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https://www.readbyqxmd.com/read/28812589/connecting-earth-observation-to-high-throughput-biodiversity-data
#1
Alex Bush, Rahel Sollmann, Andreas Wilting, Kristine Bohmann, Beth Cole, Heiko Balzter, Christopher Martius, András Zlinszky, Sébastien Calvignac-Spencer, Christina A Cobbold, Terence P Dawson, Brent C Emerson, Simon Ferrier, M Thomas P Gilbert, Martin Herold, Laurence Jones, Fabian H Leendertz, Louise Matthews, James D A Millington, John R Olson, Otso Ovaskainen, Dave Raffaelli, Richard Reeve, Mark-Oliver Rödel, Torrey W Rodgers, Stewart Snape, Ingrid Visseren-Hamakers, Alfried P Vogler, Piran C L White, Martin J Wooster, Douglas W Yu
Understandably, given the fast pace of biodiversity loss, there is much interest in using Earth observation technology to track biodiversity, ecosystem functions and ecosystem services. However, because most biodiversity is invisible to Earth observation, indicators based on Earth observation could be misleading and reduce the effectiveness of nature conservation and even unintentionally decrease conservation effort. We describe an approach that combines automated recording devices, high-throughput DNA sequencing and modern ecological modelling to extract much more of the information available in Earth observation data...
June 22, 2017: Nature ecology & evolution
https://www.readbyqxmd.com/read/28812526/parvovirus-infection-is-associated-with-myocarditis-and-myocardial-fibrosis-in-young-dogs
#2
Jordan Ford, Laura McEndaffer, Randall Renshaw, Alex Molesan, Kathleen Kelly
Perinatal parvoviral infection causes necrotizing myocarditis in puppies, which results in acute high mortality or progressive cardiac injury. While widespread vaccination has dramatically curtailed the epidemic of canine parvoviral myocarditis, we hypothesized that canine parvovirus 2 (CPV-2) myocardial infection is an underrecognized cause of myocarditis, cardiac damage, and/or repair by fibrosis in young dogs. In this retrospective study, DNA was extracted from formalin-fixed, paraffin-embedded tissues from 40 cases and 41 control dogs under 2 years of age from 2007 to 2015...
January 1, 2017: Veterinary Pathology
https://www.readbyqxmd.com/read/28812131/dna-degrades-during-storage-in-formalin-fixed-and-paraffin-embedded-tissue-blocks
#3
Alice Guyard, Alice Boyez, Anaïs Pujals, Cyrielle Robe, Jeanne Tran Van Nhieu, Yves Allory, Julien Moroch, Odette Georges, Jean-Christophe Fournet, Elie-Serge Zafrani, Karen Leroy
Formalin-fixed paraffin-embedded (FFPE) tissue blocks are widely used to identify clinically actionable molecular alterations or perform retrospective molecular studies. Our goal was to quantify degradation of DNA occurring during mid to long-term storage of samples in usual conditions. We selected 46 FFPE samples of surgically resected carcinomas of lung, colon, and urothelial tract, of which DNA had been previously extracted. We performed a second DNA extraction on the same blocks under identical conditions after a median period of storage of 5...
August 15, 2017: Virchows Archiv: An International Journal of Pathology
https://www.readbyqxmd.com/read/28810604/hard-clam-extracts-induce-atypical-apoptosis-in-human-gastric-cancer-cells
#4
Eing-Ju Song, Michael W Y Chan, Jyh-Wei Shin, Che-Chun Chen
Hard clams (HCs) are a nutritionally high-quality and popular seafood, and are established to be a potent antitumor food. The aim of the present study was to determine whether HC extracts induce apoptosis in the human gastric cancer cell line, AGS. In contrast with previously reported methods of extraction, crude extracts of HC were obtained by freezing and thawing and by a method free of hot water or organic solvents. The composition, quality and properties of the HC extracts were demonstrated to be stable since the extracts that were evaluated by capillary electrophoresis and HPLC analysis at different timepoints were similar...
August 2017: Experimental and Therapeutic Medicine
https://www.readbyqxmd.com/read/28809438/stimulation-of-human-osteoblast-cells-mg63-proliferation-using-decanoic-acid-and-isopropyl-amine-fractions-of-wattakaka-volubilis-leaves
#5
Elakkiya Venugopal, Govindarajan Ramadoss, Kannan Krishnan, Sujith Subash Eranezhath, Amitava Bhattacharyya, Selvakumar Rajendran
OBJECTIVES: This study was carried out to investigate the impact of various isolated phytochemical components present in the Wattakaka volubilis leaves for the growth and proliferation of human osteoblast like cells (MG63). KEY FINDINGS: Ethyl acetate was found to be the best solvent for potential extraction of phytocompounds. Further, the MTT assay was carried out to deduce the viability of 44 isolated phytochemicals. Ten phytochemical fractions found to increase the cell growth were subjected to statistical tool namely Plackett-Burman and Central composite design to screen the optimum phytochemical fraction and its dosage...
August 15, 2017: Journal of Pharmacy and Pharmacology
https://www.readbyqxmd.com/read/28809013/a-step-by-step-guide-to-assemble-a-reptilian-genome
#6
Asier Ullate-Agote, Yingguang Frank Chan, Athanasia C Tzika
Multiple technologies and software are now available facilitating the de novo sequencing and assembly of any vertebrate genome. Yet the quality of most available sequenced genomes is substantially poorer than that of the golden standard in the field: the human genome. Here, we present a step-by-step protocol for the successful sequencing and assembly of a high-quality snake genome that can be applied to any other reptilian or avian species. We combine the great sequencing depth and accuracy of short reads with the use of different insert size libraries for extended scaffolding followed by optical mapping...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28809012/comparative-genomics-as-a-foundation-for-evo-devo-studies-in-birds
#7
Phil Grayson, Simon Y W Sin, Timothy B Sackton, Scott V Edwards
Developmental genomics is a rapidly growing field, and high-quality genomes are a useful foundation for comparative developmental studies. A high-quality genome forms an essential reference onto which the data from numerous assays and experiments, including ChIP-seq, ATAC-seq, and RNA-seq, can be mapped. A genome also streamlines and simplifies the development of primers used to amplify putative regulatory regions for enhancer screens, cDNA probes for in situ hybridization, microRNAs (miRNAs) or short hairpin RNAs (shRNA) for RNA interference (RNAi) knockdowns, mRNAs for misexpression studies, and even guide RNAs (gRNAs) for CRISPR knockouts...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28808968/cgamp-quantification-in-virus-infected-human-monocyte-derived-cells-by-hplc-coupled-tandem-mass-spectrometry
#8
Jennifer Paijo, Volkhard Kaever, Ulrich Kalinke
Upon virus infection, cells of the innate immune system such as dendritic cells and macrophages can mount type I interferon (IFN-I) responses that restrict viral dissemination. To inform host cells of virus infection, detection of cytosolic DNA is one important mechanism. Inappropriate sensing of endogenous DNA and subsequent induction of IFN-I responses can also cause autoimmunity, highlighting the need to tightly regulate DNA sensing. The cyclic GMP-AMP synthase (cGAS) was recently identified to be the major sensor of cytosolic DNA that triggers IFN-I expression...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28808400/induction-of-apoptosis-and-cell-cycle-arrest-by-flavokawain-c-on-ht-29-human-colon-adenocarcinoma-via-enhancement-of-reactive-oxygen-species-generation-upregulation-of-p21-p27-and-gadd153-and-inactivation-of-inhibitor-of-apoptosis-proteins
#9
Chung-Weng Phang, Saiful Anuar Karsani, Sri Nurestri Abd Malek
Chalcones have been shown to exhibit anti-cancer properties by targeting multiple molecular pathways. It was, therefore, of interest to investigate flavokawain C (FKC), a naturally occurring chalcone, which can be isolated from Kava (Piper methysticum Forst) root extract. The aim of this study was to investigate the inhibitory effect of FKC on the growth of HT-29 cells and its underlying mechanism of action. Cell viability of HT-29 cells was assessed by Sulforhodamine B assay after FKC treatment. Induction of apoptosis was examined by established morphological and biochemical assays...
July 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28808399/wound-healing-activity-of-azadirachta-indica-a-juss-stem-bark-in-mice
#10
Preeti Maan, Kuldeep Singh Yadav, Narayan Prasad Yadav
BACKGROUND: The paste of stem bark of Azadirachta indica (AI) has been traditionally used on wound and scar for rapid healing in Bundelkhand region of India. OBJECTIVE: In the present investigation, wound healing potential of different extracts of stem bark of AI was explored in mice model. MATERIALS AND METHODS: To study the wound healing properties in small animal model, the excision and incision wound models were used and water, ethanol-water (1:1, v/v) and ethanol extracts were applied topically (15% w/w in ointment base)...
July 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28808388/caesalpinia-crista-linn-induces-protection-against-dna-and-membrane-damage
#11
R Sunil Kumar, Ramesh Balenahalli Narasingappa, Chandrashekhar G Joshi, Talakatta K Girish, Ananda Danagoudar
BACKGROUND: Caesalpinia crista is a medicinal herb used to cure various ailments in subtropical and tropical regions of Southeast Asia. OBJECTIVE: The objective of this evaluation of C. crista against free radical induced DNA and erythrocyte damage. MATERIALS AND METHODS: The profiles of polyphenol and flavonoid were quantified through reversed-phase high-performance liquid chromatography. Free radical induced DNA and membrane damage were performed using H2O2 as oxidative agent...
July 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28808384/molecular-authentication-of-the-traditional-medicinal-plant-lakshman-booti-smithia-conferta-sm-and-its-adulterants-through-dna-barcoding
#12
Suraj D Umdale, Parthraj R Kshirsagar, Manoj M Lekhak, Nikhil B Gaikwad
BACKGROUND: Smithia conferta Sm. is an annual herb widely used in Indian traditional medical practice and commonly known as "Lakshman booti" in Sanskrit. Morphological resemblance among the species of genus Smithia Aiton. leads to inaccurate identification and adulteration. This causes inconsistent therapeutic effects and also affects the quality of herbal medicine. AIM: This study aimed to generate potential barcode for authentication of S. conferta and its adulterants through DNA barcoding technique...
July 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28808383/chemopreventive-potential-of-major-flavonoid-compound-of-methanolic-bark-extract-of-saraca-asoca-roxb-in-benzene-induced-toxicity-of-acute-myeloid-leukemia-mice
#13
Manas Kumar Mukhopadhyay, Mithun Shaw, Debjani Nath
BACKGROUND: Saraca asoca (SA) (Roxb.) is one of the folk medicinal plants found in India, Bangladesh, and Sri Lanka. Its major biological activity appears due to the presence of flavonoid group of compounds in its bark extract. OBJECTIVE: In this study, our research aims to analyze the chemopreventive effect of flavonoids, especially a natural phenol catechin present in the bark methanolic extract of SA on acute myeloid leukemia (AML) mice. MATERIALS AND METHODS: The total bark extract was partitioned and analyzed on thin-layer chromatography (TLC) plate...
July 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28808378/rutamarin-an-active-constituent-from-ruta-angustifolia-pers-induced-apoptotic-cell-death-in-the-ht29-colon-adenocarcinoma-cell-line
#14
Shafinah Ahmad Suhaimi, Sok Lai Hong, Sri Nurestri Abdul Malek
BACKGROUND: Ruta angustifolia Pers. is a perennial herb that is cultivated worldwide, including Southeast Asia, for the treatment of various diseases as traditional medicine. OBJECTIVE: The purpose of the study was to identify an active principle of R. angustifolia and to investigate its effect on the HT29 cell death. MATERIALS AND METHODS: The methanol and fractionated extracts (hexane, chloroform, ethyl acetate, and water) of R. angustifolia Pers...
July 2017: Pharmacognosy Magazine
https://www.readbyqxmd.com/read/28807864/reducing-diagnostic-turnaround-times-of-exome-sequencing-for-families-requiring-timely-diagnoses
#15
Aurélie Bourchany, Christel Thauvin-Robinet, Daphné Lehalle, Ange-Line Bruel, Alice Masurel-Paulet, Nolwenn Jean, Sophie Nambot, Marjorie Willems, Laetitia Lambert, Salima El Chehadeh-Djebbar, Elise Schaefer, Aurélia Jaquette, Judith St-Onge, Charlotte Poe, Thibaud Jouan, Martin Chevarin, Patrick Callier, Anne-Laure Mosca-Boidron, Nicole Laurent, Mathilde Lefebvre, Frédéric Huet, Nada Houcinat, Sébastien Moutton, Christophe Philippe, Frédéric Tran-Mau-Them, Antonio Vitobello, Paul Kuentz, Yannis Duffourd, Jean-Baptiste Rivière, Julien Thevenon, Laurence Faivre
BACKGROUND AND OBJECTIVE: Whole-exome sequencing (WES) has now entered medical practice with powerful applications in the diagnosis of rare Mendelian disorders. Although the usefulness and cost-effectiveness of WES have been widely demonstrated, it is essential to reduce the diagnostic turnaround time to make WES a first-line procedure. Since 2011, the automation of laboratory procedures and advances in sequencing chemistry have made it possible to carry out diagnostic whole genome sequencing from the blood sample to molecular diagnosis of suspected genetic disorders within 50 h...
August 11, 2017: European Journal of Medical Genetics
https://www.readbyqxmd.com/read/28807853/aqueous-extract-from-pecan-nut-carya-illinoinensis-wangenh-c-koch-shell-show-activity-against-breast-cancer-cell-line-mcf-7-and-ehrlich-ascites-tumor-in-balb-c-mice
#16
Josiane Hilbig, Priscila de Britto Policarpi, Valdelúcia Maria Alves de Souza Grinevicius, Nádia Sandrine Ramos Santos Mota, Rozangela Curi Pedrosa, Jane Mara Block
ETHNOPHARMACOLOGICAL RELEVANCE: In Brazil, use of teas are common for the treatment of many health disorders. Shell extracts of pecan nut (Carya illinoinensis) are popularly taken as tea to prevent diverse pathologies due to their phytochemical composition presenting significant amounts of phenolic substances. AIM OF THE STUDY: Phenolic compounds from pecan nut shell extract have been associated with diverse biological effects but the effect on tumor cells has not been reported yet...
August 11, 2017: Journal of Ethnopharmacology
https://www.readbyqxmd.com/read/28807288/prevalence-of-tritrichomonas-foetus-in-tennessee-bulls
#17
Chika C Okafor, Lew G Strickland, Brittni M Jones, Stephen Kania, David E Anderson, Brian K Whitlock
The prevalence of bovine trichomonosis (BT) in TN bulls was estimated through both active screening of bulls and review of previous laboratory records. During the active bull screening, preputial smegma specimens were collected from 458 TN beef bulls at 2 cattle slaughterhouses and 2 stockyards, which serve most beef bulls in TN, between March 2014 and June 2015. Each specimen was cultured for Tritrichomonas foetus (T. foetus) as well as evaluated microscopically every other day for seven days for any protozoa resembling T...
August 30, 2017: Veterinary Parasitology
https://www.readbyqxmd.com/read/28807281/toxoplasma-gondii-in-the-cornigliese-sheep-breed-in-italy-meat-juice-serology-in-vitro-isolation-and-genotyping
#18
A Vismarra, E Barilli, M Miceli, C Mangia, M Genchi, F Brindani, L Kramer, C Bacci
Toxoplasma gondii is considered one of the most important food-borne parasitic zoonoses globally and sheep are important intermediate hosts of the parasite. Meat and milk from infected sheep are considered an important source of infection for humans. Here, the authors evaluated T. gondii infection in the Italian Cornigliese sheep breed using meat juice ELISA, and in vitro assay for followed by Real Time-PCR and PCR-RFLP. Twenty-one hearts were collected at slaughter. Meat juice serology was carried out on all samples, while eleven hearts with the highest antibody titres were subjected to acid-peptic digestion and seeding onto Vero cells...
August 30, 2017: Veterinary Parasitology
https://www.readbyqxmd.com/read/28807005/first-records-of-triatoma-rubrofasciata-de-geer-1773-hemiptera-reduviidae-in-foshan-guangdong-province-southern-china
#19
Qin Liu, Yun-Hai Guo, Yi Zhang, Zheng-Bin Zhou, Liang-Liang Zhang, Dan Zhu, Xiao-Nong Zhou
BACKGROUND: Triatomines, also known as kissing bugs, which are found throughout the world and especially in Latin America, are well known natural vectors that transmit American trypanosomiasis, also called Chagas disease. In China, the presence of two species of Triatoma (Triatoma rubrofasciata and T. sinica) was recorded in the past. Due to the growing population and the increasing risk of the global spread of Chagas disease, triatomines became a potential public health nuisance, and in 2016, we started monitoring triatomine activities in southern China...
August 15, 2017: Infectious Diseases of Poverty
https://www.readbyqxmd.com/read/28806149/detection-of-nanophyetus-salmincola-in-water-snails-and-fish-tissues-by-quantitative-pcr
#20
Maureen K Purcell, Rachel L Powers, Bonnie L Besijn, Paul K Hershberger
We report the development and validation of two quantitative polymerase chain reaction (qPCR) assays to detect N. salmincola DNA in water samples and fish and snail tissues. Analytical and diagnostic validation demonstrated good sensitivity, specificity and repeatability of both qPCR assays. N. salmincola DNA copy number in kidney tissue was significantly correlated with metacercariae counts based on microscopy. Extraction methods were optimized for the sensitive qPCR detection of N. salmincola DNA in settled water samples...
August 14, 2017: Journal of Aquatic Animal Health
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