Comparative genomics of Pseudomonas fluorescens subclade III strains from human lungs

BMC Genomics

Table 3 Secondary metabolite genes and gene clusters in subclade III strains

		Antibiotics							Siderophores					Exoenzymes			Plant-Bacterial Communication
		DAPG	HCN	Phenazine	Pyrrolnitrin	Rhizoxins	Pyoluteorin	Mupirocin	Pyoverdine	Pseudomonine	Enantio-pyochelin	Achromobactin	Hemophore	Chitanse	AprA	Pectate Lyase	IAA Biosynthesis	IAA Catabolism	PAA catabolism	ACC deaminase	2,3-bd biosynthesis	Acetoin catabolism (LP)	Acetoin catabolism (DP)
Human-associated Isolates	AU2989								X						X								X
	AU6026								X					X	X								X
	AU10973								X						X
	AU11518								X						X								X
	AU14705								X	X*			X	X	X
	AU14917								X				X	X	X
Environment-associated Isolates	SBW25 UM								X						X	X
	P.fluorescens SBW25								X						X	X
	P.fluorescens A506								X	X				X	X								X
	P. fluorescens SS101								X				X	X	X								X
	P. synxantha BG33R1								X	X*			X	X	X			X

The presence or absence of a gene or gene cluster within each sequenced genome. The nucleotide sequence for the gene(s) involved in the biosynthesis of each secondary metabolite was used to query each genome with the BLASTn function provided by NCBI. The chosen query nucleotide sequence for each gene is detailed in Additional file 4: Table S4. A ‘Yes’ destination corresponds to a BLASTn hit with an e value <1×10¹⁵ and query and sequence identity >70%. The asterisk (*) indicates that one gene within the gene cluster fell below the cutoff

ISSN: 1471-2164