Abstract—
The chloroplast genome of the synthetic octaploid Triticum timonovum Heslot et Ferrary k-43065 (France) was sequenced for the first time. Plastome sequencing was carried out on a Genolab M sequencer (GeneMind, China). The genome assembly was carried out using the NOVOwrap program. The size of the chloroplast genome of T. timonovum was 136 158 bp. The length of the inverted repeat region was 21 552 bp, that of the SSC region was 12 795 bp, and the LSC length was 80 257 bp. The chloroplast genomes of T. timonovum and different T. timopheevii accessions from the GenBank database were compared. As for the chloroplast genome, T. timonovum was closer to T. timopheevii (AB976560.1) but differed from it by the presence of one insert A at position 47891.
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REFERENCES
Heslot, H. and Raymond, R., Obtention experimentale d’un autotetraploide aberrant (Triticum timonovum) a partir de Triticum timopheevi Zhuk., C. R. Hedb. Séanc. Acad. Sci., 1959, vol. 248, pp. 452—455.
Murashov, V.V. and Morozova, Z.A., Comparative morphogenesis of Triticum timopheevii (Zhyk.) and a synthetic octoploid species T. timonovum Heslot et Ferrary, Moscow Univ. Biol. Sci. Bull., 2008, vol. 63, no. 3, pp. 127—133. https://doi.org/10.3103/S0096392508030073
Badaeva, E.D., Badaev, N.S., Filatenko, A.A., et al., Cytological investigation of cereal hexa- and octoploid species containing G genome, Genetika (Moscow), 1990, vol. 26, no. 4, pp. 708—716.
Badaeva, E.D., Filatenko, A.A., and Badaev, N.S., Cytogenetic investigation of Triticum timopheevii (Zhuk.) Zhuk. and related species using the C-banding technique, Theor. Appl. Genet., 1994, vol. 89, pp. 622—628.
Shi, C., Hu, N., Huang, H., et al., An improved chloroplast DNA extraction procedure for whole plastid genome sequencing, PLoS One, 2012, vol. 7, no. 2. https://doi.org/10.1371/journal.pone.0031468
Bolger, A.M., Lohse, M., and Usadel, B., Trimmomatic: a flexible trimmer for Illumina sequence data, Bioinformatics, 2014, vol. 30, pp. 2114—2120. https://doi.org/10.1093/bioinformatics/btu170
Wu, P., Xu, C., Chen, H., et al., NOVOWrap: an automated solution for plastid genome assembly and structure standardization, Mol. Ecol. Resour., 2021, vol. 21, no. 6, pp. 2177—2186. https://doi.org/10.1111/1755-0998.13410
Shi, L., Chen, H., Jiang, M., et al., CPGAVAS2, an integrated plastome sequence annotator and analyzer, Nucleic Acids Res., 2019, vol. 47, pp. W65—W73. https://doi.org/10.1093/nar/gkz345
Zheng, S., Poczai, P., Hyvönen, J., et al., Chloroplot: an online program for the versatile plotting of organelle genomes, Front Genet., 2020, vol. 11, p. 576124. https://doi.org/10.3389/fgene.2020.576124
Katoh, K. and Standley, D.M., MAFFT multiple sequence alignment software version 7: improvements in performance and usability, Mol. Biol. Evol., 2013, vol. 30, no. 4, pp. 772—780. https://doi.org/10.1093/molbev/mst010
Han, M.V. and Zmasek, C.M., phyloXML: XML for evolutionary biology and comparative genomics, BMC Bioinf., 2009, vol. 10, pp. 1—6. https://doi.org/10.1186/1471-2105-10-356
Mori, N., Kondo, Y., Ishii, T., et al., Genetic diversity and origin of timopheevi wheat inferred by chloroplast DNA fingerprinting, Bred. Sci., 2009, vol. 59, pp. 571—578. https://doi.org/10.1270/jsbbs.59.571
Gogniashvili, M., Naskidashvili, P., Bedoshvili, D., et al., Complete chloroplast DNA sequences of Zanduri wheat (Triticum spp.), Genet. Resour. Crop. Evol., 2015, vol. 62, pp. 1269—1277. https://doi.org/10.1007/s10722-015-0230-x
ACKNOWLEDGMENTS
We thank the team of the Department of Wheat Genetic Resources of the Vavilov All-Russian Institute of Plant Genetic Resources (VIR, St. Petersburg) for providing seed material for research.
Funding
This work was supported within the framework of the State contract under the Russian Science Foundation, project no. 23-24-00275 “Phylogenetic relationships of individual species of the wheat–aegilops complex of different ploidy levels through the prism of their complete chloroplast genomes with an eye to the origin of the B- and G‑subgenomes of polyploid forms of wheat turgidum-aestivum and timopheevii-zhukovskyi lines.”
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Kuluev, A.R., Matniyazov, R.T., Kuluev, B.R. et al. Sequencing and Annotation of the Chloroplast Genome of Triticum timonovum Heslot et Ferrary. Russ J Genet 60, 992–995 (2024). https://doi.org/10.1134/S1022795424700455
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DOI: https://doi.org/10.1134/S1022795424700455