Synteny conservation between two distantly-related Rosaceae genomes: Prunus (the stone fruits) and Fragaria(the strawberry)

Vilanova, Santiago; Sargent, Daniel J; Arús, Pere; Monfort, Amparo

doi:10.1186/1471-2229-8-67

Table 2 Gene and EST-based markers mapped in Prunus and Fragaria.

From: Synteny conservation between two distantly-related Rosaceae genomes: Prunus (the stone fruits) and Fragaria(the strawberry)

	Prunus			Fragaria			TBLASTX
Locus	Accession number	LG^a	cM^b	Accession number	LG^a	cM^b	E-value^c	Swissprot-homology^d	Marker^e
EFvVB2119	BU048565	PG1	4.3	CX662119	FG6	22.5–43.2	5,00E-49	small GTP binding protein	SNP
EFvVB2179	BU046414	PG1	4.3	CX662179	FG4	0.0–26.0	2,00E-78	Aldoketo-reductase	SNP
EFvNH8894	BU042720	PG1	40.5	DV438894	FG2	53.9–73.8	3.00E-84	auxin-induced protein (Aux22)	SNP
EFaUF6868	BU046817	PG1	48.0	CO816868	FG2	53.9–73.8	1.00E-109	20S proteasome alpha 6 subunit	Indel
EFaTR1976	BU039761	PG1	48.6	CO381976	FG2	53.9–73.8	2.00E-88	Mannan endo-1.4-Beta-Mannosidase	SNP
EKO	AF495728	PG1	35.7–49.8	AY462247	FG2	28.9	8.00E-155	Ent-kaurene oxidase	Indel
DFR	AB095030	PG1	35.7–49.8	AY575057	FG2	70.5	2.00E-106	dihydroflavonol reductase	Indel
EFvVB1231	BU046687	PG1	41.3	CX661231	FG4	26.0–46.1	5.00E-17	RAD23-like	SNP
EPpCU7308	BU047308	PG1	75.2	-	FG2	26.7–45.8	5.00E-27	electron carrier/iron ion binding	Indel
EPpCU9642	BU039642	PG1	40.5	-	FG2	0.0–26.7	4.00E-72	ACT domain-containing protein	Indel
EFaUF7699	BU040484	PG2	7.9	CO817699	FG4	0.0–26.0	1.00E-102	Luminal Binding Protein BiP	Indel
EFaUF7084	BU046792	PG2	24.3	CO817084	FG7	63.4–81.0	3.00E-96	40 S ribosomal protein	SNP
EPpCU2875	BU042875	PG2	25.0	-	FG7	20.3	4.00E-132	RNA helicase	Indel
EFvNH8484	BU041902	PG2	39.4	DV438484	FG7	27.0–38.6	5.00E-105	GTP-Binding protein	SNP
EPpCU9223	BU039223	PG2	39.4	DY672045	FG7	44.5	1.00E-48	6-phosphofructokinase	Indel
ACO	AF129073	PG3	35.0	AY706156	FG6	83.1	1.00E-165	ACC oxydase	SSR
EFvVB2013	BU039972	PG5	0.0	CX662013	FG5	50.4–72.5	6.00E-83	Pectinacetylesterase precursor	Indel
ANS	AB097216	PG5	15.2–21.0	AY695818	FG5	9.7	4.00E-143	Anthocyanidin shynthase	Indel
CEL-2	AJ890498	PG5	21.7–40.7	AF054615	FG5	29.2	0.0	endo-beta-1,4-glucanase	Indel
AMPA112	AY377916	PG5	4.1	-	FG5	64.5	-	--	SSR
EFvNH9852	BU040757	PG6	6.4	DV439852	FG7	27.0–38.6	1.00E-137	60S Ribosomal Protein L10	SNP
EPpCU9257	BU039257	PG6	17.5	-	FG7	24.9	7.00E-109	phosphoglucomutase precursor	Indel
EPpCU1785	BU041785	PG6	79.6	DY669394	FG1	45.2–47.9	1.00E-12	SNF4 (Sucrose NonFermenting 4)	SNP
EPpCU1830	BU041830	PG6	79.6	CX661290	FG6	14.1	1.00E-132	26s proteasome aaa-atpase subunit rpt5a	Indel
APX	EE488129	PG6	4.1–24.9	AF158654	FG3	49.5	4.00E-102	L-ascorbate peroxidase	Indel
EFaUF7248	BU043308	PG7	10.3	CO817248	FG2	53.9–73.8	1.00E-97	Methionine synthase	Indel
EFvVB1923	BU039764	PG7	29.6	CX661923	FG6	56.5–68.1	2.00E-73	Enolase	SNP
EPpCU9910	BU039910	PG7	64.7	-	FG1	8.3	1.00E-62	putative ethanolamine kinase 1	Indel
F3H	AB097151	PG7	42.5–47.8	AB201760	FG1	40.6	2.00E-178	flavanone 3-hydroxylase	Indel
PES	X95991	PG7	49–56.1	AY324809	FG1	33.7	0.0	Pectinesterase	Indel
ADH	BU573880	PG8	0.0–10.9	X15588	FG2	17.9	4.00E-101	alcohol dehydrogenase	SNP

Gene or EST-based and SSR markers mapped in the Prunus and Fragaria genomes, with their accession numbers, map positions and homology with known proteins of other species.
^a LG = linkage group
^b Map position: If the marker was bin-mapped, the interval covered by the bin where the marker is located
^c E-value at NCBI database restricted to plant sequences
^d Predicted function
^e Marker type detected

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ISSN: 1471-2229

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