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https://www.readbyqxmd.com/read/28721852/effective-identification-of-lactobacillus-casei-group-species-genome-based-selection-of-the-gene-mutl-as-the-target-of-a-novel-multiplex-pcr-assay
#1
Benedetta Bottari, Giovanna E Felis, Elisa Salvetti, Anna Castioni, Ilenia Campedelli, Sandra Torriani, Valentina Bernini, Monica Gatti
Lactobacillus casei,Lactobacillus paracasei and Lactobacillusrhamnosus form a closely related taxonomic group (the L. casei group) within the facultatively heterofermentative lactobacilli. Strains of these species have been used for a long time as probiotics in a wide range of products, and they represent the dominant species of nonstarter lactic acid bacteria in ripened cheeses, where they contribute to flavour development. The close genetic relationship among those species, as well as the similarity of biochemical properties of the strains, hinders the development of an adequate selective method to identify these bacteria...
July 18, 2017: Microbiology
https://www.readbyqxmd.com/read/28720902/comparative-genomic-analysis-of-paenibacillus-sp-ssg-1-and-its-closely-related-strains-reveals-the-effect-of-glycometabolism-on-environmental-adaptation
#2
Hui Xu, Shishang Qin, Yanhong Lan, Mengjia Liu, Xiyue Cao, Dairong Qiao, Yu Cao, Yi Cao
The extensive environmental adaptability of the genus Paenibacillus is related to the enormous diversity of its gene repertoires. Paenibacillus sp. SSG-1 has previously been reported, and its agar-degradation trait has attracted our attention. Here, the genome sequence of Paenibacillus sp. SSG-1, together with 76 previously sequenced strains, was comparatively studied. The results show that the pan-genome of Paenibacillus is open and indicate that the current taxonomy of this genus is incorrect. The incessant flux of gene repertoires resulting from the processes of gain and loss largely contributed to the difference in genomic content and genome size in Paenibacillus...
July 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28719894/karyotype-evolution-and-phylogenetic-relationships-of-cricetulus-sokolovi-orlov-et-malygin-1988-cricetidae-rodentia-inferred-from-chromosomal-painting-and-molecular-data
#3
Natalia S Poplavskaya, Svetlana A Romanenko, Natalia A Serdyukova, Vladimir A Trifonov, Fengtang Yang, Wenhui Nie, Jinghuan Wang, Anna A Bannikova, Alexey V Surov, Vladimir S Lebedev
Sokolov's dwarf hamster (Cricetulus sokolovi) is the least studied representative of the striped hamsters (Cricetulus barabensis species group), the taxonomy of which remains controversial. The species was described based on chromosome morphology, but neither the details of the karyotype nor the phylogenetic relationships with other Cricetulus are known. In the present study, the karyotype of C. sokolovi was examined using cross-species chromosome painting. Molecular and cytogenetic data were employed to determine the phylogenetic position of Sokolov's hamster and to analyze the potential pathways of chromosome evolution in Cricetulus...
July 19, 2017: Cytogenetic and Genome Research
https://www.readbyqxmd.com/read/28718817/time-to-spread-your-wings-a-review-of-the-avian-ancient-dna-field
#4
REVIEW
Alicia Grealy, Nicolas J Rawlence, Michael Bunce
Ancient DNA (aDNA) has the ability to inform the evolutionary history of both extant and extinct taxa; however, the use of aDNA in the study of avian evolution is lacking in comparison to other vertebrates, despite birds being one of the most species-rich vertebrate classes. Here, we review the field of "avian ancient DNA" by summarising the past three decades of literature on this topic. Most studies over this time have used avian aDNA to reconstruct phylogenetic relationships and clarify taxonomy based on the sequencing of a few mitochondrial loci, but recent studies are moving toward using a comparative genomics approach to address developmental and functional questions...
July 18, 2017: Genes
https://www.readbyqxmd.com/read/28718274/-microbiome-and-next-generation-sequencing
#5
REVIEW
A Suárez Moya
The human microbiome is an internal ecosystem that refers to the community of microorganisms that populate the human body. These microorganisms are essential to support his health, because the interaction between the host immune system and microorganisms, provide the host with protection against pathogens, and contributes to the preservation of health. Bacteriological culture has been the basis for traditional microbiology; however, most of the bacterial forms observed in nature cannot be isolated with laboratory culture methods...
July 17, 2017: Revista Española de Quimioterapia: Publicación Oficial de la Sociedad Española de Quimioterapia
https://www.readbyqxmd.com/read/28716112/psychosocial-interventions-for-managing-occupational-stress-and-burnout-among-medical-doctors-a-systematic-review
#6
Bonnie A Clough, Sonja March, Raymond J Chan, Leanne M Casey, Rachel Phillips, Michael J Ireland
BACKGROUND: Occupational stress and burnout are highly prevalent among medical doctors and can have adverse effects on patient, doctor, and organisational outcomes. The purpose of the current study was to review and evaluate evidence on psychosocial interventions aimed at reducing occupational stress and burnout among medical doctors. METHOD: A systematic review was conducted for original research articles reporting on psychosocial interventions targeting occupational stress or burnout among medical doctors, published in the English language, and with data collected at a minimum of two time points...
July 17, 2017: Systematic Reviews
https://www.readbyqxmd.com/read/28714846/ictv-virus-taxonomy-profile-benyviridae
#7
David Gilmer, Claudio Ratti, Ictv Report Consortium
The Benyviridae is a family of multipartite plant viruses with rod-shaped virions. Genomes are segmented and comprised of single-stranded, positive-sense RNAs, each with a 5' m7G cap. Unlike rod-shaped viruses classified in the Virgaviridae family, the genome segments have a 3' polyA tract and there is post-translational cleavage of the viral replicase. The better-known members are transmitted by root-infecting vectors in the Plasmodiphorales family, once described as fungi but now classified as Cercozoa. The family has a single genus...
July 17, 2017: Journal of General Virology
https://www.readbyqxmd.com/read/28714762/effectiveness-of-prp-injection-in-reducing-recovery-time-of-acute-hamstring-injury-a-critically-appraised-topic
#8
Mary Lynn Manduca, Stephen J Straub
Clinical Scenario Hamstring strains are common athletic injuries, with a high recurrence rate (34%).(2) Recently, platelet-rich-plasma (PRP) injections have gained popularity as a potential treatment option to accelerate healing of hamstring injury.(3) Focused Clinical Question Does the combination of PRP injection and rehabilitation decrease recovery time of acute hamstring injury as compared to rehabilitation alone in collegiate athletes? Summary of Key Findings A literature search resulted in three randomized controlled trials (RCT)...
July 17, 2017: Journal of Sport Rehabilitation
https://www.readbyqxmd.com/read/28714433/ultra-processed-family-foods-in-australia-nutrition-claims-health-claims-and-marketing-techniques
#9
Claire Elizabeth Pulker, Jane Anne Scott, Christina Mary Pollard
OBJECTIVE: To objectively evaluate voluntary nutrition and health claims and marketing techniques present on packaging of high-market-share ultra-processed foods (UPF) in Australia for their potential impact on public health. DESIGN: Cross-sectional. SETTING: Packaging information from five high-market-share food manufacturers and one retailer were obtained from supermarket and manufacturers' websites. SUBJECTS: Ingredients lists for 215 UPF were examined for presence of added sugar...
July 17, 2017: Public Health Nutrition
https://www.readbyqxmd.com/read/28713650/the-fossil-osmundales-royal-ferns-a-phylogenetic-network-analysis-revised-taxonomy-and-evolutionary-classification-of-anatomically-preserved-trunks-and-rhizomes
#10
Benjamin Bomfleur, Guido W Grimm, Stephen McLoughlin
The Osmundales (Royal Fern order) originated in the late Paleozoic and is the most ancient surviving lineage of leptosporangiate ferns. In contrast to its low diversity today (less than 20 species in six genera), it has the richest fossil record of any extant group of ferns. The structurally preserved trunks and rhizomes alone are referable to more than 100 fossil species that are classified in up to 20 genera, four subfamilies, and two families. This diverse fossil record constitutes an exceptional source of information on the evolutionary history of the group from the Permian to the present...
2017: PeerJ
https://www.readbyqxmd.com/read/28713409/phylogenetic-resolution-in-juglans-based-on-complete-chloroplast-genomes-and-nuclear-dna-sequences
#11
Wenpan Dong, Chao Xu, Wenqing Li, Xiaoman Xie, Yizeng Lu, Yanlei Liu, Xiaobai Jin, Zhili Suo
Walnuts (Juglans of the Juglandaceae) are well-known economically important resource plants for the edible nuts, high-quality wood, and medicinal use, with a distribution from tropical to temperate zones and from Asia to Europe and Americas. There are about 21 species in Juglans. Classification of Juglans at section level is problematic, because the phylogenetic position of Juglans cinerea is disputable. Lacking morphological and DNA markers severely inhibited the development of related researches. In this study, the complete chloroplast genomes and two nuclear DNA regions (the internal transcribed spacer and ubiquitin ligase gene) of 10 representative taxa of Juglans were used for comparative genomic analyses in order to deepen the understanding on the application value of genetic information for inferring the phylogenetic relationship of the genus...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28713265/a-comparison-of-reimbursement-recommendations-by-european-hta-agencies-is-there-opportunity-for-further-alignment
#12
Nicola Allen, Lawrence Liberti, Stuart R Walker, Sam Salek
Introduction: In Europe and beyond, the rising costs of healthcare and limited healthcare resources have resulted in the implementation of health technology assessment (HTA) to inform health policy and reimbursement decision-making. European legislation has provided a harmonized route for the regulatory process with the European Medicines Agency, but reimbursement decision-making still remains the responsibility of each country. There is a recognized need to move toward a more objective and collaborative reimbursement environment for new medicines in Europe...
2017: Frontiers in Pharmacology
https://www.readbyqxmd.com/read/28710973/identification-of-high-risk-metropolitan-intersection-sites-in-perth-australia
#13
Michelle Hobday, Kyle Chow, Lynn Meuleners, Fritha Argus
As convergence points for road users approaching from multiple directions, intersections have more opportunities for conflicts, thus higher crash risk than other parts of the road network. Given the limited resources available for road safety, it is important to identify high risk intersections so that they can be prioritised for infrastructure improvement. This study used a three-stage approach to identify intersections in Perth, Western Australia: using Road Trauma Risk Analysis, then Comparative Safety Performance Analysis and finally ranking the intersections by the KSI (Killed and Serious Injury) metric...
July 12, 2017: Accident; Analysis and Prevention
https://www.readbyqxmd.com/read/28710295/relationships-between-gastrointestinal-microbiota-and-blood-group-antigens
#14
Anuhya Gampa, Phillip A Engen, Rima Shobar, Ece A Mutlu
FUT2 is a gene for a fucosyltransferase that encodes expression of ABO blood group antigens found on gastrointestinal mucosa and secretions. We hypothesized that the fecal microbiomes of healthy subjects, with blood group antigens A, B and O, have differing compositions. Thirty-three fecal and blood specimens from healthy subjects were analyzed for FUT2 genotype and the fecal microbiome was determined using 454 pyrosequencing. Our data shows that being a blood group secretor is associated with less diversity at higher orders of taxonomy; and the presence of blood group A antigens in the secretor subjects are associated with an expansion families of bacteria within the gut...
July 14, 2017: Physiological Genomics
https://www.readbyqxmd.com/read/28710265/francisella-like-endosymbionts-and-rickettsia-species-in-local-and-imported-hyalomma-ticks
#15
Tal Azagi, Eyal Klement, Gidon Perlman, Yaniv Lustig, Kosta Y Mumcuoglu, Dmitry Apanaskevich, Yuval Gottlieb
Hyalomma ticks (Acari: Ixodidae) are hosts for Francisella like endosymbionts (FLE) and may serve as vectors of zoonotic disease agents. This study was aimed to provide initial characterization of the interaction between Hyalomma and FLE and to determine the prevalence of pathogenic Rickettsia in these ticks. Hyalomma marginatum, H. rufipes, H. dromedarii, H. aegyptium and H. excavatum ticks, identified morphologically and molecularly, were collected from different hosts and locations, representing the genus distribution in Israel, as well as from migratory birds...
July 14, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28709395/karyotype-differentiation-in-tellin-shells-bivalvia-tellinidae
#16
Daniel García-Souto, Gonzalo Ríos, Juan J Pasantes
BACKGROUND: Although Tellinidae is one of the largest and most diverse families of bivalves, its taxonomy is utterly chaotic. This is mainly due to the morphological diversity and homoplasy displayed by their shells and to the scarcity of the molecular phylogenetic studies performed on them. A molecular cytogenetic analysis of four tellin shell species, Bosemprella incarnata, Macomangulus tenuis, Moerella donacina and Serratina serrata, was performed. To molecularly characterize the analyzed specimens, the sequence of a fragment of the mitochondrial cytochrome c oxidase subunit I (COI) was also studied...
July 14, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28709393/microbiome-associated-with-severe-caries-in-canadian-first-nations-children
#17
M Agnello, J Marques, L Cen, B Mittermuller, A Huang, N Chaichanasakul Tran, W Shi, X He, R J Schroth
Young Indigenous children in North America suffer from a higher degree of severe early childhood caries (S-ECC) than the general population, leading to speculation that the etiology and characteristics of the disease may be distinct in this population. To address this knowledge gap, we conducted the first microbiome analysis of an Indigenous population using modern molecular techniques. We investigated the caries-associated microbiome among Canadian First Nations children with S-ECC. Thirty First Nations children <72 mo of age with S-ECC and 20 caries-free children were recruited in Winnipeg, Canada...
July 1, 2017: Journal of Dental Research
https://www.readbyqxmd.com/read/28708928/the-milan-system-for-reporting-salivary-gland-cytopathology-analysis-and-suggestions-of-initial-survey
#18
Esther Diana Rossi, William C Faquin, Zubair Baloch, Güliz A Barkan, Maria Pia Foschini, Marc Pusztaszeri, Philippe Vielh, Daniel F I Kurtycz
BACKGROUND: An international panel of experts in the field of salivary gland cytology (SGC), supported by the American Society of Cytopathology (ASC) and the International Academy of Cytology, conducted a survey to seek evidence and practice patterns regarding SGC. Results were used to provide focus for the proposed Milan System for Reporting Salivary Gland Cytopathology. METHODS: The study group, formed during the 2015 European Congress of Cytology held in Milan, Italy, generated a survey that included 49 specific questions related to the taxonomies, practices, and diagnostic entities of salivary cytology...
July 14, 2017: Cancer
https://www.readbyqxmd.com/read/28708831/biochem4j-integrated-and-extensible-biochemical-knowledge-through-graph-databases
#19
Neil Swainston, Riza Batista-Navarro, Pablo Carbonell, Paul D Dobson, Mark Dunstan, Adrian J Jervis, Maria Vinaixa, Alan R Williams, Sophia Ananiadou, Jean-Loup Faulon, Pedro Mendes, Douglas B Kell, Nigel S Scrutton, Rainer Breitling
Biologists and biochemists have at their disposal a number of excellent, publicly available data resources such as UniProt, KEGG, and NCBI Taxonomy, which catalogue biological entities. Despite the usefulness of these resources, they remain fundamentally unconnected. While links may appear between entries across these databases, users are typically only able to follow such links by manual browsing or through specialised workflows. Although many of the resources provide web-service interfaces for computational access, performing federated queries across databases remains a non-trivial but essential activity in interdisciplinary systems and synthetic biology programmes...
2017: PloS One
https://www.readbyqxmd.com/read/28706324/didymellaceae-revisited
#20
Q Chen, L W Hou, W J Duan, P W Crous, L Cai
The Didymellaceae is one of the most species-rich families in the fungal kingdom, and includes species that inhabit a wide range of ecosystems. The taxonomy of Didymellaceae has recently been revised on the basis of multi-locus DNA sequence data. In the present study, we investigated 108 Didymellaceae isolates newly obtained from 40 host plant species in 27 plant families, and various substrates from caves, including air, water and carbonatite, originating from Argentina, Australia, Canada, China, Hungary, Israel, Italy, Japan, South Africa, the Netherlands, the USA and former Yugoslavia...
June 2017: Studies in Mycology
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