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Table 5 Relevant gene clusters identified on the R4 genome associated with plant-microbe interactions

From: A draft genome sequence of Pseudomonas veronii R4: a grapevine (Vitis vinifera L.) root-associated strain with high biocontrol potential

Module Components Associated genes Function in strain R4
Tricarboxylic acids cycle Catabolic genes 15 Carbon metabolism from plant exudates (mannitol, sorbitol, sucrose, trehalose, mannose, arabinose, maltose, xylose and glucose)
Entner-Doudoroff pathway Catabolic genes 5  
Pentose cycle Catabolic genes 14  
Rizosphere nutrients uptake ABC tranporters regulated by PTS 23  
Chemotaxis CheA, CheB, CheR, CheW, CheY and chemoreceptors 70 Sensing chemical stimulus and direct motility
Motility Flagello: estructural genes and regulatory genes 85 Motility
Root colonization Type IV pili: estructural genes and two components signal transduction proteins 24 Host cell surface association and host growth inhibition by contact
  Haemagglutinin genes 4  
  Alginate: biosinthetic and regulatoy genes 24 Biofilms
Transporters MFS genes 32 Transporters involved in bacterium - rizosphere interaction
  RND genes 43  
  ABC genes 162  
Acetoin and 2,3-butanediol synthesis ilvBN; budC; bdh; acoABCX adh 10 Plant growth regulators synthesis and catabolism
IAA Two synthetic pathways: from indol-3-acetamide and from indole-3-acetonitrile 9  
Ethylene acdS 1 ACC catabolism
GABA gadT, gadD, GABA permease gene 5 c-aminobutiric acid synthesis
Proteases and lipases Exportable protease (AprA), lipase (LipA) and phopholipase ExoU-like 8 biocontrol activity
Secondary metabolites Pyoverdine: estructural genes, and regulatory genes 19  
  Pyochelin: estructural genes and regulatory genes 30  
Secretion systems Type I; Type II; TypeIII and Type VI 85 Transport of biocontrol molecules