S Table. 2 Primers Used in This Research

S Fig.1 Amino acid sequence alignment between Pi2 with and without 3 bases’ deletion at the site of 1543-1545 of Pi2 genome.

S Table.1 Haplotype analysis of Pi2 genome at position of 1543-1545 of selected rice varieties, and the corresponding rice blast resistance phenotypes.

Variety Name / Nucleotides at locations 1543-1545 of the Pi2 genome / Rice Type / Rice blast resistance
Peiai64 / ACA / Indica / R
Liushizao / ACA / Indica / /
Qiuqianbai / - / Indica / /
Sanbaili / - / Indica / /
Nanjing11 / - / Indica / S
SLucaihao / - / Indica / /
P9311 / - / Indica / S
Teqing / - / Indica / S
Shundehetang / ACA / Indica / /
sihuisanzaoqi / - / Indica / /
Zaoyouzhan / ACA / Indica / /
Guichao-2 / - / Indica / /
Qiyuezhan / ACA / Indica / /
Wenxiangruo / - / Indica / /
Haolai / ACA / Indica / /
Zhong3 B / - / Indica / S
Tao1B / - / Indica / S
Rongfeng B / - / Indica / S
Zaofeng B / ACA / Indica / R
Wufeng B / ACA / Indica / R
R286 / ACA / Indica / R
Xuan-6 / ACA / Indica / R
Nei5B / - / Indica / S
Chaotai B / - / Indica / S
9311B / - / Indica / S
Zhongzhe B / - / Indica / S
Yixiang B / - / Indica / S
Chuanxiang 29B / - / Indica / S
Taifeng B / ACA / Indica / R
Hengfeng-1 B / ACA / Indica / R
Hengfeng-2 B / ACA / Indica / R
xiang2-1 B / - / Indica / S
Xiang2-2 B / ACA / Indica / S
Chuan 106B / ACA / Indica / R
Xiang B / - / Indica / S
RLvdao Q7 / - / Indica / S
Zhongzhi 11 / ACA / Indica / R
R227 / ACA / Indica / R
Yuenongsimiao / ACA / Indica / R
Guguangzhan / - / Indica / S
Yuekang 1322 / ACA / Indica / R
Huazhan / ACA / Indica / R
Yuehuangguangzhan / ACA / Indica / R
Guangchao 1421 / - / Indica / S
R1173 / - / Indica / S
R608 / - / Indica / S
R4418 / - / Indica / S
R1813 / - / Indica / S
Tuhui 599 / - / Indica / S
R527 / - / Indica / /
Chenghui 727 / - / Indica / S
Yuehui 9113 / - / Indica / S
13HR-1 / ACA / Indica / R
R8006 / - / Indica / /
Wenxiang-1 / - / Indica / S
CNR212 / - / Indica / S
Huanghuazhan / - / Indica / S
Huanghuazhanxuan / ACA / Indica / R
EF1-1338 / - / Indica / S
EF1-1339 / ACA / Indica / R
EF1-1340 / ACA / Indica / R
9311(PI9+Xa23) / ACA / Indica / R
9311(BPH) / - / Indica / S
CPSL017 / ACA / Indica / R
CNRRI（R0146-RT） / - / Indica / S
CNRRI（P1003-RT） / ACA / Indica / R
CNRRI（P1017-RT） / ACA / Indica / R
AC3206 / - / Indica / S
7014 / ACA / Indica / S
7038 / ACA / Indica / R
Danyou / ACA / Indica / S
HN08-129 / - / Indica / S
R900 / - / Indica / S
R1998 / ACA / Indica / R
R5814 / - / Indica / S
R9918 / - / Indica / S
Guangchao 112 / ACA / Indica / R
Wushansimiao / ACA / Indica / R
G-1 / ACA / Indica / R
G-2 / - / Indica / S
G-3 / ACA / Indica / S
G-4 / - / Indica / S
G-5 / - / Indica / S
Hefengsimiao / - / Indica / S
Guilongzhan / - / Indica / S
Yuxiangyouzhan / - / Indica / S
HBF-9 / ACA / Indica / R
Jinchao-1 / - / Indica / S
Yujingzhan-5 / - / Indica / S
Guanghui368 / ACA / Indica / R
Liyuanzhan-1 / - / Indica / S
R1133 / - / Indica / S
JN11 / ACA / Indica / S
JN12 / ACA / Indica / R
R1998 / ACA / Indica / R
R2640 / ACA / Indica / R
R5032 / ACA / Indica / R
Neihui 99-14 / - / Indica / S
Luweidao / - / Indica / S
R1283 / ACA / Indica / R
Hejia / - / Indica / S
R308 / ACA / Indica / R
R306 / ACA / Indica / S
1501956-12 / ACA / Indica / R
1501956-12 / ACA / Indica / R
1501957-9 / ACA / Indica / R
1502402 / - / Indica / S
1510936 / - / Indica / S
1510937 / - / Indica / S
T3Axuan / ACA / Indica / R
Qixiang-1B / ACA / Indica / S
Qixiang-3B / - / Indica / S
Kangfeng B / ACA / Indica / R
Guangkang 13B / ACA / Indica / R
Moro / ACA / Indica / R
Sizhan / ACA / Indica / R
Efengyingzhan / - / Indica / S
Xinzhihui-1 / ACA / Indica / R
R220 / - / Indica / S
R399 / ACA / Indica / R
R641 / ACA / Indica / R
R868 / - / Indica / S
R997 / - / Indica / S
R4945 / ACA / Indica / R
Kenzao-5 / ACA / Indica / R
Bangzao 408 / ACA / Indica / R
Bangzao 559 / ACA / Indica / R
Bangwan 281 / ACA / Indica / R
Changxianghui-1 / - / Indica / S
Changhui891 / - / Indica / S
Luhui37 / - / Indica / S
907-1 / - / Indica / S
Chenghui 727 / - / Indica / S
Deyue 18 / ACA / Indica / R
DQ-255 / - / Indica / S
DQ-268 / - / Indica / S
DQ-272 / - / Indica / S
DQ-274 / - / Indica / S
DQ-483 / - / Indica / S
DQ-623 / - / Indica / S
DQ-631 / ACA / Indica / S
75-1-127 / ACA / Indica / R
Digu B / ACA / Indica / R
Xiaolixiang / ACA / Indica / S
Taducan / - / Indica / /
Zhong9B / - / Indica / S
CO 18 / ACA / Indica / R
Padi Boenor / ACA / Indica / R
JC92 / - / Indica / S
Minhui 3301 / - / Indica / S
Minghui 86 / - / Indica / S
Miyang 46 / - / Indica / S
DV85 / ACA / Indica / R
Dhala Shaitta / ACA / Indica / /
T1 / ACA / Indica / /
BJ 1 / ACA / Indica / /
DV1 / ACA / Indica / /
II-32B / - / Indica / S
Zhongjiazao 17 / ACA / Indica / R
Zhong3B / - / Indica / S
Zhongjian-2 / - / Indica / S
Zhongxiang-1 / - / Indica / S
Zhonghui9308 / - / Indica / S
Zhenshan97B / - / Indica / S
XieB / ACA / Indica / R
Gaoyeerguliang / ACA / Japonica / /
02428 / ACA / Japonica / /
Zhizhumang / ACA / Japonica / /
Beijingjiangmidao / ACA / Japonica / /
Shuiyuan300 / ACA / Japonica / /
Yelicanghua / ACA / Japonica / /
Zhonglou-1 / ACA / Japonica / /
Weiguo / ACA / Japonica / /
Chimao / ACA / Japonica / /
Xingguo / ACA / Japonica / /
Hongguo / ACA / Japonica / /
Guangtouhulu / ACA / Japonica / /
Baimaodao / ACA / Japonica / /
Youmangzaojing / ACA / Japonica / /
Feidongtangdao / ACA / Japonica / /
Heimangdao / - / Japonica / /
Taidongludao / ACA / Japonica / /
Fengjing / ACA / Japonica / R
Qiuguang / ACA / Japonica / R
Zhouandao / ACA / Japonica / R
Yiweidao / ACA / Japonica / R
Huadongdao / ACA / Japonica / R
Shoufenguang / ACA / Japonica / R
Jingyue-1 / ACA / Japonica / R
Zhonghua11 / ACA / Japonica / R
Zhendao 88 / ACA / Japonica / R
Ningjing-1 / - / Japonica / S
Mansaku / ACA / Japonica / R
Geumobyeo / ACA / Japonica / R
Koshihikari / ACA / Japonica / S
Tainan Iku 487 / ACA / Japonica / S
Nipponbare / ACA / Japonica / S
T65 / - / Japonica / S
Asominori / ACA / Japonica / S
IR24 / - / Japonica / S
Reyan-1 / ACA / Japonica / S
Longjing 31 / ACA / Japonica / R
T13 / ACA / Japonica / R
Jiyou 7515 / ACA / Japonica / R
Yongyou-1 / ACA / Japonica / R
Yongyou-7 / ACA / Japonica / R
W030 / ACA / Japonica / R
W2144 / ACA / Japonica / R
W2193 / ACA / Japonica / S
W2225 / ACA / Japonica / S
W2279 / ACA / Japonica / S
Wuyunjing 23 / ACA / Japonica / R
JingR / ACA / Japonica / R
Jiahe -1 / ACA / Japonica / S
Jiahe -2 / ACA / Japonica / S
F7538 / ACA / Japonica / R
Yongyou 7627 / ACA / Japonica / R
Yongyou 7628 / ACA / Japonica / R
Ningjing-3 / ACA / Japonica / S
Changlizaojing-1 / ACA / Japonica / R
Changlizaojing-2 / ACA / Japonica / R
Y4H/-9 / ACA / Japonica / S
Mingfu-1 / ACA / Japonica / R
809 / ACA / Japonica / R
Changsongjing / ACA / Japonica / R
Songjing-9 / ACA / Japonica / R
Songyou-9 / ACA / Japonica / R
Songjingxiang-2 / ACA / Japonica / /
Zhejing60 / ACA / Japonica / S
Zhejing88 / ACA / Japonica / S
Zhejing99 / ACA / Japonica / S
Shaojing18 / ACA / Japonica / S
Jia58 / ACA / Japonica / S
Xiushui 134 / ACA / Japonica / S
Xiushui 13 / ACA / Japonica / R
Xiushui 18 / ACA / Japonica / R
Xiushui 11-24 / ACA / Japonica / R
Chunjiang 135 / ACA / Japonica / R
Wanjing / ACA / Japonica / R
Shengwanjing / ACA / Japonica / S
Jiahe228 / ACA / Japonica / S
Changjing 1B / ACA / Japonica / R
Jinhui 20 / ACA / Japonica / R
Jinhui 21 / ACA / Japonica / R
Changjingxiang-1 / ACA / Japonica / R
Rong18 B / ACA / Japonica / R
Beijing-3 / ACA / Japonica / R
Beijing-4 / ACA / Japonica / R
Beijing-5 / ACA / Japonica / R
Beijing-6 / ACA / Japonica / R
Beijing-9 / ACA / Japonica / R
Huasheng 04021 / ACA / Japonica / R
Longfeng 09757 / ACA / Japonica / R
Longhua 07211 / ACA / Japonica / R
Longhua 08696 / ACA / Japonica / R
Longjiao 102813 / ACA / Japonica / R
Wuyunjing 21 / ACA / Japonica / R
Wuyunjing 5826 / ACA / Japonica / R
Nanjing 5854 / ACA / Japonica / R
Yangjing 581 / ACA / Japonica / R
Jijing 03 / ACA / Japonica / R
Jijing 515 / ACA / Japonica / R
Yunjing 377 / ACA / Japonica / R
Wuyu 21 / ACA / Japonica / R
Wuyu 236 / ACA / Japonica / R
1305 / ACA / Japonica / R
C315 / ACA / Japonica / R
C586 / ACA / Japonica / R
15F6-36 / ACA / Japonica / R
15F6-39 / ACA / Japonica / R
15F6-40 / ACA / Japonica / R
15F6-42 / ACA / Japonica / R
15F6-44 / ACA / Japonica / R
15F6-49 / ACA / Japonica / R
15F6-54 / ACA / Japonica / R
15F6-59 / ACA / Japonica / R
15X-34 / ACA / Japonica / R
15X-35 / ACA / Japonica / R
15X-23 / ACA / Japonica / R
15X-26 / ACA / Japonica / R
5-215 / ACA / Japonica / R
Ha 1164 / ACA / Japonica / R
1-110 / ACA / Japonica / R
15-42 / ACA / Japonica / R
Kedao 12 / ACA / Japonica / R
Wuyoudao-1 / ACA / Japonica / R
D227 / ACA / Japonica / R
F7-16 / ACA / Japonica / R
Chaojichanglixiang-3 / ACA / Japonica / R
Techangli / ACA / Japonica / R
Ershang Q07 / ACA / Japonica / R
Erxiaxiang Q03 / ACA / Japonica / R
DUS1174 / ACA / Japonica / R
DUS1162 / ACA / Japonica / R
Ershang Q10 / ACA / Japonica / R
Yishang Q06 / ACA / Japonica / R
Erxiaxiang S02 / ACA / Japonica / R
Wuxiang-1 / ACA / Japonica / R
Dular / ACA / Tropical Japonica / R
Gaojiaozijingdao / ACA / Tropical Japonica / R
Tieganwu / ACA / Tropical Japonica / R
Wujieruo / ACA / Tropical Japonica / R
Yimi-1 / ACA / Tropical Japonica / R
Yimi-2 / ACA / Tropical Japonica / R
Lemonet / ACA / Tropical Japonica / R
JFS / ACA / Tropical Japonica / R
CPS / ACA / Tropical Japonica / R
Katy / ACA / Tropical Japonica / R
KRBT / ACA / Tropical Japonica / R
RXMT / ACA / Tropical Japonica / R
DXBC / ACA / Tropical Japonica / R
CPSL017 / ACA / Tropical Japonica / R
Lengshuiruo / ACA / Tropical Japonica / R
Yuyanruo / ACA / Tropical Japonica / R
Jiuyuehuang / ACA / Tropical Japonica / R
D50 / ACA / Tropical Japonica / R
SHADA BORO / ACA / Tropical Japonica / R
Dom Sofid / ACA / Tropical Japonica / R
Dholi Boro / ACA / Tropical Japonica / R
N 22 / ACA / Tropical Japonica / R
Arias / ACA / Tropical Japonica / R
KU115 / ACA / Tropical Japonica / R
zy87 / ACA / Oryza rufipogon / R
zy88 / ACA / Oryza rufipogon / R
zy89 / ACA / Oryza rufipogon / R
zy90 / ACA / Oryza rufipogon / R
zy91 / ACA / Oryza rufipogon / R
zy92 / ACA / Oryza rufipogon / R
zy93 / ACA / Oryza rufipogon / R
zy94 / ACA / Oryza rufipogon / R
zy95 / ACA / Oryza rufipogon / R
zy96 / ACA / Oryza rufipogon / R
zy97 / ACA / Oryza rufipogon / R
zy98 / ACA / Oryza rufipogon / R
zy99 / ACA / Oryza rufipogon / R
zy100 / ACA / Oryza rufipogon / R
zy101 / ACA / Oryza rufipogon / R
zy102 / ACA / Oryza rufipogon / R
zy103 / ACA / Oryza rufipogon / R
zy104 / ACA / Oryza rufipogon / R
zy105 / ACA / Oryza rufipogon / R
zy106 / ACA / Oryza rufipogon / R
zy107 / ACA / Oryza rufipogon / R
zy108 / ACA / Oryza rufipogon / R
zy109 / ACA / Oryza rufipogon / R
zy110 / ACA / Oryza rufipogon / R
zy111 / ACA / Oryza rufipogon / R
zy112 / ACA / Oryza rufipogon / R
zy113 / ACA / Oryza rufipogon / R
zy114 / ACA / Oryza rufipogon / R
zy115 / ACA / Oryza rufipogon / R
zy116 / ACA / Oryza rufipogon / R
zy117 / ACA / Oryza rufipogon / R
zy118 / ACA / Oryza rufipogon / R
zy119 / ACA / Oryza rufipogon / R
zy120 / ACA / Oryza rufipogon / R

“-” indicates deletion of the 3 base-pairs; “S” indicates susceptible, “R” indicates with rice blast resistance, “/” indicates inoculation failed with no rice blast resistance phenotype.

S table. 2 Primers used in this research.

marker / Forward primer (5'-3') / Reverse primer (5'-3')
Pi2-Seq-1 / GTGCCAAGTAGCAATAGTTC / ATAGATAAATATCTAGCTCAAAGAG
Pi2-Seq-2 / AGAACTAGAAATAAACCCAAGCC / GGGAGGAGGAGATGAAATAGAA
Pi2-1 / TTGGATTGGAGCATTATTCG / GCATGTGCTAGACTCTTGGGT
Pi2-qRT / GCTGCTGAAGTTATGAAAAAGA / ATTTGAGGTTGTGGATACGG

S Fig.2 Pi2-1 genotyping of individuals of Huazhan/R900 F2 population.

S Fig.3 Rice plant blast resistance phenotypes of Huazhan/R900 F2 population individuals shown in S Fig.2.

S table. 3 The rice blast resistance genotypes and phenotypes of individuals in the Huazhan/R900 F2 population.

Individual number / The genotypes of Pi2-1 / Rice blast resistance phenotypes
1 / ACA / R
2 / H/- / S
3 / H/- / S
4 / ACA / R
5 / ACA / R
6 / H/- / S
7 / H/- / S
8 / H/- / S
9 / ACA / R
10 / ACA / R
11 / ACA / R
12 / H/- / S
13 / H/- / S
14 / H/- / S
15 / H/- / S
16 / ACA / R
17 / ACA / R
18 / ACA / R
19 / ACA
20 / H/- / S
21 / H/- / S
22 / H/- / S
23 / ACA / R
24 / ACA / R
25 / H/- / R
26 / ACA / R
27 / H/- / S
28 / H/-
29 / H/- / S