Neofunctionalisation of the Sli gene leads to self-compatibility and facilitates precision breeding in potato

Eggers, Ernst-jan; Burgt, Ate van der; Heusden, Sjaak A.W. van; Vries, Michiel E. de; Visser, R.G.F.; Bachem, Christian W.B.; Lindhout, P.

doi:10.1038/s41467-021-24267-6

Cited by 58 publications

(54 citation statements)

References 35 publications

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“…Whereas in self-pollination, self S-RNases evade degradation and exert cytotoxicity inside the pollen tube to inhibit its growth (Hua and Kao, 2008;McClure et al, 2011). A neo-functionalization of an F-box gene was reported in two recent studies to underly the Sli locus, responsible for breaking down the stylar incompatible response in potato (Solanum tuberosum L.) (Eggers et al, 2021;Ma et al, 2021). Similarly, an F-box gene represents an interesting candidate with a putative role in the complex downstream pathway that leads to rejection of self-pollen in grasses and a disruptive mutation might lead to SC by halting its inhibiting function.…”

Section: Discussionmentioning

confidence: 99%

Identification of Candidate Genes for Self-Compatibility in Perennial Ryegrass (Lolium perenne L.)

et al. 2021

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Self-incompatibility (SI) is a genetic mechanism preventing self-pollination in ~40% of plant species. Two multiallelic loci, called S and Z, control the gametophytic SI system of the grass family (Poaceae), which contains all major forage grasses. Loci independent from S and Z have been reported to disrupt SI and lead to self-compatibility (SC). A locus causing SC in perennial ryegrass (Lolium perenne L.) was previously mapped on linkage group (LG) 5 in an F2 population segregating for SC. Using a subset of the same population (n = 68), we first performed low-resolution quantitative trait locus (QTL) mapping to exclude the presence of additional, previously undetected contributors to SC. The previously reported QTL on LG 5 explained 38.4% of the phenotypic variation, and no significant contribution from other genomic regions was found. This was verified by the presence of significantly distorted markers in the region overlapping with the QTL. Second, we fine mapped the QTL to 0.26 centimorgan (cM) using additional 2,056 plants and 23 novel sequence-based markers. Using Italian ryegrass (Lolium multiflorum Lam.) genome assembly as a reference, the markers flanking SC were estimated to span a ~3 Mb region encoding for 57 predicted genes. Among these, seven genes were proposed as relevant candidate genes based on their annotation and function described in previous studies. Our study is a step forward to identify SC genes in forage grasses and provides diagnostic markers for marker-assisted introgression of SC into elite germplasm.

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Section: Discussionmentioning

confidence: 99%

Identification of Candidate Genes for Self-Compatibility in Perennial Ryegrass (Lolium perenne L.)

et al. 2021

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“…Female determinant S-RNase and male determinant SLF/SFB are the key genes governing SI in potatoes. Different potato species, mostly diploids, have been reported to contain a total of 49 S-RNase sequences [ 33 , 36 , 37 ]. Allelic variants of S-RNase show gametophytic control over pollen tube growth, wherein matching alleles are efficiently rejected after pollination and prevented from appearing in zygotes.…”

Section: Molecular Analysis Of the Essential Genes Of Simentioning

confidence: 99%

“…If true, this could result in segregation distortion in the progeny. Ultimately, PGSC0003DMG400016861 was identified as the candidate gene for Sli in different self-compatible diploid potato genotypes [ 33 , 34 ]. SNP markers proved highly instrumental in fine-mapping the interval spanning the Sli region that resulted in the identification of the candidate gene.…”

Section: Sli Gene Identification and Its Functionmentioning

confidence: 99%

“…The observed segregation distortion for SC in the F 2 population of a cross between SI and SC has proven the gametophytic expression of Sli. Eggers et al [ 33 ] used a recombinant screening approach to fine map the Sli interval from 628 kb to 12.6 kb. This effort ultimately led to the identification of the two genes PGSC0003DMG400016861 and PGSC0003DMG400016860 in S. chacoense (DS)-derived inbred lines [ 33 ].…”

Section: Sli Gene Identification and Its Functionmentioning

confidence: 99%

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Molecular Approaches to Overcome Self-Incompatibility in Diploid Potatoes

Kardile

Yilma

Sathuvalli

2022

Plants

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There has been an increased interest in true potato seeds (TPS) as planting material because of their advantages over seed tubers. TPS produced from a tetraploid heterozygous bi-parental population produces non-uniform segregating progenies, which have had limited uniformity in yield and quality in commercial cultivation, and, thus, limited success. Inbreeding depression and self-incompatibility hamper the development of inbred lines in both tetraploid and diploid potatoes, impeding hybrid development efforts. Diploid potatoes have gametophytic self-incompatibility (SI) controlled by S-locus, harboring the male-dependent S-locus F-box (SLF/SFB) and female-dependent Stylar-RNase (S-RNase). Manipulation of these genes using biotechnological tools may lead to loss of self-incompatibility. Self-compatibility can also be achieved by the introgression of S-locus inhibitor (Sli) found in the self-compatible (SC) natural mutants of Solanum chacoense. The introgression of Sli through conventional breeding methods has gained much success. Recently, the Sli gene has been cloned from diverse SC diploid potato lines. It is expressed gametophytically and can overcome the SI in different diploid potato genotypes through conventional breeding or transgenic approaches. Interestingly, it has a 533 bp insertion in its promoter elements, a MITE transposon, making it a SC allele. Sli gene encodes an F-box protein PP2-B10, which consists of an F-box domain linked to a lectin domain. Interaction studies have revealed that the C-terminal region of Sli interacts with most of the StS-RNases, except StS-RNase 3, 9, 10, and 13, while full-length Sli cannot interact with StS-RNase 3, 9, 11, 13, and 14. Thus, Sli may play an essential role in mediating the interactions between pollen and stigma and function like SLFs to interact with and detoxify the S-RNases during pollen tube elongation to confer SC to SI lines. These advancements have opened new avenues in the diploid potato hybrid.

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“…Due to complex genetics and a large number of relevant selection criteria, little genetic gain for yield traits was realised in many developed countries during the last century (Douches et al 1996;Jansky et al 2009). Recently, self-compatibility at the diploid level made hybrid breeding possible in potato (Lindhout et al 2011(Lindhout et al , 2018Jansky et al 2016;De Vries et al 2016;Eggers et al 2021). Using diploid potato in hybrid breeding, QTLs can be detected efficiently and traits can be stacked in a short time resulting in an acceleration of the breeding process (Meijer et al 2018;Korontzis et al 2020;Su et al 2020).…”

Section: Introductionmentioning

confidence: 99%

Optimal Plot Dimensions for Performance Testing of Hybrid Potato in the Field

et al. 2021

Self Cite

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Field trials to evaluate the performance of new varieties are an essential component of potato breeding. Besides the genetic differences, environmental factors can lead to variation in a trial. In variety trials, the observed differences amongst varieties should reflect genetic differences, without a large impact of the random or systematic variation in the field. One way to reduce within-field variation is to adjust the plot size and its shape in a trial. Two years of field trials in which individual plants in 90-plant plots of both diploid hybrid and tetraploid varieties were measured provided data to derive relationships between LSD% and plot size and shape. We provide a method to estimate the equations to calculate the expected variation when using different plot dimensions in a relatively homogeneous trial field for tuber yield, tuber volume, tuber count, tuber shape and the standard deviations of tuber volume and shape. Compared with the yield traits, the variation for tuber shape was relatively small. The effect of plot shape was minor. With these equations, breeders can determine what plot dimensions are needed to reach the desired precision for each trait.

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Neofunctionalisation of the Sli gene leads to self-compatibility and facilitates precision breeding in potato

Cited by 58 publications

References 35 publications

Identification of Candidate Genes for Self-Compatibility in Perennial Ryegrass (Lolium perenne L.)

Identification of Candidate Genes for Self-Compatibility in Perennial Ryegrass (Lolium perenne L.)

Molecular Approaches to Overcome Self-Incompatibility in Diploid Potatoes

Optimal Plot Dimensions for Performance Testing of Hybrid Potato in the Field

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