KEANEKARAGAMAN GENETIK KAPULASAN [NEPHELIUM RAMBOUTAN-AKE (LABILL.) LEENH.] DI JAWA BERDASARKAN MARKA SSR DAN ISSR

Authors

  • Nina Ratna Djuita IPB University, Bogor, Indonesia
  • Alex Hartana IPB University, Bogor, Indonesia
  • Tatik Chikmawati IPB University, Bogor, Indonesia
  • Dorly Dorly IPB University, Bogor, Indonesia

DOI:

https://doi.org/10.32556/floribunda.v6i4.2020.300

Keywords:

Jawa, kapulasan, marka molekuler, pita polimorfik.

Abstract

Nina Ratna Djuita, Alex Hartana, Tatik Chikmawati, Dorly. 2020. Genetic Diversity of Pulasan [Nephelium ramboutan-ake (Labill.) Leenh.] of Java Based on SSR and ISSR Markers. Floribunda 6(4): 117–126. —  Pulasan is one of the potential local fruits to be developed. This study aimed to analyze the genetic diversity of pulasan of Java using Simple Sequence Repeat (SSR) and Inter Simple Sequence Repeat (ISSR) markers and to obtain information whether primers of the markers could be used to distinguish male and her-maphrodite plants. The results showed that two primers in the SSR markers and seven primers in the ISSR markers produced polymorphic bands. The genomic DNA of the pulasan amplified with SSR markers produced bands 140–500 bp, while those from the ISSR markers were 150–1500 bp. The population of pulasan in Babakan Madang has the highest genetic diversity, while that of Patean is the lowest. Genetic variation of pulasan based on SSR and ISSR markers in the population and among populations have different compositions. Variation in the population is 72% while among the population is 28%. Primers of LML Y6 and LML Y12 from SSR markers and primers of ISSR 2, 3, 4, 5, 6, 8, 9 cannot be used to distinguish male and hermaphrodite pulasan plants. Nina Ratna Djuita, Alex Hartana, Tatik Chikmawati, Dorly. 2020. Keanekaragaman Genetik Kapulasan [Nephelium ramboutan-ake (Labill.) Leenh.] di Jawa Berdasarkan Marka SSR dan ISSR. Floribunda 6(4): 117–126. —  Kapulasan merupakan salah satu buah lokal yang potensial untuk dikembangkan. Penelitian ini bertujuan untuk menganalisis keanekaragaman genetik kapulasan di Jawa dengan menggunakan marka Simple Sequence Repeat (SSR) dan Inter Simple Sequence Repeat (ISSR) serta untuk mendapatkan informasi apakah primer dari marka tersebut dapat dipakai untuk membedakan tumbuhan jantan dan hermafrodit.  Hasil penelitian menunjukkan bahwa dua primer pada marka SSR dan tujuh primer pada marka ISSR menghasilkan pita polimorfik. DNA genom kapulasan yang diamplifikasi dengan  marka SSR menghasilkan pita-pita dengan ukuran 110–500 bp, sedangkan dari marka ISSR berukuran 150–1500 bp. Populasi kapulasan di Babakan Madang mempunyai keanekaragaman genetik paling tinggi, sedangkan populasi di Patean paling rendah. Variasi genetik kapulasan berdasarkan  marka SSR dan ISSR di dalam populasi dan di antara populasi mempunyai komposisi yang berbeda. Variasi di dalam populasi sebesar 72 % sedangkan di antara populasi sebesar 28%. Primer LML Y6 dan LML Y12 dari marka SSR dan primer ISSR 2, 3, 4, 5, 6, 8, 9  tidak dapat digunakan untuk membedakan tumbuhan kapulasan jantan dan hermafrodit.   

References

Clyde MM, Chew PC, Normah MN, Rao VR, Salma I. 2005. Genetic diversity of Nephe-lium ramboutan-ake Leenh. assessed using RAPD and ISSR markers. Acta Hort (ISHS) 665:171–182. [Internet]. [diunduh 2012 Des 12]. Tersedia pada:http//www. actahort.org/ books/665/665_19htm.

Degani C, Deng J, Beiles A, El-Batsri R, Goren M, Gazit S. 2003. Identifying lychee (Litchi chinensis Sonn.) cultivars and their genetic relationships using inter simple sequence repeats (ISSR) markers. J. Amer. Soc. Hort. Sci. 128(6): 838–845.

Djuita NR, Hartana A, Chikmawati T, Dorly. 2016. Pulasan [(Nephelium ramboutan-ake (Labill.) Leenh.] fruit trees: variations in flo-wer morphology, and associated differences in pollination type. Int. J. Plant Biol. 7(1):1–6. https://doi.org/ 10.4081/pb. 2016. 6149

Djuita NR, Hartana A, Chikmawati T, Dorly. 2017. Characteristics and Ideotype Formu-lation of Pulasan (Nephelium ramboutan-ake) Fruit Landrace from West Java, Indo-nesia. Makara Journal of Science, 21/2(2017),69–76 doi: 10.7454/mss.v21i2.7304.

Doyle JJ, Doyle JL. 1990. Isolation of plant DNA from fresh tissue. Focus 12(1):13–15.

Ediwirman, Mansya E. 2011. Karakterisasi kapu-lasan (Nephelium mutabile) berbasis PCR-RAPD di Sumatera Barat. J. Embrio. 4(1): 66–73.

Ekué MRM, Gailing O, Finkeldey R. 2009. Trans-ferability of simple sequence repeat (SSR) markers developed in Litchi chinensis to Blighia sapida (Sapindaceae). Plant Mol. Biol. Rep. 27: 570–574. doi 10.1007/s11105-009-0115-2.

Falk DA, Knap EE, Guerrant EO. 2001. An Intro-duction to Restoration Genetics. Arizona (US): Society for Ecological Restoration.

Govindaraj M, Vetriventhan M, Srinivasan M. 2015. Importance of Genetic Diversity As-sessment in Crop Plants andIts Recent Ad-vances: An Overview of Its Analytical Pers-pectives. Genetics Research International. 2015: 1–14.

Kumar M, Gupta M, Shrivastava D, Prasad M, Prasad US, Sarin NB. 2006. Genetic rela-tedness among Indian litchi accessions (Litchi chinensis Sonn.) by RAPD markers. Int. J. Agric. Res. 1(4): 390–400.

Lewis PO, Snow AA. 1992. Deterministic pater-nity exclusion using RAPD markers. Mol. Ecol. 1: 155–160.

Long Y, Cheng J, Mei Z, Zhao L, Wei C, Fu S, Khan MA, Fu J. 2015. Genetic analysis of litchi (Litchi chinensis Sonn.) in southern China by improved random amplified poly-morphic DNA (RAPD) and inter-simple se-quence repeat (ISSR). Mol. Biol. Rep. 42: 159–166.

Madhou M, Normand F, Bahorun T, Hormaza JI. 2013. Fingerprinting and analysis of genetic diversity of litchi (Litchi chinensis Sonn.) accessions from different germplasm col-lections using microsatellite markers. Tree Genet. Genomes. doi 10.1007/s11295-012-0560-1.

Mahar KS, Meena B, Rana TS, Ranade SA. 2012. ISSR analysis of soap nut (Sapindus muko-rossi Gaertn.) genotypes in Western Hima-laya (India). Plant Biosyst. 146(3): 614–621.

Mason AS. 2015. SSR genotyping. Methods Mol. Biol. 1245:77-89. doi: 10.1007/978–1–4939–1966–6_6.

Napitu CSPLS, Chikmawati T, Djuita NR. 2016. Keberagaman Genetik Kerabat rambutan liar (Nephelium spp.) di Kabupaten Sanggau, Kalimantan Barat, Berdasarkan Marka SSR dan ISSR. Floribunda 5(4): 115–125.

Ng WL, Tan SG. 2015. Inter simple sequence re-peat markers: Are we doing it right? ASM. Sci. J. 9(1): 30–39.

Penner GA, Bush A, Wise R. 1993. Reprodu-cibility of random amplified polymorphic DNA (RAPD) analysis among laboratories. Genome Res. 2: 341–345.

Puhili AL, Chikmawati T, Djuita NR. 2016. Eva-luation of Pulasan (Nephelium ramboutan-ake) Genetic Diversity in Bogor, West Java, Using Microsatellite Marker. J.Trop. Life Science. 6 (3): 184–189.

Rohlf FJ. 2004. NTSyspc Numerical Taxonomy and Multivariate Analysis System 2.1. User Guide. Department of Ecology and Evo-lution. State University of New York. New York (US): Exeter Software.

Seibert B. 1992. Nephelium L. In: Verheij EWM, Coronel RE (eds). Plant Resources of South Asia. No 2. Edible Fruits and Nuts. Bogor (ID): Prosea Foundation.

Sheeba MS, Hama M, Radhika NK, Asha VV. 2014. Molecular diversities among Cardio-spermum halicacabum Linn. populations in Kerala assessed using RAPD markers. AP. 3(2): 87–92.

Sim CC, Mahani MC, Choong YC, Salma I. 2005. Transferability of SSR markers from lychee (Litchi chinensis Sonn.) to pulasan (Nephe-lium ramboutan-ake L.) Fruits. 60(6): 379–384.

Thomas DT, Ahedor AR, Williams CF, de Pham-pilis C, Crawford DJ, Xiang QYJ. 2008. Genetic analysis of a broad hybrid zone in Aesculus (Sapindaceae): is there evidence of long-distance pollen dispersal?

Viruel MA, Hormaza JI. 2004. Development, cha-racterization and variability analysis of mi-crosatellites in lychee (Litchi chinensis Sonn.), Sapindaceae. Theor. Appl. Genet. 108(5): 896–902.

Downloads

Published

2020-04-30

Issue

Section

Articles

Most read articles by the same author(s)

> >>