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Table 5 Distribution of strain 8004's CDSs and the AHD CDSs by functional categories

From: Comparative and functional genomics reveals genetic diversity and determinants of host specificity among reference strains and a large collection of Chinese isolates of the phytopathogen Xanthomonas campestris pv. campestris

Functional category

Annotated

Spotted

Conserved

AHD

Invalid

ADHs/spotted

C01 Amino acid biosynthesis

115

115

97

16

2

13.91%

C02 Biosynthesis of cofactors, prosthetic groups, carriers

114

113

107

3

3

2.65%

C03 Cell envelope and cell structure

167

165

136

26

3

15.76%

C04 Cellular processes

127

127

110

16

1

12.60%

C05 Central intermediary metabolism

185

184

164

16

4

8.70%

C06 Energy and carbon metabolism

214

214

189

20

5

9.35%

C07 Fatty acid and phospholipid metabolism

80

80

74

4

2

5.00%

C08 Nucleotide metabolism

52

52

48

4

0

7.69%

C09 Regulatory functions

260

260

220

36

4

13.85%

C10 Replication and DNA metabolism

139

139

112

25

2

17.99%

C11 Transport

257

257

226

30

1

11.67%

C12 Translation

254

253

235

18

0

7.11%

C13 Transcription

53

53

45

8

0

15.09%

C14 Mobile genetic elements

138

65

10

53

2

81.54%

C15 Putative pathogenicity factors

305

304

258

46

0

15.13%

   C15.01 Type I secretion system

4

4

4

0

0

0.00%

   C15.02 Type II secretion system

24

24

22

2

0

8.33%

   C15.03 Type III secretion system

27

27

27

0

0

0.00%

   C15.04 Type IV secretion system

19

19

5

14

0

73.68%

   C15.05 Type V secretion system

4

4

4

0

0

0.00%

   C15.06 Sec and TAT system

19

19

18

1

0

5.26%

   C15.07 Type III-effectors and candidates

16

16

8

8

0

50.00%

   C15.08 Host cell wall degrading enzymes

34

33

32

1

0

3.03%

   C15.09 Exopolysaccharides

14

14

14

0

0

0.00%

   C15.10 Lipopolysaccharides

29

29

21

8

0

27.59%

   C15.11 Detoxification

44

44

43

1

0

2.27%

   C15.12 Toxin and adhesin

14

14

10

4

0

28.57%

   C15.13 Quorum sensing

26

26

25

1

0

3.85%

   C15.14 Other pathogenicity factors

31

31

25

6

0

19.35%

C16 Stress adaptation

102

102

92

10

0

9.80%

C17 Undefined category

130

130

101

27

2

20.77%

C18 Hypothetical proteins

1,581

1,573

1,181

372

20

23.65%

Total

4,273

4,186

3,405

730

51

17.44%