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Table 2 Origin of archaea, eubacterial, and eukaryotic genome sequences used as a reference for the bioinformatic analysis of putative L-arginine-degrading pathways in cyanobacteria.

From: Bioinformatic evaluation of L-arginine catabolic pathways in 24 cyanobacteria and transcriptional analysis of genes encoding enzymes of L-arginine catabolism in the cyanobacterium Synechocystis sp. PCC 6803

Organism

Origin of genome sequence

Reference sequence

GenBank

Mbps

% GC

Number of Proteins/RNA

Eubacteria

Escherichia coli K-12 MG1655

University of Wisconsin-Madison, U.S.A.; Escherichia coli Genome Project

NC_000913

U00096

4.64

50.8

4243/157

Pseudomonas aeruginosa PAO1

PathoGenesis Corporation, Skokie, U.S.A.;

NC_002516

AE004091

6.30

66.6

5568/81

Pseudomonas fluorescens Pf-5

DOE Joint Genome Institute, U.S.A.

NC_004129

CP000076

7.08

63.3

6137/87

Pseudomonas syringae pv. syringae B728a

DOE Joint Genome Institute, U.S.A.

NC_007005

CP000075

6.09

59.2

5089/83

Bacillus subtilis subsp. subtilis str. 168

Non-redundant B. subtilis database

NC_000964

AL009126

4.22

43.5

4105/119

Bacillus clausii KSM-K16

Kao Corporation, Biological Science Laboraties, Japan

NC_006582

AP006627

4.30

44.8

4096/96

Bacillus halodurans C-125

Extreme Biosphere Research Center MSTC, Japan

NC_002570

BA000004

4.20

43.7

4066/105

Xanthomonas campestris pv. campestris str. ATCC 33913

Sao Paulo (State) Consortium

NC_003902

AE008922

5.08

65.1

4181/61

Corynebacterium glutamicum ATCC 13032

Kitasato University, Kitasato, Japan

NC_003450

BA000036

3.31

53.8

2993/81

Brucella melitensis 16M

Integrated Genomics Inc., Chicago, U.S.A.

NC_003317(chr. I)

AE008917

2.12

57.2

2059/48

  

NC_003318 (chr. II)

AE008918

1.18

57.3

1139/18

Ralstonia solanacearum GMI 1000

Genoscope, Evry cedex, France

NC_003295 (chr.)

AL646052

3.72

67.0

3440/67

  

NC_003296 (plas.)

AL646053

2.10

66.9

1676/7

Higher Plants

Arabidopsis thaliana (thale cress)

Arabidopsis Genome Initiative

NC_003070 (chr. 1)

AE005172

30.43

35.7

7852/7852

  

NC_003071 (chr. 2)

AE002093

19.71

35.9

4853/4853

  

NC_003074 (chr. 3)

BA000014

23.47

36.3

6048/6048

  

NC_003075 (chr. 4)

AJ270058

18.58

36.2

4655/4655

  

NC_003076 (chr. 5)

BA000015

26.99

35.9

7072/7072

  1. A sequence from Synechococcus sp. Yellowstone B JA-2-3B'a 2–13 was used to screen for L-arginine amidinotransferase sequences. The screen for L-arginine oxidase/dehydrogenases was performed with the aoxA sequence from Synechococcus elongatus PCC 6301/PCC 7942.
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BMC Genomics

ISSN: 1471-2164

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