Sunday, 20 March 2011

Mycobacterium marinum and Mycobacterium ulcerans:pater et filius


To find "genuine" lytic mycobacteriophages is not easy and it seems to me that it is also rare .

D29 is a lytic phage but I can not consider this phage
a "genuine " lytic phage by genome analysis.

Mycobacteriophages ( D29,L5,Bxz2 and L5) have a broad Host range and this feature is not favourable when they are used in Phage therapy.

I am of the opinion that Mycobacterium marinum may be the valid alternative to Mycobacterium smegmatis for growing and isolating phages with a potential action on Mycobacterium ulcerans but until now there is little information about growing phages on Mycobacterium marinum.


Please go to:

M.marinum,M.ulcerans and M.smegmatis:In silico 2D-SDS-PAGE


Mycobacterium marinum M

RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)

Chromosome 15541549051676,636,827
Plasmid 129290023,317

Total:5570551951676,660,14

Pathways:196
Enzymatic Reactions:1186
Transport Reactions:65

Polypeptides:5452
Protein Complexes:17
Enzymes:980
Transporters:98

Compounds:823

Transcription Units:3686
tRNAs:5


Mycobacterium ulcerans Agy99

RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)

Chromosome 149814931507715,631,606
Plasmid 1818100174,155

Total:50625012507715,805,761


Please go to:

Mycobacterium ulcerans strain Agy99 and its 174-kb pMUM001 plasmid



athways:196
Enzymatic Reactions:1209
Transport Reactions:53

Polypeptides:4241
Protein Complexes:11
Enzymes:841
Transporters:67

Compounds:806

Transcription Units:3542
tRNAs:51


Comparison



Organism M. marinum M M. ulcerans Agy99
Chromosomes 1 1
Organelle Chromosomes 0 0
Plasmids 1 1
Contigs 0 0
Genes 5,503 4,291
___ Genes of known or predicted molecular function 1,056 906
___ Genes with Exp Evidence 0 0
Protein Features 0 0
Protein Complexes 17 11
Pathways 236 232
___ Pathways with Exp Evidence 0 0
Metabolic Reactions 1,136 1,145
Transport Reactions 60 48
Compounds 822 805
Regulatory Interactions 0 0
Transcription Units 3,686 3,542
Promoters 0 0
Transcription Factor Binding Sites 0 0
Publications 849 852



Genes/Proteins M. marinum M M. ulcerans Agy99
Genes 5,503 4,291
___ Protein-coding Genes 5,452 4,241
___ tRNA Genes 52 51
___ rRNA Genes 3 3
___ tmRNA Genes 0 0
___ snRNA Genes 0 0
___ Regulatory RNA Genes 0 0
___ Other RNA Genes 2 2
Polypeptides 5,452 4,241
Protein Complexes 17 11
___ Heteromultimeric Protein Complexes 17 11
___ Homomultimeric Protein Complexes 0 0
Pseudogenes 67 771



Gene Annotation Status M. marinum M M. ulcerans Agy99
Genes of known or predicted molecular function 1,056 906
___ Genes of known molecular function 0 0
___ Genes of predicted molecular function 1,056 906
Genes of unknown molecular function 4,447 3,385



Enzymes M. marinum M M. ulcerans Agy99
Enzymes 843 730
___ Enzymes that catalyze Small Molecule reactions 733 613
___ Enzymes with a Physiologically Relevant Activator 0 0
___ Enzymes with a Physiologically Relevant Inhibitor 0 0
___ Enzymes with a Cofactor or Prosthetic Group 0 0


Transporters M. marinum M M. ulcerans Agy99
Uptake transporters 96 64
Efflux transporters 0 0
Transporters assigned to transport reactions 97 66
Genes assigned to transport proteins 122 81
Genes classified in MultiFun as transport genes 229 130