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. 2011 Feb 10;6(2):e16342. doi: 10.1371/journal.pone.0016342

Table 1. Genome data and 18S rDNA data used for analysis.

Species Database URL Release Gene 18S rDNA sequence
DIPTERA
Aedes aegypti VectorBase http://aaegypti.vectorbase.org/ AaegL1.1 16789 from genome assembly
Culex pipiens VectorBase http://cpipiens.vectorbase.org/ CpipJ1.2 18883 from genome assembly
Drosophila ananassae flybase ftp://ftp.flybase.net/genomes/ r1.3 15070 from genome assembly
Drosophila melanogaster flybase ftp://ftp.flybase.net/genomes/ r5.9 21064 M21017.1
Drosophila erecta flybase ftp://ftp.flybase.net/genomes/ r1.3 15048 from genome assembly
Drosophila yakuba flybase ftp://ftp.flybase.net/genomes/ r1.3 16082 from genome assembly
Drosophila grimshawi flybase ftp://ftp.flybase.net/genomes/ r1.3 14986 from genome assembly
Drosophila willistoni flybase ftp://ftp.flybase.net/genomes/ r1.3 15513 from genome assembly
Drosophila persimilis flybase ftp://ftp.flybase.net/genomes/ r1.3 16878 from genome assembly
Drosophila pseudoobscura flybase ftp://ftp.flybase.net/genomes/ r2.3 16071 AY03717
Drosophila sechellia flybase ftp://ftp.flybase.net/genomes/ r1.3 16471 from genome assembly
Drosophila simulans flybase ftp://ftp.flybase.net/genomes/ r1.3 15415 AY037174.1
VERTEBRATA
Homo sapiens Ensembl http://archive.ensembl.org/ v54 47509 M10098
Pan troglodytes Ensembl http://archive.ensembl.org/ v54 34142 rebuilt from Trace
Mus musculus Ensembl http://archive.ensembl.org/ v38 31986 X00686.1
Rattus norvegicus Ensembl http://archive.ensembl.org/ v54 32948 X01117
Macaca Mulatta Ensembl http://archive.ensembl.org/ v54 36384 rebuilt from Trace
Pongo pygmaeus Ensembl http://archive.ensembl.org/ v54 23533 rebuilt from Trace
Bos Taurus Ensembl http://archive.ensembl.org/ v54 26977 DQ222453.1
Equus caballus Ensembl http://archive.ensembl.org/ v54 22641 AJ311673.1
Gallus gallus Ensembl http://archive.ensembl.org/ v47 22195 AF173612
Xenopus tropicalis Ensembl http://archive.ensembl.org/ v54 27710 from genome assembly
STREPTOPHYTA
Oryza sativa Rice http://rice.plantbiology.msu.edu/ v6 67393 from genome assembly
Sorghum bicolor JGI http://genome.jgi-psf.org/Sorbi1/Sorbi1.download.ftp.html Sbi1_4 34496 from genome assembly
Populus trichocharpa JGI http://genome.jgi-psf.org/ v1.1 45555 from genome assembly
Medicago truncatula Medicago http://www.medicago.org/ 44830 AF093506.1
Arabidopsis thaliana TAIR http://www.arabidopsis.org/index.jsp 27855 X16077.1
Arabidopsis lyrata JGI http://www.jgi.doe.gov/genome-projects/ 32670 from genome assembly
Carica papaya Carica asgpb.mhpcc.hawaii.edu/papaya/ 24782 from genome assembly
Vitis vinifera Genoscope http://www.genoscope.cns.fr/ 30434 from genome assembly
CHLOROPHYTA
Micromonas pusilla CCMP1545 JGI http://www.jgi.doe.gov/genome-projects/ V2 10242 from genome assembly
Micromonas pusilla RCC299 JGI http://www.jgi.doe.gov/genome-projects/ V3 10109 from genome assembly
Ostreococcus lucimarinus JGI http://www.jgi.doe.gov/genome-projects/ v2 7651 from genome assembly
Ostreococcus RCC809 JGI http://www.jgi.doe.gov/genome-projects/ v1 7773 from genome assembly
Bathycoccus prasinos Genoscope http://bioinformatics.psb.ugent.be/ V1 8747 from genome assembly
Ostreococcus tauri Bogas http://bioinformatics.psb.ugent.be/ v2 7725 from genome assembly
SACCHAROMYCETACEAE
Saccharomyces cerevisiae SGD http://www.yeastgenome.org/ 5914 Z75578
Saccharomyces paradoxus MIT http://www.broad.mit.edu/annotation/ 4774 X97806
Saccharomyces mikatae Broad http://fungal.genome.duke.edu/ 5884 AB040998
Saccharomyces kudriavzevi WUSTL http://fungal.genome.duke.edu/ 6371 AACI02000378.1
Saccharomyces bayanus MIT http://www.broad.mit.edu/annotation/ 4492 X97777
Saccharomyces castellii WUSTL http://fungal.genome.duke.edu/ 5864 AACF01000230.1
Lachancea waltii Genolevure http://fungal.genome.duke.edu/ 5350 AADM01000401.1
Lachancea thermotolerans Genolevure http://fungal.genome.duke.edu/ 5092 X89526.1