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Table 1 Number and sources of genomes and sequences used in this study broken down into taxonomic categories

From: The conservation and evolutionary modularity of metabolism

Domain

Taxonomic grouping

Partial genomes

Partial genome sequences

Complete genomes

Complete genome sequences

nrsequences

Total sequences

Archaea

Crenarchaeota

-

-

4

11,120

12,339

23,459

Archaea

Euryarchaeota

-

-

14

30,396

38,863

69,259

Archaea

Archaea - Other

-

-

1

563

3,180

3,743

Archaea

Total

-

-

19

42,079

54,382

96,461

Bacteria

Actinobacteridae

-

-

14

49,608

68,041

117,649

Bacteria

Alphaproteobacteria

-

-

14

48,997

81,233

130,230

Bacteria

Betaproteobacteria

-

-

9

37,184

51,947

89,131

Bacteria

Gammaproteobacteria

-

-

27

94,933

188,458

283,391

Bacteria

Deltaproteobacteria

-

-

4

13,778

15,449

29,227

Bacteria

Epsilonproteobacteria

-

-

4

7,128

16,452

23,580

Bacteria

Cyanobacteria

-

-

6

20,983

32,380

53,363

Bacteria

Firmicutes

-

-

31

72,975

163,215

236,190

Bacteria

Spirochaetes

-

-

4

10,163

18,324

28,487

Bacteria

Bacteria - Other

-

-

14

36,760

61,550

98,310

Bacteria

Total

-

-

127

392,509

697,049

1,089,558

Eukarya

Protist - Alveolata

10

29,707

2

8,691

24,211

62,609

Eukarya

Protist - Euglenozoa/Haptophyceae/Stramenophiles

7

13,846

1*

11,397*

9,484

34,727

Eukarya

Protist - Other

-

-

-

-

12,862

12,862

Eukarya

Protists - Total

17

43,553

3

20,088

46,557

110,198

Eukarya

Fungi - Ascomycota

17

44,358

9

52,271

67,765

164,394

Eukarya

Fungi - Basidiomycota

7

14,785

1

431

10,264

25,049

Eukarya

Fungi - Glomeromycota/Zygomycota

3

3,398

-

-

734

4,132

Eukarya

Fungi - Other

-

-

1

1,996

2,558

4,554

Eukarya

Fungi - Total

27

62,541

10

52,271

78,763

193,575

Eukarya

Metazoa - Lophotrochozoa

4

14,631

-

-

12,416

27,047

Eukarya

Metazoa - Arthropods/Tardigrades

17

22,528

2

33,585

95,953

152,066

Eukarya

Metazoa - Deuterostomes

21

90,244

2

57,406

276,682

424,332

Eukarya

Metazoa - Nematoda

34

95,345

2

39,464

38,657

173,466

Eukarya

Metazoa - Other

-

-

-

-

3,424

3,424

Eukarya

Metazoa - Total

76

222,748

6

130,455

427,132

780,335

Eukarya

Plantae

76

221,896

2

30,533

190,711

443,140

Eukarya

Total

196

550,738

21

233,347

743,163

1,527,248

Total

 

196

550,738

167

667,935

1,494,594

2,713,267

  1. All partial genome sequences were obtained from PartiGeneDB [26]. Complete genome sequences refer to protein coding sequences obtained from the COGENT database [56] with the exception of those marked with an asterix, which represents the genome of Thalassiosira pseudonana, obtained from the Joint Genome Institute [58], and those marked with a dagger, which represent the genome contigs of Coprinopsis cinerea, obtained from the Broad Institute [59].