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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0430

PubMed

22326627, J Biotechnol. 2012 Jul 31;160(1-2):42-54. doi: 10.1016/j.jbiotec.2012.01.023. Epub 2012 Feb 1.

Characterization method

RT-PCR,microarray,differential gene expression

Genomic accession number

NC_009480.1

Nucelotide position range

931963-953671

Substrate

O-antigen,exopolysaccharide

Loci

CMM_RS04685-CMM_RS04735; old: CMM_0823-CMM_0833

Species

Clavibacter michiganensis/28447

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- CMM_RS04680 WP_012037507.1 0 - 4 (+) NC_009480.1:931963-931967 -
- CMM_RS04685 WP_012037508.1 0 - 828 (+) NC_009480.1:931963-932791 -
- CMM_RS04690 WP_012037509.1 824 - 2066 (+) NC_009480.1:932787-934029 -
- CMM_RS04695 WP_012037510.1 2115 - 8001 (+) NC_009480.1:934078-939964 -
- CMM_RS04700 WP_012037511.1 8165 - 9536 (+) NC_009480.1:940128-941499 -
- CMM_RS04705 WP_012037512.1 9532 - 10921 (+) NC_009480.1:941495-942884 -
- CMM_RS16255 WP_148267558.1 11796 - 12357 (+) NC_009480.1:943759-944320 -
- CMM_RS16540 WP_148267513.1 12458 - 13523 (-) NC_009480.1:944421-945486 -
- CMM_RS16545 WP_143761553.1 13750 - 14482 (-) NC_009480.1:945713-946445 -
- CMM_RS04715 WP_012037514.1 14719 - 15367 (-) NC_009480.1:946682-947330 -
- CMM_RS04720 WP_012037515.1 15566 - 17501 (-) NC_009480.1:947529-949464 -
- CMM_RS04725 WP_012037516.1 17661 - 18711 (+) NC_009480.1:949624-950674 -
- CMM_RS04735 WP_050976289.1 20650 - 21709 (+) NC_009480.1:952613-953672 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 4 (+) CAZyme: GT4 Yes
- 1 - 828 (+) other Yes
- 825 - 2066 (+) CAZyme: GT4 Yes
- 2116 - 8001 (+) other Yes
- 8166 - 9536 (+) other Yes
- 9533 - 10921 (+) TC: gnl|TC-DB|K9YXY1|8.A.3.1.2 Yes
- 11797 - 12357 (+) other Yes
- 12459 - 13523 (-) other Yes
- 13751 - 14482 (-) other Yes
- 14720 - 15367 (-) other Yes
- 15567 - 17501 (-) other Yes
- 17662 - 18711 (+) CAZyme: GT94 Yes
- 20651 - 21709 (+) CDS No

PUL ID

PUL0430

PubMed

22326627, J Biotechnol. 2012 Jul 31;160(1-2):42-54. doi: 10.1016/j.jbiotec.2012.01.023. Epub 2012 Feb 1.

Title

Analysis of the interaction of Clavibacter michiganensis subsp. michiganensis with its host plant tomato by genome-wide expression profiling.

Author

Flugel M, Becker A, Gartemann KH, Eichenlaub R

Abstract

Genome-wide expression profiles of the phytopathogenic actinomycete Clavibacter michiganensis subsp. michiganensis (Cmm) strain NCPPB382 were analyzed using a 70mer oligonucleotide microarray. Cmm causes bacterial wilt and canker of tomato, a systemic disease leading to substantial economic losses worldwide. Global gene expression was monitored in vitro after long- and short-term incubation with tomato homogenate to simulate conditions in planta and in vivo ten days after inoculation of tomatoes. Surprisingly, both in the presence of tomato homogenate and in planta known virulence genes (celA, chpC, ppaA/C) were down-regulated indicating that the encoded extracellular enzymes are dispensable in late infection stages where plant tissue has already been heavily destroyed. In contrast, some genes of the tomA-region which are involved in sugar metabolism showed an enhanced RNA-level after permanent growth in supplemented medium. Therefore, these genes may be important for utilization of plant derived nutrients. In the plant Cmm exhibited an expression profile completely different from that in vitro. Especially, the strong expression of genes of the wco-cluster (extracellular polysaccharide II), 10 genes encoding surface or pilus assembly proteins, and CMM_2382, coding for a putative perforin suggest a possible role of these genes in the plant-pathogenic interaction.