Novel SNP markers in InvGE and SssI genes are associated with natural variation of sugar contents and frying color in Solanum tuberosum Group Phureja

Duarte-Delgado, Diana; Juyó, Deissy; Gebhardt, Christiane; Sarmiento, Felipe; Mosquera-Vásquez, Teresa

doi:10.1186/s12863-017-0489-3

Table 1 Loci (PGSC0003DMG*********) from the reference genome [28, 43] analyzed in 112 Solanum tuberosum Group Phureja accessions

From: Novel SNP markers in InvGE and SssI genes are associated with natural variation of sugar contents and frying color in Solanum tuberosum Group Phureja

Gene Acronym	Locus	Chr.	Primer Sequences 5′–3′	Ta (°C)	Amplicon	No. SNPs Scored
(GenBank Accesion No.)	Locus	Chr.	Primer Sequences 5′–3′	Ta (°C)	size (bp)	(Scored previously)^e
Stp23 (PHO1)^a (D00520)	PGSC0003DMG400007782	III	*f-cagatatgttacatactctacc	59	963	4 (0)
Stp23 (PHO1)^a (D00520)	PGSC0003DMG400007782	III	r-tcattagtcacaactttatcgg	59	963	4 (0)
StpL (PHO1)^a (X73684)	PGSC0003DMG400028382	V	*f-ttacattgcacaagcacaagc	57	982	14 (1) [67]
StpL (PHO1)^a (X73684)	PGSC0003DMG400028382	V	r-gtgtacatacaatactctatcc	57	982	14 (1) [67]
SssI (Y10416)	PGSC0003DMG402018552	III	f-aacaataggaatttaccataacc	57	970	12 (0)
SssI (Y10416)	PGSC0003DMG402018552	III	*r-atattcccaaacaaaacagagc	57	970	12 (0)
InvGE (INV-cw)^a (AJ133765)	PGSC0003DMG400008943	IX	f-caattcttcgattcttcatagg	57	798	9 (8) [39]
InvGE (INV-cw)^a (AJ133765)	PGSC0003DMG400008943	IX	*r-aattgaagcagatcatgtagg	57	798	9 (8) [39]
Pain1 (INV)^a (X70368)	PGSC0003DMG400013856	III	f-catacattacactatagatcc	56	926	5 (2) [39, 40]
Pain1 (INV)^a (X70368)	PGSC0003DMG400013856	III	*r-aattgaagcagatcatgtagg	56	926	5 (2) [39, 40]
			f-caaaatgaatacatattaagagg^b	56	707	4 (0)
			*r-cttaagcagttgcttagagc	56	707	4 (0)
UGPase (D00667)	PGSC0003DMG401013333	XI	f-atgatgttctccacttaaaagc	56	805	11 (1) [42]
			*r-tttcagattttcagaagagagg	56	805	11 (1) [42]
			*f-tgattaacgatactatacgtcc	56	931	12 (1) [42]
			r-ttaaaacttccttatactatatgg	56	931	12 (1) [42]
GWD (Y09533)	PGSC0003DMG400007677	V	f-ttctgttatctacttagttacg	56	992	5 (3) [7, 41]
			*r-gttttatatcttgcttctttgg	56	992	5 (3) [7, 41]
BMY-8/2 (AF393847)	PGSC0003DMG400001855	VIII	f-gctactggacatggtgacaga^c	57	560	9 (9) [5]
			*r-ttacatagaggtctgtcctgcttgag	57	560	9 (9) [5]
PWD (AY747068)	PGSC0003DMG400016613	IX	*f-ggtctgatgatctatctgattgc^c	57	871	16 (16) [7, 41]
			r-gacatcttgaggagaaccaaactt	57	871	16 (16) [7, 41]
LapN (X77015)	PGSC0003DMG400007831	XII	f-gcttcctggtcttggctc^d	60	985	8 (3) [37]
			*r-gataggcatacgcagccaggtcagaaatcaa	60	985	8 (3) [37]

Chr chromosome, Ta annealing temperature
*Primer used for amplicon sequencing
^aThese parenthesis include the alternative acronyms used in the starch-sugar interconversion pathway scheme adapted by Schreiber et al. [7]
^bFrom a region downstream of the Pain1 candidate gene
^cFrom Schreiber et al. [7]
^dFrom Fischer et al. [37]
^eThe studies where the SNPs or the related amino acid changes were previously reported in tetraploid potatoes are indicated

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ISSN: 2730-6844

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