Development and validation of SSR markers for Coffea arabica L.

Missio, Robson Fernando; Caixeta, Eveline Teixeira; Zambolim, Eunize Maciel; Zambolim, Laércio; Sakiyama, Ney Sussumu

doi:10.12702/1984-7033.v09n04a11

Cited by 22 publications

(14 citation statements)

References 52 publications

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“…The number of polymorphic alleles in a population depends on the population size, its genetic constitution, and the different microsatellite markers used. Missio et al (2009) reported similar results (with 5.1 polymorphic alleles per marker) among coffee cultivars. They also verified the existence of high levels of genetic diversity among genotypes evaluated using PCoA, which is an important and desirable characteristic for breeding programs, as it is needed to increase the genetic base of the breeding population.…”

Section: Discussionsupporting

confidence: 61%

Identification of microsatellite markers in coffee associated with resistance to Meloidogyne exigua

Pereira¹,

Setotaw²,

Santos³

et al. 2016

Genet. Mol. Res.

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Section: Discussionsupporting

confidence: 61%

Identification of microsatellite markers in coffee associated with resistance to Meloidogyne exigua

Pereira¹,

Setotaw²,

Santos³

et al. 2016

Genet. Mol. Res.

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“…The PCR test with two C. arabica genotypes validated new gSSR markers, which were available for further genetic studies of this species (Missio et al, 2009a). A sampled gSSR evaluation showed mean polymorphic information content values ranging from 0.22 for C. arabica to 0.46 for C. canephora (Missio et al, 2010).…”

Section: Introductionmentioning

confidence: 90%

“…The first, containing 17 primer pairs, was obtained from C. arabica ESTs of the Brazilian Coffee Genome Project (Missio et al, 2009b). The second, containing 18 primer pairs, was obtained from an enriched genomic library of the C. arabica genotype Bourbon Amarelo UFV 570 (Missio et al, 2009a). PCR was done on a total volume of 20 mL containing 50 ng genomic DNA, 0.6 U Taq DNA polymerase and 1X buffer (Promega), 1 mM MgCl 2 , 150 mM of each dNTP and 0.1 mM of each primer.…”

Section: Microsatellite Markersmentioning

confidence: 99%

Genetic characterization of an elite coffee germplasm assessed by gSSR and EST-SSR markers

Missio

Caixeta²,

Zambolim³

et al. 2011

Genet. Mol. Res.

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“…Amplifikasi 12 DNA kultivar kopi Arabika menggunakan 12 primer SSR yang didesain dari sekuen kopi Arabika (Combes et al, 2000;Missio, Caixeta, Zambolim, Zambolim, & Sakiyama, 2009;Teressa et al, 2010) (Tabel 2). Komposisi bahan kimia yang digunakan adalah 10 ng DNA, 0,2 µM primer dan 1x PCR mix dengan volume akhir 15 µl.…”

Section: Analisis Ssrunclassified

Analisis Kekerabatan Genetik Kultivar Kopi Arabika Berbuah Kuning dan Berbuah Merah Berdasarkan Marka SSR

Izzah

Randriani

Dani

2015

JTIDP

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ABSTRAKKopi Arabika berbuah kuning (AGK-1) merupakan kultivar lokal yang berpeluang untuk dilepas sebagai varietas unggul. Namun, asal-usul genetiknya (genetic background) belum jelas. Padahal, karakter itu merupakan salah satu syarat dalam pelepasan varietas. Penelitian bertujuan menganalisis kekerabatan genetik kultivar AGK-1 dengan 11 kultivar kopi Arabika berbuah merah berdasarkan marka simple sequence repeats (SSR). Penelitian dilaksanakan di Laboratorium Molekuler Balai Penelitian Tanaman Industri dan Penyegar (Balittri) Sukabumi, dan Laboratorium Biologi Molekuler Balai Besar Litbang Bioteknologi dan Sumber Daya Genetik Pertanian Bogor, mulai Maret sampai Juni 2015. Kedua belas kultivar kopi Arabika yang digunakan berasal dari Kabupaten Garut. Sebanyak 12 primer SSR digunakan untuk menelusuri kekerabatan genetik kultivar kopi Arabika. Kekerabatan genetik dianalisis menggunakan marka SSR untuk melihat polimorfisme dan clustering. Hasil penelitian menunjukkan kedua belas marka SSR yang digunakan mampu mengidentifikasi kekerabatan 12 kultivar kopi Arabika ke dalam tiga kelompok (pada nilai ambang 66%). Pengelompokan secara genetik berkaitan dengan morfologi tanaman, terutama karakter pertumbuhan, yaitu tinggi, semi katai, dan katai. Kultivar AGK-1 secara genetik berkerabat dekat dengan salah satu kultivar berbuah merah, yaitu ABP-2 yang berasal dari Brasil dan keduanya mempunyai tipe pertumbuhan semi katai. Kultivar AGK-1 berbuah kuning diduga merupakan hasil persarian bebas dari tetua berbuah merah, terutama kultivar ABP-2. Dengan demikian, kopi Arabika berbuah kuning AGK-1 merupakan kultivar yang unik dan berpeluang untuk dilepas sebagai varietas unggul lokal. Kata kunci: Coffea arabica, kekerabatan genetik, marka SSR ABSTRACT Yellow berry of Arabica coffee (AGK-1) cultivated in Garut is a local cultivar that potentially could be released as a superior variety. However, its genetic background has not been studied. Information of genetic background is one of the requirement in releasing of a new variety. The objective of this research was to analyze the genetic relationships of AGK-1 cultivar with 11 red berries Arabica coffee cultivars based on simple sequence repeats (SSR) markers to find polymorphisms and clustering. The research was carried out at the Molecular Laboratory of Indonesian Industrial and Beverage Crops Research Institute and Biology Molecular Laboratory of Indonesian Center for Agricultural Biotechnology and Genetic Resources Research and PENDAHULUANKopi Arabika termasuk tanaman yang bernilai ekonomi tinggi dan dikembangkan di lebih dari 60 negara beriklim tropis maupun subtropis, dan jumlah produksinya bisa mencapai 70% dari total produksi kopi dunia (Teressa, Crouzillat, Petiard, & Brouhan, 2010). Di Indonesia, kopi merupakan salah satu komoditas perkebunan yang cukup diperhitungkan dan sebagai sumber devisa negara. Kopi Arabika (Coffea arabica L.)

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Development and validation of SSR markers for Coffea arabica L.

Abstract: -With the objective of developing new SSR markers for

Cited by 22 publications

References 52 publications

Identification of microsatellite markers in coffee associated with resistance to Meloidogyne exigua

Identification of microsatellite markers in coffee associated with resistance to Meloidogyne exigua

Genetic characterization of an elite coffee germplasm assessed by gSSR and EST-SSR markers

Analisis Kekerabatan Genetik Kultivar Kopi Arabika Berbuah Kuning dan Berbuah Merah Berdasarkan Marka SSR

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