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Article

Draft Sequencing Crested Wheatgrass Chromosomes Identified Evolutionary Structural Changes and Genes and Facilitated the Development of SSR Markers

Institute of Experimental Botany of the Czech Academy of Sciences, Centre of the Region Haná for Biotechnological and Agricultural Research, CZ-77900 Olomouc, Czech Republic
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Author to whom correspondence should be addressed.
Academic Editors: Yuriy L. Orlov, Ming Chen and Oxana B. Dobrovolskaya
Int. J. Mol. Sci. 2022, 23(6), 3191; https://doi.org/10.3390/ijms23063191
Received: 15 February 2022 / Revised: 13 March 2022 / Accepted: 14 March 2022 / Published: 16 March 2022
(This article belongs to the Special Issue Plant Biology and Biotechnology: Focus on Genomics and Bioinformatics)
Crested wheatgrass (Agropyron cristatum), a wild relative of wheat, is an attractive source of genes and alleles for their improvement. Its wider use is hampered by limited knowledge of its complex genome. In this work, individual chromosomes were purified by flow sorting, and DNA shotgun sequencing was performed. The annotation of chromosome-specific sequences characterized the DNA-repeat content and led to the identification of genic sequences. Among them, genic sequences homologous to genes conferring plant disease resistance and involved in plant tolerance to biotic and abiotic stress were identified. Genes belonging to the important groups for breeders involved in different functional categories were found. The analysis of the DNA-repeat content identified a new LTR element, Agrocen, which is enriched in centromeric regions. The colocalization of the element with the centromeric histone H3 variant CENH3 suggested its functional role in the grass centromere. Finally, 159 polymorphic simple-sequence-repeat (SSR) markers were identified, with 72 of them being chromosome- or chromosome-arm-specific, 16 mapping to more than one chromosome, and 71 mapping to all the Agropyron chromosomes. The markers were used to characterize orthologous relationships between A. cristatum and common wheat that will facilitate the introgression breeding of wheat using A. cristatum. View Full-Text
Keywords: Agropyron cristatum; annotation; chromosome sorting; chromosome-specific sequences; Illumina sequencing; SSR-marker development Agropyron cristatum; annotation; chromosome sorting; chromosome-specific sequences; Illumina sequencing; SSR-marker development
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MDPI and ACS Style

Zwyrtková, J.; Blavet, N.; Doležalová, A.; Cápal, P.; Said, M.; Molnár, I.; Vrána, J.; Doležel, J.; Hřibová, E. Draft Sequencing Crested Wheatgrass Chromosomes Identified Evolutionary Structural Changes and Genes and Facilitated the Development of SSR Markers. Int. J. Mol. Sci. 2022, 23, 3191. https://doi.org/10.3390/ijms23063191

AMA Style

Zwyrtková J, Blavet N, Doležalová A, Cápal P, Said M, Molnár I, Vrána J, Doležel J, Hřibová E. Draft Sequencing Crested Wheatgrass Chromosomes Identified Evolutionary Structural Changes and Genes and Facilitated the Development of SSR Markers. International Journal of Molecular Sciences. 2022; 23(6):3191. https://doi.org/10.3390/ijms23063191

Chicago/Turabian Style

Zwyrtková, Jana, Nicolas Blavet, Alžběta Doležalová, Petr Cápal, Mahmoud Said, István Molnár, Jan Vrána, Jaroslav Doležel, and Eva Hřibová. 2022. "Draft Sequencing Crested Wheatgrass Chromosomes Identified Evolutionary Structural Changes and Genes and Facilitated the Development of SSR Markers" International Journal of Molecular Sciences 23, no. 6: 3191. https://doi.org/10.3390/ijms23063191

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