Association mapping of cane weight and tillers per plant in sugarcane

Figures & data

Table 1. Information about SSR primers used in the study. Number of amplified alleles observed against each primer pair.

Serial no.	Forward primer (5′--3′)	Reverse primer (5′--3′)	Number of alleles
CEMB 1	TCTTCCTCGCCTCCGATGGC	GAACCGCAACCCGCAAGGAC	9
CEMB 2	AGTAGTCACCACCATGTCTGGCA	CATCCTCCAAGCATCTGTTCCA	8
CEMB 3	CTGTACCCGTCGGTCCTCGC	CAGCGGCACTGTCCATGTGC	2
CEMB 4	CGAGTTCGACGAGGCATCTAC	CGATGTCGTTCCAGAAGAAGTG	13
CEMB 5	GTTGAGGGTGAAGCGGATGG	AGCCTCTGCCACCACTCCTC	6
CEMB 6	CGAGCATGGCGAGAAGTCCG	GCAGGGCGAGGCGAGATCAG	8
CEMB 7	GTCCGCAAGTCCCGTGCTCT	CGGTGAGGTTGTTCTCCACAGG	4
CEMB 8	CTAATGCCATGCCCCAGAGG	GCTGGTGATGTCGCCCATCT	7
CEMB 9	CAACCACCTCGCTCGATTCG	TGATGAGCCAGCAATCCTCCT	5
CEMB 10	CAGTCGCCCCACACGCCGAT	CDSCCATGCTGTCGCCGACCACG	3
CEMB 11	CAGGGGCAATGCTCGATGGA	TGACACGCATGGGGTTGTCG	5
CEMB 12	CCATCGAGCAATCGAGCTGC	GTTTGACAGGCGGATGTTCTGA	3
CEMB 13	GAGTCAGTTGGTGCCGAGATTG	CGAACAGGTTAAAGCCCATGTC	3
CEMB 14	CCGTCGAGCTGGACTTCACG	CACCTCCACGTCCCACCGAC	6
CEMB 15	CAACGACGCAGGATCGAACC	AGCAGGCACGACTTCCCCAC	8
CEMB 16	GCTACCAGCTCTCGGTGCTTC	GCACGGGCTAGAACCTAGAAGG	7
CEMB 17	CGCAGATCGACGACGTTGTC	CGTCCACATCAACACTGCCAG	7
CEMB 18	GCAGAGACAGGCGTCTTCGTACT	GCGTTTCCGACCTGGATACC	2
CEMB 19	GTCCAGCCGCCATCCGTTCG	CAGCCGCCATGACGCCCTTG	4
CEMB 20	CCAAAGCCCAACTGAAAGAGC	GAGGTTAGCGAAGTGGATCACG	4

Figure 1. PAGE results showing polymorphism. Lane 0: DNA molecular weight marker (50 bp DNA ladder); Lanes 1-28: polymorphic bands in sugarcane genotypes included in this study (see Table 1).

Table 2. Sugarcane (Saccharum spp.) genotypes were used in this study. In total, 28 different genotypes were employed to study SSR marker association with quantitative traits of sugarcane genotypes. Mean and LSD ranking of all sugarcane genotypes for average cane weight/plant and tillers/plant in sugarcane. Mean showing different letters will be regarded as significant at P < 0.05.

S. no.	Varieties	Cane weight/plant (kg)	LSD ranking	Tillers/plant	LSD ranking
1	CPF246	3.09	D	2.56	GH
2	CPF247	2.71	JKLM	2.78	EF
3	S2003 US114	2.58	N	2.5	IJ
4	S2003 US127	2.07	P	2.34	L
5	S2003 US633	2.86	FGH	2.29	MN
6	S2003 US694	2.79	GHIJ	2.82	DE
7	S2003 US 718	2.78	HIJK	2.28	N
8	S2003 US 778	2.90	FG	1.88	R
9	S2006 SP 18	1.76	Q	2.15	OP
10	S2006 SP 25	3.78	A	2.74	F
11	S2006 SP 772	2.76	HIJKL	2.45	JK
12	S2006 SP 321	3.69	AB	2.99	B
13	S2006 SP 469	3.61	BC	2.18	O
14	S2006 US 640	3.03	DE	3.6	A
15	S2006 US 658	2.84	FGH	2.75	F
16	HSF 240	2.93	EF	3	B
17	HSF 242	2.68	KLMN	2.82	DE
18	SPF 245	2.62	MN	2.61	G
19	CP-72-2086	2.77	HIJK	1.98	Q
20	CP77-400	2.66	LMN	2.11	P
21	CPF 237	3.03	DE	2.17	O
22	SPF 213	2.34	O	2.37	K
23	S2006 US 832	2.72	IJKLM	2.45	JK
24	S2006 US 640	2.91	F	2.48	IJ
25	S2006 US 272	2.86	FGH	2.98	B
26	S2005 US 54	2.83	FGHI	2.43	K
27	S2003 US 704	3.52	C	2.87	C
28	SPF 234	2.90	FG	2.61	G
	Grand Mean	2.85		2.54
LSD value at 0.05%		0.11	.05

Table 3. At left, analysis of variance among 28 sugarcane genotypes for cane weight/plant depicting F value and significance at 0.01% probability. (SOV = source of variation, d.f. = degree of freedom, SS = sum of square, MS = mean squares, F. Cal = Fisher's calculated value). At right, analysis of variance of 28 sugarcane genotypes for tillers/plant. Data were found highly significant at P < 0.01.

SOV	d.f	SS	MS	F. Cal	Probability	d.f.	SS	MS	F. Cal	Probability
Replication	2	0.0001	0.00005			2	0.0009	0.00045
Varieties	27	11.3873	0.42175	11941.7	0.0000	27	11.1563	0.41320	3667.72	0.0000
Error	54	0.0019	0.00004			54	0.0061	0.00011
Total	83	11.3893				83	11.1633
Grand Mean	2.8943					2.5448
CV	0.21					0.42

Table 4. Marker--trait association analysed by TASSEL software.

Trait	Locus	P-marker	R^2 marker
Tillers/plant	CEMB-14A	0.0077	1
Tillers/plant	CEMB-14B	0.0077	1
Yield	CEMB-5A	0.0275	0.715
Yield	CEMB-5C	0.0371	0.6968
Yield	CEMB-7B	0.0136	0.8623