Peach genetic resources: diversity, population structure and linkage disequilibrium

Li, Xiong-wei; Meng, Xian-qiao; Jia, Hui-juan; Yu, Ming-liang; Ma, Rui-juan; Wang, Li-rong; Cao, Ke; Shen, Zhi-jun; Niu, Liang; Tian, Jian-bao; Chen, Miao-jin; Xie, Ming; Arus, Pere; Gao, Zhong-shan; Aranzana, Maria Jose

doi:10.1186/1471-2156-14-84

BMC Genomic Data

Table 6 Characteristics of the SSRs used in the present study

From: Peach genetic resources: diversity, population structure and linkage disequilibrium

Locus	Ta¹(°C)	Linkage group²	Genetic position (cM)³	Physical position⁴	Fluorescent labelling⁵	References
UDP96-018	57	1	1	scaffold_1:1299253	FAM	Cipriani et al., 1999 [42]
CPPCT027	55	1	23.1	scaffold_1:12409317	NED	Aranzana et al., 2002 [32]
UDP96-005	57	1	29.2	scaffold_1:13903361	FAM	Cipriani et al., 1999 [42]
EPDCU1090	57	1	32	scaffold_1:22653855	HEX	Howad et al., 2005 [43]
CPPCT026	55	1	33.9	scaffold_1:31792505	FAM	Aranzana et al., 2002a [32]
Pchgms3	60	1	37.5	scaffold_1:27692065	VIC	Sosinski et al., 2000 [44]
BPPCT020	57	1	52.6	scaffold_1:33281268	HEX	Dirlewanger et al., 2002 [30]
CPPCT042	57	1	62.5	scaffold_1:39307938	HEX	Aranzana et al., 2002a [32]
CPPCT029	55	1	65.1	scaffold_1:40195426	HEX	Aranzana et al., 2002a [32]
CPPCT044	58	2	7.2	scaffold_2:10280697	HEX	Howad et al., 2005 [43]
UDP98-025	57	2	9.6	scaffold_2:10872102	HEX	Cipriani et al., 1999 [42]
BPPCT001	57	2	20.9	scaffold_2:16134154	HEX	Dirlewanger et al., 2002 [30]
UDP96-013	57	2	27.8	scaffold_2:18895940	FAM	Cipriani et al., 1999 [42]
pchgms1	55	2	35.1	scaffold_2:21255607	FAM	Sosinski et al., 2000 [44]
BPPCT024	57	2	36.3	scaffold_2:22674207	HEX	Dirlewanger et al., 2002 [30]
PceGA34	50	2	43.9	scaffold_2:25199147	FAM	Downey and Iezzoni., 2000 [45]
BPPCT007	57	3	11.2	scaffold_3:2741939	HEX	Dirlewanger et al., 2002 [30]
BPPCT039	57	3	18	scaffold_3:5802709	NED	Dirlewanger et al., 2002 [30]
CPPCT002	52	3	31.9	scaffold_3:16205250	NED	Aranzana et al., 2002a [32]
UDP96-008	57	3	36.4	scaffold_3:16946762	FAM	Cipriani et al., 1999 [42]
PTS1-SSR	53	4	5.2	scaffold_4:1414471	HEX	Illa et al., 2011 [37]
UDP98-024	57	4	11.3	scaffold_4:3499623	FAM	Testolin et al., 2000 [31]
CPPCT005	52	4	10.4	scaffold_4:10269880	FAM	Aranzana et al., 2002a [32]
UDP96-003	57	4	28.3	scaffold_4:8757450	FAM	Cipriani et al., 1999 [42]
BPPCT015	57	4	44	scaffold_4:12546880	NED	Dirlewanger et al., 2002 [30]
CPPCT046	58	4	45.4	scaffold_4:14476745	HEX	Aranzana et al., 2002a [32]
EPPCU1775	57	4	52	scaffold_4:22684553	HEX	Howad et al., 2005 [43]
CPPCT040	57	5	1.5	scaffold_5:993617	HEX	Aranzana et al., 2002a [32]
UDP97-401	57	5	11	scaffold_5:5940392	HEX	Cipriani et al., 1999 [42]
BPPCT017	57	5	20.1	scaffold_5:11174442	HEX	Dirlewanger et al., 2002 [30]
BPPCT037	57	5	25.6	scaffold_5:12312049	FAM	Dirlewanger et al., 2002 [30]
BPPCT038	57	5	32.9	scaffold_5:14658198	NED	Dirlewanger et al., 2002 [30]
PCeGA25	58	5	28.4	scaffold_5:12835942	FAM	Downey and Iezzoni., 2000 [45]
CPPCT013	59	5	29.2	scaffold_5:12835904	FAM	Aranzana et al., 2002a [32]
CPSCT006	62	5	21.7	scaffold_5:11533644	FAM	Mnejja et al., 2004 [46]
BPPCT014	57	5	44	scaffold_5:16626108	FAM	Dirlewanger et al., 2002 [30]
UDP96-001	57	6	17.5	scaffold_6:7040757	VIC	Cipriani et al., 1999 [42]
CPPCT015	50	6	35.8	scaffold_6:16352480	PET	Aranzana et al., 2002a [32]
pchcms5	57	6	44.7	scaffold_6:19166654	FAM	Sosinski et al., 2000 [44]
BPPCT025	57	6	56.4	scaffold_6:21129947	FAM	Dirlewanger et al., 2002 [30]
CPPCT030	50	6	80.2	scaffold_6:26851012	FAM	Aranzana et al., 2002a [32]
CPPCT022	50	7	18.6	scaffold_7:10225365	FAM	Aranzana et al., 2002a [32]
pchgms6	58	7	19.4	scaffold_7:10439493	HEX	Aranzana et al., 2002a [32]
CPPCT033	50	7	38.9	scaffold_7:16702195	FAM	Aranzana et al., 2002a [32]
PMS02	55	7	47.8	scaffold_7:18106236	PET	Cantini et al., 2001 [47]
BPPCT006	57	8	14.1	scaffold_8:5982783	FAM	Dirlewanger et al., 2002 [30]
CPPCT006	59	8	24.8	scaffold_8:13659021	FAM	Aranzana et al., 2002a [30]
UDP98-409	57	8	44.5	scaffold_8:17783528	FAM	Cipriani et al., 1999 [42]

Note: ¹: indicates annealing temperatures.
²: indicates linkage group information.
³: position of the SSR markers in the T × E linkage map.
⁴: physical position of the SSR markers in the peach genome sequence v1.0 (http://www.rosaceae.org/peach/genome).
⁵: fluorescent labeled dye added to the forward primer.

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