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https://www.readbyqxmd.com/read/28535598/antarctic-seals-molecular-biomarkers-as-indicators-for-pollutant-exposure-health-effects-and-diet
#1
K Lehnert, L Weirup, K C Harding, T Härkönen, O Karlsson, J Teilmann
Weddell (Leptonychotes weddellii), Ross (Ommatophoca rossii) and crabeater seals (Lobodon carcinophaga) are phocid seals with a circumpolar distribution around Antarctica. As long-lived and large top predators, they bioaccumulate contaminants and are considered as sentinels of ecosystem health. Antarctic seals are increasingly exposed to climate change, pollution, shipping and fisheries. To reveal and understand possible anthropogenic impacts on their immune and health status, this study investigates sensitive biomarkers of the xenobiotic metabolism and immune system in relation to mercury (Hg) burden...
May 19, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28535079/the-tomato-kinase-pti1-contributes-to-production-of-reactive-oxygen-species-in-response-to-two-flagellin-derived-peptides-and-promotes-resistance-to-pseudomonas-syringae-infection
#2
Simon Schwizer, Christine M Kraus, Diane M Dunham, Yi Zheng, Noe Fernandez-Pozo, Marina A Pombo, Zhangjun Fei, Suma Chakravarthy, Gregory Martin
The Pti1 kinase was identified from a reverse genetic screen as contributing to pattern-triggered immunity (PTI) against Pseudomonas syringae pv. tomato (Pst). This was unexpected because Pti1 was originally identified as an interactor of the Pto kinase and was implicated in effector-triggered immunity. The tomato genome has two Pti1 genes, referred to as Pti1a and Pti1b. A hairpin-Pti1 (hpPti1) construct was developed and used to generate two independent stable transgenic tomato lines, which had reduced transcript abundance of both genes...
May 23, 2017: Molecular Plant-microbe Interactions: MPMI
https://www.readbyqxmd.com/read/28534145/alterations-in-gene-expression-after-gamma-hydroxybutyric-acid-intake-a-pilot-study
#3
Lena-Maria Mehling, Annika Spottke, Anna Heidbreder, Peter Young, Burkhard Madea, Cornelius Hess, Cornelius Courts
Gamma-hydroxybutyric acid (GHB) acts as an agonist of the GABAB receptor, where GHB induces a depressant effect in the central nervous system. Besides its therapeutic application, GHB is also used as a date rape drug. However, the detection of GHB ingestion proves to be difficult due to its narrow detection window. The aim of this pilot study was to assess differential gene expressions after GHB intake to identify potential biomarkers for the detection of GHB intake. To this aim, alteration in gene expression of ALDH5A1, AKR7A2, EREG, and PEA15 was investigated via quantitative PCR (qPCR)...
May 22, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28534065/tailoring-high-density-oligonucleotide-arrays-for-transcript-profiling-of-different-arabidopsis-thaliana-accessions-using-a-sequence-based-approach
#4
Anastassia Boudichevskaia, Hieu Xuan Cao, Renate Schmidt
Excluding polymorphic probes from GeneChip (®) transcript profiling experiments via a sequence-based approach results in improved detection of differentially expressed genes in developing seeds of Arabidopsis thaliana accessions Col-0 and C24. GeneChip(®) arrays represent a powerful tool for transcript profiling experiments. The ATH1 GeneChip(®) has been designed based on the sequence of the Arabidopsis thaliana reference genome Col-0, hence the features on the array exactly match the sequences of Col-0 transcripts...
May 22, 2017: Plant Cell Reports
https://www.readbyqxmd.com/read/28533898/reconstructing-a-herbivore-s-diet-using-a-novel-rbcl-dna-mini-barcode-for-plants
#5
David L Erickson, Elizabeth Reed, Padmini Ramachandran, Norman A Bourg, William J McShea, Andrea Ottesen
Next Generation Sequencing and the application of metagenomic analyses can be used to answer questions about animal diet choice and study the consequences of selective foraging by herbivores. The quantification of herbivore diet choice with respect to native versus exotic plant species is particularly relevant given concerns of invasive species establishment and their effects on ecosystems. While increased abundance of white-tailed deer (Odocoileus virginianus) appears to correlate with increased incidence of invasive plant species, data supporting a causal link is scarce...
May 2017: AoB Plants
https://www.readbyqxmd.com/read/28533786/high-density-linkage-map-construction-and-mapping-of-yield-trait-qtls-in-maize-zea-mays-using-the-genotyping-by-sequencing-gbs-technology
#6
Chengfu Su, Wei Wang, Shunliang Gong, Jinghui Zuo, Shujiang Li, Shizhong Xu
Increasing grain yield is the ultimate goal for maize breeding. High resolution quantitative trait loci (QTL) mapping can help us understand the molecular basis of phenotypic variation of yield and thus facilitate marker assisted breeding. The aim of this study is to use genotyping-by-sequencing (GBS) for large-scale SNP discovery and simultaneous genotyping of all F2 individuals from a cross between two varieties of maize that are in clear contrast in yield and related traits. A set of 199 F2 progeny derived from the cross of varieties SG-5 and SG-7 were generated and genotyped by GBS...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28533438/high-resolution-mapping-of-crossover-events-in-the-hexaploid-wheat-genome-suggests-a-universal-recombination-mechanism
#7
Benoit Darrier, Hélène Rimbert, François Balfourier, Lise Pingault, Ambre-Aurore Josselin, Bertrand Servin, Julien Navarro, Frédéric Choulet, Etienne Paux, Pierre Sourdille
During meiosis, crossovers (COs) create new allele associations by reciprocal exchange of DNA. In bread wheat (Triticum aestivum L.), COs are almost limited to subtelomeric regions of chromosomes resulting in a substantial loss of breeding efficiency in the proximal regions though these latter carry ~60-70% of the genes. Identifying sequence and/or chromosome features impacting recombination occurrence is thus relevant to improve and drive recombination. Using the recent release of a reference sequence of chromosome 3B and of the draft assemblies of the 20 other wheat chromosomes, we performed a fine-scale mapping of COs and we revealed that 82% of COs located in the distal ends of chromosome 3B representing 19% of the chromosome length...
May 22, 2017: Genetics
https://www.readbyqxmd.com/read/28532797/genetic-basis-for-loss-of-immuno-reactive-o-chain-in-salmonella-enterica-serovar-enteritidis-veterinary-isolates
#8
Istvan Szabo, Marianne Grafe, Nicole Kemper, Ernst Junker, Burkhard Malorny
Fifty-two rough Salmonella enterica serovar Enteritidis (S. Enteritidis) isolates from broilers and the environment were characterized for their serological and genotypic properties. Under routine diagnostic serotyping methods such isolates lack the immuno-reactivity of the O-chain of the lipopolysaccharide (LPS), and are referred to as non-typeable. Using a modified slide agglutination method, the isolates could be differentiated into three different serological variants. Twenty-six isolates (50%) were defined as semi-rough, nineteen isolates (37%) as deep-rough, four isolates (8%) as rough and three isolates could not be assigned...
May 2017: Veterinary Microbiology
https://www.readbyqxmd.com/read/28532786/fluxomic-evidence-for-impaired-contribution-of-short-chain-acyl-coa-dehydrogenase-to-mitochondrial-palmitate-%C3%AE-oxidation-in-symptomatic-patients-with-acads-gene-susceptibility-variants
#9
Anne-Frédérique Dessein, Monique Fontaine, Marie Joncquel Chevalier Curt, Gilbert Briand, Claire Sechter, Karine Mention-Mulliez, Dries Dobbelaere, Claire Douillard, Arnaud Lacour, Isabelle Redonnet-Vernhet, Delphine Lamireau, Magalie Barth, Marie-Christine Minot-Myhié, Alice Kuster, Pascale de Lonlay, Niels Gregersen, Cécile Acquaviva, Christine Vianey-Saban, Joseph Vamecq
BACKGROUND: Despite ACADS (acyl-CoA dehydrogenase, short-chain) gene susceptibility variants (c.511C>T and c.625G>A) are considered to be non-pathogenic, encoded proteins are known to exhibit altered kinetics. Whether or not, they might affect overall fatty acid β-oxidation still remains, however, unclear. METHODS: De novo biosynthesis of acylcarnitines by whole blood samples incubated with deuterated palmitate (16-(2)H3,15-(2)H2-palmitate) is suitable as a fluxomic exploration to distinguish between normal and disrupted β-oxidation, abnormal profiles and ratios of acylcarnitines with different chain-lengths being indicative of the site for enzymatic blockade...
May 19, 2017: Clinica Chimica Acta; International Journal of Clinical Chemistry
https://www.readbyqxmd.com/read/28532667/evaluation-of-three-recombinant-outer-membrane-proteins-ompa1-tdr-and-tbpa-as-potential-vaccine-antigens-against-virulent-aeromonas-hydrophila-infection-in-channel-catfish-ictalurus-punctatus
#10
Hossam Abdelhamed, Iman Ibrahim, Seong Won Nho, Michelle M Banes, Robert W Wills, Attila Karsi, Mark L Lawrence
A virulent clonal population of Aeromonas hydrophila (VAh) is recognized as the etiological agent in outbreaks of motile aeromonas septicemia (MAS) in catfish aquaculture in the southeastern United States since 2009. Genomic subtraction revealed three outer membrane proteins present in VAh strain ML09-119 but not in low virulence reference A. hydrophila strains: major outer membrane protein OmpA1, TonB-dependent receptor (Tdr), and transferrin-binding protein A (TbpA). Here, the genes encoding ompA1, tdr, and tbpA were cloned from A...
May 19, 2017: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/28532419/a-survey-of-the-complex-transcriptome-from-the-highly-polyploid-sugarcane-genome-using-full-length-isoform-sequencing-and-de-novo-assembly-from-short-read-sequencing
#11
Nam V Hoang, Agnelo Furtado, Patrick J Mason, Annelie Marquardt, Lakshmi Kasirajan, Prathima P Thirugnanasambandam, Frederik C Botha, Robert J Henry
BACKGROUND: Despite the economic importance of sugarcane in sugar and bioenergy production, there is not yet a reference genome available. Most of the sugarcane transcriptomic studies have been based on Saccharum officinarum gene indices (SoGI), expressed sequence tags (ESTs) and de novo assembled transcript contigs from short-reads; hence knowledge of the sugarcane transcriptome is limited in relation to transcript length and number of transcript isoforms. RESULTS: The sugarcane transcriptome was sequenced using PacBio isoform sequencing (Iso-Seq) of a pooled RNA sample derived from leaf, internode and root tissues, of different developmental stages, from 22 varieties, to explore the potential for capturing full-length transcript isoforms...
May 22, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28532241/bacillus-cereus-type-polyhydroxyalkanoate-biosynthetic-gene-cluster-contains-r-specific-enoyl-coa-hydratase-gene
#12
Takahiro Kihara, Ayaka Hiroe, Manami Ishii-Hyakutake, Kouhei Mizuno, Takeharu Tsuge
Bacillus cereus and Bacillus megaterium both accumulate polyhydroxyalkanoate (PHA) but their PHA biosynthetic gene (pha) clusters that code for proteins involved in PHA biosynthesis are different. Namely, a gene encoding MaoC-like protein exists in the B. cereus-type pha cluster but not in the B. megaterium-type pha cluster. MaoC-like protein has an R-specific enoyl-CoA hydratase (R-hydratase) activity and is referred to as PhaJ when involved in PHA metabolism. In this study, the pha cluster of B. cereus YB-4 was characterized in terms of PhaJ's function...
May 22, 2017: Bioscience, Biotechnology, and Biochemistry
https://www.readbyqxmd.com/read/28530509/genotyping-toxoplasma-gondii-with-the-b1-gene-in-naturally-infected-sheep-from-an-endemic-region-in-the-pacific-coast-of-mexico
#13
Williams Arony Martínez-Flores, José Manuel Palma-García, Heriberto Caballero-Ortega, Alejandra Del Viento-Camacho, Eduardo López-Escamilla, Fernando Martínez-Hernández, Pablo Vinuesa, Dolores Correa, Pablo Maravilla
Toxoplasma gondii is a protozoan parasite with a broad ecological valence, which has been detected in a wide range of hosts and landscapes. Although the genus is considered monospecific, in recent years it has been demonstrated to exhibit more genetic variability than previously known. In Mexico, there are few genotyping studies, which suggest that classical, autochthonous, and atypical strains are circulating. The goal of this study was to describe T. gondii genetic diversity in naturally infected sheep from Colima, Mexico...
May 22, 2017: Vector Borne and Zoonotic Diseases
https://www.readbyqxmd.com/read/28529709/last-rolls-of-the-yoyo-assessing-the-human-canonical-protein-count
#14
REVIEW
Christopher Southan
In 2004, when the protein estimate from the finished human genome was only 24,000, the surprise was compounded as reviewed estimates fell to 19,000 by 2014. However, variability in the total canonical protein counts (i.e. excluding alternative splice forms) of open reading frames (ORFs) in different annotation portals persists. This work assesses these differences and possible causes. A 16-year analysis of Ensembl and UniProtKB/Swiss-Prot shows convergence to a protein number of ~20,000. The former had shown some yo-yoing, but both have now plateaued...
2017: F1000Research
https://www.readbyqxmd.com/read/28529600/prospective-evaluation-of-fluorescence-in-situ-hybridization-for-diagnosing-urothelial-carcinoma
#15
Tianhai Lin, Zhenhua Liu, Liangren Liu, Lu Yang, Ping Han, Peng Zhang, Qiang Wei
Urothelial carcinoma (UC) is the most common type of cancer of the bladder and upper urinary tract, and is characterized by a high risk of recurrence and progression. Urine fluorescence in situ hybridization (FISH) is a technique that detects genetic aberrations in exfoliated cells in the urine, with specific probes for chromosomes 3, 7 and 17 and the p16 gene. To evaluate the diagnostic value of FISH in UC, 119 patients from November 2010 to June 2012 with suspected UC were recruited into a prospective, cross-sectional study and were followed up for 12-30 months...
May 2017: Oncology Letters
https://www.readbyqxmd.com/read/28529015/targeted-next-generation-sequencing-approach-in-patients-referred-for-silver-russell-syndrome-testing-increases-the-mutation-detection-rate-and-provides-decisive-information-for-clinical-management
#16
Robert Meyer, Lukas Soellner, Matthias Begemann, Severin Dicks, György Fekete, Nils Rahner, Klaus Zerres, Miriam Elbracht, Thomas Eggermann
OBJECTIVE: To investigate the contribution of differential diagnoses to the mutation spectrum of patients referred for Silver-Russell syndrome (SRS) testing. STUDY DESIGN: Forty-seven patients referred for molecular testing for SRS were examined after exclusion of one of the SRS-associated alterations. After clinical classification, a targeted next generation sequencing approach comprising 25 genes associated with other diagnoses or postulated as SRS candidate genes was performed...
May 19, 2017: Journal of Pediatrics
https://www.readbyqxmd.com/read/28528902/x-cells-are-globally-distributed-genetically-divergent-fish-parasites-related-to-perkinsids-and-dinoflagellates
#17
Mark A Freeman, Janina Fuss, Árni Kristmundsson, Marit F M Bjorbækmo, Jean-François Mangot, Javier Del Campo, Patrick J Keeling, Kamran Shalchian-Tabrizi, David Bass
"X-cells" have long been associated with tumor-like formations (xenomas) in marine fish, including many of commercial interest. The name was first used to refer to the large polygonal cells that were found in epidermal xenomas from flatfish from the Pacific Northwest [1]. Similar looking cells from pseudobranchial xenomas had previously been reported from cod in the Atlantic [2] and Pacific Oceans [3]. X-cell pathologies have been reported from five teleost orders: Pleuronectiformes (flatfish), Perciformes (perch-like fish), Gadiformes (cods), Siluriformes (catfish), and Salmoniformes (salmonids)...
May 13, 2017: Current Biology: CB
https://www.readbyqxmd.com/read/28528518/a-multi-gene-panel-study-in-hereditary-breast-and-ovarian-cancer-in-colombia
#18
A M Cock-Rada, C A Ossa, H I Garcia, L R Gomez
Germline mutations in BRCA1 and BRCA2 account for approximately 50% of inherited breast and ovarian cancers. Three founder mutations in BRCA1/2 have been reported in Colombia, but the pattern of mutations in other cancer susceptibility genes is unknown. This study describes the frequency and type of germline mutations in hereditary breast and/or ovarian cancer genes in a referral cancer center in Colombia. Eighty-five women referred to the oncogenetics unit of the Instituto de Cancerologia Las Americas in Medellin (Colombia), meeting testing criteria for hereditary breast and ovarian cancer syndrome (NCCN 2015), who had germline testing with a commercial 25-gene hereditary cancer panel, were included in the analysis...
May 20, 2017: Familial Cancer
https://www.readbyqxmd.com/read/28527971/identification-and-comprehensive-evaluation-of-reference-genes-for-rt-qpcr-analysis-of-host-gene-expression-in-brassica-juncea-aphid-interaction-using-microarray-data
#19
Chet Ram, Murali Krishna Koramutla, Ramcharan Bhattacharya
Brassica juncea is a chief oil yielding crop in many parts of the world including India. With advancement of molecular techniques, RT-qPCR based study of gene-expression has become an integral part of experimentations in crop breeding. In RT-qPCR, use of appropriate reference gene(s) is pivotal. The virtue of the reference genes, being constant in expression throughout the experimental treatments, needs to be validated case by case. Appropriate reference gene(s) for normalization of gene-expression data in B...
May 11, 2017: Plant Physiology and Biochemistry: PPB
https://www.readbyqxmd.com/read/28527533/global-regional-and-national-burden-of-cardiovascular-diseases-for-10-causes-1990-to-2015
#20
Gregory A Roth, Catherine Johnson, Amanuel Abajobir, Foad Abd-Allah, Semaw Ferede Abera, Gebre Abyu, Muktar Ahmed, Baran Aksut, Tahiya Alam, Khurshid Alam, François Alla, Nelson Alvis-Guzman, Stephen Amrock, Hossein Ansari, Johan Ärnlöv, Hamid Asayesh, Tesfay Mehari Atey, Leticia Avila-Burgos, Ashish Awasthi, Amitava Banerjee, Aleksandra Barac, Till Bärnighausen, Lars Barregard, Neeraj Bedi, Ezra Belay Ketema, Derrick Bennett, Gebremedhin Berhe, Zulfiqar Bhutta, Shimelash Bitew, Jonathan Carapetis, Juan Jesus Carrero, Deborah Carvalho Malta, Carlos Andres Castañeda-Orjuela, Jacqueline Castillo-Rivas, Ferrán Catalá-López, Jee-Young Choi, Hanne Christensen, Massimo Cirillo, Leslie Cooper, Michael Criqui, David Cundiff, Albertino Damasceno, Lalit Dandona, Rakhi Dandona, Kairat Davletov, Samath Dharmaratne, Prabhakaran Dorairaj, Manisha Dubey, Rebecca Ehrenkranz, Maysaa El Sayed Zaki, Emerito Jose A Faraon, Alireza Esteghamati, Talha Farid, Maryam Farvid, Valery Feigin, Eric L Ding, Gerry Fowkes, Tsegaye Gebrehiwot, Richard Gillum, Audra Gold, Philimon Gona, Rajeev Gupta, Tesfa Dejenie Habtewold, Nima Hafezi-Nejad, Tesfaye Hailu, Gessessew Bugssa Hailu, Graeme Hankey, Hamid Yimam Hassen, Kalkidan Hassen Abate, Rasmus Havmoeller, Simon I Hay, Masako Horino, Peter J Hotez, Kathryn Jacobsen, Spencer James, Mehdi Javanbakht, Panniyammakal Jeemon, Denny John, Jost Jonas, Yogeshwar Kalkonde, Chante Karimkhani, Amir Kasaeian, Yousef Khader, Abdur Khan, Young-Ho Khang, Sahil Khera, Abdullah T Khoja, Jagdish Khubchandani, Daniel Kim, Dhaval Kolte, Soewarta Kosen, Kristopher J Krohn, G Anil Kumar, Gene Kwan, Dharmesh Kumar Lal, Anders Larsson, Shai Linn, Alan Lopez, Paulo A Lotufo, Hassan Magdy Abd El Razek, Reza Malekzadeh, Mohsen Mazidi, Toni Meier, Kidanu Gebremariam Meles, George Mensah, Atte Meretoja, Haftay Mezgebe, Ted Miller, Erkin Mirrakhimov, Shafiu Mohammed, Andrew E Moran, Kamarul Imran Musa, Jagat Narula, Bruce Neal, Frida Ngalesoni, Grant Nguyen, Carla Makhlouf Obermeyer, Mayowa Owolabi, George Patton, João Pedro, Dima Qato, Mostafa Qorbani, Kazem Rahimi, Rajesh Kumar Rai, Salman Rawaf, Antônio Ribeiro, Saeid Safiri, Joshua A Salomon, Itamar Santos, Milena Santric Milicevic, Benn Sartorius, Aletta Schutte, Sadaf Sepanlou, Masood Ali Shaikh, Min-Jeong Shin, Mehdi Shishehbor, Hirbo Shore, Diego Augusto Santos Silva, Eugene Sobngwi, Saverio Stranges, Soumya Swaminathan, Rafael Tabarés-Seisdedos, Niguse Tadele Atnafu, Fisaha Tesfay, J S Thakur, Amanda Thrift, Roman Topor-Madry, Thomas Truelsen, Stefanos Tyrovolas, Kingsley Nnanna Ukwaja, Olalekan Uthman, Tommi Vasankari, Vasiliy Vlassov, Stein Emil Vollset, Tolassa Wakayo, David Watkins, Robert Weintraub, Andrea Werdecker, Ronny Westerman, Charles Shey Wiysonge, Charles Wolfe, Abdulhalik Workicho, Gelin Xu, Yuichiro Yano, Paul Yip, Naohiro Yonemoto, Mustafa Younis, Chuanhua Yu, Theo Vos, Mohsen Naghavi, Christopher Murray
BACKGROUND: The burden of cardiovascular diseases (CVDs) remains unclear in many regions of the world. OBJECTIVES: The GBD (Global Burden of Disease) 2015 study integrated data on disease incidence, prevalence, and mortality to produce consistent, up-to-date estimates for cardiovascular burden. METHODS: CVD mortality was estimated from vital registration and verbal autopsy data. CVD prevalence was estimated using modeling software and data from health surveys, prospective cohorts, health system administrative data, and registries...
May 15, 2017: Journal of the American College of Cardiology
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