Data from: Disparity in taxonomic and functional diversity of amphibians and reptiles in a tropical region of central Mexico
Data files
Jul 15, 2025 version files 49.44 KB
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Data_Biotropica.xlsx
26.93 KB
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Diaz-Marin_et_al.R
15.43 KB
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README.md
7.08 KB
Abstract
Currently, land conversion for cultivation, livestock raising, and plantations (i.e., land-use change) is a significant threat to global biodiversity, especially in tropical forests. Hence, this study analyzes the differences in taxonomic and functional alpha and beta diversities of amphibians and reptiles among three land-uses (montane cloud forest, rainforest, and pastures) in central Mexico. Hill numbers were used to calculate both alpha taxonomic and functional diversity, while beta taxonomic and functional diversity were calculated considering their turnover and nestedness components; in addition, we identify functional groups for each taxa. Amphibian taxonomic and functional diversity was similar among land-uses, whereas reptile taxonomic and functional diversity was higher in forests than in pastures. We found high beta taxonomic diversity of herpetofauna among all land-uses, where turnover was the predominant component. However, beta functional diversity was low and functional nestedness predominated in most cases. Likewise, the abundance of reptile and amphibian functional groups differed among land-use types. We suggest that species ecological resilience, homogeneous species distribution, and environmental filters may explain these taxonomic and functional diversity patterns of herpetofauna. Finally, researchers are encouraged to consistently document and publish morphological, reproductive, behavioral, and ecological data on tropical amphibians and reptiles to support current and future studies on the functional diversity of herpetofauna.
Dataset DOI: 10.5061/dryad.v15dv427r
Description of the data and file structure
The current data support the results of our analyses, the components of alpha and beta of taxonomic and functional diversity for amphibians and reptiles in Molango de Escamilla, Hidalgo, Mexico.
Files and variables
- In "Amphibians" sheet: all columns are amphibian species names. Species are Aquiloeurycea cephalica (A.cephalica), Charadrahyla taeniopus, (C.taeniopus), Craugastor decoratus (C.decoratus), Craugastor rhodopis (C.rhodopis), Dryophytes eximius (D.eximius), Eleutherodactylus longipes (E.longipes), Eleutherodactylus verrucipes (E.verrucipes), Incilius valliceps (I.valliceps), Lithobates berlandieri (L.berlandieri), Lithobates johni (L.johni), Pseudoeurycea altamontana (P.altamontana), Rheohyla miotympanum (R.miotympanum), Rhinella horribilis (R.horribilis), Smilisca baudinii (S.baudinii), and Trachycephalus vermiculatus (T.vermiculatus).
- In "Reptiles" sheet: all columns are reptile species names. Species are Abronia taeniata (A.taeniata), Adelphicos quadrivirgatum (A. quadrivirgatum), Anolis naufragus (A.naufragus), Anolis petersii (A.petersii), Anolis sericeus (A.sericeus), Barisia imbricata (B.imbricata), Boa imperator (B. imperator), Bohtrops asper (B.asper), Coluber constrictor (C.constrictor), Corytophanes hernandesii (C.hernandesii), Drymarchon melanurus (D.melanurus), Drymobius margaritiferus (D.margaritiferus), Geophis semidoliatus (G.semidoliatus), Gerrhonotus liocephalus (G.liocephalus), Hemidactylus frenatus (H.frenatus), Holcosus undulatus (H.undulatus), Kinosternon herrerai (K.herrerai), Lampropeltis polyzona (L.polyzona), Lepidophyma sylvaticum (L.sylvaticum), Leptodeira maculata (L.maculata), Leptodeira septentrionalis (L.septentrionalis), Leptophis mexicanus (L.mexicanus), Metlapilcoatlus borealis (M.borealis), Masticophis schotti (M.schotti), Micrurus diastema (M.diastema), Nerodia rhombifer (N.rhombifer), Plestiodon lynxe (P.lynxe), Sceloporus grammicus (S.grammicus), Sceloporus serrifer (S.serrifer), Sceloporus variabilis (S.variabilis), Scincella gemmingeri (S.gemmingeri), Scincella silvicola (S.silvicola), Spilotes pullatus (S.pullatus), Storeria dekayi (S.dekayi), Thamnophis eques (T.eques), Thamnophis proximus (T.proximus), Thamnophis sumichrasti (T.sumichrasti), Geophis sartorii (G.sartorii), and Xenosaurus tzacualtipantecus (X.tzacualtipantecus).
- In "Amphibians_Traits" sheet: variables are amphibian functional traits, which are snout-vent length (SVL), litter size (littersize), ecological reproductive mode (ERM), development type (Development), habit type (Habit), fedding type (Feedingtype), microhabitat type (Microhabitat), skin type (skin), and Digit type (Digits).
- In "Reptiles_Traits" sheet: variables are reptile functional traits, which are snout-vent length (SVL), clutch/litter size (Clutchsize), phrysiological reproductive mode (PRM), habit type (Habit), feeding type (Feedingtype), microhabitat type (Microhabitat), foraging strategy (Foragingstrategy), activity cyle (activity cyle).
- In "Amphibians_pa" sheet: all columns are amphibian species names. Species are as in the first sheet.
- In "Reptiles_pa" sheet: all columns are reptile species names. Species are as in the second sheet.
- In "BT.amphibians" sheet: "Area" are pairwise comparisons between land-use types, "Dis" is the obtained dissimilarity values for amphibian taxonomic diversity, and "Comp" is the component that was important in explaining the obtained dissimilarity value.
- In "BF.amphibians" sheet: "Area" are pairwise comparisons between land-use types, "Dis" is the obtained dissimilarity values for amphibian functional diversity, and "Comp" is the component that was important in explaining the obtained dissimilarity value.
- In "BT.reptiles" sheet: "Area" are pairwise comparisons between land-use types, "Dis" is the obtained dissimilarity values for reptile taxonomic diversity, and "Comp" is the component that was important in explaining the obtained dissimilarity value.
- In "BF.reptiles" sheet: "Area" are pairwise comparisons between land-use types, "Dis" is the obtained dissimilarity values for reptile functional diversity, and "Comp" is the component that was important in explaining the obtained dissimilarity value.
- In "GF.amphibians" sheet: "Landuse" is the land-use category, "Abund" is the abundance of each amphibian functional group, and "FG" is the functional group, which corresponds to the first (FG1), second (FG2), third (FG3), and fourth (FG4) functional groups.
- In "4GF.amphibians" sheet: the first column correspond to amphibian functional groups, while the second, third, and fourth are the analyzed land-use types.
- In "GF.reptiles" sheet: "Landuse" is the land-use category, "Abund" is the abundance of each reptile functional group, and "FG" is the functional group, which corresponds to the first (FG1), second (FG2), third (FG3), and fourth (FG4) functional groups.
- In "4GF.reptiles" sheet: the first column correspond to reptile functional groups, while the second, third, and fourth are the analyzed land-use types.
File: Data_Biotropica.xlsx
Description:
Variables
- The first sheet "Amphibians" is a database of the abundance of amphibians in each land use
- The second sheet "Reptiles" is a database of the abundance of reptiles in each land use
- The third sheet "Amphibians_Traits" is a database of functional traits of amphibians
- The fourth sheet "Reptiles_Traits" is a database of functional traits of reptiles
- The fifth sheet "Amphibians_pa" is a database of the presence-absence of amphibians in each land use
- The sixth sheet "Reptiles_pa" is a database of the presence-abscense of reptiles in each land use
- The seventh sheet "BT.amphibians" are the results of beta taxonomic diversity of amphibians.
- The eighth sheet "BF.amphibians" are the results of beta functional diversity of amphibians.
- The nineth sheet "BT.reptiles" are the results of beta taxonomic diversity of amphibians.
- The tenth sheet "BF.reptiles" are the results of beta functional diversity of reptiles
- The eleventh sheet "GF.amphibians" are the results of amphibian functional groups
- The twelfth sheet "4GF.amphibians" is the abundance of the amphibian functional groups in three land uses.
- The thirteenth "GF.reptiles" are the results of reptile functional groups
- The fourteenth "4GF.reptiles" is the abundance of the reptile functional groups in three land uses.
The Excel file will help to run the R script named "Diaz-Marin et al"
File Diaz-Marin_et_al.R
Description:
This file is the R script to be used in R free software. This script processes trait and abundance data of amphibians and reptiles to estimate and visualize taxonomic and functional diversity across different land uses.