Molecular Diversity Analysis of Katokkon Chili (Capsicum annum var. chinense) Based on Inter Simple Sequence Repeat (ISSR) Markers
Abstract
There are numerous kinds of chilies, and many have a specialty and specific growing location, such as the katokkon chili, which is specific to Toraja Highland, South Sulawesi Province, Indonesia. This small bell-chili pepper-shaped chili has a distinctive capsicum aroma and a short burning sensation of hot chili's strong spicy taste. This research aims to study the relationship of the genetic kinship of katokkon chili from Toraja and its surrounding regency (Enrekang and Mamasa regencies) using ISSR molecular markers, which are expected to be used as basic information in genetic resource management. Inter Simple Sequences Repeat (ISSR) markers are used for the molecular analysis of 26 katokkon accessions. The result shows that katokkon chili analyzed have a relatively high heterozygosity value of 0.488. The average heterozygosity value is 0.5. Hence, the genetic diversity in these districts is comparatively high. The katokkon chili accession is grouped into three main clusters, each comprising various samples. Only clusters II and III have a close relationship. Information on the genetic diversity based on ISSR can be used as a molecular marker to support further research on the breeding and development of katokkon chili plants and their accession.
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Adebisi, J. A., Oyewo, E. B., & Jibodu, I. S. (2014). Vitamins A , C and lycopene contents of some varieties of tomato and pepper in the Southwest Region of Nigeria. Advances in Life Science and Technology, 23, 63–67. website
Ahmed, A. A., Qadir, S. A., & Tahir, N. A. R. (2022). CDDP and ISSR markers-assisted diversity and structure analysis in Iraqi Mazu (Quercus infectoria Oliv.) accessions. All Life, 15(1), 247-261. DOI
Akhtar, N., Hafiz, I. A., Hayat, M. Q., Potter, D., Abbasi, N. A., Habib, U., Hussain, A., Hafeez, H., Bashir, M. A., & Malik, S. I. (2021). ISSR-based genetic diversity assessment of genus Jasminum L. (Oleaceae) from Pakistan. Plants, 10, 1270. DOI
Akzad, M. B., Nuraeni S., & Larekeng, S. H. (2021). Detecting DNA polymprhism on mulberry (Morus sp.) using RAPD and ISSR markers. Plant Cell Biotechnology and Molecular Biology, 22(35&36), 106–111. website
Al-Amanah, H., Sjahril, R., Haring, F., Riadi, M., & Larekeng, S. H. (2022). Mapping distribution of Capsicum annum var. chinense in Tana Toraja and surrounding districts (Indonesia) based on fruit morphology. Biodiversitas, 23(2), 982–991. DOI
Al-Hadeithi, Z. S. M. (2015). Using ISSR markers to build a phylogenetic of barley genotypes. Iraqi Journal of Science, 56(2C), 1682-1688. DOI
Alansi, S., Tarroum, M., Al-Qurainy, F., Khan, S., & Nadeem, M. (2016). Use of ISSR markers to assess the genetic diversity in wild medicinal Ziziphus spina-christi (L.) Willd. collected from different regions of Saudi Arabia. Biotechnology and Biotechnological Equipment, 30(5), 942–947. DOI
Alemu, A. S., Mullualem, A. D., & Adugna, G. S. (2017). Genetic diversity study of Ethiopian hot pepper cultivars (Capsicum spp.) using Inter Simple Sequence Repeat (ISSR) marker. Journal of Plant Molecular Breeding, 5(2), 27-37. DOI
Amaliah, N. (2018). Penentuan kadar capsaicin menggunakan metode Kromatografi Lapis Tipis (KLT) pada cabe katokkon. Jurnal Sains Terapan, 4(1), 49–56. DOI
Amanah, H. A., Arumingtyas, E. L., & Indriyani, S. (2016). Chromosome analysis of cayenne pepper (Capsicum frustescens L.) in colchicine induced mutation. Journal of Applied Horticulture, 18(03), 217–220. DOI
Andriyani & Jadid, N. (2021). Genetic diversity and morphological responses of Capsicum annuum varieties under aluminum stress. Biodiversitas, 22(5), 2576–2582. DOI
Asra, R., Syamsuardi, Mansyurdin, & Witono, J. R. (2014). The study of genetic diversity of Daemonorops draco (Palmae) using ISSR markers. Biodiversitas, 15(2), 109–114. DOI
Bani, P. W., Daryono, B. S., & Purnomo. (2017). Penanda molekuler Inter Simple Sequence Repeat untuk menentukan ketahanan tanaman jagung terhadap penyakit bulai. Jurnal Fitopatologi Indonesia, 13(4), 127–135. DOI
Devi, A. A., Singh, N. B., & Singh, M. D. (2017). Classification and characterization of chilli (Capsicum annuum L.) found in Manipur using multivariate analysis. Electronic Journal of Plant Breeding, 8(1), 324–330. DOI
Farsani, T. M., Etemadi, N., Sayed-Tabatabaei, B. E., & Talebi, M. (2012). Assessment of genetic diversity of bermudagrass (Cynodon dactylon) using ISSR markers. International Journal of Molecular Sciences, 13, 383–392. DOI
Gemmill, C. E. C., & Grierson, E. R. P. (2021). Inter-Simple Sequence Repeats (ISSR), microsatellite-primed genomic profiling using universal primers. In P. Besse (Ed.), Molecular Plant Taxonomy (Vol. 2222, pp. 249–262). Springer US. DOI
Guo, Z. H., Fu, K. X., Zhang, X. Q., Bai, S. Q., Fan, Y., Peng, Y., Huang, L. K., Yan, Y. H., Liu, W., & Ma, X. (2014). Molecular insights into the genetic diversity of Hemarthria compressa germplasm collections native to Southwest China. Molecules, 19, 21541–21559. DOI
Gusmiaty, Restu, M., Asrianny, & Larekeng, S. H. (2016). Polimorfisme penanda RAPD untuk analisis keragaman genetik Pinus merkusii di Hutan Pendidikan Unhas. Jurnal Natur Indonesia, 16(2), 47-53. DOI
Ibarra-Torres, P., Valadez-Moctezuma, E., Pérez-Grajales, M., Rodríguez-Campos, J., & Jaramillo-Flores, M. E. (2015). Inter- and intraspecific differentiation of Capsicum annuum and Capsicum pubescens using ISSR and SSR markers. Scientia Horticulturae, 181, 137–146. DOI
Kaimuddin, Syam’un, E., Ruslan, N., Iswoyo, H., Ridwan, I., Yassi, A., & Ramba, T. (2020). Evaluation of CropSyst model in simulating the growth and production of Katokkon chili (Capsicum chinense Jacq). IOP Conference Series: Earth and Environmental Science, 575(1), 012115. DOI
Kaimuddin, Ulfa, F., Stoeber, S., Ramba, T., Iswoyo, H., Dermawan, R., Sjam, S., Yassi, A., & Fatmawati. (2021). Growth and production of indigenous Katokkon chilies of Toraja (Capsicum chinense jacq) in various organic Tithonia compost compositions. IOP Conference Series: Earth and Environmental Science, 870(1), 012045. DOI
Kalia, R. K., Rai, M. K., Kalia, S., Singh, R., & Dhawan, A. K. (2011). Microsatellite markers: An overview of the recent progress in plants. Euphytica, 177(3), 309–334. DOI
Kasmiati, Sjahril, R., Riadi, M., Ridwan, I., & Trisnawaty, A. R. (2020). The effects of colchicine concentration and soaking time on formation of leaves and roots of katokkon (Capsicum chinense Jacq.) in vitro. IOP Conference Series: Earth and Environmental Science, 486(1), 012103. DOI
Khalil, S. M., Moustafa, D. M. M., Ahmed, S. M., Ibrahim, S. D., & Abdalla, K. S. (2021). Detection of ISSR markers linked to seed oil content of jojoba plants (Simmondsia chinensis) cultivated in Egypt. Egyptian Journal of Genetics and Cytology, 50, 159-170. website
Kumar, J., & Agrawal, V. (2019). Assessment of genetic diversity, population structure and sex identification in dioecious crop, Trichosanthes dioica employing ISSR, SCoT and SRAP markers. Heliyon, 5, e01346. DOI
Larekeng, S. H., Paelongan, R., Cahyaningsih, Y. F., Nurhidayatullah, & Restu, M. (2020). Primer screening and genetic diversity analysis of jabon putih (Anthocephalus cadamba (Roxb) Miq.) based on Random Amplified Polymorphic DNA (RAPD) markers. International Journal of Current Research and Review, 12(24), 173–178. DOI
Li, Y., Cheng, X., Lai, J., Zhou, Y., Lei, T., Yang, L., Li, J., Yu, X., & Gao, S. (2023). ISSR molecular markers and anatomical structures can assist in rapid and directional screening of cold-tolerant seedling mutants of medicinal and ornamental plant in Plumbago indica L. Frontiers in Plant Science, 14, 1149669. DOI
Liu, X., Du, J., Khan, Md. A., Cheng, J., Wei, C., Mei, Z., Chen, H., He, T., & Fu, J. (2020). Analysis of genetic diversity and similarities between different Lycium varieties based on ISSR analysis and RAMP PCR markers. World Academy of Sciences Journal, 2, 83-90. DOI
Longya, A., Talumphai, S., & Jantasuriyarat, C. (2020). Morphological characterization and genetic diversity of rice blast fungus, Pyricularia oryzae, from Thailand using ISSR and SRAP markers. Journal of Fungi, 6(1), 38. DOI
López Castilla, L. D. C., Garruña Hernández, R., Castillo Aguilar, C. D. L. C., Martínez-Hernández, A., Ortiz-García, M. M., & Andueza-Noh, R. H. (2019). Structure and genetic diversity of nine important landraces of Capsicum species cultivated in the Yucatan Peninsula, Mexico. Agronomy, 9(7), 376. DOI
Maddo, F. V., Aminah, S., & Afadil. (2021). Analysis of lycopene content and antioxidant activity test of katokkon chili extract (Capsicum chinense Jacq). Jurnal Akademika Kimia, 10(4), 227–232. DOI
Marwal, A., & Gaur, R. K. (2020). Molecular markers: Tool for genetic analysis. In Animal Biotechnology (pp. 353–372). Elsevier. DOI
Munankarmi, N. N., Rana, N., Bhattarai, T., Shrestha, R. L., Joshi, B., Baral, B. K., & Shrestha, S. (2018). Characterization of the genetic diversity of acid lime (Citrus aurantifolia (Christm.) Swingle) cultivars of Eastern Nepal using Inter-Simple Sequence Repeat markers. Plants, 7(2), 46. DOI
Nair, U. M. A., Devi, A. A., Veena, B. S., Krishnan, B. S. P., & Arya, R. S. (2018). Genetic diversity analysis of leaf blight resistant and susceptible taro [Colocasia esculenta (L.) Schott] genotypes using ISSR markers. Journal of Root Crops, 44(2), 44-52. website
Nam, V. T., Hang, P. L. B., Linh, N. N., Ly, L. H., Hue, H. T. T., Ha, N. H., Hanh, H. H., & Hien, L. T. T. (2020). Molecular markers for analysis of plant genetic diversity. Vietnam Journal of Biotechnology, 18(4), 589–608. DOI
Ng, W. L., & Tan, S. G. (2015). Inter-Simple Sequence Repeat (ISSR) markers: Are we doing it right? ASM Science Journal, 9(1), 30–39. website
Nilkanta, H., Amom, T., Tikendra, L., Rahaman, H., & Nongdam, P. (2017). ISSR marker based population genetic study of Melocanna baccifera (Roxb.) Kurz: A commercially important bamboo of Manipur, North-East India. Scientifica, 2017, 1–9. DOI
Olatunji, T. L., & Afolayan, A. J. (2019). Evaluation of genetic relationship among varieties of Capsicum annuum L. and Capsicum frutescens L. in West Africa using ISSR markers. Heliyon, 5(5), e01700. DOI
Oliveira, L. A. R., Machado, C. A., Cardoso, M. N., Oliveira, A. C. A., Amaral, A. L., Rabbani, A. R. C., Silva, A. V. C., & Ledo, A. S. (2017). Genetic diversity of Saccharum complex using ISSR markers. Genetics and Molecular Research, 16(3). DOI
Panahi, B., & Ghorbanzadeh Neghab, M. (2013). Genetic characterization of Iranian safflower (Carthamus tinctorius) using Inter Simple Sequence Repeats (ISSR) markers. Physiology and Molecular Biology of Plants, 19(2), 239–243. DOI
Pei, Y., Yao, N., He, L., Deng, D., Li, W., & Zhang, W. (2019). Comparative study of the morphological, physiological and molecular characteristics between diploid and tetraploid radish (Raphunas sativus L.). Scientia Horticulturae, 257, 108739. DOI
Peñuela, M., Arias, L. L., Viáfara-Vega, R., Rivera Franco, N., & Cárdenas, H. (2021). Morphological and molecular description of three commercial Capsicum varieties: A look at the correlation of traits and genetic distancing. Genetic Resources and Crop Evolution, 68(1), 261–277. DOI
Prayanti, D. E., Kusnadi, J., & Mariana, B. D. (2019). Analisis kekerabatan lengkeng (Dimorcapus longan L.) Balitjestro berdasarkan karakteristik pembungaan dengan marka ISSR. Jurnal Pangan dan Agroindustri, 7(2), 53–59. DOI
Puspita, D., Tjahjono, J. D., Samalukang, Y., Toy, B. A. I., & Totoda, N. W. (2018). Isolasi dan uji termostabilitas pigmen cabai katokon (Capsicum chinense Jacq.). Journal of Food and Life Sciences, 2(1), 9-16. website
Rasam, D. V., Gokhale, N. B., Sawardekar, S. V., & Patil, D. M. (2016). Molecular characterization of coconut (Cocos nucifera L.) varieties using ISSR and SSR markers. The Journal of Horticultural Science and Biotechnology, 91(4), 347-352. DOI
Reflinur, R., & Lestari, P. (2015). Penentuan lokus gen dalam kromosom tanaman dengan bantuan marka DNA. Jurnal Penelitian Dan Pengembangan Pertanian, 34(4), 177-186. DOI
Rustam, R., Salengke, & Muhidong, J. (2016). Karakteristik pengeringan dan perubahan warna cabai katokkon (Capsicum annuum L. var. Sinensis). Jurnal Agritechno, 9(2), 114–124. website
Salsabila, A. J., Subiastuti, A. S., & Daryono, B. S. (2021). Identification of ISSR-based molecular markers associated with ploidy level of orange watermelon (Citrullus lanatus (Thunb.) Matsum & Nakai). Journal of Tropical Biodiversity and Biotechnology, 6(3), jtbb61858. DOI
Shafura, N., Rabbani, A., & Daryono, B. S. (2022). Genetic variability of eggplant (Solanum Melongena L. ’Nasubi’) based on ISSR markers and phenotypic characters. Journal of Biodiversity and Biotechnology, 2(2), 53-62. DOI
Sjahril, R., Kasmiati, Riadi, M., Ridwan, I., Jamaluddin, I., & Panga, N. J. (2021). Flow cytometry analysis on colchicine induced polyploid of Katokkon peppers (Capsicum chinense Jacq.). IOP Conference Series: Earth and Environmental Science, 807(3), 032024. DOI
Sjahril, R., Riadi, M., Ridwan, I., Kasmiati, Suryani, I., & Trisnawaty, A. (2020). Kinship of katokkon chili (Capsicum chinense Jacq.) in Tana Toraja and North Toraja Regencies. IOP Conference Series: Earth and Environmental Science, 486(1), 012101. DOI
Subositi, D., & Mujahid, R. (2019). Keanekaragaman genetik tempuyung (Sonchus arvensis L.) berdasarkan marka Inter-Simple Sequence Repeats (ISSR). Majalah Ilmiah Biologi Biosfera: A Scientific Journal, 36(2), 57–62. website
Subositi, D., Kurnianingrum, N., Mujahid, R., & Widiyastuti, Y. (2020). Kaempferia galanga L. A medicinal plant used by Indonesian ethnic groups: Genetic diversity based on Inter-Simple Sequence Repeats (ISSR). AGRIVITA Journal of Agricultural Science, 42(1), 45–52. DOI
Sundari, Wahyudi, D., Arumingtyas, E. L., Hakim, L., & Azrianingsih, R. (2019). Asessment for identification of genus Durio spp. from North Maluku Indonesia using three barcode DNA. Malaysian Applied Biology, 48(5), 77–87. website
Suvalaxmi, P., Ranjan, R. G., & Kumar, D. D. (2019). Molecular and morphological assessment of papaya (Carica papaya). Research Journal of Biotechnology, 14(1), 63-70. website
Tammu, R. M., Nuringtyas, T. R., & Daryono, B. S. (2021). Colchicine effects on the ploidy level and morphological characters of katokkon pepper (Capsicum annuum L.) from North Toraja, Indonesia. Journal of Genetic Engineering and Biotechnology, 19(1), 31. DOI
Thul, S. T., Darokar, M. P., Shasany, A. K., & Khanuja, S. P. S. (2012). Molecular profiling for genetic variability in Capsicum species based on ISSR and RAPD markers. Molecular Biotechnology, 51(2), 137–147. DOI
Thuy, V. T. B., Ky, H., Ba, T. T., Hien, N. L., & Yeap, S. K. (2016). Assessment of genetic diversity of chili rootstock using ISSR marker. Can Tho University Journal of Science, 3, 7-13. DOI
Viktorija, M., Liljana, K. G., Tatjana, R., Ana, C., & Rubin, G. (2014). Antioxidative effect of Capsicum oleoresins compared with pure capsaicin. IOSR Journal of Pharmacy, 4(11), 44–48. DOI
DOI: http://doi.org/10.17503/agrivita.v46i2.3997
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