Genetic diversity of Pleurotus ostreatus (Jacq.) P. Kumm. strains in Java based on random amplified polymorphic DNA markers
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NURAENI EKOWATI
♥
https://orcid.org/0000-0002-5927-0967
ARIS MUMPUNI
JUNI SAFITRI MULJOWATI
NUNIEK INA RATNANINGTYAS
ARDHINI RIN MAHARNING
Abstract
Abstract. Ekowati N, Mumpuni A, Muljowati JS, Ratnaningtyas NI, Maharning AR. 2021. Genetic diversity of Pleurotus ostreatus (Jacq.) P. Kumm. strains in Java based on Random Amplified Polymorphic DNA markers. Biodiversitas 22: 3488-3493. Genetic variation in a fungal population can occur due to mutation and recombination, resulting in changes in the nucleotides that encode specific DNA sequences. Strains with a high genetic distance and good production capabilities can be used to develop genetic breeding. This study aimed to investigate genetic relationship among Pleurotus ostreatus strains cultivated in Java (Bogor, Cianjur, Tasikmalaya, Purwokerto, Yogyakarta, Tawangmangu, Malang, and Madiun) based on random amplified polymorphic DNA (RAPD) markers. The research method consisted of DNA isolation and DNA amplification using six primers, i.e. OPA2, OPA3, OPA4, OPA7, OPA9, and OPA10. DNA band data were analyzed using NTSYSpc21 software to determine the level of genetic similarity, based on the Unweighted Pair Group Method with Arithmetic Average Algorithm (UPGMA). In all, 101 amplified DNA bands were obtained, with sizes ranging from 136 to 2320 bp and 96.0% of the bands were polymorphic. Based on cluster analysis, it shows that three clusters were formed. There were genetic variations and relationships among eight P. ostreatus strains in Java with a genetic similarity varying from 37-98%.
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References
Abdulmalk HW. 2013. Rapid Differentiation of Pleurotus Ostreatus from Pleurotus Sapidus Using PCR Technique. Current Research Journal of Biological Sciences 5(4): 157-160.
Alam N, Shim MJ, Lee MW, Shin PG, Yoo YB, Lee TS. 2009. Phylogenetic Relationship in Different Commercial Strains of Pleurotus nebrodensis Based on ITS Sequence and RAPD. Mycobiology 37(3) : 183-188.
Avin FA, Bhassu S, and Sabaratnam V. 2013. A simple and low-cost technique of DNA extraction from edible mushrooms examined by molecular phylogenetics. Res. on Crops 14 (3) : 897-901
Chakravarty, B. 2011. Trends in Mushroom cultivation and breeding. Australian Journal of Agricultural Engineering, 2(4): 102-109
Chandra S, Ghosh K, Acharya K. 2010. Comparative studies on the Indian cultivated Pleurotus species by RAPD fingerprinting. Nature and Science, 8(7): 90-94.
Familoni TV, Ogidi CO, Akinyele BJ and Onifade AK. 2018. Genetic diversity, microbiological study and composition of soil associated with wild Pleurotus ostreatus from different locations in Ondo and Ekiti States, Nigeria. Chem Biol Technol Agric 5(7):1-12
Gupta B, Reddy PN, Kotasthane AS. 2011. Molecular characterization and mating type analysis of oyster mushroom (Pleurotus spp.) using single basidiospores for strain improvement. World J Microbiol Biotechnol 27:1–9
Hasan HA, Almomany AM, Hasan S, Al-Abdallat AM. 2018. Assessment of Genetic Diversity among Pleurotus spp. Isolates from Jordan. J Fungi : 4 (52): 1-11
Inyod T, Sassanarakit S, Payapanon A, Keawsompong S. 2017. Morphological characteristics and molecular identification of a wild Thai isolate of the tropical mushroom Hed Taen Rad (Macrocybe crassa). Biodiversitas 18(1): 221-228
Khan SM, Nawaz A, Malik W, Javed N, Yasmin T, Rehman M, Qayyum A, Iqbal Q, Ahmad T, Khan AA. 2011. Morphological and molecular characterization of Oyster mushroom (Pleurotus spp.). Afr J Biotechnol 10(14): 2638-2643.
Khan NA, Binyamin R, Awan FS, Khan AI, Waseem M. 2017. Genetic diversity of edible mushroom Pleurotus spp. revealed by Randomly Amplified Polymorphic DNA fingerprinting. Pak J Bot 49(4): 1517-1521
Otieno OD, Onyango C. 2015. Genetic diversity of Kenyan native oyster mushroom (Pleurotus). Mycologia 107(1): 32–38.
Pawlik A, Janusz G, Koszerny J, Ma?ek W, Rogalski J. 2012. Genetic Diversity of the Edible Mushroom Pleurotus sp. by Amplified Fragment Length Polymorphism. Curr Microbiol 65:438–445
Ravash R, Shiran B, Alavi A, Bayat F, Rajaee S, Zervakis GI. 2010. Genetic variability and molecular phylogeny of Pleurotus eryngii species-complex isolates from Iran, and notes on the systematics of Asiatic populations. Mycol Progress 9:181–194.
Rohlf FJ. 2000. NTSYS-pc: Numerical taxonomy and multivariate analysis system, version 2.1. Applied Biostatistics, New York.
Sharon A. 2010. Molecular and Cell Biology Methods for Fungi. Department of Plant Sciences, Humana Press, Springer New York Dordrecht Heidelberg London
Tsegaye Z. and Tefera G. 2018. Cultivation of Oyster Mushroom (Pleurotus ostreatus Kumm, 1871) using AgroIndustrial Residues. J Appl Microb Res, 1(1): 1-6
Vieira FR, Pereira DM, Nogueira de Andrade MC, Minhoni MT. 2013. Molecular characterization of Pleurotus ostreatus commercial strains by random amplified polymorphic DNA (RAPD). Afr J Agric Res 8(24): 3146-3150.
Windarsih G, Utami DW, Yuriyah S. 2019. Genetic diversity and productivity of Gracilaria coronopifolia as alternative for food resource based on RAPD marker. Biodiversitas 20 (12): 3758-3765
Zhao M, Huang C, Chen Q, Wu X, Qu J. (2013). Genetic Variability and Population Structure of the Mushroom Pleurotus eryngii var. tuoliensis. PLoS ONE 8(12): e83253. doi:10.1371/journal.pone.0083253
Zhao M, Huang C, Wu X, Chen H, Qu J, Li Y, Gao W, Zhang J. 2016. Genetic variation and population structure of the mushroom Pleurotus ferulae in China inferred from nuclear DNA analysis. Journal of Integrative Agriculture, 15(10): 2237–2246
Xiao Y, Liu W, Lu YY, Gong WB, Bian YB. 2010. Applying target region amplification polymorphism markers for analyzing genetic diversity of Lentinula edodes in China. J Basic Microb, 50 (5): 475–483.
Alam N, Shim MJ, Lee MW, Shin PG, Yoo YB, Lee TS. 2009. Phylogenetic Relationship in Different Commercial Strains of Pleurotus nebrodensis Based on ITS Sequence and RAPD. Mycobiology 37(3) : 183-188.
Avin FA, Bhassu S, and Sabaratnam V. 2013. A simple and low-cost technique of DNA extraction from edible mushrooms examined by molecular phylogenetics. Res. on Crops 14 (3) : 897-901
Chakravarty, B. 2011. Trends in Mushroom cultivation and breeding. Australian Journal of Agricultural Engineering, 2(4): 102-109
Chandra S, Ghosh K, Acharya K. 2010. Comparative studies on the Indian cultivated Pleurotus species by RAPD fingerprinting. Nature and Science, 8(7): 90-94.
Familoni TV, Ogidi CO, Akinyele BJ and Onifade AK. 2018. Genetic diversity, microbiological study and composition of soil associated with wild Pleurotus ostreatus from different locations in Ondo and Ekiti States, Nigeria. Chem Biol Technol Agric 5(7):1-12
Gupta B, Reddy PN, Kotasthane AS. 2011. Molecular characterization and mating type analysis of oyster mushroom (Pleurotus spp.) using single basidiospores for strain improvement. World J Microbiol Biotechnol 27:1–9
Hasan HA, Almomany AM, Hasan S, Al-Abdallat AM. 2018. Assessment of Genetic Diversity among Pleurotus spp. Isolates from Jordan. J Fungi : 4 (52): 1-11
Inyod T, Sassanarakit S, Payapanon A, Keawsompong S. 2017. Morphological characteristics and molecular identification of a wild Thai isolate of the tropical mushroom Hed Taen Rad (Macrocybe crassa). Biodiversitas 18(1): 221-228
Khan SM, Nawaz A, Malik W, Javed N, Yasmin T, Rehman M, Qayyum A, Iqbal Q, Ahmad T, Khan AA. 2011. Morphological and molecular characterization of Oyster mushroom (Pleurotus spp.). Afr J Biotechnol 10(14): 2638-2643.
Khan NA, Binyamin R, Awan FS, Khan AI, Waseem M. 2017. Genetic diversity of edible mushroom Pleurotus spp. revealed by Randomly Amplified Polymorphic DNA fingerprinting. Pak J Bot 49(4): 1517-1521
Otieno OD, Onyango C. 2015. Genetic diversity of Kenyan native oyster mushroom (Pleurotus). Mycologia 107(1): 32–38.
Pawlik A, Janusz G, Koszerny J, Ma?ek W, Rogalski J. 2012. Genetic Diversity of the Edible Mushroom Pleurotus sp. by Amplified Fragment Length Polymorphism. Curr Microbiol 65:438–445
Ravash R, Shiran B, Alavi A, Bayat F, Rajaee S, Zervakis GI. 2010. Genetic variability and molecular phylogeny of Pleurotus eryngii species-complex isolates from Iran, and notes on the systematics of Asiatic populations. Mycol Progress 9:181–194.
Rohlf FJ. 2000. NTSYS-pc: Numerical taxonomy and multivariate analysis system, version 2.1. Applied Biostatistics, New York.
Sharon A. 2010. Molecular and Cell Biology Methods for Fungi. Department of Plant Sciences, Humana Press, Springer New York Dordrecht Heidelberg London
Tsegaye Z. and Tefera G. 2018. Cultivation of Oyster Mushroom (Pleurotus ostreatus Kumm, 1871) using AgroIndustrial Residues. J Appl Microb Res, 1(1): 1-6
Vieira FR, Pereira DM, Nogueira de Andrade MC, Minhoni MT. 2013. Molecular characterization of Pleurotus ostreatus commercial strains by random amplified polymorphic DNA (RAPD). Afr J Agric Res 8(24): 3146-3150.
Windarsih G, Utami DW, Yuriyah S. 2019. Genetic diversity and productivity of Gracilaria coronopifolia as alternative for food resource based on RAPD marker. Biodiversitas 20 (12): 3758-3765
Zhao M, Huang C, Chen Q, Wu X, Qu J. (2013). Genetic Variability and Population Structure of the Mushroom Pleurotus eryngii var. tuoliensis. PLoS ONE 8(12): e83253. doi:10.1371/journal.pone.0083253
Zhao M, Huang C, Wu X, Chen H, Qu J, Li Y, Gao W, Zhang J. 2016. Genetic variation and population structure of the mushroom Pleurotus ferulae in China inferred from nuclear DNA analysis. Journal of Integrative Agriculture, 15(10): 2237–2246
Xiao Y, Liu W, Lu YY, Gong WB, Bian YB. 2010. Applying target region amplification polymorphism markers for analyzing genetic diversity of Lentinula edodes in China. J Basic Microb, 50 (5): 475–483.
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