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Fine mapping of the restorer gene Rfp3 from an Iranian primitive rye (Secale cereale L.)

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A comparative genetics approach allowed to precisely determine the map position of the restorer gene Rfp3 in rye and revealed that Rfp3 and the restorer gene Rfm1 in barley reside at different positions in a syntenic 4RL/6HS segment.

Abstract

Cytoplasmic male sterility (CMS) is a reliable and striking genetic mechanism for hybrid seed production. Breeding of CMS-based hybrids in cereals requires the use of effective restorer genes as an indispensable pre-requisite. We report on the fine mapping of a restorer gene for the Pampa cytoplasm in winter rye that has been tapped from the Iranian primitive rye population Altevogt 14160. For this purpose, we have mapped 41 gene-derived markers to a 38.8 cM segment in the distal part of the long arm of chromosome 4R, which carries the restorer gene. Male fertility restoration was comprehensively analyzed in progenies of crosses between a male-sterile tester genotype and 21 recombinant as well as six non-recombinant BC4S2 lines. This approach allowed us to validate the position of this restorer gene, which we have designated Rfp3, on chromosome 4RL. Rfp3 was mapped within a 2.5 cM interval and cosegregated with the EST-derived marker c28385. The gene-derived conserved ortholog set (COS) markers enabled us to investigate the orthology of restorer genes originating from different genetic resources of rye as well as barley. The observed localization of Rfp3 and Rfm1 in a syntenic 4RL/6HS segment asks for further efforts towards cloning of both restorer genes as an option to study the mechanisms of male sterility and fertility restoration in cereals.

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Acknowledgements

Financial support by the German Federal Ministry of Education and Research granted through the Projektträger Jülich within the RYE-SELECT consortium is gratefully acknowledged (grant no. 0315946 A, B, D, E). We are grateful to F. Joachim Fromme (HYBRO Saatzucht GmbH & Co. KG) for providing seeds of the inbred line L2053-N. Excellent technical assistance of Rita Friedrich, Bärbel Lieberherr, and Regina Voss is gratefully acknowledged.

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Authors and Affiliations

  1. Institute for Breeding Research on Agricultural Crops, Julius Kühn-Institut, Rudolf-Schick-Platz 3a, 18190, Groß Lüsewitz, Germany

    Bernd Hackauf

  2. Plant Breeding, Technical University of Munich, Liesel-Beckmann-Str. 2, 85354, Freising, Germany

    Eva Bauer

  3. KWS LOCHOW GMBH, Ferdinand-von-Lochow-Straße 5, 29303, Bergen, Germany

    Viktor Korzun

  4. State Plant Breeding Institute, University of Hohenheim, Fruwirthstr. 21, 70599, Stuttgart, Germany

    Thomas Miedaner

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  1. Bernd Hackauf
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Correspondence to Bernd Hackauf.

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Communicated by Diane E. Mather.

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122_2017_2879_MOESM1_ESM.xls

ESM 1—PCR primers and conditions for the 4RL COS-markers.[aDesignated according to EST consensus identifiers deposited in the TIGR database]. Supplementary material 1 (XLS 39 KB)

122_2017_2879_MOESM2_ESM.xls

ESM 2—Summary of the COS-marker development for the Rfp3 region.[aNovel rye markers designated according to EST consensus identifiers of rye Sce_assembly02 (Haseneyer et al. 2001; http://www.gabipd.org/download/cgi-bin/Download.pl.cgi?Mode=DownloadNow&File=Rye/Sce_Assembly02.fasta) and Genbank entries of barley fl-cDNAs;bRFLP probe identifier, barley fl-cDNA clone ID, as well as NAS marker ID according to Ui et al. (2015);cThe TIGR identifier for rice genes;dThe identifier for Brachypodium distachyon (Bd) and Sorghum bicolor (Sb) genes orthologous to the corresponding rice gene;e EST marker mapped in barley according to Mayer et al. (2011).;%: no ortholog identified.Supplementary material 2 (XLS 53 KB)

122_2017_2879_MOESM3_ESM.jpg

ESM 3—Integration of EST-derived markers in the genetic map of introgression library B. SNP polymorphism between the recurrent parent genotype L2053-N and the IL2045-N were identified using the Illumina® iSelect Rye 5K-array and mapped as CAPS markers in the BC1 generation of the cross L2053-N x Altevogt 14160 (Falke et al. 2009). The distinct co-linearity between markers on chromosome 1R and 4R in the BC1 map (A, C) confirmed the previously reported map positions of these markers on chromosomes 1R and 4R in the high density transcript map (B, D) of rye (Martis et al. 2013).Supplementary material 3 (JPG 390 KB)

122_2017_2879_MOESM4_ESM.rtf

ESM4—Multiple sequence alignment of a PPR-like gene in wheat, rye, barley and Brachypodium. The primers used to amplify orthologs of Bradi3g00900 from rye genomic DNA of lines L2053-N and IL2045 are underlined. AK358852: barley full-length cDNA clone NIASHv1084E22, csc941965: Chinese Spring contig 941965. Supplementary material 4 (RTF 1018 KB)

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Hackauf, B., Bauer, E., Korzun, V. et al. Fine mapping of the restorer gene Rfp3 from an Iranian primitive rye (Secale cereale L.). Theor Appl Genet 130, 1179–1189 (2017). https://doi.org/10.1007/s00122-017-2879-3

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