OPTIMASI SUHU ANNEALING UNTUK PRIMER g-SSR DAN EST-SSR  PADA KACANG HIJAU (Vigna radiata L.)

Mungbean (Vigna radiata L.) is one of important legume in Indonesia. G-SSR and EST-SSR markers had been widely used in mungbean genetic diversity research. DNA isolation and DNA amplification are required to obtain genetic information about mungbean to obtain accurate data on the genetic diversity of mungbean. This study aims to determine the Temperature of annealing (Ta) of the g-SSR and EST-SSR primer pairs. The total DNA was isolated from young leaves mungbean origin Pelalawan and the eight primer pairs of the g-SSR and EST-SSR were optimized. The optimal Ta for G2436, G3598, G2516, G7472, G0483. G1671, G3302, and G3427 were 50,55ºC, 51,15ºC,51,25ºC, 51,2ºC, 51,6ºC, 49,0ºC, 49,8ºC, and 52,8ºC respectively. Meanwhile, the optimal Ta for E51985, E19823, E24080, E22860, E26637, E16266, E11659, and E10675 were 52,2ºC, 54,4ºC, 52,5ºC,51,25ºC, 53,25ºC, 54ºC, 54,35ºC, and 53,6ºC respectively.

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Genetic diversity of mungbean (Vigna radiata L.) germplasm in Indonesia

Plant Genetic Resources ◽

10.1017/s1479262114000343 ◽

2014 ◽

Vol 12 (S1) ◽

pp. S91-S94 ◽

Cited By ~ 7

Author(s):

Puji Lestari ◽

Sue Kyung Kim ◽

Reflinur ◽

Yang Jae Kang ◽

Nurwita Dewi ◽

...

Keyword(s):

Genetic Diversity ◽

Ssr Markers ◽

Vigna Radiata ◽

Diversity Index ◽

Polymorphic Information Content ◽

Conservation Strategy ◽

Low Genetic Diversity ◽

Breeding Programmes ◽

The Mean ◽

Simple Sequence

Despite widespread mungbean [Vigna radiata (L.) Wilczek] consumption in Indonesia, few molecular studies have been carried out on accessions and available data are minimal. In this study, we used 30 newly developed simple sequence repeat (SSR) markers designed from the mapped sequence scaffolds of the Korean Sunhwanokdu and Gyeonggijaerae 5 mungbean genomes. These markers were used to examine loci in 83 mungbean accessions collected from diverse geographical areas in Indonesia. A total of 107 alleles were detected among the accessions with 29 polymorphic markers. However, the mean of polymorphic information content (0.33) value and diversity index (0.38) value was indicative of low genetic diversity in this germplasm. The mungbean population structure was not clearly differentiated and the number of subpopulations was unclear. Neighbour-joining tree analysis revealed that the genetic cluster did not reflect the geographical origin of the accessions. Interestingly, the most agriculturally improved varieties were genetically similar to some landraces from one of the main mungbean-producing regions. These newly developed SSR markers could be useful for detecting genetic variability as a basis for establishing a conservation strategy for mungbean germplasm with the aim of enhancing Indonesian breeding programmes.

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Population structure and impact of recurrent selection on popcorn using EST-SSR markers

Acta Scientiarum Agronomy ◽

10.4025/actasciagron.v40i1.35218 ◽

2018 ◽

Vol 40 (1) ◽

pp. 35218 ◽

Cited By ~ 3

Author(s):

Amanda Gonçalves Guimarães ◽

Antônio Teixeira do Amaral Júnior ◽

Janeo Eustáquio de Almeida Filho ◽

Guilherme Ferreira Pena ◽

Cássio Vittorazzi ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Genetic Variability ◽

Microsatellite Markers ◽

Ssr Markers ◽

Genomic Dna ◽

Recurrent Selection ◽

Genetic Diversity And Structure ◽

Young Leaves ◽

The Impact

The success of any recurrent selection program depends on the genetic variability of the evaluated population, which is used to refer to the diversity of existing alleles at many genetic loci. Thus, the goal of the present study was to investigate the impact of recurrent selection across nine cycles of a UENF-14 popcorn population through the analysis of genetic diversity and structure using microsatellite markers (EST-SSRs). Genomic DNA was extracted from young leaves of 25 individuals from each cycle (C0, C1 C2, C3, C4, C5, C6, C7, and C8), totaling 225 samples from the UENF-14 population. Fifty EST-SSR markers were used for the analysis of genetic diversity across the recurrent selection cycles, 16 of which were polymorphic. Thirty-four alleles were detected, with an average of 2.13 alleles per locus. Throughout all the recurrent selection cycles, there was a reduction in heterozygosity and an increase in inbreeding. The population structure showed a sharing of alleles, inferring that some may be directly related to the main selection characteristics.

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Assessment of genetic diversity and population structure of mung bean (Vigna radiata) germplasm using EST-based and genomic SSR markers

Gene ◽

10.1016/j.gene.2015.04.043 ◽

2015 ◽

Vol 566 (2) ◽

pp. 175-183 ◽

Cited By ~ 20

Author(s):

Honglin Chen ◽

Ling Qiao ◽

Lixia Wang ◽

Suhua Wang ◽

Matthew Wohlgemuth Blair ◽

...

Keyword(s):

Genetic Diversity ◽

Population Structure ◽

Ssr Markers ◽

Vigna Radiata ◽

Mung Bean ◽

Genomic Ssr

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Uji Efektivitas Metode Isolasi DNA Genom Kopi Arabika (Coffea arabica L.) Asal Kabupaten Jayawijaya

JURNAL BIOLOGI PAPUA ◽

10.31957/jbp.10 ◽

2018 ◽

Vol 8 (1) ◽

Author(s):

Arsyam Mawardi ◽

Maria L. Simonapendi

Keyword(s):

Genomic Dna ◽

Dna Isolation ◽

Dna Amplification ◽

Initial Information ◽

Arabica Coffee ◽

Modified Method ◽

Ctab Method ◽

Young Leaves ◽

Amplification Technique ◽

The Difference

Genetic substance of DNA has many functions as a basic component of the organism. DNA can be obtained directly through the isolation of DNA. Isolation of genomic DNA Wamena arabica coffee is done by treating the young leaves to get DNA extract. This reasearch is intended to provide scientific contributions in an effort to screen the best methods of DNA isolation, including a modified extraction of Zheng et al method (2005), a modified method of Doyle and Doyle (1990), and method of George and Khan modificaation (2008) or CTAB method. All of methods were tested on Arabica coffee Jayawijaya Wamena. Testing was done by looking at the difference in quality and quantity of products in the form of genomic DNA concentration and DNA thickness, comparing with the marker DNA then electrophoresis on agarose gel. From the results of testing the effectiveness of three types of isolation methods, it was found that the method of George and Khan (2008) or CTAB genomic DNA produce the best quality than other methods. In terms of quantity, the criteria in the form of DNA concentrations ranging from 100 ng λ-DNA/ml, λ-DNA 50 ng/ml, λ-DNA 10 ng/ml. Concentration of genomic DNA bands visible when the profile is visualized in gel electrophoresis with UV luminescence. This study will be a step and initial information about the genetic composition of a population of arabica coffee which still exists, and will be developed through DNA amplification technique. Key words: coffee, isolation of genomic DNA, CTAB method, profile band pattern

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