cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.gs45f/16
title: F10_SchumanBarthelBaldwin2012Manduca

description: Manduca spp. behavior and performance data and analysis, to accompany Figure 10.
DOI: 10.5061/dryad.gs45f/8
title: F5BC_SchumanBarthelBaldwin2012predation

description: Larval and egg predation data and analysis to accompany Figure 5 B and C.
DOI: 10.5061/dryad.gs45f/9
title: F6AB_SchumanBarthelBaldwin2012growth_reproduction2011

description: Growth and reproduction data from plants in the 2011 field experiment to accompany Figure 6 A and B.
DOI: 10.5061/dryad.h37n2/6
title: The effect of infection on TAG and PL profiles
DOI: 10.5061/dryad.j2f5v/1
title: Average human rankings for morphological mimicry, and presence/absence of behavioral mimicry in Syrphidae species
DOI: 10.5061/dryad.p2gq8/1
title: Network data, Dynamic simulation code, and Statistical analysis code
DOI: 10.5061/dryad.rd2s3/4
title: Ants

description: Ant phylogeny of Moreau CS, Bell CD, Vila R, Archibald SB, Pierce NE (2006) Phylogeny of the ants: diversi cationin the age of angiosperms. Science 312: 101-104.
DOI: 10.5061/dryad.rd2s3/5
title: Mammalia

description: The mammal phylogeny of Meredith R, Jane cka J, Gatesy J, Ryder O, Fisher C, et al. (2011) Impacts of the CretaceousTerrestrial Revolution and KPg extinction on mammal diversi cation. Science 334: 521-524.
DOI: 10.5061/dryad.rd2s3/6
title: Snakes

description: The snake phylogeny of Pyron RA, Burbrink FT (2012) Extinction, ecological opportunity, and the origins of global snakediversity. Evolution 66: 163-178.
DOI: 10.5061/dryad.3062c/15
title: fig4E sufC
DOI: 10.5061/dryad.3978f/1
title: HartfieldetalHCVAnalysis

description: README.TXT FOR SIMULATION FILES. This file is the source code for the Phylogenetic analysis used in the Hartfield et al. paper "Evidence that HCV genome partly controls infection outcome". Simulations are written in R (http://www.r-project.org/). Files included are: - HeritibilitySim.R: Simulating trait transmission along a tree. - Randomisation.R: Analysis of the true and randomised tipset data to determine estimates of phylogenetic signal. - BT_Rand.sh: Shell script to automate analysis of randomisation tip analysis. - command.txt: File needed to run BayesTraits analysis from shell prompt. - G1HITS_state.txt: Example tipset file (chronic/clearer outcome for genotype 1 data). See blurb at start of each program for description and how to execute. Please also note that R code uses the 'ape' package for R, which needs to be installed prior to execution. The full analysis also uses the BayesTraits package, available from http://www.evolution.rdg.ac.uk/BayesTraits.html. Comments should be sent to Matthew Hartfield (matthew.hartfield@ird.fr).
DOI: 10.5061/dryad.3dr96/2
title: Fukomys_anselli_genotypes

description: The genotypes of nine microsatellite loci obtained using the fragment analysis (ABI PRISM 3130) and scored using th GeneMapper 3.7. For each individual, its ID, sex, reproductive status, weight and group membership is shown.
DOI: 10.5061/dryad.4g1g0/1
title: Steiger_et_al_2013
DOI: 10.5061/dryad.6v0h65g3/11
title: data_trait_tarsus

description: Table that contains tarsus length phenotypes (3 columns). Ind_ID: identifier of the individual; Tarsus: tarsus length in mm; Sex: sex of the individual (0 = female, 1 = male).
DOI: 10.5061/dryad.6v0h65g3/12
title: data_trait_weight

description: Table that contains adult mass phenotypes (5 columns). Ind_ID: identifier of the individual; Mass: weight in gram; MassCubeRoot: cube-root transformed weight; Sex: sex of the individual (0 = female, 1 = male); Session: identifier for the measuring session.
DOI: 10.5061/dryad.6v0h65g3/13
title: data_microsatellite_genotypes

description: Table that contains microsatellite genotypes (6 columns). Ind_ID: identifier of the individual; InbredYN: whether or not an individual with the offspring a brother-sister mating (1 = true, 0 = false); Locus: locus name; Allele1: allele call of the shorter allele (0 represents null alleles); Allele2: allele call of the longer allele (0 represents null alleles); Heterozygote: whether or not the individual was heterozygous at the given locus (1 = true, 0 = false).
DOI: 10.5061/dryad.6v0h65g3/14
title: data_heterozygosities

description: Table that contains pedigree-based inbreeding coefficient and marker-based heterozygosities (14 columns). Ind_ID: identifier of the individual; InbredYN: whether or not an individual with the offspring a brother-sister mating (1 = true, 0 = false); F: pedigree-based inbreeding coefficient; MLHms: multilocus heterozygosity based on microsatellites; IRms: internal relatedness based on microsatellites; HLms: homozygosity by locus based on microsatellites; d2ms: mean d square based on microsatellites; MLHsnp: multilocus heterozygosity based on SNPs; sMLHsnp: standardized multilocus heterozygosity based on SNPs; IRsnp: internal relatedness based on SNPs; MLHsnp: multilocus heterozygosity based on SNPs; HLsnp: homozygosity by locus based on SNPs; PCirirF: first principle component of F, IRms and IRsnp.
DOI: 10.5061/dryad.868sm/10
title: SEM of NMNH199969 - isolated sclerite containing acicular pyrite
DOI: 10.5061/dryad.868sm/3
title: SEM close-up of NMNH 229901, showing two sclerites
DOI: 10.5061/dryad.868sm/4
title: SEM enlargement of NMNH 229901, showing pustules on sclerites
DOI: 10.5061/dryad.868sm/5
title: SEM enlargement of NMNH 229901, showing relief

description: BSE in shadow mode.
DOI: 10.5061/dryad.868sm/6
title: SEM enlargement of NMNH 229901, showing sclerite with longitudinal pyrite crystals
DOI: 10.5061/dryad.868sm/7
title: SEM enlargement of NMNH 229901 (posterior)

description: Showing ventral sclerites
DOI: 10.5061/dryad.868sm/8
title: SEM of NMNH194274

description: Specimen length ~5mm; dorsal scleritome well preserved, showing ribbing patterns and arrangement of sclerites.  Backscatter (compo)
DOI: 10.5061/dryad.868sm/9
title: SEM of NMNH194274 (BSE - shadow)

description: Specimen length ~5mm; dorsal scleritome well preserved, showing ribbing patterns and arrangement of sclerites.  Backscatter (shadow)
DOI: 10.5061/dryad.95br2/1
title: Survey of adult barnacles and recruits in experimental plots

description: Data from seasonal photo surveys (2008-2010) of the adult barnacles, Jehlius cirratus and Notochthamalus scabrosus, and their non-distigunshed recruits in experimental plots. Estimates of the percent cover of bare space on the rock surface are included. Plots were established and monitored at four localities (Temblador, Guanaqueros, ECIM, and Matanzas) separated by 10s to 100s of km and at three high intertidal elevations (high, mid, and low barnacle zones).
DOI: 10.5061/dryad.95br2/2
title: Barnacle recruitment monitoring 2009-2010

description: Recruitment onto 10x10 cm2 plexiglass plates covered with a standard rugosity surface (Safety Walk, 3M) that were replaced once monthly over the peak recruitment season of 2009-2010 (Nov-Apr).  Five plates were deployed and retrieved from the high, mid, and low barnacle subzones at four localities then taken to the laboratory where newly metamorphosed spat and cyprid larvae were identified to species level under a dissecting microscope. The time plates were exposed in the field varied somewhat depending on tidal cycles and sea conditions.
DOI: 10.5061/dryad.95br2/3
title: Barnacle growth under crowding conditions

description: Size data of adult Jehlius (j) and Notochthamalus (n) collected from experimental plots where focal individuals were photographed seasonally under under three different “crowding conditions”: 1) ‘isolated individuals’ with less than 25% of their shells in contact with neighboring barnacles of any species; 2) ‘conspecific crowding’ individuals that were in aggregated groups, with a minimum of 50% and up to 100% of their shells in contact with other adult individuals of the same species, and 3)  ‘heterospecific crowding’ individuals that were in aggregated groups with  50-100% of their shells in contact with adults of the other species. The maximum opercular carino-rostral length, survival, percent contact with and number of neighboring individuals were recorded roughly every 3 months.
DOI: 10.5061/dryad.9g1ns087/1
title: program

description: C++ simulation program representing an infinite island model with two types of demes, and deleterious mutations occurring at an infinite number of linked loci.
DOI: 10.5061/dryad.cf165/1
title: Microsatellite data and calculated Pairwise distance

description: Raw microsatellite data and the distances calculated in SPAGEDI and CircuitScape
DOI: 10.5061/dryad.cr1c1/1
title: Gecko biomechancis analyses_Jan

description: The R code that analyses the raw data
DOI: 10.5061/dryad.cr1c1/2
title: Array_Height
DOI: 10.5061/dryad.db521/1
title: Wuerschum_and_Kraft_Data

description: Phenotypic and genotypic data underlying this study
DOI: 10.5061/dryad.db521/2
title: Wuerschum_and_Kraft_genetic_map

description: Genetic linkage map underlying this study
DOI: 10.5061/dryad.f385721n/1
title: Crossin et al 2012 MAC data for Dryad

description: Summary of foraging/diving data of female macaroni penguins during the brood-guard phase of the breeding season, and the phsiology of females measured before and after foraging trips. Ancillary (morphometric) data also included.
DOI: 10.5061/dryad.f8669/1
title: Sightability models and data

description: Data and JAGS models associated with the following paper published in Methods in Ecology and Evolution: Fieberg, J., Alexander, M., Tse, S,, and K. St. Clair. 2013. Abundance estimation with sightability data: a Bayesian data augmentation approach.  Methods in Ecology and Evolution.
DOI: 10.5061/dryad.gs45f/17
title: T3_SchumanBarthelBaldwin2012growth_reproduction2011

description: Additonal analysis of the growth and reproduction data for plants in the 2011 field experiment, to accompany Table 4; referred to in the caption for Figure 6.
DOI: 10.5061/dryad.gs45f/18
title: Video-1

description: On-plant assay, plant 7u, WT, June 18, 2011. H.264/MPEG-4 AVC video.
DOI: 10.5061/dryad.gs45f/19
title: Video-2

description: On-plant assay, plant 2o, irPI, June 18, 2011. H.264/MPEG-4 AVC video.
DOI: 10.5061/dryad.gs45f/20
title: Video-3

description: Off-plant assay, replicate 3, WT, June 24, 2011. H.264/MPEG-4 AVC video.
DOI: 10.5061/dryad.gs45f/21
title: Video-4

description: Off-plant assay, replicate 3, irPI, 24th June 2011. H.264/MPEG-4 AVC video.
DOI: 10.5061/dryad.hr620/1
title: Agaonidae_data

description: Agaonidae. Combined matrix of 6 genes. Two nuclear protein-coding genes [F2 copy of elongation factor-1a (EF1a, 516 bp), Wingless (Wg, 403 bp)]; two mitochondrial protein-coding genes [cytochrome c oxidase subunit I (COI, 1536 bp), cytochrome b (Cyt b, 749 bp)] and two ribosomal genes [28S rRNA (D2–D3 and D4–D5 expansion regions, 1520 bp), 18S rRNA (variable regions V3–5, 787 bp)].
DOI: 10.5061/dryad.hr620/2
title: TreeRAxML_Agaonidae

description: ML analyses and associated bootstrapping (1,000 replicates) using the MPI-parallelized RAxML 7.0.4 software (Stamatakis, 2006b). GTRCAT approximation of models (Stamatakis, 2006a) was used for ML boostrapping (1,000 replicates).
DOI: 10.5061/dryad.hr620/3
title: Ficus_data

description: Matrix of using five genes: ITS (891 bp), ETS (528 bp), glyceraldehyde 3-phosphate dehydrogenase (G3pdh, 769 bp), chloroplast expressed glutamine synthetase region (ncpGS, 1630 bp) and granule-bound starch synthase (waxy region, 1734 bp).
DOI: 10.5061/dryad.hr620/4
title: TreeRAxML_Ficus

description: ML analyses and associated bootstrapping (1,000 replicates) using the MPI-parallelized RAxML 7.0.4 software (Stamatakis, 2006b). GTRCAT approximation of models (Stamatakis, 2006a) was used for ML bootstrapping (1,000 replicates.)
DOI: 10.5061/dryad.jq0t8rc4/1
title: dryad
DOI: 10.5061/dryad.m6k89833/1
title: AFLP_Puffer

description: AFLP profiles for 290 Colomesus asellus individuals collected in the Amazon Basin, Brazil. File includes: individual ID, site label, latitude, longitude and presence absence data for 460 AFLP loci. Missing data is denoted by a space.
DOI: 10.5061/dryad.n7j8q/1
title: Cytochrome b matrices

description: zonalecytballindividuals.nex gives the cytochrome b sequence for each individual in the study. zonalecytbmatrix.nex gives the sequence of each cytochrome b haplotype in the study, and is the matrix used to produce Figure 3.
DOI: 10.5061/dryad.n7j8q/2
title: Nuclear Loci - Matrices with sequences for all individuals

description: Sequence matrices for each of the seven nuclear loci in the study. Each matrix includes the full length of each locus sequenced, prior to any removal of portions of the locus due to positive tests for recombination, and also prior to any removal of gaps. Each matrix contains the sequence for both alleles found in each individual which was sequenced at that locus. The name of each sequence is the name of the individual specimen which was sequenced.
DOI: 10.5061/dryad.n7j8q/3
title: Nuclear Loci - Matrices with sequences for each distinct allele, prior to removal of gaps and tests for recombination

description: Sequence matrices for each of the seven nuclear loci in the study. Each matrix includes the full length of each locus sequenced, prior to any removal of portions of the locus due to positive tests for recombination, and also prior to any removal of gaps. Each matrix contains the sequence of each distinct allele found at that locus. The name of each sequence is the name of the allele that sequence represents.
DOI: 10.5061/dryad.n7j8q/4
title: Nuclear Loci - Matrices with sequences for each distinct allele, after removal of gaps and tests for recombination

description: Sequence matrices for each of the seven nuclear loci in the study. Each matrix includes only that part of the locus remaining after removing any portions which resulted in positive tests of recombination, and also after removing gaps found in more than half of all alleles. Each matrix contains the sequence of each distinct allele found at that locus. The name of each sequence is the name of the allele that sequence represents. These matrices are the ones used to create the trees in Figure 4 and Figure S1. zonalenedd4lfinalmatrixsmallerportion.nex is the matrix used to produce Figure S3.
DOI: 10.5061/dryad.pd28pm7n/1
title: Data

description: Data concerning the survival of the different yeast strains after drying treatments and yeast sterol analysis
DOI: 10.5061/dryad.qm44d/1
title: Number of introns and synonymous codon usage order (SCUO) of the 1:1:1 orthologous (n = 6,189) genes among Aedes aegypti, Anopheles gambiae and Culex quinquefasciatus.
DOI: 10.5061/dryad.v1t54/1
title: rcTBI Behavior Archive

description: This zip file includes the raw behavioral and histological data reported in the paper "Repetitive concussive traumatic brain injury interacts with post-injury foot shock stress to worsen social and depression-like behavior in mice". Behavioral tests include cued fear conditioning, contextual fear conditioning, social recognition, tail suspension, and sucrose preference. The histological data consists of counts of Iba1 positive cells in the corpus callosum. Abbreviations: rcTBI - repetitive concussive traumatic brain injury
DOI: 10.5061/dryad.vh49j/1
title: Phylogenies obtained using variety of heterogeneous models
DOI: 10.5061/dryad.vh49j/2
title: 39TaxonSet

description: Alignment data from 39 species in three formats: nucleotide (39TaxonSet_aa), amino acid (39TaxonSet_day) and dayhoff 6 recoded (39TaxonSet_day).
DOI: 10.5061/dryad.28n35/1
title: Dryad

description: Whole genome sequencing reads for the 80 BIGSdb Campylobacter isolates referred to in the associated publication.
DOI: 10.5061/dryad.4r7b7hg1/1
title: tera.cb.rag1.2.concat

description: Fasta formatted file containing the sequence alignment used for all analyses.
DOI: 10.5061/dryad.4r7b7hg1/2
title: terapontidae.diet.content

description: This table contains the proportion of different food items in the diet of each Terapontidae species included. The source of this information is contained in the supplementary material published with the paper.
DOI: 10.5061/dryad.6b183/2
title: Main Sequence Data
DOI: 10.5061/dryad.6b183/3
title: MOTU_BLAST
DOI: 10.5061/dryad.6b183/5
title: Supplement - Montmorency Forest
DOI: 10.5061/dryad.6b183/6
title: Supplement - Aiguebelle_National_Park
DOI: 10.5061/dryad.6b183/7
title: Dryad Read Me File
DOI: 10.5061/dryad.6f3q5/1
title: SSR data

description: SSR genotypes from 5 loci for progeny arrays from  LB SP sites. Numbers are allele size. 0 = missing value
DOI: 10.5061/dryad.6f3q5/2
title: plant traits

description: Plant traits from  LB SP sites. DBH = diameter at 1.3m, Seed = seed quantity (5=high, 1=low), CapL = capsule length, CapW = capsule width, Age = plant age (5=old, 1=young), DistT = distance to nearest tree, T50m = number of trees within 50m, T250m = number of trees within 250m, T250_500m = number of trees 250-500m, T500m = number of trees within 500m, tm-ts = Ritlands multilocus minus single locus outcrossing rate, rp = Ritlands correlated paternity, tm = Ritlands multilocus outcrossing rate, He = heterozygosity, r1 = genetics relatedness to the nearest tree, r5 = genetics relatedness to the nearest 5 trees.
DOI: 10.5061/dryad.7j8c5s5j/1
title: Phylogenetic analysis of 16S and catalase-peroxidase genes from Cyanobacteria
DOI: 10.5061/dryad.7pg045t2/1
title: Agavoideae Polyploidy
DOI: 10.5061/dryad.868sm/11
title: SEM enlargement of NMNH199969 - tip of isolated sclerite containing acicular pyrite
DOI: 10.5061/dryad.868sm/12
title: SEM of NMNH198674, showing acicular pyrite in sclerites
DOI: 10.5061/dryad.868sm/13
title: SEM of NMNH198674, showing acicular pyrite in sclerites - wide field of view
DOI: 10.5061/dryad.868sm/14
title: SEM of NMNH198674, showing acicular pyrite in sclerites - wider field of view

description: Note three-dimensionality of specimen; lower sclerites are out of focus.
DOI: 10.5061/dryad.868sm/15
title: SEM enlargement of NMNH198674, showing well-developed acicular crystals (Fig. 2D)
DOI: 10.5061/dryad.868sm/16
title: SEM enlargement of NMNH198674, showing well-developed acicular crystals in multiple sclerites (Fig. 2D)
DOI: 10.5061/dryad.868sm/17
title: SEM enlargement of NMNH198674, showing distribution of acicular crystals in sclerite ribs
DOI: 10.5061/dryad.868sm/18
title: SEM of NMNH198674, showing sclerites with varying degrees of pyritization; cf. Fig. 2E

description: Region of Fig. 2E in top centre of image
DOI: 10.5061/dryad.868sm/19
title: SEM enlargement of NMNH198674, showing lineations in carbon parallel to acicular pyrite crystals (Fig 2A)
DOI: 10.5061/dryad.bn43b/1
title: Stable isotope and stomach contents from Lough Neagh sticklebacks

description: Stable isotopes values for sticklebacks and macroinvetebrates from the Lough Neagh catchment, Northern Ireland. Additionally includes stomach contents data.
DOI: 10.5061/dryad.bn43b/2
title: Morphological data for Lough Neagh sticklebacks

description: Shape and measured trait data from sticklebacks collected across the Lough Neagh catchment.
DOI: 10.5061/dryad.cr1c1/10
title: 2010-04-30
DOI: 10.5061/dryad.cr1c1/3
title: Array_Area
DOI: 10.5061/dryad.cr1c1/4
title: tokay_analysis_jon
DOI: 10.5061/dryad.cr1c1/5
title: phelsuma_analysis_jon
DOI: 10.5061/dryad.cr1c1/6
title: 2010-05-04
DOI: 10.5061/dryad.cr1c1/7
title: 2010-04-27
DOI: 10.5061/dryad.cr1c1/8
title: 2010-04-28
DOI: 10.5061/dryad.cr1c1/9
title: 2010-04-29
DOI: 10.5061/dryad.d83g1/1
title: data.files

description: Description of 3 data files and associated MatLab files. The data files are named "Field.behavior.data.txt", "Strike.data.txt", and "Lmaculata.raw.digitizing.data.xls". The 2 text files tab delimitated. A detailed description of "Field.behavior.data.txt" can be found in "Field.behavior.Description.txt" in the ReadMe file. A detailed description of the data files "Strike.data.txt" and "Lmaculata.raw.digitizing.data.xls" can be found in "Strike.data.Description" in the ReadMe file. The associated MatLab files are also described in the "Strike.data.Description" text file.
DOI: 10.5061/dryad.hr620/10
title: Appendix S2- wasp material

description: List of Agaonidae and outgroup species included in this study. Voucher numbers, taxonomic information, natural host-fig, sampling localities and GenBank accession numbers are provided.
DOI: 10.5061/dryad.hr620/11
title: Cruaud et al_SI

description: This document comprises the following items:- APPENDIX S3: Additional discussion relative to the phylogenetic position of the genus Tetrapus (Agaonidae).- APPENDIX S4: Review of the literature on fig fossils (leaves, woods, seeds and fruits).- SUPPORTING FIGURES S1-S14.- SUPPORTING TABLES S1-S6.
DOI: 10.5061/dryad.hr620/5
title: Cruaud et al_SI

description: This document comprises the following items:- APPENDIX S1: Additional discussion relative to the phylogenetic position of the genus Tetrapus (Agaonidae).- APPENDIX S2: Review of the literature on fig fossils (leaves, woods, seeds and fruits).- SUPPORTING FIGURES S1-S14.- SUPPORTING TABLES S1-S6.
DOI: 10.5061/dryad.hr620/6
title: BEAST_Agaonidae

description: BEAST control file for Agaonidae
DOI: 10.5061/dryad.hr620/7
title: BEAST_Ficus

description: BEAST control file for Ficus
DOI: 10.5061/dryad.hr620/8
title: TreeBASE:S13315

description: A link to the related TreeBASE study
DOI: 10.5061/dryad.hr620/9
title: Appendix S1-Ficus material

description: List of Ficus and outgroup species included in the present study. Voucher and taxonomic information, sampling localities and GenBank accession numbers are provided. Sequences produced for this study are indicated in bold font.
DOI: 10.5061/dryad.mt2hk/1
title: Powell_etal_TableS1_forDRYAD

description: Microsatellite allele frequencies for the 23 loci analyzed in study for 17 field sites, representing seven hawthorn- and four apple-infesting populations of R. pomonella, and six flowering dogwood fly populations. Collection site and site# are explained in Table 1 and Figs. S1 and 3 of the associated manuscript.. Allele numbers represent the size (in base pairs) of the PCR amplified DNA fragment (including the repeat sequence) generated using locus specific primers for each microsatellite, as determined by capillary electrophoresis on a Beckman-Coulter CEQ8000.  Bolded numbers designate alleles that were pooled together to form one of the two alternative allele classes analyzed at a locus. Summary statistics, heterozygosity H and allelic richness A, calculated using rarefaction standardized to samples of 20 individuals in ADZE 1.0 (Szpeich et al. 2008) are also presented.
DOI: 10.5061/dryad.n7j8q/5
title: Starbeast XML input files for species tree analyses

description: These are the XML files used to produce, in *BEAST, the seven species trees seen in Figure 5 and Figure S2. Figure 5a was produced using the file zonalestarbeastfullintrons30.xml; Figure 5b with zonalestarbeast30.xml, Figure 5c with zonalestarbeastnuclear30.xml, Figure S2a with zonalestarbeasthalfintrons30.xml, Figure S2b with zonalestarbeastdnasp30.xml, Figure S2c with zonalestarbeastcytbcfzonale.xml, and Figure S2d with zonalestarbeastdnaspnuclear30.xml. The codes used to designate individuals in these files may be converted to the names of each individual listed in Appendices S2, S4 and S5 using the files tableofcytochromebsequences.xlsx and tableofnuclearsequences.xlsx.
DOI: 10.5061/dryad.n7j8q/6
title: Beast XML input files for EBSP analyses

description: The XML input files for the Extended Bayesian Skyline Plots presented in Figure 6. ebspuppertennessee.xml is the input file for Figure 6a, ebspuppertennesseenuclear.xml is the input file for Figure 6b, ebspsfholston.xml is the input file for Figure 6c, and ebspclinch.xml is the input file for Figure 6d. The codes used to designate individuals in these files may be converted to the names of each individual listed in Appendices S2, S4 and S5 using the files tableofcytochromebsequences.xlsx and tableofnuclearsequences.xlsx.