Table 1

List of species genomes analysed in the present study together with basic information on the genome assembly.

Species

Genome size [Mb]

CG content

Evolutionary domain

genome assembly version

source


Daphnia pulex

197.3

40.8%

animal/arthropoda

Dappu v1.1 (dpulex_jgi060905)

http://genome.jgi-psf.org/Dappu1/Dappu1.home.html webcite

Drosophila melanogaster

168.7

41.7%

animal/arthropoda

dmel_r5.5_FB2008_01

ftp://ftp.flybase.net/genomes webcite

Apis mellifera

228.6

32.8%

animal/arthropoda

Amel_2.0

ftp://ftp.hgsc.bcm.tmc.edu/pub/data/Amellifera/fasta/Amel20050120-freeze webcite

Apis mellifera

235.2

32.7%

animal/arthropoda

Amel_4.0

ftp://ftp.hgsc.bcm.tmc.edu/pub/data/Amellifera/fasta/Amel20060310-freeze webcite

Caenorhabditis elegans

100.3

35.4%

animal/nematoda

CaeEle-WS160

ftp://ftp.wormbase.org/pub/wormbase/ webcite

Homo sapiens

3080.4

40.9%

animal/vertebrata

build 36.2

ftp://ftp.ncbi.nih.gov/genomes/ webcite

Mus musculus

2644.1

41.8%

animal/vertebrata

build 36.1

ftp://ftp.ncbi.nih.gov/genomes/ webcite

Gallus gallus

1031.9

41.3%

animal/vertebrata

build 2.1

ftp://ftp.ncbi.nih.gov/genomes/ webcite

Arabidobsis thaliana

119.2

36.0%

plant/magnoliophytha

build 6.0

ftp://ftp.ncbi.nih.gov/genomes/ webcite

Thalassiosira pseudonana

31.3

46.9%

stramopiles/bacillariophytha

v3.031306

http://genome.jgi-psf.org/Thaps3/ webcite

Ostreococcus lucimarinus

13.2

60.4%

viridiplantae/chlorophyta

v2.0

http://genome.jgi-psf.org/Ost9901_3/ webcite

Neurospora crassa

39.2

49.3%

fungi/ascomycota

release 7

http://www.broadinstitute.org/annotation/genome/neurospora/MultiHome.html webcite

Saccharomyces cerevisiae

12.1

38.3%

fungi/ascomycota

build 2.1

ftp://ftp.ncbi.nih.gov/genomes/ webcite


For A. mellifera the TR analysis of the complete genome was performed with assembly version 4.0, whereas analysis of the genomic regions was performed with assembly version 2.0 since the annotated features have not yet been officially mapped to the newer assembly.

Mayer et al. BMC Genomics 2010 11:277   doi:10.1186/1471-2164-11-277

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