DOI: 10.5061/dryad.v15dv427r
title: Data from: Disparity in taxonomic and functional diversity of amphibians and reptiles in a tropical region of central Mexico

description: 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.
description: # Disparity in taxonomic and functional diversity of amphibians and
 reptiles in a tropical region of central Mexico Dataset DOI:
 [10.5061/dryad.v15dv427r](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.