Genetic structure, diversity, and allelic richness in composite collection and reference set in chickpea (Cicer arietinumL.)

Upadhyaya, Hari D; Dwivedi, Sangam L; Baum, Michael; Varshney, Rajeev K; Udupa, Sripada M; Gowda, Cholenahalli LL; Hoisington, David; Singh, Sube

doi:10.1186/1471-2229-8-106

Table 1 Allelic composition, polymorphic information content (PIC), gene diversity, and heterozygosity (%) of the 48 SSR loci in composite collection (2915 accessions) of chickpea

From: Genetic structure, diversity, and allelic richness in composite collection and reference set in chickpea (Cicer arietinumL.)

Marker	Allelic composition					PIC	Gene diversity	Average heterozygosity (%)
	Allelic richness	Size range (bp)	Rare allele (1%)	Common allele (1- ≤ 20%)	Most frequent allele (> 20%)
CaSTMS2	29	114	10	19	0	0.929	0.933	2.43
CaSTMS15	29	159	13	16	0	0.904	0.911	1.85
CaSTMS21	20	60	16	2	2	0.467	0.533	0.17
NCPGR4	14	52	10	3	1	0.605	0.649	0.21
NCPGR6	21	148	18	1	2	0.559	0.627	0.11
NCPGR7	15	42	11	2	2	0.549	0.619	0.11
NCPGR12	27	58	15	10	2	0.813	0.832	0.14
NCPGR19	26	176	20	4	2	0.591	0.651	0.11
TA2	67	158	47	20	0	0.948	0.950	0.00
TA3	29	100	21	5	3	0.726	0.764	0.00
TA5	43	138	30	13	0	0.909	0.915	0.00
TA8	33	106	14	19	0	0.913	0.919	0.00
TA11	29	138	17	12	0	0.871	0.882	0.00
TA14	41	144	23	18	0	0.904	0.911	0.80
TA21	42	147	21	21	0	0.938	0.941	0.62
TA22	50	213	17	33	0	0.962	0.963	0.40
TA27	32	114	19	13	0	0.891	0.899	0.75
TA42	46	150	27	19	0	0.936	0.939	0.00
TA46	24	69	11	11	2	0.843	0.858	0.34
TA64	36	111	15	21	0	0.942	0.945	3.23
TA71	41	138	25	16	0	0.917	0.922	0.85
TA72	45	198	33	12	0	0.874	0.885	0.46
TA76s	34	165	24	9	1	0.813	0.834	2.37
TA78	39	167	21	18	0	0.905	0.911	0.00
TA80	35	127	16	19	0	0.927	0.931	0.00
TA96	48	163	29	19	0	0.918	0.923	0.00
TA113	19	87	8	10	1	0.851	0.863	1.63
TA116	33	117	22	9	2	0.838	0.853	0.89
TA117	36	150	18	18	0	0.929	0.933	0.62
TA118	43	147	18	25	0	0.949	0.951	1.55
TA130	23	69	10	12	1	0.821	0.835	1.19
TA135	21	96	8	12	1	0.850	0.863	2.70
TA142	23	84	14	8	1	0.758	0.784	0.57
TA144	56	108	37	19	0	0.931	0.934	0.00
TA176	64	219	25	39	0	0.974	0.974	0.00
TA194	29	204	17	11	1	0.866	0.876	0.00
TA200	39	129	23	16	0	0.916	0.922	1.71
TA203	56	134	27	29	0	0.963	0.965	0.00
TA206	32	99	18	14	0	0.898	0.906	0.71
TAA58	45	144	21	24	0	0.955	0.957	1.33
TAASH	39	132	20	19	0	0.930	0.934	0.70
TR1	62	191	45	17	0	0.929	0.933	0.00
TR7	26	81	8	18	0	0.891	0.899	2.44
TR29	32	132	15	17	0	0.915	0.921	2.08
TR31	16	69	7	8	1	0.843	0.859	2.66
TR43	53	225	26	27	0	0.956	0.958	2.45
TS45	26	140	17	8	1	0.842	0.858	0.00
TS84	15	69	8	5	2	0.596	0.656	0.32
Total	1683		935	720	28
Mean	35		19.5	15.0	0.58	0.854	0.869	0.80
Range	14–67	42–225	7–47	2–39	0–3	0.467–0.974	0.533–0.975	0.00–3.23

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ISSN: 1471-2229

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