Genetic diversity and association mapping in a collection of selected Chinese soybean accessions based on SSR marker analysis

2011 ◽  
Vol 12 (5) ◽  
pp. 1145-1157 ◽  
Author(s):  
Ying-Hui Li ◽  
Marinus J. M. Smulders ◽  
Ru-Zhen Chang ◽  
Li-Juan Qiu
Keyword(s):  
Genetic Diversity ◽  
Association Mapping ◽  
Ssr Marker ◽  
Marker Analysis

Genetic diversity and structure among Iranian tall fescue populations based on genomic-SSR and EST-SSR marker analysis

2009 ◽  
Vol 282 (1-2) ◽  
pp. 57-70 ◽  
Author(s):  
Majid Sharifi Tehrani ◽  
Mohsen Mardi ◽  
Jamal Sahebi ◽  
Pilar Catalán ◽  
Antonio Díaz-Pérez
Keyword(s):  
Genetic Diversity ◽  
Tall Fescue ◽  
Ssr Marker ◽  
Marker Analysis ◽  
Genetic Diversity And Structure ◽  
Genomic Ssr

Genetic diversity and structure of the zombi pea (Vigna vexillata (L.) A. Rich) gene pool based on SSR marker analysis

Genetica ◽  
2017 ◽  
Vol 145 (2) ◽  
pp. 189-200 ◽  
Author(s):  
Sujinna Dachapak ◽  
Prakit Somta ◽  
Supalak Poonchaivilaisak ◽  
Tarika Yimram ◽  
Peerasak Srinives
Keyword(s):  
Genetic Diversity ◽  
Gene Pool ◽  
Ssr Marker ◽  
Vigna Vexillata ◽  
Marker Analysis ◽  
Genetic Diversity And Structure

Discovery and Utilization of EST-SSR Marker Resource for Genetic Diversity and Population Structure Analyses of a Subtropical Bamboo, Dendrocalamus hamiltonii

2019 ◽  
Vol 57 (5) ◽  
pp. 652-672 ◽  
Author(s):  
Abhishek Bhandawat ◽  
Vikas Sharma ◽  
Pradeep Singh ◽  
Romit Seth ◽  
Akshay Nag ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Ssr Marker ◽  
Dendrocalamus Hamiltonii

Development and assessment of EST-SSR marker for the genetic diversity among tobaccos (Nicotiana tabacum L.)

2015 ◽  
Vol 51 (6) ◽  
pp. 591-600 ◽  
Author(s):  
C. Cai ◽  
Y. Yang ◽  
L. Cheng ◽  
C. Tong ◽  
J. Feng
Keyword(s):  
Genetic Diversity ◽  
Nicotiana Tabacum ◽  
Ssr Marker ◽  
Nicotiana Tabacum L

Genetic Structure and Diversity among Species of Salacia: An Endangered Medicinal Herb of Western Ghats, India

2019 ◽  
Vol 9 (1) ◽  
pp. 23-33
Author(s):  
Chandrashekhar G Patil ◽  
Sheetal Ganapati Kamat ◽  
R Vasudeva
Keyword(s):  
Genetic Diversity ◽  
Southern China ◽  
Issr Marker ◽  
Group Method ◽  
Population Genetic Differentiation ◽  
Expected Heterozygosity ◽  
Marker Analysis ◽  
Endangered Medicinal Herb ◽  
High Level ◽  
Genetic Structure And Diversity

Salacia is one of the medicinally valuable genus, distributed throughout tropical areas which include India, Sri Lanka, Southern China and other Southern Asian Countries. The genus Salacia is represented by 21 species in India, among them eight species are recorded from the state of Karnataka in the Southern part of India. Despite its pharmaceutical importance, very little information exists about the genetic diversity of Salacia at molecular level. Hence the present study was carried out to evaluate the genetic among six species of Salacia namely S. chinensis, S. malabarica, S. oblonga, S. macrosperma, S. reticulata and S. gambleana with the help of ISSR marker analysis. Dendrogram and genetic distance were generated adopting Unweighted Paired Group Method with Arithmetic mean (UPGMA) in the NTSYS-pc software. Basic genetic parameters were calculated by analysing the genetic data with Pop gene 1.32 and GenAlEx 6.2 software. The overall polymorphism across the ten primers screened revealed 26 % polymorphism. A 60% polymorphism was scored for the primer UBC 841, whereas, no polymorphism was observed for primer UBC 840 and ISSR 6. The average observed heterozygosity was more than expected heterozygosity. Observed heterozygosity (Ho) ranged from 0.15 (UBC 841) to 0.38 (ISSR 6) with an average of 0.25, whereas expected heterozygosity (He) ranged from 0.10 (UBC 843) to 0.35 (ISSR 6) with an average of 0.23 for Salacia species. The higher heterozygosity pointed towards increased genetic diversity amongst the species. ISSR marker analysis showed high level of inter and intra population genetic differentiation.

Population Structure and Breeding Patterns of 145 U.S. Rice Cultivars Based on SSR Marker Analysis

Crop Science ◽  
2005 ◽  
Vol 45 (1) ◽  
pp. cropsci2005.0066 ◽  
Author(s):  
Hong Lu ◽  
Marc A. Redus ◽  
Jason R. Coburn ◽  
J. Neil Rutger ◽  
Susan R. McCouch ◽  
...  
Keyword(s):  
Population Structure ◽  
Ssr Marker ◽  
Rice Cultivars ◽  
Marker Analysis

scholarly journals ANALISIS KERAGAMAN GENETIK PLASMA NUTFAH KAKAO (Theobroma cacaoL.) BERDASARKANMARKA SSR / Analysis of Genetic Variability Germplasm of Cacao (Theobroma cacaoL.)Basedon SSR Marker

2020 ◽  
Vol 17 (4) ◽  
pp. 156
Author(s):  
Surti Kurniasih ◽  
Rubiyo Rubiyo ◽  
Asep Setiawan ◽  
Agus Purwantara ◽  
Sudarsono Sudarsono
Keyword(s):  
Genetic Diversity ◽  
Genetic Distance ◽  
Ssr Markers ◽  
Theobroma Cacao ◽  
Simple Sequence Repeat ◽  
Ssr Marker ◽  
Gene Diversity ◽  
Sequence Repeat ◽  
Theobroma Cacao L ◽  
Simple Sequence

<p>Microsatellite or simple sequence repeat (SSR) markers have proven to be an excellent tool for cultivar identification, pedigree analysis, and genetic distance evaluations among organisms. The objectives of this research were to characterize cacao collection of Indonesian Coffee and Cacao Research Institute (ICCRI) and to analyze their genetic diversity using SSR markers. In this research, 39 SSR primer pairs were used to amplify genomic DNA of 29 cacao clones. Amplified SSR fragments for each primer pair were scored as individual band and used to determine genetic distance among evaluated cacao clones. Results of the experiment indicated that all SSR primer pairs evaluated were able to produce SSR markers for 29 cacao clones. The results also indicated that 34 out of 39 microsatellite loci evaluated were polymorphic, while 5 others were monomorphic. The total number of observed alleles among 29 clones was 132. Number of alleles per locus ranged from 4-8, with an average of 5.5 alelles per locus. Results of data analysis indicated that the PIC value was 0.665, the observed heterozigosity (Ho) was 0.651, and the gene diversity (He) was 0.720. The PIC, Ho, and He values were considered high. Genetic distances were evaluated using NTSys version 2.1 and dendrogram was constructed. Results of analysis indicated that 12 cacao clones evaluated were clustered in the first group with diversity coefficient of &lt; 3.75. Nine cacao clones were in the second group but with the same value of diversity coefficient (&lt;7.50). The rest of the cacao clones were in the third group with diversity coefficient of&gt;7.50. Based on those finding, all SSR primer pairs evaluated could be used to analyze cacao genome and be useful for genetic diversity analysis of cacao germplasm. The SSR marker analysis in ICCRI cacao collections resulted in high PIC, high observed heterozygosity, and high genetic diversity.</p><p>Key words: Theobroma cacao L, microsatelite, molecular marker, genetic diversity, heterozygosity</p><p> </p><p><strong>Abstrak</strong></p><p>Marka mikrosatelit atau sekuens sederhana berulang (simple sequence repeat = SSR) terbukti merupakan alat yang bagus untuk identifikasi kultivar, analisis pedigree, dan evaluasi jarak genetik berbagai organisme. Penelitian ini bertujuan untuk:1) karakterisasi kakao koleksi Pusat penelitian Kopi dan Kakao Indonesia menggunakan marka SSR dan 2) analisis keragaman genetik klon-klon kakao koleksi dengan menggunakan marka SSR. Dalam penelitian ini, 39 pasangan primer SSR telah digunakan untuk amplifikasi DNA genomik dari 29 klon kakao. Skoring pita SSR hasil amplifikasi menggunakan masing-masing pasangan primer dilakukan secara terpisah dan digunakan untuk menentukan jarak genetik di antara klon kakao yang dievaluasi. Hasil percobaan menunjukkan bahwa semua pasangan primer SSR yang digunakan mampu menghasilkan pita DNA hasil amplifikasi (marka SSR) untuk 29 klon kakao yang diuji. Hasil penelitian juga menunjukkan bahwa 34 dari 39 lokus SSR yang dianalisis bersifat polimorfik sedangkan lima primer yang lain bersifat monomorfik. Dari 29 klon kakao yang dievaluasi, telah berhasil diamplifikasi sebanyak 132 alel, dengan kisaran antara 4-8 alel/lokus. Rataan jumlah alel per lokus sebanyak 5,50. Hasil analisis data yang dilakukan juga menunjukkan nilai PIC untuk marka SSR yang digunakan sebesar 0,665. Untuk populasi klon kakao yang dievaluasi, diperoleh nilai rataan heterosigositas pengamatan (Ho) sebesar 0,651 dan rataan diversitas gen (He) sebesar 0,720. Nilai PIC Ho dan He yang didapat tergolong tinggi. Berdasarkan analisis keragaman dengan menggunakan program NTSys, diperoleh hasil 12 klon kakao berada dalam grup pertama (koefisien keragaman&lt;3,75) dan9 klon berada dalam grup kedua, dengan koefisien keragaman &lt; 7,50. Sedangkan klon-klon lainnya mempunyai koefisien keragaman &gt; 7,50. Berdasarkan hasil penelitian dan analisis data disimpulkan bahwa marka SSR dapat digunakan untuk menganalisis keragaman genetik plasma nutfah kakao. Tingkat polimorfisme yang dihasilkan marka SSR relatif tinggi. Tingkat heterosigositas plasma nutfah kakao koleksi Puslit Kopi dan Kakao Indonesiarelatif tinggi, dan keragaman genetiknyacukup tinggi.</p><p>Kata kunci : Theobroma cacao L, mikrosatelit, marka molekuler, keragaman genetik, heterosigositas</p>

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