DOI: 10.5061/dryad.wwpzgmstk
title: Data from: Early colonization of New Caledonia by ultrasonic crickets from New Guinea (Orthoptera: Gryllidae: Eneopterinae): Historical biogeography and description of a new genus

description: New Caledonian crickets of the tribe Lebinthini are renowned for their
 high endemicity and their use of high-frequency calling songs. While
 previous studies have found them to originate from New Guinea around 30
 Ma, recent discoveries of new lineages of Lebinthini in New Caledonia and
 in Australia questioned this result. Here, we describe Kanakinthus
 koniambo Le Flanchec & Robillard gen. et sp.nov., a new genus and
 species endemic to New Caledonia. We also describe three new species of
 the endemic genus Agnothecous: A. anonymous Le Flanchec, Vendanger
 & Robillard sp.nov., A. borendyi Le Flanchec, Vendanger &
 Robillard sp.nov. and A. kwakwe Le Flanchec, Vendanger & Robillard
 sp.nov. We include these new taxa and the Australian Lebinthini in a
 molecular phylogeny of the subfamily Eneopterinae, estimate their
 divergence times and reconstruct their historical biogeography. Our
 results confirm the monophyly of the clade endemic to New Caledonia and
 its origin from a single colonization event from New Guinea, around 30 Ma,
 shortly after the archipelago completely re-emerged in its current
 configuration, 34 Ma. We also infer an independent colonization of
 Australia by the genus Julverninthus from New Guinea, around 25 Ma.
description: # Data from: Early colonization of New Caledonia by ultrasonic crickets
 from New Guinea (Orthoptera: Gryllidae: Eneopterinae): Historical
 biogeography and description of a new genus Dataset DOI:
 [10.5061/dryad.wwpzgmstk](10.5061/dryad.wwpzgmstk) ## Description of the
 data and file structure Scripts, datasets, and results of the phylogenetic
 and biogeographic analyses These are the raw results of our biogeographic
 analyses (**File_S1.BioGeoBEARS_results.pdf**), the R sript we used
 (**Eneopterinae_biogeobears_script.R**), the dated Eneopterinae phylogeny
 (**Dated_tree.newick**), the geographic distribution of species
 (**Distribution.data**), the time periods (**time_periods.txt**), the
 area-adjacency matrix (**areas_adjacency.txt**), the areas allowed matrix
 (**areas_allowed.txt**), the dispersal multipliers matrix
 (**dispersal_multipliers.txt**), the sequences we used for our
 phylogenetic analyses (**IQTREE2_Eneopterinae.fasta**), the partitions we
 used (**IQTREE2_Eneopterinae_partitions.nexus**), the raw maximum
 likelihood tree (**IQTREE2_Eneopterinae.tre**), the MrBayes script
 (**MrBayes_Eneopterinae.nexus**), the raw bayesian inference tree
 (**MRBAYES_Eneopterinae.tre**), and the BEAST script
 (**BEAST_Eneopterinae.xml**). ## Descriptions
 **File_S1.BioGeoBEARS_results.pdf** Reconstructions of the historical
 biogeography of Eneopterinae, for each of the six models implemented in
 BioGeoBEARS: DEC, DEC+J, DIVALIKE, DIVALIKE+J, BAYAREALIKE and
 BAYAREALIKE+J. Letters correspond to the eight biogeographic areas we
 included: New Caledonia, excluding the Loyalty islands (A); Australia (B);
 New Guinea (C); Indomalaya (D); Palearctic (E); sub-Saharan Africa (F);
 Neotropics (G) and Southwest Pacific, including the Loyalty islands (H).
 **Eneopterinae_biogeobears_script.R** The R script we used to carry out
 historical biogeography analyses with BioGeoBEARS, with sections for each
 of the six implemented models. **Dated_tree.newick** Dated phylogeny of
 Eneopterinae, obtained with BEAST. Format is directly compatible with the
 R script provided here. **Distribution.data** For each species included in
 the dated phylogeny, presence (1) or absence (0) in each of the eight
 biogeographic areas included in our historical biogeography analyses.
 **time_periods.txt** The time intervals we defined for historical
 biogeography analyses. Unit is millions of years ago (Ma).
 **areas_adjacency.txt** Area-adjacency matrix, in which we specified which
 combinations of two areas are allowed in each time slice. We allowed
 states consisting of two areas only when the areas are either connected by
 land or separated by shallow water. 1 is allowed, 0 is not.
 **areas_allowed.txt** Areas allowed matrix, specifying that NC was drowned
 in the 75–60 Ma time slice and should therefore not be authorized in the
 analyses. **dispersal_multipliers.txt** Dispersal multiplier matrix for
 each time slice, with the following dispersal probabilities: 1.0 for areas
 connected by land, 0.75 for areas separated by shallow water and 0.01 for
 long-distance-dispersal (LDD). **IQTREE2_Eneopterinae.fasta** Concatenated
 sequences from eight molecular markers, five mitochondrial markers (COX1,
 COX2, Cytb, 12S, 16S) and three nuclear markers (18S, 28S, H3), for 85
 eneopterine species and 1 outgroup species.
 **IQTREE2_Eneopterinae_partitions.nexus** Partition file we included in
 the IQTREE2 analysis, from which ModelFinder found the best partition
 scheme and the best-fit model for each partition.
 **IQTREE2_Eneopterinae.tre** Raw output tree from the IQTREE2 maximum
 likelihood analysis. Branch support was assessed using 1000
 Shimodaira-Hasegawa approximate likelihood ratio test (SH-aLRT) replicates
 and 1000 non-parametric Ultrafast Bootstrap (UFBoot) replicates.
 **MRBAYES_Eneopterinae.nexus** The script we used for our bayesian
 inference analysis using MrBayes. **MRBAYES_Eneopterinae.tre** Raw output
 tree from the MrBayes bayesian inference analysis. Branch support is
 provided by clade posterior probabilities (PP). **BEAST_Eneopterinae.xml**
 The script we used for our molecular dating analyses using BEAST. ##
 Code/software Archives contain .txt and sheet files and R scripts runnable
 using the package biogeobears. Phylogenetic data files and scripts can all
 be opened usign .txt; tre file correspond to phylogenetic trees that can
 be opened using the software FigTree. **Software versions :** \- MrBayes
 v.3.2.7 \- IQTREE2 v.2.2.2.6 \- BEAST v.1.10.4 \- R v.4.3.0 \- BioGeoBEARS
 v.1.1.3