March 19, 2017: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/28343010/structural-and-dynamics-studies-of-the-tetr-family-protein-cprb-from-streptomyces-coelicolor-in-complex-with-its-biological-operator-sequence
#17
Hussain Bhukya, Asis K Jana, Neelanjana Sengupta, Ruchi Anand
In Streptomycetes, tetracycline repressor family of transcription regulators (TetR-FTRs) controls various biological processes including antibiotic biosynthesis, cellular morphology and innate resistance. Here, we focus on understanding the structural basis of transcription regulation by CprB, a member of TetR-FTRs from S. coelicolor. CprB is implicated as a receptor of γ-butyrolactones, a class of quorum sensing molecules, responsible for initiating secondary metabolic pathways. In order to understand the molecular mechanism of DNA recognition, the X-ray structure of CprB in complex with its biological relevant operator sequence was solved to a resolution of 3...
March 22, 2017: Journal of Structural Biology
https://www.readbyqxmd.com/read/28342987/circular-rnas-and-cancer
#18
Jun He, Qichao Xie, Hailin Xu, Jiantian Li, Yongsheng Li
Circular RNAs (circRNAs) are a type of non-coding RNA molecules that lack a 5'-terminal cap and 3'-terminal poly A tail. A large number of circRNAs have been identified through biological experiments, computational methods and high-throughput sequencing. CircRNA sequence composition determines if a given circRNA is exonic, intronic or retained-intronic. CircRNAs are more abundant and stable than linear mRNAs, and their expression is both step- and location-specific. CircRNAs mediate transcriptional and post-transcriptional regulation of gene and protein expression...
March 22, 2017: Cancer Letters
https://www.readbyqxmd.com/read/28342977/the-role-of-mir-2%C3%A2-13%C3%A2-71-cluster-in-resistance-to-deltamethrin-in-culex-pipiens-pallens
#19
Qin Guo, Yun Huang, Feifei Zou, Bingqian Liu, Mengmeng Tian, Wenyun Ye, Juxin Guo, Xueli Sun, Dan Zhou, Yan Sun, Lei Ma, Bo Shen, Changliang Zhu
Excessive and continuous application of deltamethrin has resulted in the development of deltamethrin resistance among mosquitoes, which becomes a major obstacle for mosquito control. In a previous study, differentially expressed miRNAs between deltamethrin-susceptible (DS) strain and deltamethrin-resistant (DR) strain using illumina sequencing in Culex pipiens pallens were identified. In this study, we applied RNAi and the Centers for Disease Control and Prevention (CDC) bottle bioassay to investigate the relationship between miR-2∼13∼71 cluster (miR-2, miR-13 and miR-71) and deltamethrin resistance...
March 22, 2017: Insect Biochemistry and Molecular Biology
https://www.readbyqxmd.com/read/28342968/heterologous-expression-purification-and-characterization-of-three-novel-esterases-secreted-by-the-lignocellulolytic-fungus-penicillium-purpurogenum-when-grown-on-sugar-beet-pulp
#20
Gabriela Oleas, Eduardo Callegari, Romina Sepúlveda, Jaime Eyzaguirre
The lignocellulolytic fungus, Penicillium purpurogenum, grows on a variety of natural carbon sources, among them sugar beet pulp. Culture supernatants of P. purpurogenum grown on sugar beet pulp were partially purified and the fractions obtained analyzed for esterase activity by zymograms. The bands with activity on methyl umbelliferyl acetate were subjected to mass spectrometry to identify peptides. The peptides obtained were probed against the proteins deduced from the genome sequence of P. purpurogenum...
March 18, 2017: Carbohydrate Research
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