Selective sweep with significant positive selection serves as the driving force for the differentiation of japonica and indica rice cultivars

Yuan, Yang; Zhang, Qijun; Zeng, Shuiyun; Gu, Longjiang; Si, Weina; Zhang, Xiaohui; Tian, Dacheng; Yang, Sihai; Wang, Long

doi:10.1186/s12864-017-3702-x

Table 3 Genome-wide identification of the DR-II type selective sweep regions with low diversity (π ≤ 0.0002) within cultivars, but high diversity (π >0.001) in wild rice

From: Selective sweep with significant positive selection serves as the driving force for the differentiation of japonica and indica rice cultivars

	Chr	Rang of blocks	Length (bp)	π_Jap *10⁵	π_Ind *10⁵	D_Jap-Ind *10⁵	π_Cultivar *10⁵	π_Wild *10⁵	D_Jap-Wild *10⁵	D_Ind-Wild *10⁵	D_Cul-Wild *10⁵
1	chr01	8645929–8660126	14198	1	18	16	13	118	104	108	106
2	chr03	26199939–26210003	10065	10	15	14	13	141	140	144	142
3	chr04	25959995–26040007	80013	10	15	14	13	181	228	229	229
4	chr04	26089892–26100078	10187	6	8	7	7	155	250	249	249
5	chr04	26229998–26260103	30106	10	15	15	14	230	327	325	326
6	chr04	26359991–26370003	10013	5	6	6	6	125	168	166	167
7	chr04	26789966–26810053	20088	10	16	14	14	155	251	247	249
8	chr04	26949945–26970083	20139	9	14	13	12	141	191	190	190
9	chr04	27009995–27060009	50015	7	20	17	16	286	360	356	358
10	chr04	32529159–32540000	10842	18	13	16	16	109	104	123	114
11	chr04	33889971–33900005	10035	15	10	20	16	173	228	222	225
12	chr04	33979989–33990038	10050	15	10	16	14	100	135	145	140
13	chr04	34219891–34249999	30109	12	7	12	11	277	316	319	318
14	chr05	29729953–29740204	10252	9	5	7	7	115	115	103	109
15	chr07	2739991–2770008	30018	15	13	18	16	406	456	451	453
16	chr07	2799992–2810002	10011	11	6	9	9	262	311	305	308
17	chr07	2879923–2910069	30147	14	10	13	13	280	437	432	434
18	chr07	2979996–2991842	11847	1	4	3	3	140	104	105	105
19	chr07	3096102–3109999	13898	10	9	11	10	110	116	108	112
20	chr07	3699995–3710053	10059	12	7	10	10	364	394	396	395
21	chr07	3759873–3790006	30134	9	7	10	9	264	273	272	273
22	chr07	4019981–4030093	10113	12	6	12	10	138	131	124	127
23	chr07	4070000–4090006	20007	9	17	15	14	236	256	252	254
24	chr08	23749999–23770091	20093	12	14	14	14	246	269	263	266
25	chr08	23809970–23860036	50067	9	16	15	14	549	500	501	501
26	chr08	23919999–23940003	20005	5	10	9	8	206	283	282	283
27	chr08	23989975–24040080	50106	7	14	11	11	273	315	312	313
28	chr12	24930000–24950016	20017	13	1	11	9	168	124	121	122
Average			22951	10	11	12	11	213	247	246	246

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ISSN: 1471-2164

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