Fedoseeva E., Terekhova V., Tsesarenko O., Gladkova M. Processing of toxicological studies results in the statistical program R // Principy èkologii. 2015. № 3. P. 12‒26. DOI: 10.15393/j1.art.2015.4381

Issue № 3

Methods of ecological investigations


Processing of toxicological studies results in the statistical program R

   Elena Vasilyevna
PhD, Pirogov Russian National Research Medical University (RNRMU), elenfedoseeva@gmail.com
   Vera Alexandrovna
Dr. Sc., A.N. Severtsov Institute of Ecology and Evolution, vterekhova@gmail.com
   Olga Vasilyevna
PhD, Irkutsk State University, ozusammen@yandex.ru
   Marina Mikhailovna
no, Moscow State University, marika230489@gmail.com
toxicological studies
statistical program R
analysis of variance
statistical significance
Summary: The presented article is devoted to the analysis of the experimental values and the applicability of the toxicological studies results in the statistical environment R. This freely distributed program has great functional potential and well-designed algorithm, these make it "...the undisputed leader among the freely distributed systems for statistical analysis..." As the data, the experimental results to assess the toxicity of a highly- mineralized sample in the industrial production wastes were used. We evaluated two test-functions: the change in the population increase of cells and the fluorescence level of laboratory culture of the marine diatom algae Phaeodactylum tricornutum. The detailed algorithm of the analysis, namely: data initialization, evaluation of selective parameters of descriptive statistics, toxicity assessment, single-factor analysis of variance (ANOVA), Tukey and Dunnett multiple comparison tests, evaluation of correlation between the observed variable (Spearman and Pearson correlation coefficients) are presented in the article. The complete list of scripts in the program R allows to reproduce a similar analysis.

© Petrozavodsk State University

Reviewer: V. Shitikov
Reviewer: N. M. Kalinkina
Received on: 02 September 2015
Published on: 12 November 2015


Anderson J.A.H., Hooper M.J., Zak J.C., Cox S.B. Characterization of the structural and functional diversity of indigenous soil microbial communities in smelter-impacted and nonimpacted soils, Environmental Toxicology and Chemistry. V. 28. N 3. 2009. R. 534–541.

Benjamin I. P. Spatial patterns in benthic biodiversity of Chesapeake bay, USA (1984–1999): association with water quality and sediment toxicity, Environmental Toxicology and Chemistry. V. 21. N 1. 2002. R. 151–162.

Comparison of statistical packages. URL: http://en.wikipedia.org/wiki/Comparison_of_statistical_packages (data obrascheniya 16.08.2015)

Free Statistical Software, data and resources. URL: http://freestatistics.altervista.org/?p=stat (data obrascheniya 16.08.2015)

Frostegåd Å., Tunlid A. and Bååth E. Phospholipid fatty acid composition, biomass, and activity of microbial communities from two soil types experimentally exposed to different heavy metals, Appl. Environ. Microbiol. V. 59. N 11. 1993. P. 3605-3617.

Grace-Martin K. Checking the Normality Assumption for an ANOVA Model. URL: www.theanalysisfactor.com/checking-normality-anova-model (data obrascheniya 16.08.2015)

R Development Core Team. R: A language and environment for statistical computing. Austria: Vienna, 2013. URL:http://www.R-project.org/ (data obrascheniya 24.04.2015)

Stefanowicz A.M., Niklin´ska M., Laskowski R. Metals affect soil bacterial and fungal functional diversity differently, Environmental Toxicology and Chemistry. V. 27. N 3. P. 591–598.

Timofeyev M., Shatilina Zh. Different preference reactions of three lake Baikal endemic amphipods to temperature and oxygen are correlated with symbiotic life, Crustaceana. V. 80. N 2. 2007. P. 129-138.

Venables W.N., Smith D.M. An Introduction to R. R Development Core Team, 2014. 105 p. (Rup. per.: Venebl'z U.N., Smit D.M. Vvedenie v R: Zametki po R: sreda programmirovaniya dlya analiza dannyh i grafiki: per. s angl. Ver. 3.1.0. Moskva, 2014. 109 p.) Yakimenko O., Terekhova V. Humic preparations and the assessment of their biological activity for certification purposes, Eurasian Soil Science. V. 44. N 11. 2011. P. 1222–1230.

The accuracy (correctness and precision) of methods and results of measurements

Zhmur N.S. The method of determining  water extracts toxicity of halite waste and clay-salt sludge generated in the production of potash fertilizers by the reduction of growth rate (a decrease in the number of cells) and decreased level of chlorophyll fluorescence of marine algae Phaeodactylum tricornutum. M.: AKVAROS, 2009. 36 p.

Zhmur N.S. The method of determining  water toxicity and water extracts from soil, sewage sludge, waste by mortality and fertility change of ceriodaphnia. M.: AKVAROS, 2007. 56 p.

Zaryadnov I.S. The introduction to the statistical package R: variable types, data structures, reading and writing information, graphics. M.: Izd-vo Rossiyskogo universiteta druzhby narodov, 2010. 207 p.

Kabakov R.I. R in Action: Data Analysis and Graphics With R. Manning Publications, per. s angl. P.A. Volkova. Moskva: DMK Press, 2014. 580 p.

Kolenikov S.O. Applied econometric analysis in the statistical package Stata: v 2 ch. Moskva: RESh, 2001. 112 p.

Mastickiy S.E. Shitikov V.K. Statistical analysis and data visualization using R. Moskva: DMK Press, 2015. 496 p. URL: http://r-analytics.blogspot.com (data obrascheniya 16.08.2015)

Trahtenberg I.M. Sova R.E. Sheftel' V.O. Onikienko F.A. The problem of norm in toxicology. M.: Medicina, 1991. 208 p.

Shipunov A.B. Visual statistics. Use R!Moskva: DMK Press, 2014. 298 p.

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