Phylogenetic endemism and ancestral area inference reveal historical refugia in the Greater Cape Floristic Region

Aim: Refugial areas and habitats are thought to have played a key role in facilitating both the emergence and persistence of floristic diversity in the Greater Cape Floristic Region (GCFR) of South Africa. While refugial areas may be identified using a diversity of biological proxies (e.g., narrow-range endemism; paleoendemism), there is a shortage of studies in the GCFR that apply these approaches at the species level and in a comparative manner across multiple clades.
Location: GCFR, South Africa.
Time Period: Cenozoic.
Major Taxa Studied: Protea, Leucadendron, Pentameris, Restionoideae.
Methods: We quantify and compare the spatial distribution of phylogenetic endemism (PE) in four Cape-centric plant clades, two clades of shallow-rooted graminoids (Poales) and two of deep-rooted shrubs (Proteales). For each clade, we also quantify the phylogenetic effect on PE (PPE), a metric describing the contribution of evolutionarily distinctive species (paleoendemics) to PE. Spatial moving a..., See manuscript related to this dataset for a detailed description of the methodology., , # Phylogenetic endemism and ancestral area inference reveal historical refugia in the Greater Cape Floristic Region

van Blerk, J.J.; Verboom, G.A.; Cramer, M.D.; Lamberton, L.

**Description of the data and file structure**

**File: Phylogenetic_endemism_paper_data.zip**

**Folders**

**DATA Climate stability index (past)**

csi_past.tif

Used for the spatial moving average models determining whether phylogenetic endemism (PE) and the phylogenetic effect on PE (PPE) corresponds with areas of high climate stability since the Pliocene.

**DATA Environmental layers**

* **Chelsa bioclimatic data**

File 1: CHELSA_bio10_01.tif

File 2: CHELSA_bio10_02.tif

File 3: CHELSA_bio10_03.tif

File 4: CHELSA_bio10_04.tif

File 5: CHELSA_bio10_05.tif

File 6: CHELSA_bio10_06.tif

File 7: CHELSA_bio10_07.tif

File 8: CHELSA_bio10_08.tif

File 9: CHELSA_bio10_09.tif

File 10: CHELSA_bio10_011.tif

File 11: CHELSA_bio10_011.tif

File 12: CHELSA_bio10_012.tif

File 13: CHELSA_bio10_013.tif

File 14: CHE...,