<b>CCA</b>: An<i>R</i>Package to Extend Canonical Correlation Analysis

González, Ignacio; Déjean, Sébastien; Martin, Pascal G.P.; Baccini, Alain

doi:10.18637/jss.v023.i12

Cited by 312 publications

(310 citation statements)

References 8 publications

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“…We used the CCA package (González and Déjean 2012) for the statistical software R (R Core Team 2015) to apply linear discriminant analysis and extract the major axis along the multivariate phenotypic dimensions discriminating between the sexes (i.e., best describing maleness vs. femaleness) in each of the four composite traits. To derive the discriminant function for the adult life-history syndrome, we mean-centered and unit-variance standardized the four traits (body mass, life span, locomotor activity, and metabolic rate), measuring them on a common scale, ascertaining that each trait could contribute equally to the extracted scores.…”

Section: Genetic Variance and Sexual Dimorphism In Compositementioning

confidence: 99%

Intralocus Sexual Conflict and the Tragedy of the Commons in Seed Beetles

Berger

Martinossi‐Allibert

Grieshop

et al. 2016

The American Naturalist

128

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Online enhancements: appendixes, supplemental PDF. Dryad data: http://dx.doi.org/10.5061/dryad.bc94c.abstract: The evolution of male traits that inflict direct harm on females during mating interactions can result in a so-called tragedy of the commons, where selfish male strategies depress population viability. This tragedy of the commons can be magnified by intralocus sexual conflict (IaSC) whenever alleles that reduce fecundity when expressed in females spread in the population because of their benefits in males. We evaluated this prediction by detailed phenotyping of 73 isofemale lines of the seed beetle Callosobruchus maculatus. We quantified genetic variation in life history and morphology, as well as associated covariance in male and female adult reproductive success. In parallel, we created replicated artificial populations of each line and measured their productivity. Genetic constraints limited independent trait expression in the sexes, and we identified several instances of sexually antagonistic covariance between traits and fitness, signifying IaSC. Population productivity was strongly positively correlated to female adult reproductive success but uncorrelated with male reproductive success. Moreover, male (female) phenotypic optima for several traits under sexually antagonistic selection were exhibited by the genotypes with the lowest (highest) population productivity. Our study forms a direct link between individuallevel sex-specific selection and population demography and places lifehistory traits at the epicenter of these dynamics.

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Section: Genetic Variance and Sexual Dimorphism In Compositementioning

confidence: 99%

Intralocus Sexual Conflict and the Tragedy of the Commons in Seed Beetles

Berger

Martinossi‐Allibert

Grieshop

et al. 2016

The American Naturalist

128

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“…HLPC-DAD data were used for the statistical analyses. We carried out statistical tests using the software R together with the packages vegan [21] and CCA [22]. The variables latitude (UTM), longitude (UTM), and altitude (m) were employed as descriptive variables for the formation of groups of samples collected at different locations and altitudes.…”

Section: Chemical Variability Statistical Evaluationmentioning

confidence: 99%

A new HPLC-DAD-MS/MS method for the simultaneous determination of major compounds in the crude extract of Lychnophora salicifolia Mart. (Brazilian arnicão) leaves: Application to chemical variability evaluation

Gouvea¹,

Meloni²,

Ribeiro³

et al. 2012

Analytica Chimica Acta

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“…Correlations were considered significant at a Po0.05 baseline and to be nearly significant at 0.05oPo0.10. GeoChip and PhyloChip datasets were related to each other using regularized canonical correlation analyses (RCCorA) in the R package (González et al, 2008). The strongest associations in the resulting graphs were identified by calculating Bray-Curtis distance and Pearson's linear correlation between functional genes and taxa.…”

Section: Statistical Analysesmentioning

confidence: 99%

Environmental microarray analyses of Antarctic soil microbial communities

et al. 2008

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Antarctic ecosystems are fascinating in their limited trophic complexity, with decomposition and nutrient cycling functions being dominated by microbial activities. Not only are Antarctic habitats exposed to extreme environmental conditions, the Antarctic Peninsula is also experiencing unequalled effects of global warming. Owing to their uniqueness and the potential impact of global warming on these pristine systems, there is considerable interest in determining the structure and function of microbial communities in the Antarctic. We therefore utilized a recently designed 16S rRNA gene microarray, the PhyloChip, which targets 8741 bacterial and archaeal taxa, to interrogate microbial communities inhabiting densely vegetated and bare fell-field soils along a latitudinal gradient ranging from 51 °S (Falkland Islands) to 72 °S (Coal Nunatak). Results indicated a clear decrease in diversity with increasing latitude, with the two southernmost sites harboring the most distinct Bacterial and Archaeal communities. The microarray approach proved more sensitive in detecting the breadth of microbial diversity than polymerase chain reaction-based bacterial 16S rRNA gene libraries of modest size (∼190 clones per library). Furthermore, the relative signal intensities summed for phyla and families on the PhyloChip were significantly correlated with the relative occurrence of these taxa in clone libraries. PhyloChip data were also compared with functional gene microarray data obtained earlier, highlighting numerous significant relationships and providing evidence for a strong link between community composition and functional gene distribution in Antarctic soils. Integration of these PhyloChip data with other complementary methods provides an unprecedented understanding of the microbial diversity and community structure of terrestrial Antarctic habitats.

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CCA: AnRPackage to Extend Canonical Correlation Analysis

Cited by 312 publications

References 8 publications

Intralocus Sexual Conflict and the Tragedy of the Commons in Seed Beetles

Intralocus Sexual Conflict and the Tragedy of the Commons in Seed Beetles

A new HPLC-DAD-MS/MS method for the simultaneous determination of major compounds in the crude extract of Lychnophora salicifolia Mart. (Brazilian arnicão) leaves: Application to chemical variability evaluation

Environmental microarray analyses of Antarctic soil microbial communities

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