onewaytests: An R Package for One-Way Tests in Independent Groups Designs

Dağ, Osman; Dolgun, Anıl; Konar, Naime Meriç

doi:10.32614/rj-2018-022

Cited by 108 publications

(65 citation statements)

References 30 publications

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“…If an interaction showed a significant effect, the Games-Howell post hoc test was used to account for unequal variance. The analysis was performed using R 3.3.2 (R Core Team, 2016) and the packages onewaytests (Dag et al, 2016) and userfriendlyscience (Peters, 2016). We compared the number of enterococci colony forming units (CFU) in diverse and simple diet groups (without antibiotic treatment) using a t-test.…”

Section: Discussionmentioning

confidence: 99%

Microbiome symbionts and diet diversity incur costs on the immune system of insect larvae

Krams

Kecko

Jõers

et al. 2017

Journal of Experimental Biology

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Communities of symbiotic microorganisms that colonize the gastrointestinal tract play an important role in food digestion and protection against opportunistic microbes. Diet diversity increases the number of symbionts in the intestines, a benefit that is considered to impose no cost for the host organism. However, less is known about the possible immunological investments that hosts have to make in order to control the infections caused by symbiont populations that increase because of diet diversity. Using taxonomical composition analysis of the V3 region, we show that enterococci are the dominating group of bacteria in the midgut of the larvae of the greater wax moth (). We found that the number of colony-forming units of enterococci and expressions of certain immunity-related antimicrobial peptide (AMP) genes such as ,, , and increased in response to a more diverse diet, which in turn decreased the encapsulation response of the larvae. Treatment with antibiotics significantly lowered the expression of all AMP genes. Diet and antibiotic treatment interaction did not affect the expression of and AMP genes, but significantly influenced the expression of, and Taken together, our results suggest that diet diversity influences microbiome diversity and AMP gene expression, ultimately affecting an organism's capacity to mount an immune response. Elevated basal levels of immunity-related genes ( and ) might act as a prophylactic against opportunistic infections and as a mechanism that controls the gut symbionts. This would indicate that a diverse diet imposes higher immunity costs on organisms.

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Section: Discussionmentioning

confidence: 99%

Microbiome symbionts and diet diversity incur costs on the immune system of insect larvae

Krams

Kecko

Jõers

et al. 2017

Journal of Experimental Biology

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“…Significance was set at the p < .05 level. Statistical analyses were performed using the software R‐3.5.2 (R Core Team, ) with additional package onewaytests (Dag, Dolgun, & Konar, ). A two‐sample Kolmogorov–Smirnov test with a significance level of 5% (α = 0.05) was used to test differences in size frequency distributions of H. dactylopterus by area (seamounts and islands).…”

Section: Methodsmentioning

confidence: 99%

Population structure and movement patterns of blackbelly rosefish in the NE Atlantic Ocean (Azores archipelago)

Santos

Pabon

Silva

et al. 2020

Fisheries Oceanography

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Blackbelly rosefish Helicolenus dactylopterus (Delaroche, 1809) is one of the most important species of the demersal/deep‐water assemblages fished in the NE Atlantic Ocean (Azores archipelago). However, there is insufficient information about the stock structure of this species to support analytical resource assessments and it is currently managed with a precautionary approach. Here, we examine the depth and temporal distribution, size composition, sex, and movement patterns of blackbelly rosefish in order to test the hypothesis that the stock structure in the Azores region comprises different local management units (MUs). We also evaluate annual abundance indices and size composition from scientific surveys and commercial landings over the past c. 25 years for an assessment of the species' vulnerability to bottom longline fishing pressure. The greatest abundance occurred in seamount areas at 350–800 m depth. Larger individuals were mainly found in deeper waters, and no sexual segregation by depth was observed. Tagging results indicated a strongly sedentary behavior and an intraregional separation among populations. Although the abundance pattern and size composition were very similar over time, this species is particularly vulnerable to overfishing due to its biological characteristics (long life, large size, late maturity, slow growth, and low mortality rate). Proper monitoring and management of its exploitation should be a priority. Exploratory analysis for analytical assessment should be performed under the assumption of local MUs. Further oceanographic research is needed to understand larval transport and mixing of populations.

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“…FER phenotypes, scored as percentages, were arccosine transformed before performing statistical analysis. The Kruskal–Wallis one-way analysis of variance and the Kruskal–Dunn post hoc test, available in the R package PMCMR ( Pohlert, 2014 ) were applied to detect significant differences between maize accessions tested in the RTA experiment; the Welch one-way ANOVA and the Games–Howell post hoc test, available in the R packages one waytes ( Dag et al, 2017 ) and user friendly science ( Peters, 2017 ) were applied for FER field evaluation.…”

Section: Methodsmentioning

confidence: 99%

Phenolic Profile and Susceptibility to Fusarium Infection of Pigmented Maize Cultivars

et al. 2018

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Maize is a staple food source in the world, whose ancient varieties or landraces are receiving a growing attention. In this work, two Italian maize cultivars with pigmented kernels and one inbred line were investigated for untargeted phenolic profile, in vitro antioxidant capacity and resistance to Fusarium verticillioides infection. “Rostrato Rosso” was the richest in anthocyanins whilst phenolic acids were the second class in abundance, with comparable values detected between cultivars. Tyrosol equivalents were also the highest in “Rostrato Rosso” (822.4 mg kg−1). Coherently, “Rostrato Rosso” was highly resistant to fungal penetration and diffusion. These preliminary findings might help in breeding programs, aiming to develop maize lines more resistant to infections and with improved nutraceutical value.

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onewaytests: An R Package for One-Way Tests in Independent Groups Designs

Cited by 108 publications

References 30 publications

Microbiome symbionts and diet diversity incur costs on the immune system of insect larvae

Microbiome symbionts and diet diversity incur costs on the immune system of insect larvae

Population structure and movement patterns of blackbelly rosefish in the NE Atlantic Ocean (Azores archipelago)

Phenolic Profile and Susceptibility to Fusarium Infection of Pigmented Maize Cultivars

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