Available cloned genes and markers for genetic improvement of biotic stress resistance in rice

Eliza Vie Simon; Sherry Lou Hechanova; Jose E Hernandez; Charng-Pei Li; Adnan Tülek; Eok-Keun Ahn; Jirapong Jairin; Il-Ryong Choi; Raman M Sundaram; Kshirod K Jena; Sung-Ryul Kim

doi:10.3389/fpls.2023.1247014

Available cloned genes and markers for genetic improvement of biotic stress resistance in rice

Front Plant Sci. 2023 Sep 5:14:1247014. doi: 10.3389/fpls.2023.1247014. eCollection 2023.

Authors

Eliza Vie Simon^{1

2}, Sherry Lou Hechanova¹, Jose E Hernandez², Charng-Pei Li³, Adnan Tülek⁴, Eok-Keun Ahn⁵, Jirapong Jairin⁶, Il-Ryong Choi^{1

5}, Raman M Sundaram⁷, Kshirod K Jena⁸, Sung-Ryul Kim¹

Affiliations

¹ Rice Breeding Innovation Department, International Rice Research Institute (IRRI), Laguna, Philippines.
² Institute of Crop Science (ICropS), University of the Philippines Los Baños, Laguna, Philippines.
³ Taiwan Agricultural Research Institute (TARI), Council of Agriculture, Taiwan.
⁴ Trakya Agricultural Research Institute, Edirne, Türkiye.
⁵ National Institute of Crop Science, Rural Development Administration (RDA), Republic of Korea.
⁶ Division of Rice Research and Development, Rice Department, Bangkok, Thailand.
⁷ ICAR-Indian Institute of Rice Research, Rajendranagar, Hyderabad, India.
⁸ School of Biotechnology, KIIT Deemed University, Bhubaneswar, Odisha, India.

Abstract

Biotic stress is one of the major threats to stable rice production. Climate change affects the shifting of pest outbreaks in time and space. Genetic improvement of biotic stress resistance in rice is a cost-effective and environment-friendly way to control diseases and pests compared to other methods such as chemical spraying. Fast deployment of the available and suitable genes/alleles in local elite varieties through marker-assisted selection (MAS) is crucial for stable high-yield rice production. In this review, we focused on consolidating all the available cloned genes/alleles conferring resistance against rice pathogens (virus, bacteria, and fungus) and insect pests, the corresponding donor materials, and the DNA markers linked to the identified genes. To date, 48 genes (independent loci) have been cloned for only major biotic stresses: seven genes for brown planthopper (BPH), 23 for blast, 13 for bacterial blight, and five for viruses. Physical locations of the 48 genes were graphically mapped on the 12 rice chromosomes so that breeders can easily find the locations of the target genes and distances among all the biotic stress resistance genes and any other target trait genes. For efficient use of the cloned genes, we collected all the publically available DNA markers (~500 markers) linked to the identified genes. In case of no available cloned genes yet for the other biotic stresses, we provided brief information such as donor germplasm, quantitative trait loci (QTLs), and the related papers. All the information described in this review can contribute to the fast genetic improvement of biotic stress resistance in rice for stable high-yield rice production.

Keywords: bacterial blight; biotic stress; blast; brown planthopper; marker; marker-assisted selection; rice.

Publication types

Review

Grants and funding

The preparation and publication of this review paper were supported by the Temperate Rice Research Consortium (TRRC) project and the bilateral projects for biotic stress resistance improvement in rice between the Gene Identification and Validation (GIV) group of the International Rice Research Institute (IRRI), Philippines, and the national agricultural research and extension systems (NARES) including Taiwan Agricultural Research Institute (TARI, Taiwan), General Directorate of Agricultural Research and Policies (GDAR, Turkey), Rural Development Administration (RDA, Korea), Rice Department (RD, Thailand), and Indian Council of Agricultural Research (ICAR, India).