Table 2

NaCl-responsive transcripts related to osmoprotection, detoxification, and transport.

number of genes
family, group, or pathway
 in genome
 on array
 signal above bkgnd.
 > 2 fold up
 > 2 fold down
 assignment to STEM profiles (Fig. 2) cluster:# of genes
osmoprotectants





     proline
 5
 5
 5
 2
 1
 a:1;b:1;j:1
     trehalose biosynthesis*
 22
 21
 15
 8
 1
 a:4;b:4;c:1
     trehalose phosphatase*
 11
 10
 8
 7
 0
 a:3;b:4
     dehydrin*
 10
 10
 6
 4
 1
 b:1;c:2;h:1;i:1







ROS-response network





     alternative oxidase*
 6
 6
 4
 2
 0
 b:2
     ascorbate peroxidase
 9
 8
 6
 1
 1
 b:1;h:1;o:1
     blue copper protein
 9
 8
 5
 1
 1
 b:1;i:1;n:1
     dehydroascorbate reductase
 5
 2
 1
 0
 1
 i:1
     ferritin*
 4
 4
 3
 2
 0
 a:2
     glutaredoxin*
 27
 26
 8
 3
 3
 a:3;i:1;j:2
     glutathione peroxidase
 8
 8
 4
 0
 1
 j:2
     glutathione reductase*
 5
 4
 4
 0
 0
 m:1
     monodehydroascorbate reductase
 5
 5
 4
 2
 0
 a:1;c:1
     NADPH oxidase*
 10
 10
 4
 1
 2
 c:1;i:1;k:1
     NADPH oxidase-like
 9
 8
 4
 0
 3
 i:2;j:1
     peroxiredoxin
 11
 10
 5
 0
 2
 j:2
     superoxide dismutase
 8
 8
 3
 0
 3
 i:1;j:2
     thioredoxins
 32
 31
 20
 5
 7
 a:1;b:2;c:1;f:1;i:2;j:3; l:1;o:1







class III peroxidase*
 73
 71
 45
 10
 27
 a:6;b:3;c:1;d:1;i:3;j:17; k:4;l:1;o:3







glutathione-S-transferase*
 53
 49
 37
 19
 7
 a:4;b:9;c:1;d:3;e:1;f:1; h:2;i:3;j:2;l:2;n:1;o:1
     GST-tau family*
 28
 26
 20
 13
 3
 a:1;b:9;c:1;d:3;i:1;j:1; n:1







transporters





     aquaporin*
 35
 33
 24
 1
 18
 a:1;i:4;j:12;n:1
     V-Type ATPase*
 22
 18
 14
 0
 4
 j:4
     antiporter
 70
 66
 25
 5
 9
 a:4;c:1;i:2;j:4;k:1;l:2
          Na+/H+ exchanger*
 8
 8
 6
 4
 0
 a:4
          sugar transporter*
 48
 47
 23
 11
 4
 a:6;b:3;d:1;f:1;i:1;j:2; o:1
          ABC transporter*
 94
 88
 29
 10
 5
 a:6;b:2;d:3;f:1;g:1;i:1; k:1;l:2
          LeOPT1*
 51
 48
 22
 10
 8
 a:4;b:6;i:3;j:3;o:2
          MATE*
 56
 51
 26
 13
 1
 a:4;b:6;c:1;d:1;f:1; i:1

Groups of genes that are significantly enriched in at least one STEM profile at a FDR of < 5% are marked with an asterisk (*). The final column details the frequency of assignment of individual genes to specific STEM profiles identified by corresponding letters in Figure 2. Functional categories in this table are defined according to the following sources: proline and trehalose biosynthesis [23]; dehydrins [27]; ROS-network [33]; class III peroxidases [25, 102], GSTs [25]; MATE transporters [38]; aquaporins [25, 103]; all other transporters [25, 37].

Jiang and Deyholos BMC Plant Biology 2006 6:25   doi:10.1186/1471-2229-6-25