Utilization of conserved genic SSR markers for phylogenetic analysis of Nigerian Ipomoea species
DOI:
https://doi.org/10.14719/pst.1875Keywords:
Phylogenetic, SSR, SSR markers, MicrosatellitesAbstract
Ipomoea, with enormous economic importance, is a large genus with species that are highly evolutionarily diverged. There is dearth of information regarding the phylogenetic relationships of the Nigerian species of the genus Ipomoea. It is therefore imperative to use contemporary taxonomic evidences to understand the diversity of its distribution in a region and provide enhanced delimitation of the taxa. In this study, 6 genic simple sequence repeat (SSR) markers whose cross transferability have been established among the plant species were selected to appraise their level of polymorphism and used to study the phylogenetic relationships among 11 indigenous Nigerian Ipomoea species. The 6 SSR loci showed varying levels of polymorphism among the genotypes of all 11 species assessed and demonstrated 100% polymorphism when examined across the 11 species. A total of 55 alleles were produced. The PIC of the primers ranged between 0.2223 and 0.874 with an average value of 0.71885. Phylogenetic analysis clustered species into 3 major and 6 sub clusters wherein the species were clearly separated. This study has shown the effectiveness of developed genic SSR markers for establishing phylogenetic relationship in Ipomoea species.
Downloads
References
Van-Ooststroom SJ. Convolvulaceae. In: Van-Steenis CGGJ (ed.), Flora Malesiana. 1953; 458-89. Wolters-Noordhoff, Groningen, Netherlands.
Austin DF. Typification of the New World Subdivisions of Ipomoea L.(Convolvulaceae). Taxon. 1975; 24: 107-10. https://doi.org/10.2307/1219005
Austin DF, Huáman Z. A Synopsis of Ipomoea (Convolvulaceae) in the Americas. Taxon. 1996; 29:501-02. https://doi.org/10.2307/1220640
Miller RE, Rausher MD, Manos PS. Phylogenetic Systematics of Ipomoea (Convolvulaceae) Based on ITS and Waxy Sequences. Syst Bot. 1999; 24: 209-27. https://doi.org/10.2307/2419549
Austin DF. Dissolution of Ipomoea series Anisomerae (Convolvulaceae). Journal of the Torrey Botanical Society. 1997;140-59. https://doi.org/10.2307/2996581
Wagner H.. The chemistry of the resin glycosides of the Convolvulaceae family, in: Bendz G, Santesson J (eds.), Medicine and Natural Sciences, Chemistry in Botanical Classification. Academic Press., New York. 1973; p. 235-40.
Pereda-Miranda R, Bah M. Biodynamic Constituents in the Mexican Morning Glories: Purgative Remedies Transcending Boundaries. Curr Top Med Chem. 2003;3:111-31. https://doi.org/10.2174/1568026033392534
Meira M, Silva EPD, David JM, David JP. Review of the genus Ipomoea: traditional uses, chemistry and biological activities. Revista Brasileira de Farmacognosia. 2012;22(3): 682-713. https://doi.org/10.1590/S0102-695X2012005000025
Manos PS, Miller RE, Wilkin P. Phylogenetic analysis of Ipomoea, Argyreia, Stictocardia and Turbina suggests a generalized model of morphological evolution in morning glories. Systematic Botany. 2001;26(3): 585-602.
Folorunso AE. Taxonomic evaluation of fifteen species of Ipomoea L. (Convolvulaceae) from South-Western Nigeria using foliar micromorphological characters. Not Sci Biol. 2013; 5(2):156-62. https://doi.org/10.15835/nsb529056
Sharma RK, Bhardwaj P, Negi R, Mohapatra T, Ahuja PS. Identification, characterization and utilization of unigene derived microsatellite markers in tea (Camellia sinensis L.). BMC Plant Biology. 2009; 9(1): 1-24. https://doi.org/10.1186/1471-2229-9-53
Gyana RR, Sunil KS, Ubhashree A. Identification and phylogenetic analysis of Ipomoea species collected from Eastern India using inter simple sequence repeat markers. International Journal of Pharma and Bio Sciences. 2010;1(4):B1-B13.
Kadry AK, Gamal O, Waeil A. Genetic diversity and taxonomic relationships of some Ipomoea species based on analysis of RAPD-PCR and SDS-PAGE of seed proteins. Australian Journal of Crop Science. 2012;6(6):1088-93.
Unamba CIN, Nag A, Sharma RK. Next generation sequencing technologies: The doorway to the unexplored genomics of non-model plants. Front Plant Sci. 2015; 6:1074. doi: 10.3389/fpls.2015.01074.
Wang ML, Mosjidis JA, Morris JB, Dean RE, Jenkins TM, Pederson GA. Genetic diversity of Crotalaria germplasm assessed through phylogenetic analysis of EST-SSR markers. Genome. 2006; 49(6):707-15. https://doi.org/10.1139/g06-027
Sharma RK, Gupta P, Sharma V, Sood A, Mohapatra T, Ahuja PS. Evaluation of rice and sugarcane SSR markers for phylogenetic and genetic diversity analyses in bamboo. Genome. 2008;51(2):91-103. https://doi.org/10.1139/G07-101
Zhou S, Wang C, Yin G, Zhang Y, Shen X, Pennerman KK et al. Phylogenetics and diversity analysis of Pennisetum species using Hemarthria EST?SSR markers. Grassland science. 2019;65(1):13-22. https://doi.org/10.1111/grs.12208
Doyle JJ, Doyle JL. A rapid total DNA preparation procedure for fresh plant tissue. Focus. 1990; 12:13-15.
Kantety RV, Rota ML, Matthews DE, Sorrells ME. Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol. Biol. 2002;48:501-10. https://doi.org/10.1023/A:1014875206165
MathiThumilan B, Sajeevan RS, Biradar J, Madhuri T, Nataraja K, Sreeman SM. Development and characterization of genic SSR markers from Indian mulberry transcriptome and their transferability to related species of Moraceae. PLoS ONE. 2016; 11(9): e0162909. https://doi.org/10.1371/journal.pone.0162909
Chesnokov YV, Artemyeva AM. Evaluation of the measure of polymorphism information of genetic diversity. Agricultural Biology. 2015; 50(5): 571-78. doi: 10.15389/agrobiology.2015.5.571eng
Eserman LA, Tiley GP, Jarret RL, Leebens-Mack JH, Miller RE. Phylogenetics and diversification of morning glories (Tribe Ipomoeeae, Convolvulaceae) based on whole plastome sequences. American Journal of Botany. 2014;101(1):92-103. https://doi.org/10.3732/ajb.1300207
Austin DF. An Infrageneric Classification for Ipomoea (Convolvulaceae). Taxon. 1979; 28(4): 359. doi:10.2307/1219747.
Luo Z, Brock J, Dyer JM, Kutchan T, Schachtman D, Augustin M et al. Genetic diversity and population structure of a Camelina sativa spring panel. Frontiers in Plant Science. 2019;10:184. doi.org/10.3389/fpls.2019.00184
Downloads
Published
Versions
- 01-04-2023 (2)
- 09-01-2023 (1)
How to Cite
Issue
Section
License
Copyright (c) 2022 Chibuikem I N Unamba, Ikechukwu O Agbagwa
This work is licensed under a Creative Commons Attribution 4.0 International License.
Copyright and Licence details of published articles
Authors who publish with this journal agree to the following terms:
- Authors retain copyright and grant the journal right of first publication with the work simultaneously licensed under a Creative Commons Attribution License that allows others to share the work with an acknowledgement of the work's authorship and initial publication in this journal.
- Authors are able to enter into separate, additional contractual arrangements for the non-exclusive distribution of the journal's published version of the work (e.g., post it to an institutional repository or publish it in a book), with an acknowledgement of its initial publication in this journal.
Open Access Policy
Plant Science Today is an open access journal. There is no registration required to read any article. All published articles are distributed under the terms of the Creative Commons Attribution License (CC Attribution 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited (https://creativecommons.org/licenses/by/4.0/). Authors are permitted and encouraged to post their work online (e.g., in institutional repositories or on their website) prior to and during the submission process, as it can lead to productive exchanges, as well as earlier and greater citation of published work (See The Effect of Open Access).
