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Acta Agronomica Sinica ›› 2020, Vol. 46 ›› Issue (7): 997-1005.doi: 10.3724/SP.J.1006.2020.94143


Fine mapping of Phytophthora resistance gene RpsZheng in soybean cultivar Zheng 97196

ZHANG Xue-Cui1,ZHONG Chao2,DUAN Can-Xing1,SUN Su-Li1,*(),ZHU Zhen-Dong1,*()   

  1. 1 Institute of Crop Sciences, Chinese Academy of Agricultural Sciences, Beijing 100081, China
    2 Agricultural College, Shenyang Agricultural University, Shenyang 110866, Liaoning, China
  • Received:2019-09-27 Accepted:2020-01-15 Online:2020-07-12 Published:2020-02-22
  • Contact: Su-Li SUN,Zhen-Dong ZHU E-mail:sunsuli@caas.cn;zhuzhendong@caas.cn
  • Supported by:
    Special Fund for Agroscientific Research in the Public Interest(201303018);Program of Protection of Crop Germplasm Resources from the Ministry of Agriculture and Rural Affairs(2019NWB036-12);Scientific Innovation Program of Chinese Academy of Agricultural Sciences


Phytophthora root rot caused by Phytophthora sojae, is a major disease in soybean production, which can cause serious yield losses. To date, the most effective way to control the disease is deployment of resistant soybean cultivars containing Phytophthora sojae (Rps) resistance genes. The previous study identified an Rps gene RpsZheng in soybean cultivar Zheng 97196, which was mapped on chromosome 3. The objective of this study was to confirm and finely map the resistance gene RpsZheng. The susceptible Williams and resistant Zheng 97196 were crossed and generated 188 F2:3 families, which were used as a mapping population. The genetic linkage map of RpsZheng was constructed using genetic and phenotypic data. RpsZheng was mapped between the flanking SSR markers SattWM82_39 (2.5 cM) and BARCSOYSSR_03_0269 (1.0 cM). Based on genome-wide resequencing data of parents, we developed and identified polymorphic InDel markers to further narrow the RpsZheng candidate region to 105.2 kb. Molecular detection among soybean cultivars was carried out using the co-segregation markers in the RpsZheng candidate region. The marker WZInDel11 could effectively distinguish RpsZheng from other Rps genes. This study identified specific genomic intervals of RpsZheng and developed co-segregation markers that can be effectively used for gene function studies and molecular assisted selection breeding.

Key words: Glycine max, Phytophthora root rot, genetic analysis of resistance, resistance gene, fine mapping

Table 1

Phenotypic reaction of 28 cultivars, with and without Rps genes, against 10 Phytophthora sojae isolates"

Cultivar (Rps gene)
大豆疫霉分离物Phytophthora sojae isolate
PsRace1 PsRace4 PsJS2 PsNKI Ps41-1 PsMC1 PsAH4 Ps7063 Ps6497 PsUSAR2
Harlon (Rps1a) S S S R S S R S R R
Harosoy 13XX (Rps1b) R R S S S S S R S S
Williams 79 (Rps1c) R R S R R R S R R R
PI103091 (Rps1d) R S S S S S S S S R
Williams 82 (Rps1k) R R S R R S S R R R
L76-988 (Rps2) R R S S S S S S S S
L83-570 (Rps3a) R R S S S S S S R R
PRX146-36 (Rps3b) R S S S S S S R R R
PRX145-48 (Rps3c) R R S S S S S R S S
L85-2352 (Rps4) R R S S S S S S R R
L85-3059 (Rps5) R R S S S S S S R S
Harosoy 62XX (Rps6) R R S S S S S S R R
Harosoy (Rps7) R R S S S S S S S R
PI399073 (Rps8) R R S S S S R S R R
鲁豆4号 Ludou 4 (Rps9) R R R R R R R R R R
皖豆15 Wandou 15 (Rps10) R R S R R R R S R R
诱变30 Youbian 30 (RpsYB30) R S S R R S S S S R
豫豆29 Yudou 29 (RpsYD29) R R S R R R S R R R
齐茶豆1号 Qichadou 1 (RpsQ) R R R R R R R R R R
华春18 Huachun 18 (RpsHC18) R R R R R R R S R R
豫豆25 Yudou 25 (RpsYD25) R R S R R R S R R R
早熟18 Zaoshu 18 (RpsZS18) R R S R R S S S R R
岫94-11 Xiu 94-11 (RpsX) R R R R R R R R R R
郑97196 Zheng 97196 (RpsZheng) R R R R R R R R R R
中黄13 Zhonghuang 13 (rps) S S S S S S S S S S
豫豆21 Yudou 21 (rps) S S S S S S S S S S
Williams (rps) S S S S S S S S S S

Supplementary table 1

226 soybean cultivars with known resistance phenotypes for detecting co-segregation molecular markers"

对大豆疫霉分离物PsJS2的抗性反应 Phenotypic reaction to PsJS2
Soybean cultivar without WZInDel11 target fragment
Soybean cultivar containing WZInDel11 target fragment

Table 2

Genetic analysis of resistance to Phytophthora sojae isolate PsJS2 in the F2:3 population derived from Williams×Zheng 97196"

Parent and the cross
Sample size
观察值Observed number 卡平方检验Chi squared tests
Expected ratio
χ2 P
郑97196 Zheng 97196 P1 20 20
Williams P2 20 20
Williams×Zheng 97196

Fig. 1

Genetic and physical maps of the RpsZheng region A: Linkage map constructed with 16 polymorphic SSR markers linked to RpsZheng on soybean chromosome 3. Genetic distances, in cM, are shown on the left side, and the locations of the markers and RpsZheng are indicated on the right side. B: Genetic map of the RpsZheng region. Genetic distances, in cM, are shown on the left, and the locations of the markers and RpsZheng are indicated on the right. C: The physical map of the RpsZheng which constructed between InDel markers WZInDel7 and WZInDel12. The black bar represents the region in which no recombination events occurred in the F2:3 population. The locations of markers are provided on the right, and the physical location on the left."

Table 3

Gene and gene annotation of the 105.2 kb genomic region for RpsZheng on chromosome 3 (Glycine max V2.0)"

Gene model name
Glyma.03g035200 Gm03:4265953…4274479 锌指CW型卷曲螺旋结构域蛋白3 Zinc finger CW-type coiled-coil domain protein 3
Glyma.03g035300 Gm03:4274744…4278897 丝氨酸/苏氨酸蛋白激酶 Serine/threonine protein kinase
Glyma.03g035400 Gm03:4282985…4285957 五肽重复(PPR)超家族蛋白 Pentatricopeptide repeat (PPR) superfamily protein
Glyma.03g035500 Gm03:4289118…4294184 类氨基转移酶, 植物移动域家族蛋白
Aminotransferase-like, plant mobile domain family
Glyma.03g035600 Gm03:4295128…4296444 脂质转移蛋白1 Lipid transfer protein 1
Glyma.03g035700 Gm03:4309159…4309326 脂质转移蛋白5 Lipid transfer protein 5
Glyma.03g035800 Gm03:4317466…4321009 扩张素A2 Expansin A2
Glyma.03g035900 Gm03:4322884…4330292 富含MAC/Perforin结构域的蛋白质 MAC/Perforin domain-containing protein
Glyma.03g036000 Gm03:4335981…4341371 丝氨酸/苏氨酸蛋白激酶 Serine/threonine protein kinase
Glyma.03g036100 Gm03:4337336…4337912 无功能注释 No functional annotation
Glyma.03g036200 Gm03:4360966…4367363 多抗药性蛋白 Multidrug resistance protein

Fig. 2

Detection of marker WZInDel11 in soybean cultivars A: Detection of WZInDel11 in 23 soybean cultivars containing known Rps genes with Zheng 97196 and Williams as controls; B: Detection of marker WZInDel11 in 226 soybean cultivars, showing that soybean cultivars contain target fragments."

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