Short Communication: Cross-species amplification of microsatellite markers developed for Jatropha curcas within five species of Jatropha
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Abstract. Saptadi D, Heliyanto B, Sudarsono. 2020. Short Communication: Cross-species amplification of microsatellite markers developed for Jatropha curcas within five species of Jatropha. Biodiversitas 21: 5072-5076. The transferability of SSR markers can be used to access the genetic diversity of related species. There are four close relatives of Jatropha curcas L in Indonesia, which can be utilized as a new diversity source through the interspecific crossing. This research was conducted to determine the ability of cross-species amplification of SSR markers developed from J. curcas to other Jatropha species (J. integerrima, J. multifida, J. gossypifolia, J. podagrica). It also investigated the relationship between these species. Out of 28 primers checked,11 primers showed cross-species amplification in all the species tested. Primer pairs EU099519, EU099528, and EU099525 have no transferability to other species. The overall percentage of polymorphism (PP) among all species tested was 95%, with the mean genetic similarity (GS) was 0.34. Least PP (17.35%) and highest GS (0.60) was found between pairs of J. podagrica and J. multifida. The correlation between the PP with GS was relatively high (0.75). The farthest and closest genetic distance was found between J. curcas/J. gossypifolia and J. podagrica/J. multifida, respectively. Further, selected primers from this study can be utilized in species differentiation, molecular identification of interspecific hybrids, and exploiting the genetic resource.
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References
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Mastan, S. G., Sudheer, P. D. V. N., Rahman, H., Ghosh, A., Rathore, M. S., Prakash, C. R., & Chikara, J. (2012). Molecular characterization of intra-population variability of Jatropha curcas L. using DNA based molecular markers. Molecular Biology Reports, 39(4), 4383–4390. https://doi.org/10.1007/s11033-011-1226-z
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Saptadi, D., Hartati, R. S., Setiawan, A., Heliyanto, B., & Sudarsono. (2017). Genetic Diversity of Indonesian Physic Nut (J. curcas) Based on Molecular Markers. 39(60), 160–171. https://doi.org/http://doi.org/10.17503/agrivita.v39i2.694
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Sudheer, P. D. V. N., Mastan, S. G., Rahman, H., Ravi Prakash, C., Singh, S., & Reddy, M. P. (2011). Cross-species amplification ability of novel microsatellites isolated from Jatropha curcas and genetic relationship with sister taxa?: Cross-species amplification and genetic relationship of Jatropha using novel microsatellites. Molecular Biology Reports, 38(2), 1383–1388. https://doi.org/10.1007/s11033-010-0241-9
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Wang, S., Liu, Y., Liying, M., Liu, H., Tang, Y., Wu, L., … Pang, X. (2014). Isolation and characterization of microsatellite markers and analysis of genetic diversity in Chinese jujube (Ziziphus jujuba Mill.). PLoS ONE, 9(6). https://doi.org/10.1371/journal.pone.0099842
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Whankaew, S., Kanjanawattanawong, S., Phumichai, C., Smith, D. R., Narangajavana, J., & Triwitayakorn, K. (2011). Cross-genera transferability of (simple sequence repeat) SSR markers among cassava (Manihot esculenta Crantz), rubber tree (Hevea brasiliensis Muell. Arg.) and physic nut (Jatropha curcas L.). African Journal of Biotechnology, 10(10), 1768–1776. https://doi.org/10.5897/AJB10.2185
Yan, Z., Wu, F., Luo, K., Zhao, Y., Yan, Q., Zhang, Y., … Zhang, J. (2017). Cross-species transferability of EST-SSR markers developed from the transcriptome of Melilotus and their application to population genetics research. Scientific Reports, 7(1), 1–11. https://doi.org/10.1038/s41598-017-18049-8
Avendaño, R., Díaz, E. G., Valdez-Melara, M., Solano, N. C., Villalobos, A. M., Cascante, F. A., … Solís-Ramos, L. Y. (2015). Genetic Diversity Analysis of Jatropha Species from Costa Rica Using AFLP Markers. American Journal of Plant Sciences, 06(14), 2426–2438. https://doi.org/10.4236/ajps.2015.614245
Celi?ski, K., Pawlaczyk, E. M., Wojnicka-Pó?torak, A., Chudzi?ska, E., & Prus-G?owacki, W. (2013). Cross-species amplification and characterization of microsatellite loci in Pinus mugo Turra. Biologia (Poland), 68(4), 621–626. https://doi.org/10.2478/s11756-013-0189-z
Datta, S., Mahfooz, S., Singh, P., Choudhary, A. K., Chaturvedi, S. K., & Nadarajan, N. (2013). Conservation of microsatellite regions across legume genera increases marker repertoire in pigeon pea. Australian Journal of Crop Science, 7(13), 1990–1997. http://www.cropj.com/datta_7_13_2013_1990_1997.pdf.
Dehgan, B. (1982). Novel Jatrophas for Florida Landscapes. Garden (4238).
Devappa, R. K., Makkar, H. P. S., & Becker, K. (2011). Jatropha diterpenes: A review. JAOCS, Journal of the American Oil Chemists’ Society, 88(3), 301–322. https://doi.org/10.1007/s11746-010-1720-9
Heller, J. (1996). Physic nut. Jatropha curcas L. Promoting the conservation and use of underutilized and neglected crops. 1. In Physic nut. Jatropha curcas L. Retrieved from https://www.bioversityinternational.org/fileadmin/_migrated/uploads/tx_news/Physic_nut__Jatropha_curcas_L._161.pdf
Koppolu, R., Upadhyaya, H. D., Dwivedi, S. L., Hoisington, D. A., & Varshney, R. K. (2010). Genetic relationships among seven sections of the genus Arachis studied by using SSR markers. BMC Plant Biology, 10, 1–12. https://doi.org/10.1186/1471-2229-10-15
Kumar Yadav, H., Ranjan, A., Asif, M. H., Mantri, S., Sawant, S. V., & Tuli, R. (2011). EST-derived SSR markers in Jatropha curcas L.: Development, characterization, polymorphism, and transferability across the species/genera. Tree Genetics and Genomes, 7(1), 207–219. https://doi.org/10.1007/s11295-010-0326-6
Laosatit, K., Tanya, P., Saensuk, C., & Srinives, P. (2013). Development and characterization of EST-SSR markers from Jatropha curcas EST database and their transferability across jatropha-related species/genus. Biologia (Poland), 68(1), 41–47. https://doi.org/10.2478/s11756-012-0143-5
Lee, G. A., Kwon, S. J., Park, Y. J., Lee, M. C., Kim, H. H., Lee, J. S., … Ma, K. H. (2011). Cross-amplification of SSR markers developed from Allium sativum to other Allium species. Scientia Horticulturae, 128(4), 401–407. https://doi.org/10.1016/j.scienta.2011.02.014
Mastan, S. G., Sudheer, P. D. V. N., Rahman, H., Ghosh, A., Rathore, M. S., Prakash, C. R., & Chikara, J. (2012). Molecular characterization of intra-population variability of Jatropha curcas L. using DNA based molecular markers. Molecular Biology Reports, 39(4), 4383–4390. https://doi.org/10.1007/s11033-011-1226-z
Maurya, R., Gupta, A., Singh, S. K., Rai, K. M., Chandrawati, Sawant, S. V., & Yadav, H. K. (2013). Microsatellite polymorphism in Jatropha curcas L.-A biodiesel plant. Industrial Crops and Products, 49, 136–142. https://doi.org/10.1016/j.indcrop.2013.04.034
Maurya, R., & Yadav, H. K. (2016). Development of Interspecific Hybrid of J . curcas x J . integerrima and its Molecular Characterization using SSR Markers. Journal of Agroecology and Natural Resource Management 3(1), 101–105. https://www.krishisanskriti.org/vol_image/09Jun2016010621zzzzzzzzzzzzzzzzz03%20%20%20%20%20%20%20Ramanuj%20Maurya%202%20%20%20%20%20%20%20%20%20%20101-105.pdf.
Montes, J. M., Technow, F., Martin, M., & Becker, K. (2014). Genetic diversity in Jatropha curcas L. assessed with SSR and SNP markers. Diversity, 6(3), 551–566. https://doi.org/10.3390/d6030551
Oliveira, G. A. F., Pádua, J. G., Costa, J. L., de Jesus, O. N., de Carvalho, F. M., de Oliveira, E. J., & Oliveira, J. L. (2013). Cross-species amplification of microsatellite loci developed for passiflora edulis sims. In related passiflora species. Brazilian Archives of Biology and Technology, 56(5), 785–792. https://doi.org/10.1590/S1516-89132013000500009
Perrier, X., & Jacquemoud-Collet, J. P. (2006). DARwin Software. Retrieved from http://darwin.cirad.fr/
Rai, M. K., Shekhawat, J. K., Kataria, V., & Shekhawat, N. S. (2017). Cross-species transferability and characterization of microsatellite markers in Prosopis cineraria, a multipurpose tree species of Indian Thar Desert. Arid Land Research and Management, 31(4), 462–471. https://doi.org/10.1080/15324982.2017.1338791
Sanou, H., Angulo-Escalante, M. A., Martinez-Herrera, J., Kone, S., Nikiema, A., Kalinganire, A., … Nielsen, L. R. (2015). Loss of genetic diversity of Jatropha curcas L. Through domestication: Implications for its genetic improvement. Crop Science, 55(2), 749–759. https://doi.org/10.2135/cropsci2014.02.0165
Saptadi, D., Hartati, R. S., Setiawan, A., Heliyanto, B., & Sudarsono. (2011). Development of Simple Sequence Repeat Markers for Jatropha spp. Jurnal Littri, 17(4), 140–149. https://doi.org/http://dx.doi.org/10.21082/littri.v17n4.2011.140%20-%20149
Saptadi, D., Hartati, R. S., Setiawan, A., Heliyanto, B., & Sudarsono. (2017). Genetic Diversity of Indonesian Physic Nut (J. curcas) Based on Molecular Markers. 39(60), 160–171. https://doi.org/http://doi.org/10.17503/agrivita.v39i2.694
Soontornchainaksaeng, P., & Jenjittikul, T. (2003). Karyology of Jatropha (Euphorbiaceae) in Thailand. THAI FOR. BULL. (BOT.), (31), 105–112. https://li01.tci-thaijo.org/index.php/ThaiForestBulletin/article/view/24412.
Sudheer, P. D. V. N., Mastan, S. G., Rahman, H., Ravi Prakash, C., Singh, S., & Reddy, M. P. (2011). Cross-species amplification ability of novel microsatellites isolated from Jatropha curcas and genetic relationship with sister taxa?: Cross-species amplification and genetic relationship of Jatropha using novel microsatellites. Molecular Biology Reports, 38(2), 1383–1388. https://doi.org/10.1007/s11033-010-0241-9
Terryana, R. T., Nugroho, K., Mulya, K., Tasma, I. M., & Lestari, P. (2019). Genetic Diversity of Jatropha spp. Germplasm Based on Morphological and Molecular Markers. Jurnal AgroBiogen, 15(1), 23. https://doi.org/10.21082/jbio.v15n1.2019.p23-34
Wang, S., Liu, Y., Liying, M., Liu, H., Tang, Y., Wu, L., … Pang, X. (2014). Isolation and characterization of microsatellite markers and analysis of genetic diversity in Chinese jujube (Ziziphus jujuba Mill.). PLoS ONE, 9(6). https://doi.org/10.1371/journal.pone.0099842
Wen, M., Wang, H., Xia, Z., Zou, M., Lu, C., & Wang, W. (2010). Development of EST-SSR and genomic-SSR markers to assess genetic diversity in Jatropha Curcas L. BMC Research Notes, 3. https://doi.org/10.1186/1756-0500-3-42
Whankaew, S., Kanjanawattanawong, S., Phumichai, C., Smith, D. R., Narangajavana, J., & Triwitayakorn, K. (2011). Cross-genera transferability of (simple sequence repeat) SSR markers among cassava (Manihot esculenta Crantz), rubber tree (Hevea brasiliensis Muell. Arg.) and physic nut (Jatropha curcas L.). African Journal of Biotechnology, 10(10), 1768–1776. https://doi.org/10.5897/AJB10.2185
Yan, Z., Wu, F., Luo, K., Zhao, Y., Yan, Q., Zhang, Y., … Zhang, J. (2017). Cross-species transferability of EST-SSR markers developed from the transcriptome of Melilotus and their application to population genetics research. Scientific Reports, 7(1), 1–11. https://doi.org/10.1038/s41598-017-18049-8
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