Measuring size and composition of species pools: a comparison
of dark diversity estimates

J 2016

Measuring size and composition of species pools: a comparison of dark diversity estimates

DE BELLO, Francesco, Pavel FIBICH, David ZELENÝ, Martin KOPECKÝ, Ondřej MUDRÁK et. al.

Základní údaje

Originální název

Measuring size and composition of species pools: a comparison of dark diversity estimates

Autoři

DE BELLO, Francesco (380 Itálie), Pavel FIBICH (203 Česká republika), David ZELENÝ (203 Česká republika, domácí), Martin KOPECKÝ (203 Česká republika), Ondřej MUDRÁK (203 Česká republika), Milan CHYTRÝ (203 Česká republika, garant, domácí), Petr PYŠEK (203 Česká republika), Jan WILD (203 Česká republika), Dana HOLUBOVÁ (203 Česká republika, domácí), Jiří SÁDLO (203 Česká republika), Petr ŠMILAUER (203 Česká republika), Jan LEPŠ (203 Česká republika) a Meelis PÄRTEL (233 Estonsko)

Vydání

Ecology and Evolution, Wiley, 2016, 2045-7758

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10600 1.6 Biological sciences

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Odkazy

URL

Impakt faktor

Impact factor: 2.440

Kód RIV

RIV/00216224:14310/16:00088319

Organizační jednotka

Přírodovědecká fakulta

DOI

http://dx.doi.org/10.1002/ece3.2169

UT WoS

000379342900020

Klíčová slova anglicky

Beals smoothing; biodiversity monitoring; Biomod; dark diversity; Ellenberg indicator values; method comparison; species distribution modeling

Štítky

AKR, rivok

Příznaky

Mezinárodní význam, Recenzováno

Změněno: 13. 3. 2018 10:25, Mgr. Lucie Jarošová, DiS.

Anotace

V originále

Ecological theory and biodiversity conservation have traditionally relied on the number of species recorded at a site, but it is agreed that site richness represents only a portion of the species that can inhabit particular ecological conditions, that is, the habitat-specific species pool. Knowledge of the species pool at different sites enables meaningful comparisons of biodiversity and provides insights into processes of biodiversity formation. Empirical studies, however, are limited due to conceptual and methodological difficulties in determining both the size and composition of the absent part of species pools, the so-called dark diversity. We used >50,000 vegetation plots from 18 types of habitats throughout the Czech Republic, most of which served as a training dataset and 1083 as a subset of test sites. These data were used to compare predicted results from three quantitative methods with those of previously published expert estimates based on species habitat preferences: (1) species co-occurrence based on Beals’ smoothing approach; (2) species ecological requirements, with envelopes around community mean Ellenberg values; and (3) species distribution models, using species environmental niches modeled by Biomod software. Dark diversity estimates were compared at both plot and habitat levels, and each method was applied in different configurations. While there were some differences in the results obtained by different methods, particularly at the plot level, there was a clear convergence, especially at the habitat level. The better convergence at the habitat level reflects less variation in local environmental conditions, whereas variation at the plot level is an effect of each particular method. The co-occurrence agreed closest the expert estimate, followed by the method based on species ecological requirements. We conclude that several analytical methods can estimate species pools of given habitats. However, the strengths and weaknesses of different methods need attention, especially when dark diversity is estimated at the plot level.

Návaznosti

GB14-36079G, projekt VaV

Název: Centrum analýzy a syntézy rostlinné diverzity (PLADIAS) (Akronym: PLADIAS)

Investor: Grantová agentura ČR, Centrum analýzy a syntézy rostlinné diverzity

Citovat

DE BELLO, Francesco, Pavel FIBICH, David ZELENÝ, Martin KOPECKÝ, Ondřej MUDRÁK, Milan CHYTRÝ, Petr PYŠEK, Jan WILD, Dana HOLUBOVÁ, Jiří SÁDLO, Petr ŠMILAUER, Jan LEPŠ a Meelis PÄRTEL. Measuring size and composition of species pools: a comparison of dark diversity estimates. Ecology and Evolution. Wiley, 2016, roč. 6, č. 12, s. 4088-4101. ISSN 2045-7758. Dostupné z: https://dx.doi.org/10.1002/ece3.2169.

@article{1359876,
   author = {de Bello, Francesco and Fibich, Pavel and Zelený, David and Kopecký, Martin and Mudrák, Ondřej and Chytrý, Milan and Pyšek, Petr and Wild, Jan and Holubová, Dana and Sádlo, Jiří and Šmilauer, Petr and Lepš, Jan and Pärtel, Meelis},
   article_number = {12},
   doi = {http://dx.doi.org/10.1002/ece3.2169},
   keywords = {Beals smoothing; biodiversity monitoring; Biomod; dark diversity; Ellenberg indicator values; method comparison; species distribution modeling},
   language = {eng},
   issn = {2045-7758},
   journal = {Ecology and Evolution},
   title = {Measuring size and composition of species pools: a comparison of dark diversity estimates},
   url = {http://onlinelibrary.wiley.com/doi/10.1002/ece3.2169/full},
   volume = {6},
   year = {2016}
}

TY  - JOUR
ID  - 1359876
AU  - de Bello, Francesco - Fibich, Pavel - Zelený, David - Kopecký, Martin - Mudrák, Ondřej - Chytrý, Milan - Pyšek, Petr - Wild, Jan - Holubová, Dana - Sádlo, Jiří - Šmilauer, Petr - Lepš, Jan - Pärtel, Meelis
PY  - 2016
TI  - Measuring size and composition of species pools: a comparison of dark diversity estimates
JF  - Ecology and Evolution
VL  - 6
IS  - 12
SP  - 4088-4101
EP  - 4088-4101
PB  - Wiley
SN  - 20457758
KW  - Beals smoothing
KW  - biodiversity monitoring
KW  - Biomod
KW  - dark diversity
KW  - Ellenberg indicator values
KW  - method comparison
KW  - species distribution modeling
UR  - http://onlinelibrary.wiley.com/doi/10.1002/ece3.2169/full
N2  - Ecological theory and biodiversity conservation have traditionally relied on the number of species recorded at a site, but it is agreed that site richness represents only a portion of the species that can inhabit particular ecological conditions, that is, the habitat-specific species pool. Knowledge of the species pool at different sites enables meaningful comparisons of biodiversity and provides insights into processes of biodiversity formation. Empirical studies, however, are limited due to conceptual and methodological difficulties in determining both the size and composition of the absent part of species pools, the so-called dark diversity. We used >50,000 vegetation plots from 18 types of habitats throughout the Czech Republic, most of which served as a training dataset and 1083 as a subset of test sites. These data were used to compare predicted results from three quantitative methods with those of previously published expert estimates based on species habitat preferences: (1) species co-occurrence based on Beals’ smoothing approach; (2) species ecological requirements, with envelopes around community mean Ellenberg values; and (3) species distribution models, using species environmental niches modeled by Biomod software. Dark diversity estimates were compared at both plot and habitat levels, and each method was applied in different configurations. While there were some differences in the results obtained by different methods, particularly at the plot level, there was a clear convergence, especially at the habitat level. The better convergence at the habitat level reflects less variation in local environmental conditions, whereas variation at the plot level is an effect of each particular method. The co-occurrence agreed closest the expert estimate, followed by the method based on species ecological requirements. We conclude that several analytical methods can estimate species pools of given habitats. However, the strengths and weaknesses of different methods need attention, especially when dark diversity is estimated at the plot level.
ER  -

DE BELLO, Francesco, Pavel FIBICH, David ZELENÝ, Martin KOPECKÝ, Ondřej MUDRÁK, Milan CHYTRÝ, Petr PYŠEK, Jan WILD, Dana HOLUBOVÁ, Jiří SÁDLO, Petr ŠMILAUER, Jan LEPŠ a Meelis PÄRTEL. Measuring size and composition of species pools: a comparison of dark diversity estimates. \textit{Ecology and Evolution}. Wiley, 2016, roč.~6, č.~12, s.~4088-4101. ISSN~2045-7758. Dostupné z: https://dx.doi.org/10.1002/ece3.2169.

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