ChloroMitoSSRDB 2.00: More genomes, more repeats, unifying SSRs search patterns and on-the-fly repeat detection

© The Author(s) 2015. Published by Oxford University Press. Organelle genomes evolve rapidly as compared with nuclear genomes and have been widely used for developing microsatellites or simple sequence repeats (SSRs) markers for delineating phylogenomics. In our previous reports, we have established the largest repository of organelle SSRs, ChloroMitoSSRDB, which provides access to 2161 organelle genomes (1982 mitochondrial and 179 chloroplast genomes) with a total of 5838 perfect chloroplast SSRs, 37 297 imperfect chloroplast SSRs, 5898 perfect mitochondrial SSRs and 50 355 imperfect mitochondrial SSRs across organelle genomes. In the present research, we have updated ChloroMitoSSRDB by systematically analyzing and adding additional 191 chloroplast and 2102 mitochondrial genomes. With the recent update, ChloroMitoSSRDB 2.00 provides access to a total of 4454 organelle genomes displaying a total of 40 653 IMEx Perfect SSRs (11 802 Chloroplast Perfect SSRs and 28 851 Mitochondria Perfect SSRs), 275 981 IMEx Imperfect SSRs (78 972 Chloroplast Imperfect SSRs and 197 009 Mitochondria Imperfect SSRs), 35 250 MISA (MIcroSAtellite identification tool) Perfect SSRs and 3211 MISA Compound SSRs and associated information such as location of the repeats (coding and non-coding), size of repeat, motif and length polymorphism, and primer pairs. Additionally, we have integrated and made available several in silico SSRs mining tools through a unified web-portal for in silico repeat mining for assembled organelle genomes and from next generation sequencing reads. ChloroMitoSSRDB 2.00 allows the end user to perform multiple SSRs searches and easy browsing through the SSRs using two repeat algorithms and provide primer pair information for identified SSRs for evolutionary genomics

Problems and Features of Medical Support of Domestic Sports as a Factor that Reduces the Effectiveness of Training Athletes

В статье проанализированы и названы основные причины, из-за которых спортивная медицина так и не стала официальным полноценным самостоятельным направлением науки и практики, соответствующим требованиям современного спорта. Обсуждены цели, задачи и основные составляющие спортивной медицины как фактора, обеспечивающего эффективную подготовку спортсменов высокого класса. Предложен путь создания современной службы медико-биологического обеспечения подготовки квалифицированных спортсменов. Показаны глобальные недостатки спортивной медицины на современном этапе Указаны направления решения существующих обозначенных проблем. Предложен путь создания современной службы медико-биологического обеспечения подготовки квалифицированных спортсменов. Показаны глобальные недостатки спортивной медицины на современном этапе Указаны направления решения существующих обозначенных проблем.The article analyzes and identifies the main reasons why sports medicine did not become an official fully-fledged independent field of science and practice that meets the requirements of modern sports. The goals, objectives and the main components of sports medicine as a factor ensuring the effective training of high-class athletes are discussed. A way of creating a modern service of biomedical support for the training of qualified athletes is proposed. The global shortcomings of sports medicine at the present stage are shown. Directions for solving the existing problems identified are indicated. A way of creating a modern service of biomedical support for the training of qualified athletes is proposed. The global shortcomings of sports medicine at the present stage are shown. Directions for solving the existing problems identified are indicated

ПРОБЛЕМЫ И ОСОБЕННОСТИ МЕДИЦИНСКОГО ОБЕСПЕЧЕНИЯ ОТЕЧЕСТВЕННОГО СПОРТА КАК ФАКТОР, СНИЖАЮЩИЙ ЭФФЕКТИВНОСТЬ ПОДГОТОВКИ СПОРТСМЕНОВ

The article analyzes and identifies the main reasons why sports medicine did not become an official fully-fledged independent field of science and practice that meets the requirements of modern sports. The goals, objectives and the main components of sports medicine as a factor ensuring the effective training of high-class athletes are discussed. A way of creating a modern service of biomedical support for the training of qualified athletes is proposed. The global shortcomings of sports medicine at the present stage are shown. Directions for solving the existing problems identified are indicated. A way of creating a modern service of biomedical support for the training of qualified athletes is proposed. The global shortcomings of sports medicine at the present stage are shown. Directions for solving the existing problems identified are indicated.В статье проанализированы и названы основные причины, из-за которых спортивная медицина так и не стала официальным полноценным самостоятельным направлением науки и практики, соответствующим требованиям современного спорта. Обсуждены цели, задачи и основные составляющие спортивной медицины как фактора, обеспечивающего эффективную подготовку спортсменов высокого класса. Предложен путь создания современной службы медико-биологического обеспечения подготовки квалифицированных спортсменов. Показаны глобальные недостатки спортивной медицины на современном этапе Указаны направления решения существующих обозначенных проблем. Предложен путь создания современной службы медико-биологического обеспечения подготовки квалифицированных спортсменов. Показаны глобальные недостатки спортивной медицины на современном этапе Указаны направления решения существующих обозначенных проблем

Status of the Lake Baikal Experiment

We review the present status of the Baikal Underwater Neutrino Experiment and report on neutrino events recorded with the detector stages NT-36 and NT-96.Comment: 5 pages, 4 PostScript figures, uses here.sty and mine.sty, submitted to the Proc. of 5th Int. Workshop on Topics in Astroparticle and Underground Physics (LNGS INFN, Assergi, September 7-11, 1997

Registration of atmospheric neutrinos with the Baikal neutrino telescope

We present first neutrino induced events observed with a deep underwater neutrino telescope. Data from 70 days effective life time of the BAIKAL prototype telescope NT-96 have been analyzed with two different methods. With the standard track reconstruction method, 9 clear upward muon candidates have been identified, in good agreement with 8.7 events expected from Monte Carlo calculations for atmospheric neutrinos. The second analysis is tailored to muons coming from close to the opposite zenith. It yields 4 events, compared to 3.5 from Monte Carlo expectations. From this we derive a 90 % upper flux limit of 1.1 * 10^-13 cm^-2 sec^-1 for muons in excess of those expected from atmospheric neutrinos with zenith angle > 150 degrees and energy > 10GeV.Comment: 20 pages, 11 figure

The Lake Baikal neutrino experiment

We rewiew the present status of the Baikal Neutrino Project and present the results of a search for high energy neutrinos with the detector intermediate stage NT-96.Comment: 3 pages, 2 figures, to appear in the Proceedings of Sixth International Workshop on Topics in Astroparticle and Underground Physics (TAUP99), September 6-10, 1999, Pais, Franc

The Baikal Deep Underwater Neutrino Experiment: Results, Status, Future

We review the present status of the Baikal Underwater Neutrino Experiment and present results obtained with the various stages of the stepwise increasing detector: NT-36 (1993-95), NT-72 (1995-96) and NT-96 (1996-97). Results cover atmospheric muons, first clear neutrino events, search for neutrinos from WIMP annihilation in the center of the Earth, search for magnetic monopoles, and -- far from astroparticle physics -- limnology.Comment: Talk given at the Int. School on Nuclear Physics, Erice, Sept.199

Global, regional, and national comparative risk assessment of 79 behavioural, environmental and occupational, and metabolic risks or clusters of risks, 1990-2015: A systematic analysis for the Global Burden of Disease Study 2015

Background: The Global Burden of Diseases, Injuries, and Risk Factors Study 2015 provides an up-to-date synthesis of the evidence for risk factor exposure and the attributable burden of disease. By providing national and subnational assessments spanning the past 25 years, this study can inform debates on the importance of addressing risks in context. Methods: We used the comparative risk assessment framework developed for previous iterations of the Global Burden of Disease Study to estimate attributable deaths, disability-adjusted life-years (DALYs), and trends in exposure by age group, sex, year, and geography for 79 behavioural, environmental and occupational, and metabolic risks or clusters of risks from 1990 to 2015. This study included 388 risk-outcome pairs that met World Cancer Research Fund-defined criteria for convincing or probable evidence. We extracted relative risk and exposure estimates from randomised controlled trials, cohorts, pooled cohorts, household surveys, census data, satellite data, and other sources. We used statistical models to pool data, adjust for bias, and incorporate covariates. We developed a metric that allows comparisons of exposure across risk factors—the summary exposure value. Using the counterfactual scenario of theoretical minimum risk level, we estimated the portion of deaths and DALYs that could be attributed to a given risk. We decomposed trends in attributable burden into contributions from population growth, population age structure, risk exposure, and risk-deleted cause-specific DALY rates. We characterised risk exposure in relation to a Socio-demographic Index (SDI). Findings: Between 1990 and 2015, global exposure to unsafe sanitation, household air pollution, childhood underweight, childhood stunting, and smoking each decreased by more than 25%. Global exposure for several occupational risks, high body-mass index (BMI), and drug use increased by more than 25% over the same period. All risks jointly evaluated in 2015 accounted for 57·8% (95% CI 56·6–58·8) of global deaths and 41·2% (39·8–42·8) of DALYs. In 2015, the ten largest contributors to global DALYs among Level 3 risks were high systolic blood pressure (211·8 million [192·7 million to 231·1 million] global DALYs), smoking (148·6 million [134·2 million to 163·1 million]), high fasting plasma glucose (143·1 million [125·1 million to 163·5 million]), high BMI (120·1 million [83·8 million to 158·4 million]), childhood undernutrition (113·3 million [103·9 million to 123·4 million]), ambient particulate matter (103·1 million [90·8 million to 115·1 million]), high total cholesterol (88·7 million [74·6 million to 105·7 million]), household air pollution (85·6 million [66·7 million to 106·1 million]), alcohol use (85·0 million [77·2 million to 93·0 million]), and diets high in sodium (83·0 million [49·3 million to 127·5 million]). From 1990 to 2015, attributable DALYs declined for micronutrient deficiencies, childhood undernutrition, unsafe sanitation and water, and household air pollution; reductions in risk-deleted DALY rates rather than reductions in exposure drove these declines. Rising exposure contributed to notable increases in attributable DALYs from high BMI, high fasting plasma glucose, occupational carcinogens, and drug use. Environmental risks and childhood undernutrition declined steadily with SDI; low physical activity, high BMI, and high fasting plasma glucose increased with SDI. In 119 countries, metabolic risks, such as high BMI and fasting plasma glucose, contributed the most attributable DALYs in 2015. Regionally, smoking still ranked among the leading five risk factors for attributable DALYs in 109 countries; childhood underweight and unsafe sex remained primary drivers of early death and disability in much of sub-Saharan Africa. Interpretation: Declines in some key environmental risks have contributed to declines in critical infectious diseases. Some risks appear to be invariant to SDI. Increasing risks, including high BMI, high fasting plasma glucose, drug use, and some occupational exposures, contribute to rising burden from some conditions, but also provide opportunities for intervention. Some highly preventable risks, such as smoking, remain major causes of attributable DALYs, even as exposure is declining. Public policy makers need to pay attention to the risks that are increasingly major contributors to global burden. Funding: Bill & Melinda Gates Foundation