Genetic diversity, population structure and marker-trait associations for agronomic and grain traits in wild diploid wheat Triticum urartu

Wang, Xin; Luo, Guangbin; Yang, Wenlong; Li, Yiwen; Sun, Jiazhu; Zhan, Kehui; Liu, Dongcheng; Zhang, Aimin

doi:10.1186/s12870-017-1058-7

Table 2 Diversity parameters revealed by SSR markers in 238 T. urartu accessions

From: Genetic diversity, population structure and marker-trait associations for agronomic and grain traits in wild diploid wheat Triticum urartu

Loci	Chromosome	Position (cM) ^a	Repeat pattern	Size range (bp)	Ao ^b	Ae ^c	Gn ^d	MAF ^e	PIC ^f	Ho ^g	He ^h	GD ⁱ
Xgwm136	1A	14	(CT)n	224–308	42	11.43	51	0.51	0.91	0.21	0.79	0.93
Xcfd15	1A	23	(CT)n(TGTA)n	166–226	26	14.85	28	0.13	0.93	0.07	0.76	0.91
Xbarc148	1A	43	(CT)n	197–209	8	2.08	8	0.65	0.45	0	0.32	0.51
Xgwm357	1A	51	(GA)n	122–158	17	9.73	19	0.15	0.89	0	0.62	0.80
Xgwm164	1A	57	(CT)n	118–148	15	5.87	16	0.28	0.81	0	0.62	0.83
Xcfa2129	1A	83	(GA)n	154–206	25	9.05	25	0.23	0.91	0	0.77	0.89
Xcfa2219	1A	126	(GT)n	214–250	18	7.77	22	0.19	0.88	0.23	0.68	0.87
Xbarc17	1A	136	(TAA)n	268–325	19	5.72	19	0.32	0.86	0	0.50	0.83
Xgwm210.1	2A	4	(GA)n	183–187	5	1.70	5	0.73	0.35	0	0.39	0.41
Xgwm614	2A	10	(GA)n	120–192	36	13.25	36	0.30	0.87	0	0.70	0.88
Xgwm328	2A	43	(GT)n	199–212	15	8.05	26	0.28	0.87	0.36	0.72	0.88
Xgwm249.1	2A	59	(GA)n(GGA)n	199–238	24	6.56	24	0.24	0.83	0	0.56	0.85
Xcfa2043	2A	71	(GA)n	197–233	21	6.86	21	0.24	0.83	0	0.73	0.85
Xcfa2058	2A	76	(TC)n	252–290	24	10.34	24	0.21	0.84	0	0.73	0.90
Xcfa2121	2A	82	(CA)n	146–184	22	14.98	42	0.17	0.90	0.49	0.79	0.93
Xgwm265	2A	100	(GT)n	185–195	10	3.21	10	0.42	0.94	0	0.52	0.68
Xgwm382.1	2A	117	(GA)n	110–170	30	14.41	30	0.16	0.63	0	0.76	0.93
Xcfa2086	2A	133	(CA)n	217–284	32	11.37	32	0.22	0.93	0	0.75	0.91
Xbarc57	3A	0	(TTA)n	205–265	22	8.25	22	0.19	0.91	0	0.73	0.88
Xbarc12	3A	25	(TAA)n	167–227	20	9.08	20	0.16	0.87	0	0.72	0.89
Xgwm369	3A	36	(CT)nTT(CT)n	170–204	20	10.05	20	0.23	0.88	0	0.67	0.90
Xcfa2076	3A	61	(TG)n	184–218	14	4.02	14	0.42	0.89	0	0.55	0.75
Xgwm674	3A	80	(CT)nCCC(GT)n	168–178	7	1.92	7	0.66	0.42	0	0.24	0.47
Xcfa2134	3A	101	(TC)n	207–283	38	14.71	38	0.19	0.38	0	0.78	0.94
Xgwm480	3A	105	(CT)n(CA)n	176–194	12	3.71	12	0.42	0.93	0	0.46	0.73
Xgwm247	3A	117	(GA)n	202–214	27	6.32	27	0.29	0.69	0	0.74	0.84
Xcfa2193	3A	171	(GT)n	198–246	24	6.31	24	0.30	0.83	0	0.56	0.84
Xbarc206	4A	0	(CT)n	234–252	9	1.37	12	0.86	0.29	0.04	0.24	0.25
Xgwm192.1	4A	29	(CT)n	151–169	9	2.89	9	0.49	0.24	0	0.34	0.65
Xbarc138	4A	39	(CT)n	192–196	4	2.03	4	0.56	0.48	0	0.27	0.36
Xgwm397	4A	69	(CT)n	195–235	30	14.63	38	0.17	0.43	0.25	0.76	0.93
Xgwm269.2	4A	76	(CA)n	113–197	24	10.68	24	0.19	0.93	0	0.63	0.91
Xcfd88	4A	108	(CCG)n	179–182	7	1.94	7	0.61	0.90	0	0.36	0.49
Xbarc70	4A	187	(TATCTA)n(TCTA)n	202–274	21	8.85	21	0.43	0.38	0	0.41	0.74
Xbarc180	5A	12	(ATT)n	184–226	17	8.93	17	0.19	0.71	0	0.74	0.89
Xbarc117	5A	18	(CA)n	235–248	8	2.65	11	0.50	0.88	0.04	0.44	0.62
Xgwm293	5A	27	(CA)n	178–205	17	3.73	17	0.45	0.68	0	0.57	0.84
Xbarc1	5A	30	(TAA)n	255–297	14	2.19	14	0.38	0.61	0	0.46	0.76
Xbarc165	5A	35	(ATT)n	207–236	19	7.94	28	0.24	0.54	0.69	0.85	0.87
Xbarc141	5A	39	(GA)n	264–290	13	4.84	13	0.30	0.86	0	0.60	0.79
Xbarc330	5A	48	(CT)n	108–160	28	11.45	28	0.17	0.77	0	0.75	0.91
Xbarc151	5A	54	(CT)n	202–224	12	4.65	12	0.38	0.76	0	0.61	0.78
Xgwm639	5A	64	(GA)n	146–169	26	8.34	26	0.19	0.87	0	0.70	0.88
Xgwm179	5A	96	(GT)n	194–208	8	3.55	8	0.33	0.67	0	0.23	0.72
Xgwm410.1	5A	109	(CA)n	288–345	37	11.58	54	0.25	0.91	0.72	0.78	0.91
Xgwm334	6A	28	(GA)n	127–153	26	8.85	42	0.23	0.88	0.28	0.74	0.89
Xbarc3	6A	66	(CCT)n	206–256	30	9.67	30	0.33	0.84	0	0.63	0.85
Xcfd80	6A	84	(GA)n	165–183	11	4.04	11	0.40	0.72	0	0.53	0.75
Xgwm132	6A	111	(GA)n(GAA)n	112–146	20	7.01	33	0.33	0.85	0.69	0.81	0.86
Xgwm570	6A	118	(CT)n(GT)n	130–152	11	3.86	11	0.38	0.70	0	0.49	0.74
Xbarc104	6A	125	(TAA)n	174–213	13	3.11	13	0.40	0.63	0	0.54	0.78
Xgwm427	6A	137	(CA)n	154–228	31	12.14	31	0.17	0.91	0	0.72	0.92
Xgwm617	6A	140	(GA)n	106–166	11	5.28	11	0.28	0.78	0	0.42	0.75
Xgwm471	7A	20	(CA)n	120–186	32	9.95	32	0.27	0.89	0	0.76	0.90
Xcfd242	7A	39	(GTT)n(AGC)n	219–237	8	3.47	12	0.39	0.66	0.30	0.58	0.75
Xbarc127	7A	47	(CT)n	196–264	22	9.18	37	0.19	0.88	0.21	0.73	0.89
Xbarc154	7A	49	(CT)n	237–285	22	5.60	26	0.29	0.80	0.07	0.61	0.82
Xbarc174	7A	71	(ATT)n	170–227	21	8.85	21	0.21	0.88	0	0.55	0.89
Xgwm276	7A	84	(CT)n	97–129	16	4.93	20	0.37	0.77	0.06	0.61	0.80
Xcfd20	7A	103	(GGAA)n(CTAC)n	288–459	11	4.17	14	0.35	0.73	0.13	0.57	0.76
Xgwm63	7A	106	(CA)n(TA)n	157–183	16	6.61	24	0.30	0.83	0.18	0.69	0.85
Xcfa2040	7A	124	(CA)n	293–341	24	11.45	24	0.17	0.91	0	0.73	0.91
Mean					19.37	7.29	21.89	0.32	0.76	0.08	0.61	0.80

^a Indicated map positions in bread wheat according to Song et al. [48]
^b Number of observed alleles
^c Expected number of alleles
^d Number of genotype at each locus
^e Frequency of major allele
^f Polymorphism information content
^g Observed heterozygosity
^h Expected heterozygosity
ⁱ Nei’s Gene diversity

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