DOI: 10.5061/dryad.9rb13
title: Data from: Cenozoic dynamics of shallow-marine biodiversity in the Western Pacific

description: Aim: Cenozoic dynamics of large-scale species diversity patterns remain
 poorly understood, especially for the Western Pacific, in part, because of
 the paucity of well-dated fossil records from the tropics. This article
 aims to reveal the spatiotemporal dynamics of species diversity in the
 Western Pacific through the Cenozoic, focusing on the tropical
 Indo-Australian Archipelago (IAA) biodiversity hotspot. Location: Tropical
 and north-western Pacific Ocean. Methods: We analysed well-preserved
 fossil ostracodes from the tropical Western Pacific and combined their
 diversity data with other published data from the region to reconstruct
 Cenozoic dynamics of species diversity in the tropical and north-western
 Pacific Ocean. We fitted generalized additive models to test for
 differences in richness over time and across geographical regions while
 accounting for sample-size variation among samples. Results: Low-, mid-
 and high-latitude regions all show a similar diversity trajectory:
 diversity is low in the Eocene and Oligocene, increases from the Early
 Miocene to the Plio-Pleistocene but then declines to the present day.
 Present-day high biodiversity in these regions was established during the
 Pliocene with a remarkable diversity increase at that time. Latitudinal
 diversity patterns are relatively flat and never show a simple decline
 from the tropics to higher latitudes. Main conclusions: Western Pacific
 Cenozoic ostracodes exhibit a spatiotemporal pattern of species diversity
 that is inconsistent with the commonly reported and persistent pattern of
 declining diversity from the tropics to the extratropics. While this
 inconsistency could be interpreted as evidence that ostracodes are a
 contrarian clade, Atlantic ostracodes display a standard latitudinal
 species diversity gradient. Contrasting patterns between oceans suggest an
 important role for regional factors (e.g. plate tectonics and temporal
 geomorphological dynamics) in shaping the biodiversity of the Western
 Pacific.
description: Ostracod
 datasetTable S1 in MS Excel
 format. This is the data file for the R code
 "Yasuharaetal_JB_code.R". This is the entire dataset, and other
 datasets here are a subset of this dataset.Yasuhara_Data_R.xlsR code for GAMsR code used for the general additive models (GAMs), "Yasuharaetal_JB_code.R".Yasuharaetal_JB_code.REocene-Oligocene datasetEocene-Oligocene dataset used for the R code "Indo-Pac_figs.R".Eo_Olig_dataset.xlsxPliocene-Pleistocene datasetPliocene-Pleistocene dataset used for the R code "Indo-Pac_figs.R".PlioPleist_dataset.xlsxModern IAA datasetModern Indo-Australian Archipelago (IAA) dataset used for the R code "Indo-Pac_figs.R".Modern_IAA_dataset.xlsxLate Miocene datasetLate Miocene dataset used for the R code "Indo-Pac_figs.R".LateMio_dataset.xlsxNEJP datasetNortheastern Japan (NEJP) dataset used for the R code "Indo-Pac_figs.R".NEJP_dataset.xlsxSWJP datasetSouthwestern Japan (SWJP) dataset used for the R code "Indo-Pac_figs.R".SWJP_dataset.xlsxIAA datasetIndo-Australian Archipelago (IAA) dataset used for the R code "Indo-Pac_figs.R".IAA_dataset.xlsxEarly Miocene datasetEarly Miocene dataset used for the R code "Indo-Pac_figs.R".EarlyMio_dataset.xlsxMiddle Miocene datasetMiddle Miocene dataset used for the R code "Indo-Pac_figs.R".MidMio_dataset.xlsxModern datasetModern dataset used for the R code "Indo-Pac_figs.R".Modern_dataset.xlsxR code for supplementary figsThe R code used for supplementary figures, "Indo-Pac_figs.R".Indo-Pac_figs.R