Genetic Diversity and Phylogeny of Alocasia Longiloba Miq. Indonesia Accessions based on trnL-F Intergenic Spacer Region

Penulis

  • Ni Putu Sri Asih Universitas Gadjah Mada, Yogyakarta, Indonesia https://orcid.org/0000-0002-4161-9235
  • Purnomo Universitas Gadjah Mada, Yogyakarta, Indonesia
  • Budi Setiadi Daryono Universitas Gadjah Mada, Yogyakarta, Indonesia

DOI:

https://doi.org/10.23887/jstundiksha.v12i2.51022

Kata Kunci:

Alocasia longiloba, intraspecies, morphological, molecular, phylogenetic

Abstrak

Alocasia longiloba Miq. is a member of the Araceae family, which was complex and has diverse leaf shapes, color, and venation. Studies on the diversity of A. longiloba focused mostly on morphological characteristics, while the genetic diversity of this species has never been published. This research aims to determine the genetic diversity and phylogeny of the Indonesian accession of A. longiloba based on molecular approaches using trnL-F IGS region. A total of 20 accesses of A. longiloba from Indonesia were sequenced then together with 11 DNA sequences of A. longiloba registered at the NCBI, were aligned with the Mesquite software. Genetic diversity was examined using DnaSP ver. 6.12.03. The phylogenetic tree was reconstructed by MEGA 11 using the Maximum Parsimony method and the Tree-Bisection-Regrafting (TBR) algorithm. Among 389 sites recorded, 356 site were invariable, 5 site were variable and 28 site were gaps or missing data. This genetic variation in the form of insertion, deletion, transition, and transversion and the deletion event has received the most contributions. Reconstruction of the phylogenetic tree resulted in A. longiloba being polyphyletic. The use of cpDNA with the trnL-F IGS region could not show the relationship between the Indonesian accession of A. longiloba, so further research is needed in other regions of chloroplast and nuclear DNA.

Referensi

Aristya, G. R., Putri, F., Kasiamdari, R. S., & Musthofa, A. (2020). DNA barcoding and phylogenetic analysis sugarcane (Saccharum officinarum L.) based on matK (maturase K) gene. Key Engineering Materials, 840 KEM, 162–170. https://doi.org/10.4028/www.scientific.net/kem.840.162.

Asih, N. P. S., Hendriyani, E., & Tihurua, E. F. (2022). Morphological and anatomical variations among Alocasia alba Schott accessions in Bali Botanic Garden. Journal of Tropical Biodiversity and Biotechnology, 7(1), 66823. https://doi.org/10.22146/jtbb.66823.

Bast, F., & Kaur, N. (2016). Nuclear and Plastid DNA Sequence-based Molecular Phylogeography of Salvadora oleoides (Salvadoraceae) in Punjab, India. Biorxiv, August. https://doi.org/https://doi.org/10.1101/050518.

Dermoredjo, S. K., Azis, M., Saputra, Y. H., Susilowati, G., & Sayaka, B. (2021). Sustaining porang (Amorphophallus muelleri Blume) production for improving farmers’ income. In IOP Conference Series: Earth and Environmental Science, 012032. https://doi.org/10.1088/1755-1315/648/1/012032/meta.

Erlinawati, I., Asih, N. P. S., Kurniawan, A., & Yuzammi. (2019). Studies on the Araceae of the Lesser Sunda Islands II: New record for Scindapsus hederaceus Miq. in Bali. Reinwardtia, 18(2), 51–64. https://www.cabdirect.org/cabdirect/abstract/20203220357.

Fitmawati, Fauziah, R., Hayati, I., Sofiyanti, N., Inoue, E., & Matra, D. D. (2017). Phylogenetic analysis of Mangifera from central region of Sumatra using trnL-F intergenic spacer. Biodiversitas, 18(3), 1035–1040. https://doi.org/10.13057/biodiv/d180322.

Hamzah, N. H. C., Arifullah, M., Sirajudeen, K. N. S., Asari, M. A., Hamzah, Z., & Shaik, I. K. (2019). Keladi candik ( Alocasia longiloba Miq .) petiole extracts promote wound healing in a full thickness excision wound model in rats. Asian Pacific Journal of Tropical Biomedicine, 9(4), 140–149. https://doi.org/10.4103/2221-1691.256727.

Latif, M. A., Zaki, M. Z. M., Leng, T. M., Rahman, N. H. A., Arshad, S. A., & Hamid, A. (2015). Alocasia denudata Engler treatment enhance open wound healing activities in Wistar rat ’ s skin. Journal of Ethnopharmacology, 176, 258–267. https://doi.org/10.1016/j.jep.2015.10.036.

Lestari, W. S., Adjie, B., & Jaruwatanaphan, T. (2014). Molecular phylogeny of Maidenhair fern genus Adiantum (Pteridaceae) from Lesser Sunda Islands Indonesia based on RBCL and trnL-F. Reinwardtia, 14(1), 143–156. https://doi.org/10.15575/biodjati.v5i1.6365.

Mursyidin, D. H., Ahyar, G. M. Z., Saputra, A. W., & Hidayat, A. (2021). Genetic Diversity and Relationships of Phalaenopsis Based on the rbcL and trnL-F Markers: In Silico Approach. Biosaintifika: Journal of Biology & Biology Education, 13(2), 212–221. https://doi.org/10.15294/biosaintifika.v13i2.29904.

Nauheimer, L., Boyce, P. C., & Renner, S. S. (2012). Giant taro and its relatives : A phylogeny of the large genus Alocasia ( Araceae ) sheds light on Miocene floristic exchange in the Malesian region. Molecular Phylogenetics and Evolution, 63(1), 43–51. https://doi.org/10.1016/j.ympev.2011.12.011.

Ningrum, W. D. A., Atmaja, M. B., Daryono, B. S., & Purnomo. (2020). Genetic variability of Begonia longifolia blume from Indonesia based on nuclear DNA internal transcribed spacer (ITS) sequence data. Biodiversitas, 21(12), 5778–5785. https://doi.org/10.13057/biodiv/d211239.

Nugrahaeni, N., Hapsari, R. T., Indriani, F. C., Amanah, A., Yusnawan, E., Mutmaidah, S., & Utomo, J. S. (2021). Morphological characteristics of Madiun 1, the First Porang (Amorphophallus muelleri Blume) released cultivar in Indonesia. In IOP Conference Series: Earth and Environmental Science, 012011. https://doi.org/10.1088/1755-1315/911/1/012011/meta.

Rachma, R. A., Hendrian, H., & Azrianingsih, R. (2017). The analysis of Pandanus relationship of Purwodadi Botanical Garden collections based on morphological character and molecular marker (trnL and trnL-F). Research Journal of Life …, 04(02), 129–141. https://smujo.id/biodiv/article/view/3696.

Riptanti, E. W., Irianto, H., & Mujiyo. (2022). Strategy to improve the sustainability of “porang”(Amorphophallus muelleri Blume) farming in support of the triple export movement policy in Indonesia. Open Agriculture, 7(1), 566–580. https://doi.org//10.1515/opag-2022-0121.

Sevindik, E., Murathan, Z. T., Filiz, S., & Yalçin, K. (2019). Molecular characterization based on chloroplast (trnl-F) DNA sequence of the apple genotypes in Ardahan/Turkey. Bangladesh Journal of Botany, 48(4), 1099–1106. https://doi.org/10.3329/bjb.v48i4.49058.

Soedarjo, M., Baliadi, Y., & Djufry, F. (2020). Growth response of porang (Amorphophallus muelleri Blume) grown with different sizes of bulbils on saline soil. International Journal of Research Studies in Agricultural Sciences, 6(4), 8–16. https://doi.org/10.20431/2454-6224.0604002

Tamura, K., Stecher, G., & Kumar, S. (2021). MEGA 11: Molecular Evolutionary Genetics Analysis Version 11. Molecular Biology and Evolution. https://doi.org/https://doi.org/10.1093/molbev/msab120.

Tnah, L. H., Lee, S. L., Tan, A. L., Lee, C. T., Ng, K. K. S., & Ng, C. H. (2016). Intraspecific classification of Ficus deltoidea Jack subsp. deltoidea (Moraceae) in Peninsular Malaysia based on morphological and molecular variations. Biochemical Systematics and Ecology, 67, 119–128. https://doi.org/10.1016/j.bse.2016.06.001.

Van, H. T., Nguyen, P. N., Tran, N. T., & Luu, H. T. (2017). Morphological and molecular data reveal a new species of Alocasia (Araceae) from Vietnam. Vietnam Journal of Science, Technology and Engineering, 59(2), 76–82. https://doi.org/10.31276/vjste.59(2).76.

Wahidah, B. F., Afiati, N., & Jumari, J. (2021). Community knowledge of amorphophallus muelleri blume: Cultivation and utilization in Central Java, Indonesia. Biodiversitas Journal of Biological Diversity, 22(7). https://doi.org/10.13057/biodiv/d220722.

Wanda, I. F., Djuita, N. R., & Chikmawati, T. (2021). Molecular phylogenetics of malesian diospyros (Ebenaceae) based trnL-F spacer sequences. Biodiversitas, 22(9), 4106–4114. https://doi.org/10.13057/biodiv/d220959.

Widyawati, P. S., Suseno, T. I. P., Widjajaseputra, A. I., Widyastuti, T. E. W., Moeljadi, V. W., & Tandiono, S. (2022). The Effect of κ-Carrageenan Proportion and Hot Water Extract of the Pluchea indica Less Leaf Tea on the Quality and Sensory Properties of Stink Lily (Amorphophallus muelleri) Wet Noodles. Molecules, 27(16), 5062. https://doi.org/10.3390/molecules27165062.

Wulandari, D. R., Widyastuti, U., & Ermayanti, T. M. (2008). Phylogenetic relationship of Alocasia suhirmaniana in the group of Longiloba using RAPD analysis. Journal of Biotechnology Research in Tropical Region, 1((Specieal Editiion)), 1–4. https://jtrolis.ub.ac.id/index.php/jtrolis/article/download/2289/598.

Wurdack, K. J., & Michelangeli, F. A. (2019). Systematics and relationships of Tryssophyton (Melastomataceae), with a second species from the Pakaraima Mountains of Guyana. PhytoKeys, 136, 1–21. https://phytokeys.pensoft.net/issue/2821/pdf/817003.

Xue, Z., Huang, F., Liu, J., Ke, Y., Wei, H., Gao, P., & Yu, L. (2022). A high trans-zeatin nucleoside concentration in corms may promote the multileaf growth of Amorphophallus muelleri. Frontiers in Plant Science, 13, 964003. https://doi.org/10.3389/fpls.2022.964003.

Yang, M., Qi, Y., Liu, J., Wu, Z., Gao, P., Chen, Z., & Yu, L. (2022). Dynamic changes in the endophytic bacterial community during maturation of Amorphophallus muelleri seeds. Frontiers in Microbiology, 13, 996854. https://doi.org/10.3389/fmicb.2022.996854.

Yousefzadeh, H., Colagar, A. H., Yousefi, E., Badbar, M., & Kozlowski, G. (2018). Phylogenetic relationship and genetic differentiation of Populus caspica and Populus alba using cpDNA and ITS noncoding sequences. Journal of Forestry Research, 30(2), 451–461. https://doi.org/10.1007/s11676-018-0785-4.

Yuhanna, W. L., Hartati, S., Sugiyarto, & Marsusi. (2021). Genetic variability of Phaius and Dendrobium orchids based on molecular markers. IOP Conference Series: Earth and Environmental Science, 637(012036), 0–7. https://doi.org/10.1088/1755-1315/637/1/012036.

Yusoff, N. A. M., Ismail, T. N. N., & Shahidan, W. N. S. (2020). Non-antimicrobial effect of Alocasia denudata Engler against selected Gram-positive oral pathogen. Journal of Health Sciences, 10(1), 39–46. https://doi.org/10.17532/jhsci.2020.831.

Zhang, Q., Jia, R., Meng, C., Ti, C., & Wang, Y. (2015). Diversity and population structure of a dominant deciduous tree based on morphological and genetic data. AoB Plants, 7, 1–13. https://doi.org/10.1093/aobpla/plv103.

Unduhan

Diterbitkan

2023-10-22

Terbitan

Vol 12 No 2 (2023): July

Bagian

Articles

Lisensi

Hak Cipta (c) 2022 Ni Putu Sri Asih, Purnomo, Budi Setiadi Daryono

Creative Commons License

Artikel ini berlisensiCreative Commons Attribution-ShareAlike 4.0 International License.

Authors who publish with the Jurnal Sains dan Teknologi (JST)   agree to the following terms:

  1. Authors retain copyright and grant the journal the right of first publication with the work simultaneously licensed under a Creative Commons Attribution License (CC BY-SA 4.0) that allows others to share the work with an acknowledgment of the work's authorship and initial publication in this journal. 
  2. 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 acknowledgment of its initial publication in this journal.
  3. 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)