mites {jSDM}R Documentation

mites dataset

Description

This example data set is composed of 70 cores of mostly Sphagnum mosses collected on the territory of the Station de biologie des Laurentides of University of Montreal, Quebec, Canada in June 1989.

The whole sampling area was 2.5 m x 10 m in size and thirty-five taxa were recognized as species, though many were not given a species name, owing to the incomplete stage of systematic knowledge of the North American Oribatid fauna.

The data set comprises the abundances of 35 morphospecies, 5 substrate and micritopographic variables, and the x-y Cartesian coordinates of the 70 sampling sites.

See Borcard et al. (1992, 1994) for details.

Usage

data("mites")

Format

A data frame with 70 observations on the following 42 variables.

Abundance of 35 Oribatid mites morphospecies named :

Brachy

a vector of integers

PHTH

a vector of integers

HPAV

a vector of integers

RARD

a vector of integers

SSTR

a vector of integers

Protopl

a vector of integers

MEGR

a vector of integers

MPRO

a vector of integers

TVIE

a vector of integers

HMIN

a vector of integers

HMIN2

a vector of integers

NPRA

a vector of integers

TVEL

a vector of integers

ONOV

a vector of integers

SUCT

a vector of integers

LCIL

a vector of integers

Oribatul1

a vector of integers

Ceratoz1

a vector of integers

PWIL

a vector of integers

Galumna1

a vector of integers

Steganacarus2

a vector of integers

HRUF

a vector of integers

Trhypochth1

a vector of integers

PPEL

a vector of integers

NCOR

a vector of integers

SLAT

a vector of integers

FSET

a vector of integers

Lepidozetes

a vector of integers

Eupelops

a vector of integers

Minigalumna

a vector of integers

LRUG

a vector of integers

PLAG2

a vector of integers

Ceratoz3

a vector of integers

Oppia.minus

a vector of integers

Trimalaco2

a vector of integers

5 covariates collected on the 70 sites and their coordinates :

substrate

a categorical vector indicating substrate type using a 7-level unordered factor : sph1, sph2, sph3, sph4, litter, peat and inter for interface.

shrubs

a categorical vector indicating shrub density using a 3-level ordered factor : None, Few and Many

topo

a categorical vector indicating microtopography using a 2-level factor: blanket or hummock

density

a numeric vector indicating the substrate density (g/L)

water

a numeric vector indicating the water content of the substrate (g/L)

x

a numeric vector indicating first coordinates of sampling sites

y

a numeric vector indicating second coordinates of sampling sites

Details

Oribatid mites (Acari: Oribatida) are a very diversified group of small (0.2-1.2 mm) soil-dwelling, mostly microphytophagous and detritivorous arthropods. A well aerated soil or a complex substrate like Sphagnum mosses present in bogs and wet forests can harbour up to several hundred thousand individuals per square metre.

Local assemblages are sometimes composed of over a hundred species, including many rare ones. This diversity makes oribatid mites an interesting target group to study community-environment relationships at very local scales.

Source

Pierre Legendre

References

Borcard, D.; Legendre, P. and Drapeau, P. (1992) Partialling out the spatial component of ecological variation. Ecology 73: 1045-1055.

Borcard, D. and Legendre, P. (1994) Environmental control and spatial structure in ecological communities: an example using Oribatid mites (Acari, Oribatei). Environmental and Ecological Statistics 1: 37-61.

Borcard, D. and Legendre, P. (2002) All-scale spatial analysis of ecological data by means of principal coordinates of neighbour matrices. Ecological Modelling 153: 51-68.

Examples

data(mites, package="jSDM")
head(mites)

[Package jSDM version 0.2.6 Index]