Current methods for identifying plant hybrids: a case study of blackberry
I. Yu. Zhuravlev,
M. T. Menkov,
E. N. Markova,
N. A. Dobarkina,
A. Ya. Evlash,
L. Yu. Shipilina,
A. S. Rozanov https://doi.org/10.30901/2227-8834-2025-1-224-241
Abstract
A review is presented on recent advancements in the identification of blackberry hybrids, including successful examples of using molecular markers and DNA barcoding for the classification of complex hybrid forms. Special attention is given to the comparative analysis of the effectiveness of such methods depending on the research objectives and resource availability.
The review highlights the future need for standardizing methods and expanding genetic marker databases to improve the accuracy in the classification of blackberry hybrids.
Supporting agencies: This research was supported by the grant from the Russian Science Foundation, No. 24-16-20042 “Comprehensive study of natural and anthropogenic ecosystems of Sirius Federal Territory and adjacent areas” (https://rscf.ru/project/24-16-20042/).
About the Authors
I. Yu. Zhuravlev
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences
Russian Federation
Russian Federation
Igor Yu. Zhuravlev, Associate Researcher
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340
M. T. Menkov
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences
Russian Federation
Russian Federation
Mikhail T. Menkov, Associate Researcher
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340
E. N. Markova
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences;
N.I. Vavilov All-Russian Institute of Plant Genetic Resources
Russian Federation
Russian Federation
Elena N. Markova, Associate Researcher
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340;
42, 44 Bolshaya Morskaya Street, St. Petersburg 190000
N. A. Dobarkina
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences;
N.I. Vavilov All-Russian Institute of Plant Genetic Resources
Russian Federation
Russian Federation
Nadezhda A. Dobarkina, Research Laboratory Assistant
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340;
42, 44 Bolshaya Morskaya Street, St. Petersburg 190000
A. Ya. Evlash
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences
Russian Federation
Russian Federation
Anastasia Ya. Evlash, Associate Researcher
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340
L. Yu. Shipilina
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences;
N.I. Vavilov All-Russian Institute of Plant Genetic Resources
Russian Federation
Russian Federation
Lilija Yu. Shipilina, Cand. Sci. (Biology), Senior Researcher
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340;
42, 44 Bolshaya Morskaya Street, St. Petersburg 190000
A. S. Rozanov
Sirius University of Science and Technology, Research Center of Genetics and Life Sciences
Russian Federation
Russian Federation
Aleksey S. Rozanov, Cand. Sci. (Biology), Leading Researcher
1 Olimpiysky Ave., Sirius Settlem., Sirius Federal Territory, Krasnodar Territory 354340
References
1. Adams K.L., Wendel J.F. Polyploidy and genome evolution in plants. Current Opinion in Plant Biology. 2005;8(2):135-141. DOI: 10.1016/j.pbi.2005.01.001
2. Althoff D.M., Gitzendanner M.A., Segraves K.A. The utility of amplified fragment length polymorphisms in phylogenetics: a comparison of homology within and between genomes. Systematic Biology. 2007;56(3):477-484. DOI: 10.1080/10635150701427077
3. Atienzar F.A., Jha A.N. The random amplified polymorphic DNA (RAPD) assay and related techniques applied to genotoxicity and carcinogenesis studies: a critical review. Mutation Research. 2006;613(2-3):76-102. DOI: 10.1016/j.mrrev.2006.06.001
4. Batley J., Edwards D. SNP applications in plants. In: N.C. Oraguzie, E.H.A. Rikkerink, S.E. Gardiner, H.N. De Silva (eds). Association Mapping in Plants. New York, NY: Springer; 2007. p.95-102. DOI: 10.1007/978-0-387-360119_6
5. Boecklen W.J. Topology of syngameons. Ecology and Evolution. 2017;7(24):10486-10491. DOI: 10.1002/ece3.3507
6. BOLDSYSTEMS. BOLDv5: Identifying species through DNA barcodes: [website]. Available from: https://boldsystems.org/[accessed Sept. 24, 2024].
7. Brůna T., Aryal R., Dudchenko O., Sargent D.J., Mead D., Buti M., et al. A chromosome-length genome assembly and annotation of blackberry (Rubus argutus, cv. “Hillquist”). G3 (Bethesda). 2023;13(2):jkac289. DOI: 10.1093/g3journal/jkac289
8. Buerkle C.A., Gompert Z. Population genomics based on low coverage sequencing: how low should we go? Molecular Ecology. 2013;22(11):3028-3035. DOI: 10.1111/mec.12105
9. Cekic C., Calis O., Ozturk E.S. Genetic diversity of wild raspberry genotypes (Rubus idaeus L.) in North Anatolia based on ISSR markers. Applied Ecology and Environmental Research. 2018;16(5):6835-6843. DOI: 10.15666/aeer/1605_68356843
10. Chadha S., Gopalakrishna T. Retrotransposon-microsatellite amplified polymorphism (REMAP) markers for genetic diversity assessment of the rice blast pathogen (Magnaporthe grisea). Genome. 2005;48(5):943-945. DOI: 10.1139/g05-045
11. Davik J., Røen D., Lysøe E., Buti M., Rossman S., Alsheikh M., et al. A chromosome-level genome sequence assembly of the red raspberry (Rubus idaeus L.). PLoS One. 2022;17(3):e0265096. DOI: 10.1371/journal.pone.0265096
12. De Boer H.J., Ichim M.C., Newmaster S.G. DNA barcoding and pharmacovigilance of herbal medicines. Drug Safety. 2015;38(7):611-620. DOI: 10.1007/s40264-015-0306-8
13. De Vere N., Rich T.C.G., Trinder S.A., Long C. DNA barcoding for plants. In: J. Batley (ed.). Plant Genotyping. Methods in Molecular Biology. Vol. 1235. New York, NY: Humana Press; 2015. p.101-118. DOI: 10.1007/978-1-4939-1966-6_8
14. Dou Z., Chen C., Fu X. Digestive property and bioactivity of blackberry polysaccharides with different molecular weights. Journal of Agricultural and Food Chemistry. 2019;67(45):12428-12440. DOI: 10.1021/acs.jafc.9b03505
15. Elshire R.J., Glaubitz J.C., Sun Q., Poland J.A., Kawamoto K., Buckler E.S. et al. A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS One. 2011;6(5):e19379. DOI: 10.1371/journal.pone.0019379
16. Eu G.S., Chung B.Y., Bandopadhyay R., Yoo N.H., Choi D.G., Yun S.J. Phylogenic relationships of Rubus species revealed by randomly amplified polymorphic DNA markers. Journal of Crop Science and Biotechnology. 2008;11(1):39-44.
17. FAOSTAT. Food and Agriculture Organization of the United Nations. Food and Agriculture Data: [website]. Available from: https://www.fao.org/faostat/en/#data/QCL [accessed Sept. 24, 2024].
18. Feliner G.N., Álvarez I., Fuertes-Aguilar J., Heuertz M., Marques I., Moharrek F. et al. Is homoploid hybrid speciation that rare? An empiricist’s view. Heredity (Edinburgh). 2017;118(6):513-516. DOI: 10.1038/hdy.2017.7
19. Focke W.O. Species Ruborum. Monographiae generis Rubi prodromus. Pars II. In: Chr. Luerssen (ed.). Bibliotheca Botanica. Vol. 72(I–II). Stuttgart: E. Schweizerbart’sche Verlagsbuchhandlung; 1911. p.121-223. [in Latin and German] DOI: 10.5962/bhl.title.15533
20. Foster T.M., Bassil N.V., Dossett M., Worthington M.L., Graham J. Genetic and genomic resources for Rubus breeding: a roadmap for the future. Horticulture Research. 2019;6(1):116. DOI: 10.1038/s41438-019-0199-2
21. Frenzke L., Röckel F., Wenke T., Schwander F., Grützmann K., Naumann J. et al. Genotyping-by-sequencing-based high-resolution mapping reveals a single candidate gene for the grapevine veraison locus Ver1. Plant Physiology. 2024;196(1):244-260. DOI: 10.1093/plphys/kiae272
22. Gao Z., Liu Y., Wang X., Wei X., Han J. DNA mini-barcoding: a derived barcoding method for herbal molecular identification. Frontiers in Plant Science. 2019;10:987. DOI: 10.3389/fpls.2019.00987
23. Graham J., Smith K., Woodhead M., Russell J. Development and use of simple sequence repeat SSR markers in Rubus species. Molecular Ecology Notes. 2002;2(3):250-252. DOI: 10.1046/j.1471-8286.2002.00203.x
24. Graham J., Squire G.R., Marshall B., Harrison R.E. Spatially dependent genetic diversity within and between colonies of wild raspberry Rubus idaeus detected using RAPD markers. Molecular Ecology. 1997;6(11):1001-1008. DOI: 10.1046/j.1365-294X.1997.00272.x
25. Gupta M., Chyi Y.S., Romero-Severson J., Owen J.L. Amplification of DNA markers from evolutionarily diverse genomes using single primers of simple-sequence repeats. Theoretical and Applied Genetics. 1994;89(7-8):998-1006. DOI: 10.1007/BF00224530
26. Gupta P.K., Roy J.K., Prasad M. Single nucleotide polymorphisms: a new paradigm for molecular marker technology and DNA polymorphism detection with emphasis on their use in plants. Current Science. 2001;81(4):524-535.
27. Hayashi K., Yandell D.W. How sensitive is PCR-SSCP? Human Mutation. 1993;2(5):338-346. DOI: 10.1002/humu.1380020503
28. He J., Zhao X., Laroche A., Lu Z.H., Liu H., Li Z. Genotyping-by-sequencing (GBS), an ultimate marker-assisted selection (MAS) tool to accelerate plant breeding. Frontiers in Plant Science. 2014;5:484. DOI: 10.3389/fpls.2014.00484
29. Hebert P.D.N., Cywinska A., Ball S.L., deWaard J.R. Biological identifications through DNA barcodes. Proceedings of the Royal Society of London. Series B, Biological Sciences. 2003a;270(1512):313-321. DOI: 10.1098/rspb.2002.2218
30. Hebert P.D.N., Ratnasingham S., deWaard J.R. Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proceedings of the Royal Society of London. Series B, Biological Sciences. 2003b;270 Suppl 1):S96-S99. DOI: 10.1098/rsbl.2003.0025
31. Hollingsworth P.M., Li D.Z., van der Bank M., Twyford A.D. Telling plant species apart with DNA: from barcodes to genomes. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 2016;371(1702):20150338. DOI: 10.1098/rstb.2015.0338
32. Huang T.R., Chen J.H., Hummer K.E., Alice L.A., Wang W.H., He Y. et al. Phylogeny of Rubus (Rosaceae): integrating molecular and morphological evidence into an infrageneric revision. Taxon. 2023;72(2):278-306. DOI: 10.1002/tax.12885
33. Hummer K.E. Rubus diversity. HortScience. 1996;31(2):182-183. DOI: 10.21273/HORTSCI.31.2.182
34. Janzen D.H., Hallwachs W., Blandin P., Burns J.M., Cadiou J.M., Chacon I. et al. Integration of DNA barcoding into an ongoing inventory of complex tropical biodiversity. Molecular Ecology Resources. 2009;9 Suppl s1:1-26. DOI: 10.1111/j.17550998.2009.02628.x
35. Jehan T., Lakhanpaul S. Single nucleotide polymorphism (SNP) – methods and applications in plant genetics: a review. Indian Journal of Biotechnology. 2006;5:435-459.
36. Juzepczuk S.V. Raspberries and blackberries – Rubus L. (Malina i yezhevika – Rubus L.) In: V.L. Komarov (ed.). Flora USSR. Vol. 10. Moscow; Leningrad; 1941. p.5-58. [in Russian]
37. Kagan D.I., Shestibratov K.A., Lebedev V.G., Azarova A.B., Filippov M.S., Besov S.A. et al. Certification of raspberry and blackberry cultivars, and studying their phylogenetic relationships with the RAPD analysis (Pasportizatsiya sortov maliny i yezheviki i izucheniye ikh filogeneticheskikh vzaimootnosheniy metodom RAPD-analiza). In: Biotechnological Methods in Conservation of Biodiversity and Plant Breeding. Proceeding of the International Scientific Conference; Minsk, 18–20 August, 2014. Minsk: The Central Botanical Gardens; 2014. p.101-104. [in Russian]. URL: http://hbc.bas-net.by/hbcinfo/books/Conf2014_Minsk_ CBG_biochim.pdf [дата обращения: 14.08.2024].
38. Kalendar R., Tanskanen J., Immonen S., Nevo E., Schulman A.H. Genome evolution of wild barley (Hordeum spontaneum) by BARE-1 retrotransposon dynamics in response to sharp microclimatic divergence. Proceedings of the National Academy of Sciences of the United States of America. 2000;97(12):6603-6607. DOI: 10.1073/pnas.110587497
39. Kamnev А.М., Antonova O.Yu., Dunaeva S.Е., Gavrilenko T.A, Chukhina I.G. Molecular markers in the genetic diversity studies of representatives of the genus Rubus L. and prospects of their application in breeding. Vavilov Journal of Genetics and Breeding. 2020;24(1):20-30. [in Russian] . DOI: 10.18699/VJ20.591
40. Kane N.C., Cronk Q. Botany without borders: barcoding in focus. Molecular Ecology. 2008;17(24):5175-5176. DOI: 10.1111/j.1365-294X.2008.03972.x
41. Khlestkina Е.К. Molecular markers in genetic studies and breeding. Vavilov Journal of Genetics and Breeding. 2013;17(4/2):1044-1054. [in Russian].
42. Kimura T., Nishitani C., Iketani H., Ban Y., Yamamoto T. Development of microsatellite markers in rose. Molecular Ecology Notes. 2006;6(3):810-812. DOI: 10.1111/j.14718286.2006.01352.x
43. Kolakovsky A.A. Flora of Abkhazia: in four volumes. Vol. III (Flora Abkhazii: v chetyrekh tomakh. T. III). Tbilisi: Metsniereba; 1985. [in Russian].
44. Korekar G., Sharma R.K., Kumar R., Meenu, Bisht N.C., Srivastava R.B., et al. Identification and validation of sex-linked SCAR markers in dioecious Hippophae rhamnoides L. (Elaeagnaceae). Biotechnology Letters. 2012;34(5):973-978. DOI: 10.1007/s10529-012-0852-4
45. Krassovskaja L.S. Rubus – Rubus L. In: N.N. Tzvelev (ed.). Flora of Eastern Europe. Vol. X (Flora Europae Orientalis. T. X). St. Petersburg; 2001. p.362-393. [in Russian].
46. Kyndt T., Van Droogenbroeck B., Romeijn-Peeters E., RomeroMotochi J.P., Scheldeman X., Goetghebeur P. et al. Molecular phylogeny and evolution of Caricaceae based on rDNA internal transcribed spacers and chloroplast sequence data. Molecular Phylogenetics and Evolution. 2005;37(2):442-459. DOI: 10.1016/j.ympev.2005.06.017
47. Lee J., Dossett M., Finn C.E. Rubus fruit phenolic research: the good, the bad, and the confusing. Food Chemistry. 2012;130(4):785-796. DOI: 10.1016/j.foodchem.2011.08.022
48. Li Y., Tong Y., Xing F. DNA barcoding evaluation and its taxonomic implications in the recently evolved genus Oberonia Lindl. (Orchidaceae) in China. Frontiers in Plant Science. 2016;7:1791. DOI: 10.3389/fpls.2016.01791
49. Lou R.N., Jacobs A., Wilder A.P., Therkildsen N.O. A beginner’s guide to low-coverage whole genome sequencing for population genomics. Molecular Ecology. 2021;30(23):5966-5993. DOI: 10.1111/mec.16077
50. Marieschi M., Torelli A., Poli F., Bianchi A., Bruni R. Quality control of commercial Mediterranean oregano: development of SCAR markers for the detection of the adulterants Cistus incanus L., Rubus caesius L. and Rhus coriaria L. Food Control. 2010;21(7):998-1003. DOI: 10.1016/j.foodcont.2009.12.018
51. Martini S., D’Addario C., Colacevich A., Focardi S., Borghini F., Santucci A. et al. Antimicrobial activity against Helicobacter pylori strains and antioxidant properties of blackberry leaves (Rubus ulmifolius) and isolated compounds. International Journal of Antimicrobial Agents. 2009;34(1):50-59. DOI: 10.1016/j.ijantimicag.2009.01.010
52. Marulanda M.L., López A.M., Aguilar S.B. Genetic diversity of wild and cultivated Rubus species in Colombia using AFLP and SSR markers. Crop Breeding and Applied Biotechnology. 2007;7(3):242-252. DOI: 10.12702/1984-7033.v07n03a03
53. Matveeva T.V., Pavlova O.A., Bogomaz D.I., Lutova L.A., Demkovich A.E. Molecular markers for plant species identification and phylogenetics. Ecological Genetics. 2011;9(1):32-43. [in Russian].
54. Meier J.I., Marques D.A., Mwaiko S., Wagner C.E., Excoffier L., Seehausen O. Ancient hybridization fuels rapid cichlid fish adaptive radiations. Nature Communications. 2017;8(1):14363. DOI: 10.1038/ncomms14363
55. Miyashita T., Kunitake H., Yotsukura N., Hoshino Y. Assessment of genetic relationships among cultivated and wild Rubus accessions using AFLP markers. Scientia Horticulturae. 2015;193:165-173. DOI: 10.1016/j.scienta.2015.07.004
56. Mondini L., Noorani A., Pagnotta M.A. Assessing plant genetic diversity by molecular tools. Diversity. 2009;1(1):19-35. DOI: 10.3390/d1010019
57. Mueller U.G., Wolfenbarger L.L. AFLP genotyping and fingerprinting. Trends in Ecology and Evolution. 1999;14(10):389-394. DOI: 10.1016/S0169-5347(99)01659-6
58. Omelchenko D.O., Krinitsina A.A., Kasianov A.S., Speranskaya A.S., Chesnokova O.V., Polevova S.V. et al. Assessment of ITS1, ITS2, 5′-ETS, and trnL-F DNA barcodes for metabarcoding of Poaceae pollen. Diversity. 2022;14(3):191. DOI: 10.3390/d14030191
59. Parent J.G., Pagé D. Identification of raspberry cultivars by sequence characterized amplified region DNA analysis. HortScience. 1998;33(1):140-142.
60. Paudel D., Parrish S.B., Peng Z., Parajuli S., Deng Z. A chromosome-scale and haplotype-resolved genome assembly of tetraploid blackberry (Rubus L. subgenus Rubus Watson). Horticulture Research. [preprint] 2025. DOI: 10.1093/hr/uhaf052
61. Peterson G.W., Dong Y., Horbach C., Fu Y.B. Genotyping-by-sequencing for plant genetic diversity analysis: a lab guide for SNP genotyping. Diversity. 2014;6(4):665-680. DOI: 10.3390/d6040665
62. Poland J.A., Rife T.W. Genotyping-by-sequencing for plant breeding and genetics. The Plant Genome. 2012;5(3):92-102. DOI: 10.3835/plantgenome2012.05.0005
63. Pradeep Reddy M., Sarla N., Siddiq E.A. Inter simple sequence repeat (ISSR) polymorphism and its application in plant breeding. Euphytica. 2002;128(1):9-17. DOI: 10.1023/A:1020691618797
64. Ryu J., Kim W.J., Im J., Kim S.H., Lee K.S., Jo H.J. et al. Genotyping-by-sequencing based single nucleotide polymorphisms enabled Kompetitive Allele Specific PCR marker development in mutant Rubus genotypes. Electronic Journal of Biotechnology. 2018;35:57-62. DOI: 10.1016/j.ejbt.2018.08.001
65. Sa Y., Na D. Optimization of PCR-SSCP reaction system and reaction conditions in Crataegus spp. Agricultural Science and Technology. 2017;18(3):398-401.
66. Santana M.F., de Araújo E.F., de Souza J.T., Mizubuti E.S.G., de Queiroz M.V. Development of molecular markers based on retrotransposons for the analysis of genetic variability in Moniliophthora perniciosa. European Journal of Plant Pathology. 2012;134(3):497-507. DOI: 10.1007/s10658-012-0031-4
67. Sedighi E., Rahimmalek M. Evaluation of genetic diversity of Rubus hyrcanus using Inter Simple Sequence Repeat (ISSR) and morphological markers. Biologia. 2015;70(3):339-348. DOI: 10.1515/biolog-2015-0039
68. Sevindik E., Okan K., Sevindik M., Ercisli S. Genetic diversity and phylogenetic analyses of Juglans regia L. (Juglandaceae) populations using RAPD, ISSR markers and nrDNA ITS regions. Erwerbs-Obstbau. 2023;65(2):311-320. DOI: 10.1007/s10341-023-00834-7
69. Shahreki M., Mahdinezhad N., Fakheri B., Fahmideh L., Aran M. Evaluation of genetic diversity of Sistan native apple genotypes using IRAP and REMP markers. Pomology Research. 2022;7(1):19-28. DOI: 10.30466/rip.2021.53285.1155
70. Simla M., Ptak A., Kula A., Orzeł A. Assessment of genetic variability among raspberry accessions using molecular markers. Acta Scientiarum Polonorum Hortorum Cultus. 2018;17(5):61-72. DOI: 10.24326/asphc.2018.5.6
71. Sobolev V.V., Soboleva A.G., Andreeva G.N., Karlov G.I. Evaluation of interspecific and intervarietal polymorphism in raspberries and marking of the everbearing trait using ISSR-PCR analysis (Otsenka mezhvidovogo i mezhsortovogo polimorfizma maliny i markirovaniye priznaka remontantnosti s ispolzovaniyem ISSR-PTsRanaliza). Izvestiya of Timiryazev Agricultural Academy. 2009;(2):103-109. [in Russian].
72. Sochor M., Vašut R.J., Sharbel T.F., Trávníček B. How just a few makes a lot: Speciation via reticulation and apomixis on example of European brambles (Rubus subgen. Rubus, Rosaceae). Molecular Phylogenetics and Evolution. 2015;89:13-27. DOI: 10.1016/j.ympev.2015.04.007
73. Stafne E.T., Clark J.R., Pelto M.C., Lindstrom J.T. Discrimination of Rubus cultivars using RAPD markers and pedigree analysis. Acta Horticulturae. 2003;626:119-124. DOI: 10.17660/ActaHortic.2003.626.16
74. Tautz D., Renz M. Simple sequences are ubiquitous repetitive components of eukaryotic genomes. Nucleic Acids Research. 1984;12(10):4127-4138. DOI: 10.1093/nar/12.10.4127
75. Techen N., Parveen I., Pan Z., Khan I.A. DNA barcoding of medicinal plant material for identification. Current Opinion in Biotechnology. 2014;25:103-110. DOI: 10.1016/j.copbio.2013.09.010
76. Tripodi P. The evolution of molecular genotyping in plant breeding. Agronomy. 2023;13(10):2569. DOI: 10.3390/agronomy13102569
77. Ugozzoli L., Wallace R.B. Allele-specific polymerase chain reaction. Methods. 1991;2(1):42-48. DOI: 10.1016/S10462023(05)80124-0
78. Uh Y.R., Jang C.S. Establishment of real-time polymerase chain reaction-based molecular markers to distinguish between Rubus coreanus and Rubus occidentalis. Journal of Agricultural, Life and Environmental Sciences. 2023;35(1):14-25. DOI: 10.22698/JALES.20230002
79. VanBuren R., Bryant D., Bushakra J.M., Vining K.J., Edger P.P., Rowley E.R. et al. The genome of black raspberry (Rubus occidentalis). The Plant Journal. 2016;87(6):535-547. DOI: 10.1111/tpj.13215
80. Vos P., Hogers R., Bleeker M., Reijans M., van de Lee T., Hornes M. et al. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research. 1995;23(21):4407-4414. DOI: 10.1093/nar/23.21.4407
81. Wang L., Lei T., Han G., Yue J., Zhang X., Yang Q. et al. The chromosome-scale reference genome of Rubus chingii Hu provides insight into the biosynthetic pathway of hydrolyzable tannins. The Plant Journal. 2021;107(5):1466-1477. DOI: 10.1111/tpj.15394
82. Wang M., Zhao H.X., Wang L., Wang T., Yang R.W., Wang X.L. et al. Potential use of DNA barcoding for the identification of Salvia based on cpDNA and nrDNA sequences. Gene. 2013;528(2):206-215. DOI: 10.1016/j.gene.2013.07.009
83. Wang Y., Chen Q., Chen T., Tang H., Liu L., Wang X. Phylogenetic insights into Chinese Rubus (Rosaceae) from multiple chloroplast and nuclear DNAs. Frontiers in Plant Science. 2016;7:968. DOI: 10.3389/fpls.2016.00968
84. Ward J.A., Boone W.E., Moore P.P., Weber C.A. Developing molecular markers for marker-assisted selection for resistance to raspberry bushy dwarf virus (RBDV) in red raspberry. Acta Horticulturae. 2012;946:61-66. DOI: 10.17660/ActaHortic.2012.946.6
85. Weber C.A. Genetic diversity in black raspberry detected by RAPD markers. HortScience. 2003;38(2):269-272.
86. Wight H., Zhou J., Li M., Hannenhalli S., Mount S., Liu Z. Draft genome assembly and annotation of red raspberry Rubus idaeus. BioRxiv. [preprint] 2019. DOI: 10.1101/546135
87. Williams J.G., Kubelik A.R., Livak K.J., Rafalski J.A., Tingey S.V. DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Research. 1990;18(22):6531-6535. DOI: 10.1093/nar/18.22.6531
88. Wu Y., Li M., Yang Y., Jiang L., Liu M., Wang B. et al. Authentication of small berry fruit in fruit products by DNA barcoding method. Journal of Food Science. 2018;83(6):1494-1504. DOI: 10.1111/1750-3841.14177
89. Yang J.Y., Jang S.Y., Kim H.K., Park S.J. Development of a molecular marker to discriminate Korean Rubus species medicinal plants based on the nuclear ribosomal DNA internal transcribed spacer and chloroplast trnL-F intergenic region sequences. Journal of the Korean Society for Applied Biological Chemistry. 2012;55(2):281-289. DOI: 10.1007/s13765-012-1044-6
90. Yang J.Y., Pak J.H. Phylogeny of Korean Rubus (Rosaceae) based on ITS (nrDNA) and trnL/F intergenic region (cpDNA). Journal of Plant Biology. 2006;49(1):44-54. DOI: 10.1007/BF03030787
91. Yannic G., Baumel A., Ainouche M. Uniformity of the nuclear and chloroplast genomes of Spartina maritima (Poaceae), a salt-marsh species in decline along the Western European Coast. Heredity (Edinburgh). 2004;93(2):182-188. DOI: 10.1038/sj.hdy.6800491
92. Zernov A.S. Illustrated flora of the south of the Russian Black Sea region (Illyustrirovannaya flora yuga Rossiyskogo Prichernomorya). Moscow: KMK; 2013. [in Russian].
93. Zhou Z., Liu F., Xu Y., Hu W. Genetic diversity analysis and core germplasm construction of Rubus chingii Hu. Plants. 2024;13(5):618. DOI: 10.3390/plants13050618
94. Zhu S., Liu Q., Qiu S., Dai J., Gao X. DNA barcoding: an efficient technology to authenticate plant species of traditional Chinese medicine and recent advances. Chinese Medicine. 2022;17(1):112. DOI: 10.1186/s13020-022-00655-y
95. Zou M., Xia Z. Hyper-seq: A novel, effective, and flexible marker-assisted selection and genotyping approach. Innovation. 2022;3(4):100254. DOI: 10.1016/j.xinn.2022.100254
Review
For citations:
Zhuravlev I.Yu., Menkov M.T., Markova E.N., Dobarkina N.A., Evlash A.Ya., Shipilina L.Yu., Rozanov A.S. Current methods for identifying plant hybrids: a case study of blackberry. Proceedings on applied botany, genetics and breeding. 2025;186(1):224-241. (In Russ.) https://doi.org/10.30901/2227-8834-2025-1-224-241
Views:
176
Email this article 