Data from: Data for habitat quality or quantity? Niche marginality across 21 plants and animals suggests differential responses between highland and lowland species to past climatic changes
Data files
May 29, 2024 version files 663.13 MB
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Ecological_Niche_Models.zip
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Occurrences.zip
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README.md
Abstract
Climatic changes can affect species distributions, population abundance, and evolution. Such organismal responses could be determined by the amount and quality of available habitats, which can vary independently. In this study, we assessed changes in habitat quantity and quality independently to generate explicit predictions of the species’ responses to climatic changes between Last Glacial Maximum (LGM) and present day. We built ecological niche models and distribution models for 21 reptile, mammal, and plant taxa from the Baja California peninsula inhabiting lowland or highland environments. Geological data suggests the CCSM global circulation model is a better representation of LGM climate for the Baja California peninsula. Significant niche divergence was detected for all clades within species, along with significant differences in the niche breadth and area of distribution between northern and southern clades. Most clades showed a reduction in distribution area towards LGM. Further, niche marginality (used as a measure of habitat quality) was higher during LGM for most clades, except for northern highland species. Our results suggest that changes in habitat quantity and quality can affect organismal response independently. This allows the prediction of genomic signatures associated with changes in effective population size and selection pressure that could be explicitly tested to support our models.
README: Data from: Data for Habitat quality or quantity? Niche marginality across 21 plants and animals suggests differential responses between highland and lowland species to past climatic changes
This dataset includes:
- "Occurrences.zip": Occurrence records for 21 taxa of plant, mammal and reptile on the Baja California Peninsula used for ecological niche model analyses.
File list:
*Callisaurus_draconoides_1.csv
*Callisaurus_draconoides_2.csv
*Callisaurus_draconoides_3.csv
*Callisaurus_draconoides_4.csv
*Callisaurus_draconoides_5.csv
*Chaetodipus_arenarius_1.csv
*Chaetodipus_arenarius_2.csv
*Chaetodipus_spinatus_1.csv
*Chaetodipus_spinatus_2.csv
*Crotaphytus_vestigium_1.csv
*Crotaphytus_vestigium_2.csv
*Dipodomys_merriami_1.csv
*Dipodomys_merriami_2.csv
*Dipodomys_merriami_3.csv
*Dipodomys_merriami_4.csv
*Elgaria_1.csv
*Elgaria_2.csv
*Elgaria_3.csv
*Encelia_farinosa_1.csv
*Encelia_farinosa_2.csv
*Fouquieria_columnaris_1.csv
*Fouquieria_columnaris_2.csv
*Neotoma_bryanti_1.csv
*Neotoma_bryanti_2.csv
*Otospermophilus_1.csv
*Otospermophilus_2.csv
*Peromiscus_maniculatus_1.csv
*Petrosaurus_repens_1.csv
*Petrosaurus_repens_2.csv
*Petrosaurus_repens_3.csv
*Pinus_1.csv
*Pinus_2.csv
*Plestiodon_1.csv
*Plestiodon_2.csv
*Sceloporus_orcutti_1.csv
*Sceloporus_orcutti_2.csv
*Sceloporus_zosteromus_1.csv
*Sceloporus_zosteromus_2.csv
*Sorex_ornatus_1.csv
*Spilogale_gracilis_1.csv
*Stenocereus_gummosus_1.csv
*Urosaurus_nigricaudus_1.csv
*Urosaurus_nigricaudus_2.csv
*Urosaurus_nigricaudus_3.csv
*Urosaurus_nigricaudus_4.csv
*Uta_stansburiana_1.csv
**Uta_stansburiana_2.csv
Each ".csv" file includes the following columns:
*species: Species name
*longitude: Decimal longitude
**latitude: Decimal latitude
- "Ecological_Niche_Models.zip": Raster outputs from distribution models for present day and LGM climate for all 21 taxa.
Subfolder structure:
*Callisaurus draconoides
*Callisaurus draconoides_1
***Callisaurus draconoides_2
*Callisaurus draconoides_3
***Callisaurus draconoides_4
*Callisaurus draconoides_5
*Chaetodipus_arenarius
*Chaetodipus_arenarius_1
*Chaetodipus_arenarius_2
*Chaetodipus_spinatus
*Chaetodipus_spinatus_1
*Chaetodipus_spinatus_2
*Crotaphytus_vestigium
*Crotaphytus_vestigium_1
*Crotaphytus_vestigium_2
*Dipodomys_merriami
*Dipodomys_merriami_1
***Dipodomys_merriami_2
*Dipodomys_merriami_3
*Elgaria
*Elgaria_1
***Elgaria_2
*Elgaria_3
*Encelia_farinosa
*Encelia_farinosa_1
*Encelia_farinosa_2
*Fouquieria_columnaris
*Fouqueria_columnaris_1
*Fouqueria_columnaris_2
*Neotoma_bryanti
*Neotoma_bryanti_1
*Neotoma_bryanti_2
*Otospermophilus
*Otospermophilus_1
*Otospermophilus_2
*Peromiscus_maniculatus
*Permoiscus_maniculatus_1
*Petrosaurus_repens
*Petrosaurus_repens_1
***Petrosaurus_repens_2
*Petrosaurus_repens_3
*Pinus
*Pinus_1
*Pinus_2
*Plestiodon
*Plestiodon_1
*Plestiodon_2
*Sceloporus_orcutti
*Sceloporus_orcutti_1
*Sceloporus_orcutti_2
*Sceloporus_zosteromus
*Sceloporus_zosteromus_1
*Sceloporus_zosteromus_2
*Sorex_ornatus
*Sorex_ornatus_1
*Spilogale_gracilis
*Spilogale_gracilis_1
*Stenocereus_gummosus
*Stenocereus_gummosus_1
*Urosaurus_nigricaudus
*Urosaurus_nigricaudus_1
***Urosaurus_nigricaudus_2
*Urosaurus_nigricaudus_3
*Urosaurus_nigricaudus_4
*Uta_stansburiana
*Uta_stansburiana_1
**Uta_stansburiana_2
*Each subfolder includes the following files (replacing "Genus", "species" and "clade" accordingly):
Genus_species_clade.asc: Suitability raster generated from the niche model
Genus_species_clade_bin.asc: Binarized suitability using a 10% omission threshold
Genus_species_clade_LGM_CCSM.asc: Suitability projected to LGM climate with the CCSM GCM
Genus_species_clade_LGM_MIROC.asc: Suitability projected to LGM climate with the MIROC GCM