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BMC Genet. 2018 Mar 27;19(1):18. doi: 10.1186/s12863-018-0603-1.

Efficient anchoring of alien chromosome segments introgressed into bread wheat by new Leymus racemosus genome-based markers.

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Arid Land Research Center, Tottori University, Tottori, Japan.
United Graduate School of Agricultural Sciences, Tottori University, Tottori, Japan.
RIKEN Center for Sustainable Resource Science, Tsukuba, Ibaraki, 305-0074, Japan.
Center for Bioscience Research and Education, Utsunomiya University, Utsunomiya, Japan.
Department of Bioscience and Bioinformatics, Kyushu Institute of Technology, Kitakyushu, Japan.
International Maize and Wheat Improvement Center (CIMMYT), El Batan, Mexico.
Agricultural Research Corporation (ARC), Wad Madani, Sudan.
Arid Land Research Center, Tottori University, Tottori, Japan.



The tertiary gene pool of bread wheat, to which Leymus racemosus belongs, has remained underutilized due to the current limited genomic resources of the species that constitute it. Continuous enrichment of public databases with useful information regarding these species is, therefore, needed to provide insights on their genome structures and aid successful utilization of their genes to develop improved wheat cultivars for effective management of environmental stresses.


We generated de novo DNA and mRNA sequence information of L. racemosus and developed 110 polymorphic PCR-based markers from the data, and to complement the PCR markers, DArT-seq genotyping was applied to develop additional 9990 SNP markers. Approximately 52% of all the markers enabled us to clearly genotype 22 wheat-L. racemosus chromosome introgression lines, and L. racemosus chromosome-specific markers were highly efficient in detailed characterization of the translocation and recombination lines analyzed. A further analysis revealed remarkable transferability of the PCR markers to three other important Triticeae perennial species: L. mollis, Psathyrostachys huashanica and Elymus ciliaris, indicating their suitability for characterizing wheat-alien chromosome introgressions carrying chromosomes of these genomes.


The efficiency of the markers in characterizing wheat-L. racemosus chromosome introgression lines proves their reliability, and their high transferability further broadens their scope of application. This is the first report on sequencing and development of markers from L. racemosus genome and the application of DArT-seq to develop markers from a perennial wild relative of wheat, marking a paradigm shift from the seeming concentration of the technology on cultivated species. Integration of these markers with appropriate cytogenetic methods would accelerate development and characterization of wheat-alien chromosome introgression lines.


Chromosome introgression lines (5); DArT-seq (3); Genome sequencing (4); Leymus racemosus (1); Molecular markers (2); Salinity stress (6); Triticeae (7)

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