ESTIMATION OF GENETIC DIVERSITY WITHIN AND AMONG PULAI (Alstonia scholaris (L.) R. Rr.) PROVENANCE REVEALED BY RAPD MARKER

Hartati, Dwi Rini; Rimbawanto, A.; Taryono, Taryono; Sulistyaningsih, Endang; Widyatmoko, Aypbc

doi:10.20886/jpth.2007.1.2.89-98

Cited by 10 publications

(7 citation statements)

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“…Nei's genetic distances (Nei 1978) were used to construct UPGMA (Unweighted Pair Group Method with Arithmetic Mean) dendrogram, which showed the population clustering based on genetic distance (Hartati et al 2007) associated with geographic distance, using NTSys version 2.0 (Rohlf 2008).…”

Section: Discussionmentioning

confidence: 99%

Genetic variation of the mangrove species Avicennia marina in heavy metal polluted estuaries of Cilegon Industrial Area, Indonesia

Manurung¹,

Siregar²,

Kusmana³

et al. 2017

Biodiversitas

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Manurung J, Siregar IZ, Kusmana C, Dwiyanti FG. 2017. Genetic variation of the mangrove species Avicennia marina in heavy metal polluted estuaries of Cilegon Industrial Area, Indonesia. Biodiversitas 18: 1109-1115. Mangrove forests are often facing various anthropogenic disturbances, particularly in the industrial area. However, information on the status of industrial heavy metal pollution and its impact on the genetic variation of mangrove species, such as Avicennia marina, particularly in Indonesian industrial area has not been assessed. In this study, the classification of heavy metals in two estuaries of Cilegon Industrial Area (Pelabuhan Warna Sari and Krakatau) and one estuary outside Cilegon Industrial Area (Pulau Sangiang) were determined by Sediment Quality Guidelines-States Environment Protection Agency (SQGs-USEPA). Furthermore, the genetic diversity of 72 individuals of A. marina in the three estuaries were examined using four microsatellite loci (M3, M64, M81 and M98). The results showed that Krakatau area was the heavily polluted estuary based on SQGs-USEPA and have a lower genetic variation (He= 0.54) than Pelabuhan Warna Sari (moderately polluted, He= 0.56) and Pulau Sangiang (non-polluted, He= 0.60) suggesting a notable of deficiencies of genetic variation of A. marina in heavy polluted estuary compared to moderately and non-polluted estuary. Considering the low level of genetic variation in heavily polluted area, transplantation among estuaries and introduction of propagules from non-polluted estuary or other regions are needed as one of the conservation efforts.

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Section: Discussionmentioning

confidence: 99%

Genetic variation of the mangrove species Avicennia marina in heavy metal polluted estuaries of Cilegon Industrial Area, Indonesia

Manurung¹,

Siregar²,

Kusmana³

et al. 2017

Biodiversitas

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“…Seluruh primer kemudian diseleksi berdasarkan hasil visualisasi amplifikasi PCR. Kriteria seleksi yang digunakan adalah primer dapat menghasilkan pita DNA polimorfis, pita yang dihasilkan jelas, reproduktibilitas baik, hasil amplifikasi DNA stabil, dan mudah dibaca (Hartati et al, 2007). Selain itu, primer RAPD yang baik idealnya memiliki kandungan basa G+C antara 60-70%.…”

Section: Pembahasanunclassified

Keragaman Lima Aksesi Jawer Kotok (Plectranthus scutellarioides (L.) R.Br.) Berdasarkan Morfologi dan Marka RAPD

Arlianti,

Meilawati,

Heryanto

et al. 2023

Al-Kauniyah J. Biol.

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AbstrakJawer kotok (Plectranthus scutellariodes (L) R.Br.) selain berfungsi sebagai tanaman obat, sering digunakan sebagai tanaman hias karena bentuk dan warna daunnya yang indah. Balai Penelitian Tanaman Rempah dan Obat (BALITTRO) memiliki lima aksesi Jawer kotok yang belum teridentifikasi keragaman genetiknya. Koleksi tersebut perlu dikarakterisasi untuk mendapatkan data morfologi tanaman yang dapat digunakan sebagai pembanding antartanaman secara cepat. Identifikasi keragaman genetik dapat menggunakan karakter morfologi ataupun marka molekuler seperti Random Amplified Polymorphic DNA (RAPD). Penelitian ini bertujuan menganalisis keragaman genetik lima aksesi Jawer kotok berdasarkan karakter morfologi dan marka RAPD. Bahan tanaman yang digunakan adalah lima aksesi Jawer kotok koleksi kebun percobaan Cimanggu BALITTRO, Bogor Jawa-Barat. Karakteristik morfologi yang diamati meliputi habitus, daun, batang, dan bunga. DNA diekstraksi dari daun segar dengan metode CTAB kemudian diamplifikasi menggunakan 20 primer RAPD. Analisa kekerabatan menggunakan metode Gower dan UPGMA dengan software PBSTAT. Hasil penelitian menunjukkan terdapat keragaman pada bentuk daun, bentuk ujung daun, warna daun, dan warna corak daun. Analisis molekuler menunjukkan primer OPK 20, OPB 8, OPD 11, dan OPB 13 merupakan primer dengan polimorfisme tertinggi. Kelima aksesi berdasarkan karakter morfologi dan RAPD memiliki hubungan kekerabatan antara 0,5–0,8. Hubungan kekerabatan terjauh adalah aksesi JK1dan JK5, sedangkan kekerabatan terdekat pada aksesi JK3 dan JK4. Karakter daun merupakan karakter dengan keragaman genetik yang tinggi, dan dapat dijadikan kriteria sebagai penciri utama.AbstractJawer kotok (Plectranthus scutellarioides (L) R.Br.) apart from functioning as a medicinal plant, is often used as an ornamental plant because of the beautiful shape and color of its leaves. The Research Institute for Spices and Medicinal Plants (BALITTRO) has five Jawer kotok accessions whose genetics have not been identified. These collections need to be characterized to obtain plant morphological data that can be used as a quick comparison between plants. Genetic identity can use morphological characters or molecular markers such as Random Appointed Polymorphic DNA (RAPD). This research aims to reveal the genetics of five Jawer kotok accessions based on morphological characters and RAPD markers. The plant materials used were five Jawer kotok accessions from the Cimanggu BALITTRO experimental garden, Bogor, West Java. Morphological characteristics observed include habitus, leaves, stems and flowers. DNA was extracted from fresh leaves using the CTAB method and then amplified using 20 RAPD primers. Relationship analysis uses the Gower and UPGMA methods with PBSTAT software. The research results showed that there was diversity in leaf shape, leaf tip shape, leaf color, and leaf pattern color. Molecular analysis showed that the primers OPK 20, OPB 8, OPD 11, and OPB 13 were the primers with the highest polymorphism. The five accessions based on morphological characters and RAPD have a relationship between 0.5–0.8. The furthest kinship is in accessions JK1 and JK5, while the closest kinship is in accessions JK3 and JK4. Leaf characters are characters with high genetics, and can be used as criteria as main characteristics.

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“…Primer yang digunakan umumnya mempunyai sequence acak, terdiri dari sedikitnya 50-80% gugus G dan C (William et al, 1990). Kriteria primer yang dapat digunakan untuk analisis RAPD adalah jumlah lokus polimorfik, kejelasan dari pita RAPD dan lokus dengan tingkat reproduktibilitas tinggi (Hartati et. al, 2007).…”

Section: A Primer Terseleksiunclassified

Untitled

Frianto

Rasyad

Roslim

2018

JPKS

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ABSTRAKKulim (Scorodocarpus borneensis) merupakan tumbuhan yang hidup di dataran rendah, termasuk dalam kelompok famili Olacaceae dan Ordo Santalale. Penelitian ini bertujuan untuk menentukan keanekaragaman genetik di dalam dan antar populasi kulim berdasarkan penanda RAPD di Provinsi Riau dengan menggunakan sampel yang berasal dari 3 populasi yaitu populasi Bengkalis, Kampar dan Indragiri Hulu. Ekstraksi kambium dilakukan dengan modifikasi metode Cetyl Trimethyl Ammonium Bromida (CTAB). Amplifikasi DNA dilakukan dengan metode Random Amplified Polymorphic DNA (RAPD) pada mesin PCR System 9700 Applied Biosystems. Primer yang digunakan adalah 6 primer hasil optimasi keluaran Operon Technology yaitu OPC-6, OPY-6, OPY-13, OPY-14, OPO-6,dan OPW-4. Dari total 51 lokus yang terdeteksi, 47 (92,16%) merupakan lokus polimorfik. Persentase lokus polimorfik memiliki nilai rata-rata 76,50%±0,04, dengan kisaran 71,79% -79,49%. Rata-rata jumlah alel efektif per lokus adalah 1.359±0,08. Keragaman genetik dalam populasi (He) tergolong tinggi dengan nilai 0,226±0,04 dan indeks Shannon memiliki nilai 0,351±0,06. Dari ketiga populasi yang dianalisis, populasi Kampar (He= 0,265±0,18) memperlihatkan tingkat variabilitas yang jauh lebih tinggi dibanding populasi lainnya. Diferensiasi genetik antar populasi (Gst) tergolong rendah dengan nilai 0,1191. Sedangkan besarnya jarak genetik Nei antar populasi berkisar dari 0,0112 -0,0825 dengan nilai rata-rata 0,0481. Hubungan kekerabatan genetik antar populasi S. borneensis di Provinsi Riau membentuk dua kelompok. Kelompok pertama, terdiri atas populasi Duri dan Indragiri Hulu dan kelompok kedua yakni populasi Kampar. ABSTRACTKulim (Scorodocarpus borneensis) is a lowland plant, belongs to the Olacaceae and the Santalale order. This research aimed to determined the genetic biodiversity within and among kulim populations in Riau Province based on RAPD markers using samples from 3 population i.e. Bengkalis, Kampar and Indragiri Hulu. Cambium was extracted using CTAB modified method. DNA amplification performed by Random Amlified Polymorphic DNA (RAPD) markers in thermocycler machine (PCR System 9700 Applied Biosystems) using 6 primers i.e. OPO-6 OPY-6, OPY-13, OPY-14, OPO-6, and OPW-4. A total of 51 loci detected, 47 (92.16%) were polymorphic loci. The percentage of polymorphic loci has an average value

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ESTIMATION OF GENETIC DIVERSITY WITHIN AND AMONG PULAI (Alstonia scholaris (L.) R. Rr.) PROVENANCE REVEALED BY RAPD MARKER

Cited by 10 publications

References 0 publications

Genetic variation of the mangrove species Avicennia marina in heavy metal polluted estuaries of Cilegon Industrial Area, Indonesia

Genetic variation of the mangrove species Avicennia marina in heavy metal polluted estuaries of Cilegon Industrial Area, Indonesia

Keragaman Lima Aksesi Jawer Kotok (Plectranthus scutellarioides (L.) R.Br.) Berdasarkan Morfologi dan Marka RAPD

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