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How do plant ecologists use matrix models?
NCEAS 12320: Crone et al. 2010: When are matrix models useful for management? An empirical test across plant populations. The data and metadata presented here correspond to the publication by Crone et al. 2010 (Ecology Letters). Two data tables are provided below ("Full citation list of papers" and "Classifications of papers") for your convenience. The "Full citation list of papers" table provides the citations of the 396 published plant population modeling studies used in review. The citation ID corresponds to that used in the classification table. The "Classifications of papers" table provides a classification of studies in review by Crone et al. 2010 into: biology of species, study objectives, types of model outputs, and interpretation of model results. The citation for each study is given in the table of citations and the two tables are easily linked through the field citation.id. The metadata describe the fields in each table, and below you can download the tables (csv format).
National Center for Ecological Analysis and Synthesis
Elizabeth
Crone
University of Montana
Missoula
Montana
ecrone@fas.harvard.edu
Jennifer
Williams
Eric
Menges
Co-owner
Martha
Ellis
Co-owner
Jennifer
Williams
Custodian/Steward
2010-01-21
In the past three decades, the role of matrix-based demographic models in plant conservation has steadily increased. However, the reliability of these methods remains hotly debated. Most tests of model performance have relied on strict conditions for either the data sets being tested or the criteria used to judge accuracy of the results. This leads to a potential disconnect between the variety of ways in which models are used in practice and the limited set of conditions where their performance has been evaluated. As part of our working group, we set out to introduce and apply the idea that relevant tests depend on how exactly matrix models are used for managing populations. To this end, we systematically assessed 397 matrix models for plant populations to determine which population metrics (e.g. population growth rate, sensitivity, extinction risk) are being most commonly used in the literature and how literally authors are interpreting these metrics as predictions. The data sets available here contain both the citation information for all of the plant studies that we identified and the results of our review (see Crone et al., In Review, Ecology Letters). We have attempted to provide a nearly complete census of the available literature from 1966 through April 2009.
matrix model
plants
literature survey
demography
plant population dynamics
sensitivity analysis
matrix projection model
population growth rate
ecological forecasting
None
Obtain permission from data set owner(s)
digital
1966
2009
No geographic limits were placed on the studies included in the literature review, and so studies are distributed worldwide.
-180.0000
180.0000
90.0000
-90.0000
species in literature review include Angiosperms, Gymnosperms and Bryophytes
Kingdom
Plant
Martha
Ellis
University of Montana
Missoula
Montana
martha.ellis@gmail.com
Full citation list of papers
Citations of the 396 published plant population modeling studies used in review. See Crone et al. 2010 for a description of the criteria used to select these papers. Citation ID corresponds to that used in the classification table.
Table of citations considered for use in review
77135
1
#x0A
column
#x09
ecogrid://knb/han.3.1
Citation ID
"citation.id"--numerical ID given to each citation after sorting citations by first author's last name. This id corresponds to that used in the classification table.
1-400
Numeric ID of each individual citation (IDs 117, 189, 190, and 357 were not used in final analysis and are not shown)
Citation
"citation"--citation of the 396 papers used for the present study in the following format:
Authors. Publication Year. Title. Jounal Volume: pgs.
Abe to Zhang
Citations listed by alphabetizing the first author's last name
Matrix
"matrix"--denotes whether matrix models were used in a particular study. 1 indicates that a study used matrix models and 0 indicates that a study did not use matrix models.
0
The study did not use any matrix models
1
The study used matrix models
396
Classification of papers
Classification of studies in review by Crone et al. 2010 into: biology of species, study objectives, types of model outputs, and interpretation of model results. Information about each field can be obtained by clicking on the “Domain info” link. The citation for each study is given in the table of citations and the two tables are easily linked through the field citation.id
Classification of papers
186044
1
#x0A
column
#x09
ecogrid://knb/han.4.2
Citation ID
Citation ID
"Citation ID"--corresponds to the citation ID given in the "full citation list of papers" table
1-400
Numeric ID given to each of the 396 studies used in this study (IDs 117, 189, 190, and 357 are not listed as they were not used in the final data analysis)
Author and year
"Author and year"--Combines first author's last name with year of publication and the first four letters of the publication title
NameYear(Title)
First author's last name followed by year of publication and sometimes the first few letters of the title
Maximum number annual transitions
"Maximum number annual transitions"--Study wide, summed over populations (e.g., 5 populations x 2 matrices per population = 10)
nominalYear
whole
0
28
Maximum number of sites
Maximum number of sites
"Maximum number of sites"--number of physical sites or populations, as defined by matrices. May be fewer than number of matrices if multiple matrices are constructed for a site (e.g., different treatments or years at one location)
dimensionless
whole
0
17
Species
"Species"--species name
Species name
Genus and species
Life form
"Life form"--woody, herbaceous, perennial, or annual
Woody
Plant that have a true woody stem
Herbaveous perennial
Plant that recurs on a yearly or continual basis
Annual
Plant that completes its entire life cycle in a single growing season
Overall objective
Overall objective
"Overall objective"--there are 7 options (one for each study: 3 management and 4 non-management). If the overall objective is management, the 3 options are: management of rare/endangered/at-risk spp (later subdivided studies classified as 'other management' into one of four primary management objectives: fire, grazing, harvest or restoration), management of invasive pest species, other management (e.g., harvest). If the overall objective is not management, then the 4 options are: basic research in invasion/conservation biology, life history/population ecology, community ecology, or other basic research
Management
Objective: to study the management of "rare, endangered, or at-risk species"
Management
Other management objectives (such as harvest)
Management
Objective: study the management of "invasive/ pest species"
No management
Study did not have a management objective (i.e. basic research in life history or population ecology)
Short code for overall objective
"Short code for overall objective"--coding for data analysis of the overall study objective
nm_popeco
No management objective, study looks at overall population ecology
m_rare
Management focusing on rare species
m_other
Management objective on other fields (subdivided into one of four primary management objectives: management of fire, grazing, harvest, or restoration)
NA
No objective could be found
m_inv
Managemen focusing on invasive species
nm_conbio
No management objective: study is focused on conservation biology
nm
No management objective
nm_commeco
No management objective: study looks at community ecology
nm_other
No management objective: study looks at some other objective that is not management related
primary.management.goal
"primary.management.goal"--lists the primary management goal if a study had a management objective
none
No management objective
viability1
Looking at the population status/viability of a species that is of conservation concern
targetls1
Target life stage management
harvest1
Management of harvest
experiments1
Use of actual experiments/natural experiments/monitoring to assess the effects of management options
fire1
Management of fires
sites1
Numer of physical sites
simulations1
Use numerical experiments (simulation studies) to help management decision
restpops1
Assess the viability of restored populations
abiotic1
Assess how abiotic environmental variables affect population viability
otherint1
Assess how species interactions other ones already listed impact population viability
biocontrol1
Assess impacts of biological control
mngmnt1
Management
grazing1
Assessing impacts of herbivory on population viability
multthreats1
Identifying which of multiple threats is more important to viability
invasive1
Assess impacts of interactions with invasive species on native species
otherenv1
Assess how other environmental variables affect population viability
climate1
Linking population viability to climate changes
competition1
Assess how competition impacts population viability
sppinteraction1
Looking at the impacts of species interactions on population viability
Additional management objectives
"Additional management objectives"--there are many possible objectives. See Table 1 of Crone et al. 2010
[]
no management objectives listed
abiotic
linking population viability to specific abiotic environmental variables
biocontrol
assess impacts of biological control
climate
assess how climate change is linked to population viability
competition
assess impacts of competition on population viability
experiments
actual experiments were used by management
fire
assess how fires change population viability
grazing
assess impacts of grazing on native plants
harvest
evaluating sustainable harvest
invasive
assess impacts of interactions with invasive species on native (plant) species
mngmnt
assess effects of management options
multthreats
identify which of multiple threats is more important to viability
restpops
assess viability of restored populations
otherenv
linking other environmental variables to population viability
otherint
assess other species interactions than what has already been listed
simulations
objective was to look at numerical experiments (simulation study)
sites
number of physical sites
sppinteraction
assess impacts of species interactions (e.g., herbivory, competition, pollination) on population viability
targetls
evaluating target life stages for management
transloc
monitor establishment of translocated plants
viability
population viability
Metrics presented in the publication
"Metrics presented in the publication"--this field contains all metrics presented, later fields indicate with a zero or one for the metrics we present in the paper whether a metric was used in publication to make analyses easier.
[]
Study did not have matrix models
Dgrowthrate
Estimates of Deterministic population growth rate
ext-risk
estimates of extinction risk
ltre
life table response experiments (LTREs)
metapop
Forecasts of metapopulation viability
mult-return
optimal return intervals
sensitivity
Sensitivity/elasticity
Sgrowthrate
Estimates of Stochastic population growth rate
size
Forecasts of population size
structure
Forecasts of population structure
transient
Transient behavior of populations
Author 1 interpretation of results
"Author 1 interpretation of results"--5 ranked options (1-5) from which the author chose. Information about each option can be obtained by clicking on the "Domain info" link
qualitative1
Authors explicity state that quantitative results should not be taken literally
qualitative2
Authors lean away from/tend to de-emphasize a literal interpretation of results
unclear3
Unclear whether interpretation is qualitative (not literal) or quantitative (literal)
quantitative4
Authors lean towards/tend to emphasize a literal interpretation of results
quantitative5
Authors explicity state that quantitative results should be taken literally
no.matrix
"no.matrix"--whether a publication used matrices in its study
1
Publication does not use matrices in its study
Author 2 interpretation of results
"Author 2 interpretation of results"--5 ranked options (1-5) from which the author chose. Information about each option can be obtained by clicking on the "Domain info" link
5quantitative5
Authors explicity state that quantitative results should be taken literally
4quantitative4
Authors lean towards/ tend to emphasize a literal interpretation of results
1qualitative1
Authors explicity state that quantitative results should not be taken literally
2qualitative2
Authors lean away from/tend to de-emphasize a literal interpretation of results
3unclear3
Unclear whether interpretation is qualitative (not literal) or quantitative (literal)
Management objectives or not
"Management objectives or not"--whether a study had management objectives. 0 indicates there was no management objective, 1 indicates that there was a management objective
0
Did not have a management objective
1
Did have a management objective
All objectives
"All objectives"--list of all objectives, both management and non-management. Information about each field can be obtained by clicking on the "Domain info" link
Management
If management objective, then one of three options: management of rare/endangered/at-risk spp., management of invasive pest species, other management (e.g., harvest) (studies classified as 'other management' were later subdivided into one of four primary management objectives: management of fire, grazing, harvest, or restoration)
No management
If not a management objective, then one of four non-management objectives: basic research in invasion/conservation biology, life history/population ecology, community ecology, or other basic research
Harvest metric
"Harvest metric"--whether a study modeled harvested plant populations. 0 indicates that a study did not model harvested plant populations, 1 indicates that a study did model harvested plant populations.
0
Study did not model harvested plant populations
1
Study did model harvested plant populations
Viability metric
"Viability metric"--whether a study modeled at-risk plant populations. 0 indicates that a study did not model at-risk plant populations, 1 indicates that a study did model at-risk plant populations
0
Study did not model at-risk plant populations
1
Study did model harvested plant populations
Invasive metric
"Invasive metric"--whether a study modeled invasive plant populations. 0 indicates that a study did not model invasive plant populations, 1 indicates that a study did model invasive plant populations
0
Study did not model invasive plant populations
1
Study did model invasive plant populations
Translocated plants metric
"Translocated plants metric"--whether a study monitored the establishment of translocated plants. 0 indicates that a study did not monitor the establishment of translocated plants, 1 indicates that a study did monitor the establishment of translocated plants
0
Study did not monitor the establishment of translocated plants
1
Study did monitor the establishment of translocated plants
Restoration population metric
"Restoration population metric"--whether a study used matrix models to assess management of populations affected by restoration. 0 indicates that a study did not use matrix models to assess management of populations affected by restoration, 1 indicates that a study did use matrix models to assess management of populations affected by restoration
0
Study did not use matrix models to assess management of populations affected by restoration
1
Study did use matrix models to assess management of populations affected by restoration
Fire metric
"Fire metric"--whether a study used matrix models to assess management of populations affected by fire. 0 indicates that a study did not use matrix models to assess management of populations affected by fire, 1 indicates that a study did use matrix models to assess management of populations affected by fire
0
Study did not use matrix models to assess management of populations affected by fire
1
Study did use matrix models to assess management of populations affected by fire
Grazing metric
"Grazing metric"--whether a study used matrix models to assess management of populations affected by grazing. 0 indicates that a study did not use matrix models to assess management of populations affected by grazing, 1 indicates that a study did use matrix models to assess management of populations affected by grazing
0
Study did not use matrix models to assess management of populations affected by grazing
1
Study did use matrix models to assess management of populations affected by grazing
Target life stages metric
"Target life stages metric"--whether a study used matrix models to assess target life stages. 0 indicates that a study did not use matrix models to assess target life stages, 1 indicates that a study did use matrix models to assess target life stages
0
Study did not use matrix models to assess target life stages
1
Study did use matrix models to assess target life stages
Primary objective
"Primary objective"--primary objective of a study. Information about each field can be obtained by clicking on the “Domain info” link
none
no primary objective
viability
management of population viability
targetls
target life stage management
harvest
harvest management
restore
restoration management
invasion
management of invasive pest species
grazing
management of grazing
fires
management of fires
Deterministic growth rate metric
"Deterministic growth rate metric"--whether a study used matrix models to calculate deterministic population growth rates. 0 indicates that a study did not use matrix models to calculate deterministic population growth rates, 1 indicates that a study did use matrix models to calculate deterministic population growth rates
0
Study did not use matrix models to calculate deterministic population growth rates
1
Study did use matrix models to calculate deterministic population growth rates
Stochastic growth rate metric
"Stochastic growth rate metric"--whether a study used matrix models to calculate stochastic population growth rates. 0 indicates that a study did not use matrix models to calculate stochastic population growth rates, 1 indicates that a study did use matrix models to calculate stochastic population growth rates
0
Study did not use matrix models to calculate stochastic population growth rates
1
Study did use matrix models to calculate stochastic population growth rates
Extinction risk metric
"Extinction risk metric"--whether a study used matrix models to calculate extinction risk. 0 indicates that a study did not use matrix models to calculate extinction risk, 1 indicates that a study did use matrix models to calculate extinction risk
0
Study did not use matrix models to calculate extinction risk
1
Study did use matrix models to calculate extinction risk
Transient population dynamics metric
"Transient population dynamics metric"--whether a study used matrices to model transient population dynamics. 0 indicates that a study did not use matrices to model transient population dynamics, 1 indicates that a study did use matrices to model transient population dynamics
0
Study did not use matrices to model transient population dynamics
1
Study used matrices to model transient population dynamics
LTRE metric
"LTRE metric"--whether a study used life table response experiments. 0 indicates that a study did not use life table response experiments, 1 indicates that a study did use life table response experiments
0
Study did not use life table response experiments
1
Study did use life table response experiments
Sensitivity metric
"Sensitivity metric"--whether a study assessed the relative contributions of different vital rates to population growth rate. 0 indicates that a study did not assess the relative contributions of different vital rates to population growth rate, 1 indicates that a study did assess the relative contributions of different vital rates to population growth rate
0
Study did not assess the relative contributions of different vital rates to population growth rate
1
Study assessed the relative contributions of different vital rates to population growth rate
Year
"Year"--publication year
YYYY
1966
2009
Density metric
"Density metric"--whether a publication used density dependence in their study. 0 indicates that a study did not use density dependence, 1 indicates that a study did use density dependence
0
Study did not use density dependence
1
Study used density dependence
434