Comparative secretome analysis suggests low plant cell wall degrading capacity in Frankia symbionts

Mastronunzio, Juliana E; Tisa, Louis S; Normand, Philippe; Benson, David R

doi:10.1186/1471-2164-9-47

BMC Genomics

Table 2 Hydrolases with signal peptides in one or more strains

From: Comparative secretome analysis suggests low plant cell wall degrading capacity in Frankia symbionts

	Gene present in three strains	CcI3 gi	ACN gi	EAN gi
Polysaccharolytic	Glycoside hydrolase, family 16	86742522	111222085	158319021^†
Esterolytic/Lipolytic	Patatin	86739488	111220771^‡,111222061^†	158317574, 158312853
	Poly(3-hydroxybutyrate) depolymerase-like*	86738795	111219601^†	158312237, 158318953
	Poly(3-hydroxybutyrate) depolymerase-like*	86743135	111224988	158313427, 158312582
	Poly(3-hydroxybutyrate) depolymerase-like*	86739947	111221400^†	158314094
	Poly(3-hydroxybutyrate) depolymerase-like*	86742257	111225134^†	158313019^†
	Putative esterase	86741433	111223634^†, 111224716^†	158313383, 158315460
	Secretory lipase*	86738753	111219534^‡, 111224342	158311883^†
Proteolytic	Metalloprotease-like protein	86741105	111223246^†	158315133
	Peptidase M16-like	86742474	111225385^†	158312786^†
	Peptidase M22, glycoprotease	86739340^†	111220592	158317749^†
	Peptidase M23B	86742263^†	111225140	158313012
	Peptidase S1 and S6, chymotrypsin/Hap	86738792	111219598	158318956^†
	Peptidase S1 and S6, chymotrypsin/Hap	86740691	111223367^‡	158318071
	Peptidase S8 and S53 subtilisin kexin sedolisin	86742624	111225604	158312643
	Peptidase S15	86742910^†	111224424^†	158315881
	Peptidase S16 lon domain protein	86742463	111225373	158312797
	Putative peptidase domain	86742587^†	111225562	158312677
Hypothetical	Alpha/beta hydrolase fold	86739338	111220590^†	158317752
	Alpha/beta hydrolase fold	86742456	111225365^†	158312806^†
	Alpha/beta hydrolase fold	86741553	111223803	158313859^†
	Hypothetical protein; putative glycosidase*	86742141	111222591	158317255
	Hypothetical protein; putative glycosidase*	86739771	111221236	158312651^†
	Hypothetical protein; putative lipase	86742918	111225845	158318206
	Hypothetical protein; putative GDSL lipase	86743055^†	111226008^‡	158312060
	Hypothetical protein; putative xylanase	86741387	111220334	158314619
	Gene present in two strains
Polysaccharolytic	Cellulase*	x	111224344^†, 111224345^†	158313493^†, 158318914
	Glycoside hydrolase, family 3, N-terminal	x	111220352	158317032
	Glucan endo-1,3-beta-D-glucosidase	x	111221161	158318718
Esterolytic/Lipolytic	Esterase	x	111221893	158313421^†
	Feruloyl esterase*	x	111221879	158315070
	Lipase class 2	86739361^†	x	158312565
	Putative carboxylesterase/lipase	x	111221691	158315258^†
	Putative lipase	x	111223894, 111223109	158314118^†
Proteolytic	Peptidase S8 and S53, subtilisin	x	111224419	158314198
	Putative protease	86741028	x	158315902
	Gene present in one strain
Polysaccharolytic	Arabinogalactan endo-1,4-beta-galactosidase	x	x	158314089
	Glycoside hydrolase, family 26	86741945	x	x
	Glycoside hydrolase, family 32	x	x	158318776
	Levanase	x	x	158318763
	Putative glycosidase	x	111223066	x
	Putative xylanase	x	111222228	x
Esterolytic/Lipolytic	Lipolytic enzyme, G-D-S-L	x	111222700	x
	Phospholipase A2	x	x	158315136
Hypothetical	Alpha/beta hydrolase fold	86741921	x	x

* Phylogenetic trees shown in Figure 3. For hypothetical glycosidases, Figure 3(E) shows addtional homologs not listed here.
^† Not predicted to contain a signal peptide by SignalP or TATFIND 1.4
^‡ Signal peptide predicted after manual inspection/re-annotation of start site region (see Methods)

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ISSN: 1471-2164

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