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Assessing the Contribution of Sli to Self-Compatibility in North American Diploid Potato Germplasm Using KASP™ Markers

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Abstract

Diploid hybrid potato variety development requires the introduction of reliably transmitted self-compatibility (SC) to largely self-incompatible elite diploid germplasm. The diploid Solanum chacoense clone M6 has been widely used to introgress SC into North American potato diploid breeding programs. We determined that M6 is homozygous for six DNA Kompetitive Allele Specific PCR (KASP)™ markers spanning a 224 kb region, linked to Sli in Dutch germplasm. Self-compatible Sli alleles were identified in dihaploids of the cultivars ‘Atlantic’ and ‘Superior’ and breeding clone NY148. This finding demonstrates the potential of Sli genotyping to select S. tuberosum dihaploids that will contribute to SC. We appraised the transmission of Sli in a diploid recurrent selection population and in a diploid backcross population, each designed to introgress SC while improving agronomic traits. The frequency of the homozygous self-compatible Sli genotype at the six marker loci increased over the course of four cycles of recurrent selection. The homozygous Sli self-compatible genotype at any one of five marker loci within an 80.8 kb region on chromosome 12 (58,960,090-59,040,898 bp) perfectly predicted a SC phenotype in the recurrent selection population. The heterozygous Sli genotype was found in self-compatible and self-incompatible individuals. The discrepancy between phenotype and marker genotype can be attributed in part to the difficulty of accurately phenotyping SC. We also identified self-compatible individuals with the homozygous self-incompatible Sli genotype at all tested loci. The presence of the homozygous self-incompatible Sli haplotype in self-compatible clones 1S1 and DMRH-89 and a self-compatible individual from the S. chacoense PI 133664 further suggests that other genetic components contribute to SC. This work illustrates the ability of Sli markers to predict SC in some germplasm, but it also underscores the need to identify other genomic regions critical to SC and the role of the environment in expression of genes involved in the SC reaction.

Resumen

El desarrollo de una variedad de papa híbrida diploide requiere de la introducción de la transmisión confiable de autocompatibilidad (SC) a germoplasma élite diploide ampliamente autoincompatible (SI). El clon M6 diploide de Solanum chacoense ha sido usado ampliamente para introgresión de SC a programas Norteamericanos de mejoramiento de papa diploide. Determinamos que M6 es homozigotico para seis marcadores TM de alelos específicos de PCR competitivos de DNA (KASP) abarcando una región de 224 kb, ligado a Sli en germoplasma holandés. Se identificaron alelos Sli autocompatibles en dihaploides de las variedades “Atlantic” y “Superior” y del clon de mejoramiento NY148. Este hallazgo demuestra el potencial de genotipeo Sli para seleccionar dihaploides de S. tuberosum que contribuirán a SC. Estimamos la transmisión de Sli en una selección de una población recurrente diploide y en una población diploide de retrocruza, cada una diseñada para introducir SC mientras se mejoraban características agronómicas. La frecuencia del genotipo homozigotico SC Sli en los seis loci marcadores incrementaron sobre el curso de cuatro ciclos de selección recurrente. El genotipo homozigotico Sli SC en cualquiera de cinco loci marcadores dentro de una región de 80.8 kb en el cromosoma 12 (58,960,090- 59,040,898 pb) predijeron perfectamente un fenotipo SC en la selección de la población recurrente. El genotipo heterozigotico Sli se encontró en individuos SC y SI. La discrepancia entre fenotipo y genotipo marcador puede atribuirse en parte a la dificultad del fenotipado con precisión de SC. También identificamos individuos SC con el genotipo homozigotico SI sli en todos los loci probados. La presencia del haplotipo homozigotico SI Sli en clones SC1S1 y DMRH-89 y un individuo SC del S. chacoense PI 133664 sugiere mas aun que otros componentes genéticos contribuyen a SC. Este trabajo ilustra la habilidad de los marcadores Sli para predecir SC en algún germoplasma, pero también destaca la necesidad de identificar otras regiones genómicas críticas a SC y el papel del ambiente en la expresión de los genes involucrados en la reacción SC.

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Authors and Affiliations

  1. Department of Plant, Soil and Microbial Sciences, Michigan State University, 1130 C Molecular Plant Sciences, 1066 Bogue Street, East Lansing, MI, 48824, USA

    N. R. Kaiser, J. J. Coombs, P. Collins, M. Alsahlany & D. S. Douches

  2. Department of Horticulture, University of Wisconsin-Madison, Madison, WI, 53706, USA

    S. Jansky

  3. United States Department of Agriculture-Agricultural Research Service, Vegetable Crops Research Unit, Madison, WI, 53706, USA

    S. Jansky

  4. Cavendish Farms Corporation, New Annan, Prince Edward Island, C1N 4J9, Canada

    M. Alsahlany

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  1. N. R. Kaiser
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Correspondence to N. R. Kaiser.

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The original online version of this article was revised: The Spanish-language Abstract was omitted from the original publication.

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Kaiser, N.R., Jansky, S., Coombs, J.J. et al. Assessing the Contribution of Sli to Self-Compatibility in North American Diploid Potato Germplasm Using KASP™ Markers. Am. J. Potato Res. 98, 104–113 (2021). https://doi.org/10.1007/s12230-021-09821-8

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