Functional markers, which are designed using polymorphic sites in gene sequences and which result in phenotypic variation, have high efficiency in marker-assisted selection (MAS). xa5 is a recessive gene that confers broad-spectrum resistance to bacterial blight, and it has been widely used in rice breeding projects in all tropical regions. In this study, two functional markers [Tetra primer amplification refractory mutation system polymerase chain reaction (ARMS-PCR) and kompetitive allele specific PCR (KASP)] were developed based on the variation of two bases in the coding region of the xa5 allele. The specificity and applicability of the two functional markers were verified in a breeding segregating population and a rice micro-core germplasm resource population. We conclude that these two newly-developed functional markers can effectively determine the homozygosity and heterozygosity of the target gene under different laboratory conditions. Thus, they can be used for genotyping the xa5 gene in molecular breeding programmes, thereby improving breeding efficiency.

使用基因序列中的多态性位点设计并导致表型变异的功能性标记在标记辅助选择（MAS）中具有很高的效率。xa5是一种隐性基因，具有广谱抗白叶枯病的能力，已在所有热带地区的水稻育种项目中广泛使用。在这项研究中，基于xa5编码区中两个碱基的变化，开发了两个功能标记[Tetra引物扩增难治性突变系统聚合酶链反应（ARMS-PCR）和竞争性等位基因特异性PCR（KASP）]。等位基因。在育种隔离种群和水稻微核心种质资源种群中验证了这两种功能标记的特异性和适用性。我们得出结论，这两个新开发的功能标记可以有效地确定目标基因在不同实验室条件下的纯合性和杂合性。因此，它们可用于在分子育种程序中对xa5基因进行基因分型，从而提高育种效率。