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2023 Vol.68, Issue 3 Preview Page
Identification of a Locus Associated with Resistance to Phytophthora sojae in the Soybean Elite Line ‘CheonAl’

콩 우수 계통 ‘천알’에서 발견한 역병 저항성 유전자좌

Hee Jin You1
,
Eun Ji Kang2
,
In Jeong Kang3
,
Ji-Min Kim4
,
Sung-Taeg Kang5
,
Sungwoo Lee6*
유 희진1
,
강 은지2
,
강 인정3
,
김 지민4
,
강 성택5
,
이 성우6*
1Undergraduate Student, Department of Crop Science, Chungnam National University, Daejeon 34134, South Korea
2Researcher, Department of Crop Science, Chungnam National University, Daejeon 34134, South Korea
3Junior Scientist, Division of Crop Cultivation and Environment Research, Department of Central Area Crop Science, National Institute of Crop Science, Suwon 16613, South Korea
4Ph. D. Student, Department of Crop Science and Biotechnology, Dankook University, Cheonan 31116, South Korea
5Professor, Department of Crop Science and Biotechnology, Dankook University, Cheonan 31116, South Korea
6Associate Professor, Department of Crop Science, Chungnam National University, Daejeon 34134, South Korea
1충남대학교 식물자원학과 학사과정학생
2충남대학교 식물자원학과 연구원
3국립식량과학원 재배환경과 농업연구사
4단국대학교 식물생명공학과 박사과정학생
5단국대학교 식물생명공학과 교수
6충남대학교 식물자원학과 부교수
*Corresponding Author
1 September 2023. pp. 134-146
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Abstract

Phytophthora root rot (PRR) is a major soybean disease caused by an oomycete, Phytophthora sojae. PRR can be severe in poorly drained fields or wet soils. The disease management primarily relies on resistance genes called Rps (resistance to P. sojae). This study aimed to identify resistance loci associated with resistance to P. sojae isolate 40468 in Daepung × CheonAl recombinant inbred line (RIL) population. CheonAl is resistant to the isolate, while Daepung is generally susceptible. We genotyped the parents and RIL population via high-throughput single nucleotide polymorphism genotyping and constructed a set of genetic maps. The presence or absence of resistance to P. sojae was evaluated via hypocotyl inoculation technique, and phenotypic distribution fit to a ratio of 1:1 (R:S) (χ2 = 0.57, p = 0.75), indicating single gene mediated inheritance. Single-marker association and the linkage analysis identified a highly significant genomic region of 55.9~56.4 megabase pairs on chromosome 18 that explained ~98% of phenotypic variance. Many previous studies have reported several Rps genes in this region, and also it contains nine genes that are annotated to code leucine-rich repeat or serine/threonine kinase within the approximate 500 kilobase pairs interval based on the reference genome database. CheonAl is the first domestic soybean genotype characterized for resistance against P. sojae isolate 40468. Therefore, CheonAl could be a valuable genetic source for breeding resistance to P. sojae.

Keywords
disease resistance
genetic mapping
Phytophthora sojae
Rps
soybean
References
1
Allen, T. W., C. A. Bradley, A. J. Sisson, E. Byamukama, M. I. Chilvers, C. M. Coker, A. A. Collins, J. P. Damicone, A. E. Dorrance, and N. S. Dufault. 2017. Soybean yield loss estimates due to diseases in the United States and Ontario, Canada, from 2010 to 2014. Plant Health Progress 18 : 19-27. 10.1094/PHP-RS-16-0066
2
Athow, K. L. 1982. Rps6, a major gene for resistance to Phytophthora megasperma f. sp. glycinea in soybean. Phytopathology 72 : 1564-1567. 10.1094/Phyto-72-1564
3
Athow, K. L., F. A. Laviolette, E. H. Mueller, and J. R. Wilcox. 1980. A new major gene for resistance to Phytophthora megasperma var. sojae in soybean. Phytopathology 70 : 977-980. 10.1094/Phyto-70-977
4
Bates, D., M. Mächler, B. Bolker, and S. Walker. 2015. Fitting linear mixed-effects models using lme4. Journal of Statistical Software 67 : 1-48. 10.18637/jss.v067.i01
5
Burnham, K., A. Dorrance, D. Francis, R. Fioritto, and S. St Martin. 2003. Rps 8, a new locus in soybean for resistance to Phytophthora sojae. Crop Science 43 : 101-105. 10.2135/cropsci2003.1010
6
Buzzell, R. I. and T. R. Anderson. 1981. Research notes : another major gene for resistance to Phytophthora megasperma var. sojae in soybeans. Soybean Genetics Newsletter 8 : 30-33.
7
Cai, G., T. J. Fleury, and N. Zhang. 2019. Comparative genomics approach to build a genome-wide database of high-quality, informative microsatellite markers: application on Phytophthora sojae, a soybean pathogen. Scientific Reports 9 : 7969. 10.1038/s41598-019-44411-z31138887PMC6538632
8
Chen, L., W. Wang, J. Ping, J. C. Fitzgerald, G. Cai, C. B. Clark, R. Aggarwal, and J. Ma. 2021. Identification and molecular mapping of Rps14, a gene conferring broad-spectrum resistance to Phytophthora sojae in soybean. Theoretical and Applied Genetics 134 : 3863-3872. 10.1007/s00122-021-03933-934370048
9
Cheng, Y., Q. Ma, H. Ren, Q. Xia, E. Song, Z. Tan, S. Li, G. Zhang, and Nian, H. 2017. Fine mapping of a Phytophthora-resistance gene RpsWY in soybean (Glycine max L.) by high-throughput genome-wide sequencing. Theoretical and Applied Genetics 130 : 1041-1051. 10.1007/s00122-017-2869-528246754PMC5395582
10
Demirbas, A., B. Rector, D. Lohnes, R. Fioritto, G. Graef, P. Cregan, R. Shoemaker, and J. Specht. 2001. Simple sequence repeat markers linked to the soybean Rps genes for Phytophthora resistance. Crop Science 41 : 1220-1227. 10.2135/cropsci2001.4141220x
11
Dorrance, A., H. Jia, and T. Abney. 2004. Evaluation of soybean differentials for their interaction with Phytophthora sojae. Plant Health Progress 5 : 9. 10.1094/PHP-2004-0309-01-RS
12
Dorrance, A. E. and A. F. Schmitthenner. 2000. New sources of resistance to Phytophthora sojae in the soybean plant introductions. Plant Disease 84 : 1303-1308. 10.1094/PDIS.2000.84.12.130330831872
13
Gordon, S., K. Kowitwanich, W. Pipatpongpinyo, S. St. Martin, and A. Dorrance. 2007. Molecular marker analysis of soybean plant introductions with resistance to Phytophthora sojae. Phytopathology 97 : 113-118. 10.1094/PHYTO-97-011318942944
14
Guo, N., A. Tahir, X. Cui, J. Xu, J. Sun, N. Zhang, R. Sun, S. Deng, H. Xing, and J. Zhao. 2022. Genome-wide identification of Phytophthora sojae-associated microRNAs and network in a resistant and a susceptible soybean germplasm. Agronomy 12 : 2922. 10.3390/agronomy12122922
15
Jang, I.-H., I. J. Kang, J.-M. Kim, S.-T. Kang, Y. E. Jang, and S. Lee. 2020a. Genetic mapping of a resistance locus to Phytophthora sojae in the Korean soybean cultivar Daewon. The Plant Pathology Journal 36 : 591-599. 10.5423/PPJ.OA.09.2020.017333312094PMC7721532
16
Jang, Y. E., I. H. Jang, I. J. Kang, J.-M. Kim, S.-T. Kang, and S. Lee. 2020b. Two isolate-specific resistance loci for Phytophthora sojae in the soybean Socheong2. Korean Journal of Breeding Science 52 : 398-407. 10.9787/KJBS.2020.52.4.398
17
Jee, H., W. Kim, and W. Cho. 1998. Occurrence of Phytophthora root rot on soybean (Glycine max) and identification of the causal fungus. RDA Journal of Crop Protection 40 : 16-22.
18
Jiang, B., Y. Cheng, Z. Cai, M. Li, Z. Jiang, R. Ma, Y. Yuan, Q. Xia, and H. Nian. 2020. Fine mapping of a Phytophthora-resistance locus RpsGZ in soybean using genotyping-by-sequencing. BMC Genomics 21. 10.1186/s12864-020-6668-z32245402PMC7126358
19
Kang, I. J., S. Kang, I. H. Jang, Y. W. Jang, H. K. Shim, S., Heu, and S. Lee. 2019. Identification of new isolates of Phytophthora sojae and the reactions of Korean soybean cultivars following hypocotyl inoculation. The Plant Pathology Journal 35 : 698. 10.5423/PPJ.NT.09.2019.024931832050PMC6901254
20
Koenning, S. R. and J. A. Wrather. 2010. Suppression of soybean yield potential in the continental United States by plant diseases from 2006 to 2009. Plant Health Progress 11 : 5. 10.1094/PHP-2010-1122-01-RS
21
Li, W., M. Liu, Y.-C. Lai, J.-X. Liu, C. Fan, G. Yang, L. Wang, W.-W. Liang, S.-F. Di, D.-Y. Yu, and Y.-D. Bi. 2022. Genome-wide association study of partial resistance to P. sojae in wild soybeans from Heilongjiang province, China. Current Issues in Molecular Biology 44 : 3194-3207. 10.3390/cimb4407022135877445PMC9319971
22
Li, Y., S. Sun, C. Zhong, X. Wang, X. Wu, and Z. Zhu. 2017. Genetic mapping and development of co-segregating markers of RpsQ, which provides resistance to Phytophthora sojae in soybean. Theoretical and Applied Genetics 130 : 1223-1233. 10.1007/s00122-017-2883-728258371
23
Lin, F., M. Zhao, J. Ping, A. Johnson, B. Zhang, T. S. Abney, T. J. Hughes, and J. Ma. 2013. Molecular mapping of two genes conferring resistance to Phytophthora sojae in a soybean landrace PI 567139B. Theoretical and Applied Genetics 126 : 2177-2185. 10.1007/s00122-013-2127-423689748
24
Meng, L., H. Li, L. Zhang, and J. Wang. 2015. QTL IciMapping: integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations. The Crop Journal 3 : 269-283. 10.1016/j.cj.2015.01.001
25
Morris, P. F. and E. Ward. 1992. Chemoattraction of zoospores of the soybean pathogen, Phytophthora sojae, by isoflavones. Physiological and Molecular Plant Pathology 40 : 17-22. 10.1016/0885-5765(92)90067-6
26
Niu, J., N. Guo, J. Sun, L. Li, Y. Cao, S. Li, J. Huang, J. Zhao, T. Zhao, and H. Xing. 2017. Fine mapping of a resistance gene RpsHN that controls Phytophthora sojae using recombinant inbred lines and secondary populations. Frontiers in Plant Science 8 : 538. 10.3389/fpls.2017.00538
27
Park, K.-Y., J.-K. Moon, H.-T. Yun, Y.-H. Lee, S.-L. Kim, Y.-H. Ryu, Y.-H. Kim, J.-H. Ku, J.-H. Roh, E.-S. Lee, K.-S. Ha, I.-j. Kim, C.-K. Son, S.-K. Kim, S.-D. Kim, and H.-P. Moon. 2005. A new soybean cultivar for fermented soyfood and tofu with high yield, "Daepung". Korean J Breed Sci. 37 : 111-112.
28
Rolling, W., R. Lake, A. E. Dorrance, and L. K. McHale. 2020. Genome-wide association analyses of quantitative disease resistance in diverse sets of soybean [Glycine max (L.) Merr.] plant introductions. PLOS One 15 : e0227710. 10.1371/journal.pone.022771032196522PMC7083333
29
Sahoo, D. K., N. S. Abeysekara, S. R. Cianzio, A. E. Robertson, and M. K. Bhattacharyya. 2017. A novel Phytophthora sojae resistance Rps12 gene mapped to a genomic region that contains several Rps genes. PLOS One 12 : e0169950. 10.1371/journal.pone.016995028081566PMC5233422
30
Sahoo, D. K., A. Das, X. Huang, S. Cianzio, and M. K. Bhattacharyya. 2021. Tightly linked Rps12 and Rps13 genes provide broad-spectrum Phytophthora resistance in soybean. Scientific Reports 11. 10.1038/s41598-021-96425-134413429PMC8377050
31
Sandhu, D., H. Gao, S. Cianzio, and M. K. Bhattacharyya. 2004. Deletion of a disease resistance nucleotide-binding-site leucine-rich-repeat-like sequence is associated with the loss of the Phytophthora resistance gene Rps4 in soybean. Genetics 168 : 2157-2167. 10.1534/genetics.104.03203715611183PMC1448712
32
Shim, S., M. Y. Kim, J. Ha, Y.-H. Lee, and S.-H. Lee. 2017. Identification of QTLs for branching in soybean (Glycine max (L.) Merrill). Euphytica 213 : 225. 10.1007/s10681-017-2016-z
33
Statistics Korea. 2022. Pulse production. In: Crop production survey. Available at https://kosis.kr/statHtml/statHtml.do?orgId=101&tblId=DT_1ET0025&conn_path=I2&language=en. Last accessed on August 25, 2023.
34
Sugimoto, T., S. Yoshida, K. Watanabe, M. Aino, T. Kanto, K. Maekawa, and K. Irie. 2007. Identification of SSR markers linked to the Phytophthora resistance gene Rps1-d in soybean. Plant Breeding 127 : 154-159. 10.1111/j.1439-0523.2007.01440.x
35
Sugimoto, T., S. Yoshida, A. Kaga, M. Hajika, K. Watanabe, M. Aino, K. Tatsuda, R. Yamamoto, T. Matoh, and D. Walker. 2011. Genetic analysis and identification of DNA markers linked to a novel Phytophthora sojae resistance gene in the Japanese soybean cultivar Waseshiroge. Euphytica 182 : 133. 10.1007/s10681-011-0525-8
36
Sun, J., L. Li, J. Zhao, J. Huang, Q. Yan, H. Xing, and N. Guo. 2014. Genetic analysis and fine mapping of RpsJS, a novel resistance gene to Phytophthora sojae in soybean [Glycine max (L.) Merr.]. Theoretical and Applied Genetics 127 : 913-919. 10.1007/s00122-014-2266-224419901
37
Sun, S., X. Wu, J. Zhao, Y. Wang, Q. Tang, D. Yu, J. Gai, and H. Xing. 2011. Characterization and mapping of RpsYu25, a novel resistance gene to Phytophthora sojae. Plant Breeding 130 : 139-143. 10.1111/j.1439-0523.2010.01794.x
38
Tamborski, J. and K. V. Krasileva. 2020. Evolution of plant NLRs: From natural history to precise modifications. Annual Review of Plant Biology 71 : 355-378. 10.1146/annurev-arplant-081519-03590132092278
39
Team, R. C. 2019. R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria.
40
Van, K., B.-K. Ha, M. Y. Kim, S.-H. Lee, E. Hwang, and S. Heu. 2003. Molecular characterization of hypernodulation in soybean. The Plant Pathology Journal 19 : 24-29. 10.5423/PPJ.2003.19.1.024
41
Van, K., W. Rolling, R. M. Biyashev, R. L. Matthiesen, N. S. Abeysekara, A. E. Robertson, D. J. Veney, A. E. Dorrance, L. K. McHale, and M. A. Saghai Maroof. 2021. Mining germplasm panels and phenotypic datasets to identify loci for resistance to Phytophthora sojae in soybean. The Plant Genome 14 : e20063. 10.1002/tpg2.2006333200586
42
Van Wersch, S. and X. Li. 2019. Stronger When Together: Clustering of plant NLR disease resistance genes. Trends in Plant Science 24 : 688-699. 10.1016/j.tplants.2019.05.00531266697
43
Weng, C., K. Yu, T. Anderson, and V. Poysa. 2001. Mapping genes conferring resistance to Phytophthora root rot of soybean, Rps1a and Rps7. Journal of Heredity 92 : 442-446. 10.1093/jhered/92.5.44211773256
44
Wrather, J., W. Stienstra, and S. Koenning. 2001. Soybean disease loss estimates for the United States from 1996 to 1998. Canadian Journal of Plant Pathology 23 : 122-131. 10.1080/07060660109506919
45
Wrather, J. A. and S. R. Koenning. 2006. Estimates of disease effects on soybean yields in the United States 2003 to 2005. Journal of Nematology 38 : 173.
46
Wrather, J. A. and S. R. Koenning. 2009. Effects of diseases on soybean yields in the United States 1996 to 2007. Plant Health Progress 10 : 24. 10.1094/PHP-2009-0401-01-RS
47
Yu, A., P. Xu, J. Wang, S. Zhang, J. Wu, W. Li, W. Chen, N. Li, S. Fan, and X. Wang. 2010. Genetic analysis and SSR mapping of gene resistance to Phytophthora sojae race 1 in soybean cv Suinong 10. Chinese Journal of Oil Crop Sciences 32 : 462-466.
48
Zhao, X., D. Bao, W. Wang, C. Zhang, Y. Jing, H. Jiang, L. Qiu, W. Li, and Y. Han. 2020. Loci and candidate gene identification for soybean resistance to Phytophthora root rot race 1 in combination with association and linkage mapping. Molecular Breeding 40 : 100. 10.1007/s11032-020-01179-9
49
Zhong, C., S. Sun, Y. Li, C. Duan, and Z. Zhu. 2017. Next-generation sequencing to identify candidate genes and develop diagnostic markers for a novel Phytophthora resistance gene, RpsHC18, in soybean. Theoretical and Applied Genetics 131 : 525-538. 10.1007/s00122-017-3016-z29138903
50
Zhong, C., S. Sun, X. Zhang, C. Duan, and Z. Zhu. 2020. Fine mapping, candidate gene identification and co-segregating marker development for the Phytophthora root rot resistance gene RpsYD25. Front Genet 11 : 799. 10.3389/fgene.2020.0079932849803PMC7399351
Information
  • Publisher :The Korean Society of Crop Science
  • Publisher(Ko) :한국작물학회
  • Journal Title :The Korean Journal of Crop Science
  • Journal Title(Ko) :한국작물학회지
  • Volume : 68
  • No :3
  • Pages :134-146
  • Received Date : 2023-07-26
  • Revised Date : 2023-08-04
  • Accepted Date : 2023-08-04
  • DOI :https://doi.org/10.7740/kjcs.2023.68.3.134
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