Molecular Identification of Several Orchid Species Based on OPA10 and OPA18 RAPD Marker

Kurniawati, Junita; Sugiyarto, Lili; Yulianti, Evy; Nurcahyo, Heru; Mercuriani, Ixora Sartika

doi:10.1088/1742-6596/1397/1/012042

Cited by 9 publications

(6 citation statements)

References 4 publications

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“…Sebanyak sekitar 5.000 spesies anggrek dapat ditemukan di Indonesia. Anggrek menjadi populer karena memiliki bunga yang indah, harum, serta bentuk dan coraknya yang menarik (Kurniawati et al 2019). Secara holistik, tanaman ini berperan penting dalam berbagai aspek kehidupan mulai dari industri tanaman ornamental hingga studi evolusi.…”

Section: Pendahuluanunclassified

Isolasi dan Identifikasi Cendawan Endofit Akar Anggrek Epifit dan Hemiepifit

Michael,

Sukarno,

Mursidawati

et al. 2023

JSDH

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Orchids form a symbiotic relationship with endophytic fungi throughout their life cycle, including their seed germination. Research on orchid endophytic fungi in Indonesia is still limited. This study aimed to isolate and identify endophytic fungi of Phalaenopsis amabilis, Dipodium brevilabium, Vanilla planifolia, and Aerides odorata orchids. Endophytic fungi were isolated from surface-sterilized orchid root pelotons. Fungal identification was based on morphological and molecular characteristics using ITS rDNA sequences, followed by BLAST and phylogenetic tree analysis. All orchids studied had peloton structures in root cortex tissues. From the four orchids studied, 22 fungal isolates were obtained. Five fungal isolates were obtained from the P. amabilis orchid, consisting of 1 Penicillium and 4 sterile mycelium isolates. The D. brevilabium had 7 fungal isolates, namely 1 Penicillium and 6 Fusarium isolates. The V. planifolia had 6 Fusarium isolates, whereas the A. odorata had 4 isolates, such as 1 Penicillium, 2 sterile mycelium, and 1 unidentified isolate. The genus Penicillium was found in 3 out of the 4 orchid species studied. One Penicillium isolate was molecularly identified as Penicillium citrinum. Endophytic fungi in P. amabilis were mostly sterile mycelium, while D. brevilabium, V. planifolia, and A. odorata were dominated by Fusarium.

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Section: Pendahuluanunclassified

Isolasi dan Identifikasi Cendawan Endofit Akar Anggrek Epifit dan Hemiepifit

Michael,

Sukarno,

Mursidawati

et al. 2023

JSDH

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“…Furthermore, DNA bands measuring 450 bp in D. secundum, and D. bracteosum had the same band size. Kurniawati et al (2019) used RAPD as a genetic marker to characterize several Dendrobium orchids. Based on RAPD results using RAPD OPA10 and OPA18, D. anosmum gigantea alba and D. anosmum gigantea showed different genetic characteristics but some DNA fragments had the same size (918 bp and 492 bp).…”

Section: Dna Amplificationmentioning

confidence: 99%

Genetic similarity among Dendrobium species from Indonesia using RAPD markers

HARTATI,

SAMANHUDI,

CAHYONO

2023

Biodiversitas

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Abstract. Hartati S, Samanhudi, Cahyono O. 2023. Genetic similarity among Dendrobium species from Indonesia using RAPD markers. Biodiversitas 24: 5015-5021. Dendrobium genus orchids are one of the most popular commodities in the world due to their diverse range of flower sizes, shapes, and colors. To enhance plant breeding programs and genetic resources, it is necessary to obtain information on genetic similarity between orchids of the Dendrobium genus through molecular analysis techniques. Therefore, this study aimed to assess the genetic similarity among five Dendrobium species using molecular markers, specifically RAPD. The plant material used was obtained from five species of the Dendrobium spp, namely (i) Dendrobium mirbelianum; (ii) Dendrobium lamellatum, (iii) Dendrobium secundum, (iv) Dendrobium bracteosum, and (v) Dendrobium purpureum. The analysis was carried out to determine the genetic diversity of the Dendrobium orchids using RAPD markers. A total of five RAPD primers were used for amplification, namely OPD 8, OPA 7, OPA 13, OPB 12, and OPB 18. The scoring data were analyzed using NTSYS-pc (Numerical Taxonomy and Multivariate Analysis System) version 2.02 which produced data in the form of cluster dendrograms. The dendrogram that was constructed by Unweighted Pair Group Method Using Arithmetic Average (UPGMA) classified the five Dendrobium species into two main clusters. The results showed that there were two clusters, namely Cluster A consisting of D. mirbelianum, D. lamellatum, and D. secundum while Cluster B consisted of D. bracteosum and D. purpureum. Furthermore, the polymorphism of the five RAPD primers was very high, ranging from 91.6 to 100%, measuring 250-1900 bp. The coefficient of genetic similarity analyzed using the five RAPD primers ranged from 0.24 to 0.77. The species D. mirbelianum and D. lamellatum had a high coefficient of genetic similarity. Which can be discovered through parental selection in breeding program.

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“…Hence, those constraints affect the position of species in the phylogenetic tree (Minasiewicz et al 2018;Yun et al 2020). The discovery of new species from crosses also regularly changes the grouping and name of an orchid species (Kurniawati et al 2019). The genetic distance calculated using molecular marker data may be used to predict the existence of sexual incompatibility among members of the Aeridinae subtribe.…”

Section: Genetic Distance Among Aeridinae Accessionsmentioning

confidence: 99%

“…The presence of intergeneric hybrids within the Aeridinae subtribe has contributed to the complexity of the biological concept of species in orchids (Surveswaran et al 2018) and eventually revised the modern species concept (Aung and Jin 2018;Zhou et al 2021). The new species discovery from intergeneric and interspecific hybrids results in regular changes in the grouping and naming of orchid species (Kurniawati et al 2019).…”

Section: Phylogenetic Analysis Of Subtribe Aeridinaementioning

confidence: 99%

Genetic diversity based on SSR markers of 30 Aeridinae sub-tribe orchid genetic resources of Indonesian Ornamental Crop Research Institute, Cianjur, Indonesia

Wegadara

Dewanti²,

Diningsih³

et al. 2022

Biodiversitas

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Abstract. Wegadara M, Dewanti M, Diningsih E, Rachmawati F, Sukma D, Sudarsono. 2022. Genetic diversity based on SSR markers of 30 Aeridinaesub-tribe orchid genetic resources of Indonesian Ornamental Crop Research Institute, Cianjur, Indonesia. Biodiversitas 23: 2943-2956. Advances in molecular biotechnology encourage molecular markers to identify plant diversity to become increasingly common. Using SSR markers, this study will determine the genetic diversity and phylogenetic relationships of 30 accessions from five parental genera of Aeridinaeorchids from the IOCRI genetic resource collection. Molecular characterization of 30 orchid sub-tribes Aeridinaegenetic resources of IOCRI was carried out using 17 polymorphic SSR markers. The resulting binary data was then analyzed using the GenAlEX program to determine Na, Ne, Ho, He, and the PowerMarker V3.25 program to determine the values of MAF, D, and PIC. Molecular characterization using 17 SSR primers generated 240 amplified DNA fragments across 30 accessions, with the fragment sizes ranging from 56-4818 bp. Factorial analysis (PCoA) and phylogenetic tree construction clustered the 30 Aeridinae accessions into three major clusters. Accessions belonging to the Vanda genus are clustered into three clusters (Clusters I, II, and III). The Vascostylisis in Cluster I, along with 12 Vanda accessions. Two accessions of Vanda, two Aranthera, three Arachnis, and one Aerides genera are clustered into Cluster III. This study showed that interspecific hybrids among accessions of Vanda within Cluster I and Cluster II should be possible since they are genetically closely related. Intergeneric hybrids among the accession of Vascostylis and Vanda's genera belonging to Cluster I, should also be possible. Furthermore, intergeneric hybrids among Aerides, Arachnis, Aranthera, and Vanda accessions within Cluster III should also be possible. The generated data from this study should be helpful for future Aeridinae breeding activities intended to generate new hybrid varieties.

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Molecular Identification of Several Orchid Species Based on OPA10 and OPA18 RAPD Marker

Cited by 9 publications

References 4 publications

Isolasi dan Identifikasi Cendawan Endofit Akar Anggrek Epifit dan Hemiepifit

Isolasi dan Identifikasi Cendawan Endofit Akar Anggrek Epifit dan Hemiepifit

Genetic similarity among Dendrobium species from Indonesia using RAPD markers

Genetic diversity based on SSR markers of 30 Aeridinae sub-tribe orchid genetic resources of Indonesian Ornamental Crop Research Institute, Cianjur, Indonesia

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