Characteristic of selected molecular markers
Paulina Bolc
p.bolc@ihar.edu.plInstytut Hodowli i Aklimatyzacji Roślin – Państwowy Instytut Badawczy w Radzikowie (Poland)
https://orcid.org/0000-0001-7006-7372
Abstract
Over the last 20 years, the progress in molecular biology through the introduction of new generation molecular markers has allowed many areas to move forward. It has now become possible to obtain more accurate genetic information to better understand the genetic resources of organisms. A molecular marker can be any nucleotide sequence (selected DNA fragment) scattered throughout the genome, whose variability between individuals or taxonomic groups allows precise identification of the individual/taxon. The effectiveness of restriction digestion and polymerase chain reaction based on molecular markers has already proved their usefulness in taxonomic, evolutionary and ecological plant research.
Keywords:
molecular markers, RFLP, AFLP, RAPD, SSR, ISSR, SRAP, SNP, PCR, polymorphism, genetic diversityReferences
Abate, T., (2017). Inter Simple Sequence Repeat (ISSR) markers for genetic diversity studies in Trifolium species. Advances in Life Science and Technology 55: 34-36.
Google Scholar
Adhikari, S., Saha, S., Biswas, A., Rana, T. S., Bandyopadhyay, T. K., Ghosh, P., (2017). Application of molecular markers in plant genome analysis: a review. Nucleus 60: 283-297.
Google Scholar
Al-Samari, F. R., Al-Kazaz, A. A., (2015). Molecular Markers: an introduction and applications. European Journal of Molecular Biotechnology 9(3): 118-121.
Google Scholar
Alasaad, S., Li, Q. Y., Lin, R. Q., Martin-Atance, P., Granados, J. E., Diez-Banos, P., Perez, J. M., Zhu, X. Q., (2008). Genetic variability among Fasciola hepatica samples from different host species and geographical localities in Spain revealed by the novel SRAP markers. Parasitology Research 103(1): 181-186.
Google Scholar
Bardakci, F., (2001). Random Amplified Polymorphic DNA (RAPD) Markers. Turkish Journal of Biology 25: 185-196.
Google Scholar
Besnard, G., Khadari, B., Baradat, P., Bervillé, A., (2002). Combination of chloroplast and mitochondrial DNA polymorphisms to study cytoplasm genetic differentiation in the olive complex (Olea europaea L.). Theoretical and Applied Genetics 105: 139-144.
Google Scholar
Carmona, A., Friero, E., de Bustos, A., Jouve, N., Cuadrado, A., (2013). Cytogenetic diversity of SSR motifs within and between Hordeum species carrying the H genome: H. vulgare L. and H. bulbosum L. Theoretical and Applied Genetics 126: 949-961.
Google Scholar
Carneiro Vieira, M. L., Santini, L., Lima Diniz, A., de Freitas Munhoz, C., (2016). Microsatellite markers: what they mean and why they are so useful. Genetics and Molecular Biology 39(3): 312-328.
Google Scholar
Castonguay, Y., Cloutier, J., Bertrand, A., Michaud, R., Laberge, S., (2010). SRAP polymorphism associated with superior freezing tolerance in alfalfa (Medicago sativa spp. sativa). Theoretical Applied Genetics 120: 1611-1619.
Google Scholar
Chybicki, I. J., Oleksa, A., Burczyk, J., (2011). Increased inbreeding and strong kinship structure in Taxus baccata estimated from both AFLP and SSR data. Heredity 107: 589-600.
Google Scholar
Emadi, A., Crim, M. T., Brotman, D. J., Necochea, A. J., Samal, L., Wilson, L. M., Bass, E. B., Segal, J. B., (2010). Analytic validity of genetic tests to identify factor V Leiden and prothrombin G20210A. American Journal of Hematology 85(4): 264-270.
Google Scholar
Ferriol, M., Pico, B., Nuez, F., (2003). Genetic diversity of a germplasm collection of Cucurbita pepo using SRAP and AFLP markers. Theoretical and Applied Genetics 107: 271-282.
Google Scholar
Fukuoka, S., Hosaka, K., Kamijima, O., (1992). Use of Random Amplified Polymorphic DNAs (RAPDs) for identification of rice accessions. Japanese Journal of Genetics 67: 243-252.
Google Scholar
Griffiths, R., Orr, K., (1999). The use of amplified fragment length polymorphism (AFLP) in the isolation of sex-specific markers. Molecular Ecology 8: 671-674.
Google Scholar
Guindon, M. F., Martin, E., Zayas, A., Cointry, E., Cravero, V., (2016). Evaluation of SRAP markers for mapping of Pisum sativum L.. Crop Breeding and Applied Biotechnology 16: 182-188.
Google Scholar
Jones, N., Ougham, H., Thomas, H., Pašakinskienė, I., (2009). Marks and mapping revisited: finding your gene. New Phytologist 183: 935-96.
Google Scholar
Kandemir, N., Yildirim, A., Gunduz, R., (2010). Determining the levels of genetic variation using SSR markers in three Turkish barley materials known as Tokak. Turkish Journal of Agriculture and Forestry 34: 17-23.
Google Scholar
Khlestkina, E. K., Salina, E. A., (2006). SNP Markers: Methods of Analysis, Ways of Development, and Comparison on an Example of Common Wheat. Russian Journal of Genetics 42(6): 585-592.
Google Scholar
Kuleung, C., Baenziger, P. S., Dweikat, I., (2004). Transferability of SSR markers among wheat, rye, and triticale. Theoretical and Applied Genetics 108(6): 1147-1150.
Google Scholar
Li, G., McVetty, P. B. E., Quiros, C. F., (2013). SRAP Molecular Marker Technology in Plant Science, w ed. Sven Bode Andersen, Plant Breeding from Laboratories to Fields, IntechOpen, Dania.
Google Scholar
Li, G., Quiros, C. F., (2001). Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theoretical and Applied Genetics 103: 455-461.
Google Scholar
Li, W., Lin, Z., Zhang, X., (2007). A Novel Segregation Distortion in Intraspecific Population of Asian Cotton (Gossypium arboretum L.) Detected by Molecular Markers. Journal of Genetics and Genomics 34(7): 634-640.
Google Scholar
Liu, M. P., Du, H. Y., Zhu, G. P., Fu, D. L., Tana, W. Y., (2015). Genetic diversity analysis of sweet kernel apricot in China based on SSR and ISSR markers. Genetics and Molecular Research 14(3): 9722-9729.
Google Scholar
Lourdes Rocha, C. M., Vellicce, G. R., García, M. G., Pardo, E. M., Racedo, J., Perera, M. F., de Lucia, A., Gilli, J., Bogado, N., Bonnecarrère, V., German, S., Marcelino, F., Ledesma, F., Reznikov, S., Ploper, L. D., Welin, B., Castagnaro, A. P., (2015). Use of AFLP markers to estimate molecular diversity of Phakopsora pachyrhizi. Electronic Journal of Biotechnology 18: 439-444.
Google Scholar
Lu, J. J., Wang, S., Zhao, H. Y., Liu, J. J., Wang, H. Z., (2012). Genetic linkage map of EST-SSR and SRAP markers in the endangered Chinese endemic herb Dendrobium (Orchidaceae). Genetics and Molecular Research 11(4): 4654-4667.
Google Scholar
Matuszczak, M., (2002). Zastosowanie metody AFLP do analizy DNA rzepaku ozimego. Rośliny Oleiste XXIII: 255-256. [https://patents.google.com/patent/EP0534858B2/en], dostęp 27.11.2019.
Google Scholar
Mendelson, T. C., Shaw, K. L., (2005). Use of AFLP markers in surveys of arthropod diversity. Methods in Enzymology 395: 161-177.
Google Scholar
Mikowska, M., Świergosz-Kowalewska, R., Śliwińska, E., (2012). Ocena różnorodności genetycznej przy pomocy markerów molekularnych - zastosowanie w ekotoksykologii. Wszechświat 113: 171-175.
Google Scholar
Najafzadeh, R., Arzani, K., Bouzari, N., Saei, A., (2014). Genetic Diversity Assessment and Identification of New Sour Cherry Genotypes Using Intersimple Sequence Repeat Markers. International Journal of Biodiversity 2014: 1-8.
Google Scholar
Potter, D., Gao, F., Aiello, G., Leslie, C., McGranahan, G., (2002). Intersimple Sequence Repeat Markers for Fingerprinting and Determining Genetic Relationships of Walnut (Juglans regia) Cultivars. Journal of the American Society for Horticultural Science 127(1): 75-81.
Google Scholar
Pradeep Reddy, M., Sarla, N., Siddiq, E. A., (2002). Inter simple sequence repeat (ISSR) polymorphism and its application in plant breeding. Euphytica 128: 9-17.
Google Scholar
Prystupa, A., Buś-Kicman, M., Dzida, G., Styliński, R., Piwowarczyk, P., Sawa, M., Janowska, M., Mosiewicz, J., (2011). Application of RFLP-PCR method for molecular diagnostics of hereditary non-polyposis colorectal cancer (HNPCC). Journal of Pre-Clinical and Clinical Research 5(2): 70-73.
Google Scholar
Puchta, M., Bolc, P., Piechota, U., (2018). Review of genome sampling methods in sequencing libraries preparation protocols. Agronomy Science LXXIII(4): 93-105.
Google Scholar
Robarts, D. W. H., Wolfe, A. D., (2014). Sequence-related amplified polymorphism (SRAP) markers: A potential resource for studies in plant molecular biology. Applications in Plant Sciences 2(7): 1-8.
Google Scholar
Senthil Kumar, N., Gurusubramanian, G., (2011). Random amplified polymorphic DNA (RAPD) markers and its applications. Science Vision 3: 116-124.
Google Scholar
Shulman, A., (2007). Molecular markers to assess genetic diversity. Euphytica 158: 313–321.
Google Scholar
Song, H. Q., Mo, X. H., Zhao, G. H., Li, J., Zou, F. C., Liu, W., Wu, X. Y., Lin, R. Q., Weng, Y. B., Zhu, X. Q., (2011). Electrophoretic detection of genetic variability among Schistosoma japonicum isolates by sequence-related amplified polymorphism. Electrophoresis 32: 1364-1370.
Google Scholar
Sun, Z., Wang, Z., Tu, J., Zhang, J., Yu, F., McVetty, P. B. E., Li, G., (2007). An ultradense genetic recombination map for Brassica napus, consisting of 13551 SRAP markers. Theoretical and Applied Genetics 114(8): 1305-1317.
Google Scholar
Sztuba-Solińska, J., (2005). Systemy markerów molekularnych i ich zastosowanie w hodowli roślin. Kosmos 54(2-3): 227-239.
Google Scholar
Szućko, I., Achrem, M., Kalinka, A., (2012). Charakterystyka i zastosowanie SSR oraz ISSR w badaniach genomów roślinnych. Kosmos 61(4): 597-601.
Google Scholar
Tanhuanpää, P., Kalendar, R., Schulman, A. H., Kiviharju, E., (2007). A major gene for grain cadmium accumulation in oat (Avena sativa L.). Genome 50: 588-594.
Google Scholar
Turchetto, C., Segatto, A. L A., Beduschi, J., Bonatto, S. L., Freitas, L. B., (2015). Genetic differentiation and hybrid identification using microsatellite markers in closely related wild species. AoB Plants 7: 1-9.
Google Scholar
Vianna, L. S., Pereira, T. N. S., Santos, E. A., Viana, A. P., Pereira, M. G., Ramos, H. C. C., Rossi, A. A. B., (2019). ISSR and SSR markers for determining genetic relationships among three wild species of Passiflora. Genetics and Molecular Research 18(1): 1-9.
Google Scholar
Vos, P., Hogers, R., Bleeker, M., Reijans, M., van de Lee, T., Hornes, M., Frijters, A., Pot, J., Peleman, J., Kuiper, M., Zabeau, M., (1995). AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23(21): 4407-4414.
Google Scholar
Williams, J. G. K., Kubelik, A. R., Livak, K. J., Rafalski, J. A., Tingey, S. V., (1990). DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Research 18(22): 6531-6535.
Google Scholar
Yang, W., Kang, X., Yang, Q., Lin, Y., Fang, M., (2013). Review on the development of genotyping methods for assessing farm animal diversity. Journal of animal science and biotechnology 4:1-6.
Google Scholar
Authors
Paulina Bolcp.bolc@ihar.edu.pl
Instytut Hodowli i Aklimatyzacji Roślin – Państwowy Instytut Badawczy w Radzikowie Poland
https://orcid.org/0000-0001-7006-7372
Statistics
Abstract views: 1100PDF downloads: 964
License
This work is licensed under a Creative Commons Attribution-ShareAlike 4.0 International License.
Upon submitting the article, the Authors grant the Publisher a non-exclusive and free license to use the article for an indefinite period of time throughout the world in the following fields of use:
- Production and reproduction of copies of the article using a specific technique, including printing and digital technology.
- Placing on the market, lending or renting the original or copies of the article.
- Public performance, exhibition, display, reproduction, broadcasting and re-broadcasting, as well as making the article publicly available in such a way that everyone can access it at a place and time of their choice.
- Including the article in a collective work.
- Uploading an article in electronic form to electronic platforms or otherwise introducing an article in electronic form to the Internet or other network.
- Dissemination of the article in electronic form on the Internet or other network, in collective work as well as independently.
- Making the article available in an electronic version in such a way that everyone can access it at a place and time of their choice, in particular via the Internet.
Authors by sending a request for publication:
- They consent to the publication of the article in the journal,
- They agree to give the publication a DOI (Digital Object Identifier),
- They undertake to comply with the publishing house's code of ethics in accordance with the guidelines of the Committee on Publication Ethics (COPE), (http://ihar.edu.pl/biblioteka_i_wydawnictwa.php),
- They consent to the articles being made available in electronic form under the CC BY-SA 4.0 license, in open access,
- They agree to send article metadata to commercial and non-commercial journal indexing databases.
Most read articles by the same author(s)
- Marta Puchta, Paulina Bolc, Jerzy H. Czembor, Urszula Piechota, Optimization of the ddRadSeq method for Hordeum sp. and Zea sp. , Bulletin of Plant Breeding and Acclimatization Institute: No. 283 (2018): Special issue
