scholarly journals Keragaman genetik klon-klon karet (Hevea brasiliensis Muell. Arg) yang resisten dan rentan terhadap Corynespora casiicola berdasarkan penanda RAPD dan AFLP Genetic variation of rubber ( Hevea brasiliensis Muell. Arg) clones resistance and susceptible to Corynespora cassiicola using RAPD and AFLP markers

2016 ◽  
Vol 70 (2) ◽  
Author(s):  
Nurita TORUAN-MATHIUS ◽  
Z LALU ◽  
. SOEDARSONO ◽  
Hajrial ASWIDINNOOR
Keyword(s):  
Hevea Brasiliensis ◽  
Genetic Similarity ◽  
Pcr Amplification ◽  
Aflp Markers ◽  
Group Method ◽  
Aflp Analysis ◽  
Pair Group ◽  
Young Leaves ◽  
Cluster A ◽  
Susceptible Group

SummaryCorynespora leaf fall disease (CFLD) caused by the fungus Corynespora casiicola is one of the most important diseases of Hevea brasiliensis.CFLD was reported to cause serious damage on rubber productivity, and the disease has became more apparent in the recent years. The objectives of this study were (i) to analyze genetic similarities among several rubber clones resistance and susceptible to CFLD based on RAPD and AFLP markers, (ii) to compare the effectiveness of RAPD and AFLP markers. DNA genomic was extracted from young leaves of RRIM600, GT1, PB260, RRIC100, BPM1 (belongs to resistance group), PPN2058, PPN2444, and PPN2447 (belongs to susceptible group). Data were analyzed with NTSYS-pc program version 2.10, and a dendogram was created by cluster analysis using the unweighted pair group method on the basis of arithmetic averages (UPGMA). The results show that marker index AFLP (3.57) is higher than RAPD (1.02), it means that AFLP is more effective compared to RAPD. The average of genetic similarity AFLP (0.63) lower than RAPD (0.67) it means that AFLP is more discriminative than RAPD. Dendogram based on AFLP and RAPD were the best with at 0.65 level of genetic similarity cluster divided into two cluster A and B. Cluster A with a sub group A1 consisted of RRIC100, PPN2058 and PPN244 are belongs to resistance group), and sub group A2 consisted of (RRIM600, GT1, BPM1 and PB 260 are belongs to susceptible group), while cluster B only PPN2447 is belong to susceptible group. AFLP analysis show that one AFLP band of 110 bp resulting from PCR amplification using E-ACA/M-CAG (E-ACA/M-CAG110) primer pairs present in resistance clones, but absent in the susceptible clones. Meanwhile, application of 50 random primers decamer in RAPD analysis did not showed the specific band for either one of the group. It is concluded that AFLP marker analysis using EACA/M-CAG primer pair have a potential to differentiate resistance and the susceptible rubber clones to Corynespora. For the confirmation of the results more resistance and susceptible clones are needed for further test. RingkasanPenyakit gugur daun Corynespora (PDGC) yang disebabkan oleh patogen Corynespora asiicola, merupakan salah satu penyakit penting pada tanaman karet (Hevea brasiliensis). PGDC menyebabkan penurunan yang cukup serius terhadap produktivitas tanaman karet. Tujuan penelitian ini adalah untuk (i) mengidentifikasi kesamaan genetik antar beberapa klon yang tergolong tahan dan rentan dengan marka RAPD dan AFLP, dan (ii) mempelajari efektivitas kedua marka tersebut. DNA genomik diekstraksi dari daun muda klon RRIM600, GT1, PB260, BPM1, RRIC100 (tergolong resisten), PPN2058, PPN2444, dan PPN2447 (tergolong rentan ). Data dianalisis dengan NTSYS-pc program versi 2.10. Dendogram dibuat dengan analisis pengelompokan menurut metode Unweighted Pair Group berbasis Arithmetic Avarages (UPGMA). Hasil yang diperoleh menunjukkan bahwa marka indeks AFLP (3,57) lebih tinggi daripada RAPD (1,02), sehingga AFLP lebih efektif dibandingkan dengan RAPD. Rata-rata perkiraan kesamaan genetik AFLP (0,63) sedikit lebih rendah dari RAPD (0,67) sehingga AFLP relatif lebih diskriminatif daripada RAPD. Dendogram berdasarkan integrasi AFLP dan RAPD adalah yang paling baik, dimana pada rata-rata perkiraan kesamaan genetik (0,65) terbentuk dua kelompok yaitu A dan B. Kelompok A terdiri atas sub sub kelompok A1 yang beranggotakan (RRIC100, PPN2058 dan PPN244 yang tergolong resisten), dan sub group A2 yang beranggotakan (RRIM600, GT1, BPM1 dan PB 260 yang tergolong rentan) Sedang kelompok B beranggotakan hanya PN2447 yang tergolong rentan. Analisis AFLP menghasilkan satu pita AFLP dengan menggunakan pasangan primer EACA/M-CG (E-ACA/M-CAG110 ) secara konsisten diperoleh dari klon karet yang resisten, namun tidak ditemukan pada klon yang rentan. Sementara itu, aplikasi 50 primer acak dekamer dalam analisis RAPD tidak menghasilkan pita spesifik untuk kedua kelompok yang diuji. Disimpulkan bahwa analisis AFLP menggunakan pasangan primer EACA/M-CAG berpotensi untuk membedakan klon karet yang resisten dan rentan terhadap Corynespora. Untuk mengkorfirmasi hasil yang diperoleh, perlu dilakukan pengujian terhadap klon-klon yang resisten dalam jumlah yang lebih banyak

scholarly journals Keragaman genetik klon-klon karet (Hevea brasiliensis Muell. Arg) yang resisten dan rentan terhadap Corynespora casiicola berdasarkan penanda RAPD dan AFLP Genetic variation of rubber ( Hevea brasiliensis Muell. Arg) clones resistance and susceptible to Corynespora cassiicola using RAPD and AFLP markers

2016 ◽  
Vol 70 (2) ◽  
Author(s):  
Nurita TORUAN-MATHIUS ◽  
Z LALU ◽  
. SOEDARSONO ◽  
Hajrial ASWIDINNOOR
Keyword(s):  
Hevea Brasiliensis ◽  
Genetic Similarity ◽  
Pcr Amplification ◽  
Aflp Markers ◽  
Group Method ◽  
Aflp Analysis ◽  
Pair Group ◽  
Young Leaves ◽  
Cluster A ◽  
Susceptible Group

SummaryCorynespora leaf fall disease (CFLD) caused by the fungus Corynespora casiicola is one of the most important diseases of Hevea brasiliensis.CFLD was reported to cause serious damage on rubber productivity, and the disease has became more apparent in the recent years. The objectives of this study were (i) to analyze genetic similarities among several rubber clones resistance and susceptible to CFLD based on RAPD and AFLP markers, (ii) to compare the effectiveness of RAPD and AFLP markers. DNA genomic was extracted from young leaves of RRIM600, GT1, PB260, RRIC100, BPM1 (belongs to resistance group), PPN2058, PPN2444, and PPN2447 (belongs to susceptible group). Data were analyzed with NTSYS-pc program version 2.10, and a dendogram was created by cluster analysis using the unweighted pair group method on the basis of arithmetic averages (UPGMA). The results show that marker index AFLP (3.57) is higher than RAPD (1.02), it means that AFLP is more effective compared to RAPD. The average of genetic similarity AFLP (0.63) lower than RAPD (0.67) it means that AFLP is more discriminative than RAPD. Dendogram based on AFLP and RAPD were the best with at 0.65 level of genetic similarity cluster divided into two cluster A and B. Cluster A with a sub group A1 consisted of RRIC100, PPN2058 and PPN244 are belongs to resistance group), and sub group A2 consisted of (RRIM600, GT1, BPM1 and PB 260 are belongs to susceptible group), while cluster B only PPN2447 is belong to susceptible group. AFLP analysis show that one AFLP band of 110 bp resulting from PCR amplification using E-ACA/M-CAG (E-ACA/M-CAG110) primer pairs present in resistance clones, but absent in the susceptible clones. Meanwhile, application of 50 random primers decamer in RAPD analysis did not showed the specific band for either one of the group. It is concluded that AFLP marker analysis using EACA/M-CAG primer pair have a potential to differentiate resistance and the susceptible rubber clones to Corynespora. For the confirmation of the results more resistance and susceptible clones are needed for further test. RingkasanPenyakit gugur daun Corynespora (PDGC) yang disebabkan oleh patogen Corynespora asiicola, merupakan salah satu penyakit penting pada tanaman karet (Hevea brasiliensis). PGDC menyebabkan penurunan yang cukup serius terhadap produktivitas tanaman karet. Tujuan penelitian ini adalah untuk (i) mengidentifikasi kesamaan genetik antar beberapa klon yang tergolong tahan dan rentan dengan marka RAPD dan AFLP, dan (ii) mempelajari efektivitas kedua marka tersebut. DNA genomik diekstraksi dari daun muda klon RRIM600, GT1, PB260, BPM1, RRIC100 (tergolong resisten), PPN2058, PPN2444, dan PPN2447 (tergolong rentan ). Data dianalisis dengan NTSYS-pc program versi 2.10. Dendogram dibuat dengan analisis pengelompokan menurut metode Unweighted Pair Group berbasis Arithmetic Avarages (UPGMA). Hasil yang diperoleh menunjukkan bahwa marka indeks AFLP (3,57) lebih tinggi daripada RAPD (1,02), sehingga AFLP lebih efektif dibandingkan dengan RAPD. Rata-rata perkiraan kesamaan genetik AFLP (0,63) sedikit lebih rendah dari RAPD (0,67) sehingga AFLP relatif lebih diskriminatif daripada RAPD. Dendogram berdasarkan integrasi AFLP dan RAPD adalah yang paling baik, dimana pada rata-rata perkiraan kesamaan genetik (0,65) terbentuk dua kelompok yaitu A dan B. Kelompok A terdiri atas sub sub kelompok A1 yang beranggotakan (RRIC100, PPN2058 dan PPN244 yang tergolong resisten), dan sub group A2 yang beranggotakan (RRIM600, GT1, BPM1 dan PB 260 yang tergolong rentan) Sedang kelompok B beranggotakan hanya PN2447 yang tergolong rentan. Analisis AFLP menghasilkan satu pita AFLP dengan menggunakan pasangan primer EACA/M-CG (E-ACA/M-CAG110 ) secara konsisten diperoleh dari klon karet yang resisten, namun tidak ditemukan pada klon yang rentan. Sementara itu, aplikasi 50 primer acak dekamer dalam analisis RAPD tidak menghasilkan pita spesifik untuk kedua kelompok yang diuji. Disimpulkan bahwa analisis AFLP menggunakan pasangan primer EACA/M-CAG berpotensi untuk membedakan klon karet yang resisten dan rentan terhadap Corynespora. Untuk mengkorfirmasi hasil yang diperoleh, perlu dilakukan pengujian terhadap klon-klon yang resisten dalam jumlah yang lebih banyak

scholarly journals Assessment of Genetic Relationships among Philodendron Cultivars Using AFLP Markers

2004 ◽  
Vol 129 (5) ◽  
pp. 690-697 ◽  
Author(s):  
Pachanoor S. Devanand ◽  
Jianjun Chen ◽  
Richard J. Henny ◽  
Chih-Cheng T. Chao
Keyword(s):  
Genetic Similarity ◽  
Near Infrared ◽  
Genetic Relationships ◽  
Aflp Markers ◽  
Group Method ◽  
Limited Information ◽  
Similarity Coefficients ◽  
Arithmetic Average ◽  
Ornamental Foliage Plants ◽  
Pair Group

Philodendrons (Philodendron Schott) are among the most popular tropical ornamental foliage plants used for interior decoration. However, limited information is available on the genetic relationships among popular Philodendron species and cultivars. This study analyzed genetic similarity of 43 cultivars across 15 species using amplified fragment length polymorphism (AFLP) markers with near infrared fluorescence labeled primers. Forty-eight EcoR I + 2/Mse I + 3 primer set combinations were screened, from which six primer sets were selected and used in this investigation. Each selected primer set generated 96 to 130 scorable fragments. A total of 664 AFLP fragments were detected, of which 424 (64%) were polymorphic. All cultivars were clearly differentiated by their AFLP fingerprints, and the relationships were analyzed using the unweighted pair-group method of arithmetic average cluster analysis (UPGMA) and principal coordinated analysis (PCA). The 43 cultivars were divided into five clusters. Cluster I comprises eight cultivars with arborescent growth style. Cluster II has only one cultivar, `Goeldii'. There are 16 cultivars in cluster III, and most of them are self-heading interspecific hybrids originated from R.H. McColley's breeding program in Apopka, Fla. Cluster IV contains 13 cultivars that exhibit semi-vining growth style. Cluster V has five cultivars that are true vining in morphology, and they have lowest genetic similarity with philodendrons in other clusters. Cultivated philodendrons are generally genetically diverse except the self-heading hybrids in cluster III that were mainly developed using self-heading and semi-vining species as parents. Seven hybrid cultivars have Jaccard's similarity coefficients of 0.88 or higher, suggesting that future hybrid development needs to select parents with diverse genetic backgrounds.

Genetic diversity in bambara groundnut (Vigna subterranea (L.) Verdc) landraces revealed by AFLP markers

Genome ◽  
2002 ◽  
Vol 45 (6) ◽  
pp. 1175-1180 ◽  
Author(s):  
F J Massawe ◽  
M Dickinson ◽  
J A Roberts ◽  
S N Azam-Ali
Keyword(s):  
Genetic Diversity ◽  
Genetic Relationships ◽  
Geographic Origin ◽  
Bambara Groundnut ◽  
Aflp Markers ◽  
Group Method ◽  
Aflp Analysis ◽  
Vigna Subterranea ◽  
Marker Assisted Breeding ◽  
Pair Group

Bambara groundnut (Vigna subterranea (L.) Verdc), an African indigenous legume, is popular in most parts of Africa. The present study was undertaken to establish genetic relationships among 16 cultivated bambara groundnut landraces using fluorescence-based amplified fragment length polymorphism (AFLP) markers. Seven selective primer combinations generated 504 amplification products, ranging from 50 to 400 bp. Several landrace-specific products were identified that could be effectively used to produce landrace-specific markers for identification purposes. On average, each primer combination generated 72 amplified products that were detectable by an ABI Prism 310 DNA sequencer. The polymorphisms obtained ranged from 68.0 to 98.0%, with an average of 84.0%. The primer pairs M-ACA + P-GCC and M-ACA + P-GGA produced more polymorphic fragments than any other primer pairs and were better at differentiating landraces. The dendrogram generated by the UPGMA (unweighted pair-group method with arithmetic averaging) grouped 16 landraces into 3 clusters, mainly according to their place of collection or geographic origin. DipC1995 and Malawi5 were the most genetically related landraces. AFLP analysis provided sufficient polymorphism to determine the amount of genetic diversity and to establish genetic relationships in bambara groundnut landraces. The results will help in the formulation of marker-assisted breeding in bambara groundnut.Key words: under-utilized, African legume, molecular markers.

scholarly journals Analysis of Genetic Relatedness of Dieffenbachia Cultivars Using AFLP Markers

2004 ◽  
Vol 129 (1) ◽  
pp. 81-87 ◽  
Author(s):  
Jianjun Chen ◽  
Richard J. Henny ◽  
David J. Norman ◽  
Pachanoor S. Devanand ◽  
Chih-Cheng T. Chao
Keyword(s):  
Genetic Similarity ◽  
Genetic Relatedness ◽  
Single Species ◽  
Aflp Markers ◽  
Group Method ◽  
Similarity Coefficients ◽  
Somaclonal Variants ◽  
Pair Group ◽  
Multiple Dimensions ◽  
Primer Sets

Dieffenbachia Schott is an important ornamental foliage plant genus. A total of 30 species has been recognized, but most cultivars come from or are related to a single species, D. maculata (Lodd.) G. Don. At least 11 of the cultivars are sports or somaclonal variants. As a result, the potential lack of genetic diversity in cultivated Dieffenbachia has become a concern. However, no research has been conducted to determine the genetic relatedness of the cultivars. This study analyzed the genetic similarity of 42 Dieffenbachia cultivars using amplified fragment length polymorphism (AFLP) markers. Six primer sets, selected from an initial screening of 48, generated a total of 453 scorable AFLP fragments of which 323 (71%) are polymorphic. All cultivars were clearly differentiated by their AFLP fingerprints. A dendrogram was constructed using the unweighted pair-group method of arithmetic averages, and principal coordinated analysis was carried out to show multiple dimensions of the distribution of the cultivars. The 42 cultivars were divided into three clusters; clusters I and II comprise 18 and 23 cultivars, respectively. Jaccard's similarity coefficients for cultivars in the clusters I and II varied from 0.44 to 0.95 and 0.41 to 0.87, respectively. These results indicate that broadening the genetic variability in the Dieffenbachia gene pool is needed, but the genetic similarity of many cultivars is not as close as previously thought. Additionally, Jaccard's similarity coefficients between most sports or somaclonal variants and their parents were 0.73 or lower, suggesting that accumulation of somatic mutations through tissue culture may play a role in the increased variation between some sports or variants and their parents.

AFLP-based assessment of genetic diversity among nine alfalfa germplasms using bulk DNA templates

Genome ◽  
2003 ◽  
Vol 46 (1) ◽  
pp. 51-58 ◽  
Author(s):  
A Segovia-Lerma ◽  
R G Cantrell ◽  
J M Conway ◽  
I M Ray
Keyword(s):  
Genetic Diversity ◽  
Medicago Sativa ◽  
High Throughput ◽  
Genetic Distances ◽  
Group Method ◽  
Aflp Analysis ◽  
Dna Templates ◽  
Arithmetic Average ◽  
Pair Group ◽  
Large Numbers

Improving commercial utilization of perennial Medicago collections requires developing approaches that can rapidly and accurately characterize genetic diversity among large numbers of populations. This study evaluated the potential of using amplified fragment length polymorphism (AFLP) DNA markers, in combination with DNA bulking over multiple genotypes, as a strategy for high-throughput characterization of genetic distances (D) among alfalfa (Medicago sativa L.) accessions. Bulked DNA templates from 30 genotypes within each of nine well-recognized germplasms (African, Chilean, Flemish, Indian, Ladak, Medicago sativa subsp. falcata, Medicago sativa subsp. varia, Peruvian, and Turkistan) were evaluated using 34 primer combinations. A total of 3754 fragments were identified, of which 1541 were polymorphic. The number of polymorphic fragments detected per primer combination ranged from 20 to 85. Pairwise D estimates among the nine germplasms ranged from 0.52 to 1.46 with M. sativa subsp. falcata being the most genetically dissimilar. Unweighted pair-group method arithmetic average (UPGMA) analysis of the marker data produced two main clusters, (i) M. sativa subsp. sativa and M. sativa subsp. varia, and (ii) M. sativa subsp. falcata. Cluster-analysis results and D estimates among the Chilean, Peruvian, Flemish, and M. sativa subsp. varia germplasms supported the hypothesis that Peruvian was more similar to original Spanish introductions into Central and South America than Chilean. Hierarchical arrangement of the nine germplasms was supported by their respective geographic, subspecific, and intersubspecific hybrid origins. Subsets of as few as seven highly informative primer pairs were identified that produced comparable D estimates and similar heirarchical arrangements compared with the complete dataset. The results indicate that use of primer-pair subsets for AFLP analysis of bulk DNA templates could serve as a high-throughput system for accurately characterizing genetic diversity among large numbers of alfalfa populations.Key words: Medicago sativa, DNA bulking, genetic distance.

scholarly journals Application of ITAP-PCR Techniques to Assess the Genetic Variability of Selected Cultivars of Winter Triticale (× Triticosecale Wittmack)

2019 ◽  
Vol 47 (3) ◽  
pp. 947-953
Author(s):  
Izabela SZUĆKO ◽  
Anna MĄDRACH
Keyword(s):  
Genetic Variability ◽  
Genetic Similarity ◽  
Group Method ◽  
Fast Method ◽  
Winter Triticale ◽  
Pair Group ◽  
Cereal Plant ◽  
Seed Market ◽  
Polymorphism Rate ◽  
Triticosecale Wittmack

The increasing use of triticale (× Triticosecale Wittmack) indicates that its position on the seed market is constantly strengthening; therefore, the research on its genetic variability is necessary to improve breeding process of new cultivars. The aim of the study was to assess the possibility of using the ITAP-PCR technique to analyse the genetic similarity of nine cultivars of winter triticale cultivated in Poland. Primers designed on the basis of 6 DNA transposon sequences commonly found in cereal plant genomes were used for the study. The average polymorphism rate in the genotypes used in the study was determined as 95.24%; in total, 75 bands were obtained, of which 73 were polymorphic. The PIC value ranged between 0.27 and 0.44, and was highest for the Hamlet primer. The lowest PIC value was observed for the Mutator primer. The average DI value was 0.34, MI - 4.08, AEI - 12.17 and IPI - 4.40. SI ranged from 36.7% to 1.7%. A dendrogram was created according to the unweighted pair group method with arithmetic mean (UPGMA), which in terms of genetic similarity divided the analysed winter triticale cultivars into two main similarity groups.We confirmed that ITAP technique of transposon-based marker is efficient and fast method to detect genetic variability between different winter triticale cultivars. In addition, the presence of analyzed transposon families in hexaploid triticale has not been studied earlier.

Development of DNA fingerprinting keys for the identification of radish cultivars

2004 ◽  
Vol 44 (1) ◽  
pp. 95 ◽  
Author(s):  
A. Pradhan ◽  
G. Yan ◽  
J. A. Plummer
Keyword(s):  
Dna Fingerprinting ◽  
Random Amplified Polymorphic Dna ◽  
Rapd Marker ◽  
Morphological Characteristics ◽  
Group Method ◽  
Base Pairs ◽  
Difference Matrix ◽  
Pair Group ◽  
Young Leaves ◽  
Polymerase Chain

Identification of cultivars is extremely important both for cultivation and breeding of crop plants. Cultivar identification based on morphological characteristics can be difficult and complicated. Polymerase chain reaction technologies, such as random amplified polymorphic DNA (RAPD) analysis, can readily and quickly identify cultivars using seeds and young leaves. Sixty individuals representing 7 radish cultivars were examined for RAPD marker polymorphism. Based on the polymorphism generated, 5 primers were selected, out of the 14��examined, to fingerprint the cultivars. The 5 primers produced a total of 52 fragments, 6 monomorphic and 46�polymorphic fragments, ranging in size from 206 to 2258 base pairs. A total and mean character difference matrix was calculated based on the RAPD data and a dendrogram was constructed using the unweighted pair-group method with arithmetic averages (UPGMA). Three DNA fingerprinting keys were developed for the 7 cultivars and 5 markers derived from 3 primers was the minimum required to distinguish cultivars. Results demonstrated that RAPD markers could be effectively used for the identification of radish cultivars.

scholarly journals Molecular Characterization of 12 Mango Germplasm Using RAPD markers

2010 ◽  
Vol 20 (1) ◽  
pp. 91-99
Author(s):  
R. C. Jena ◽  
K. C. Samal ◽  
P. K. Chand ◽  
B. K. Das
Keyword(s):  
Molecular Characterization ◽  
Rapd Markers ◽  
Mangifera Indica ◽  
Pcr Amplification ◽  
Similarity Coefficient ◽  
Group Method ◽  
Base Pairs ◽  
Relationship Analysis ◽  
Pair Group

Randomly amplified polymorphic DNA (RAPD) markers were used for the genetic variation and relationship analysis among 12 Mango (Mangifera indica L.) germplasm. Five oligonucleotide primers were employed to amplify DNA from 12 cultivars. PCR amplification with five primers generated 45 reproducible, clear and distinct bands, out of which 41 bands are considered polymorphic and the remaining four fragments (8.88%)  monomorphic. The size of amplified product ranged from 200 (RPI-5) to 3000 base pairs (RPI-1) with an average of nine bands per primer. The average polymorphism in all the 12 cultivars using the five primers was found to be 91.91%. Among all the primers RPI-2 and RPI-4 have shown 100% polymorphism while RPI-5 was found to be least polymorphism (81.81%). One specific band, namely was found with RPI-5, in a particular variety, Chiratpuri. The UPGMA (Unweighted Pair Group Method of Arithmetic Mean) dendrogram based on Jaccard’s similarity coefficient segregated the 12 mango germplasm into two clusters. Langra, Chiratpuri, Pravasankar, Alphanso, Sindhu and Kesar formed one cluster and rest six mango germplasm grouped together into another cluster. Sindhu and Alphanso cultivar pair was very close to each other with highest similarity coefficient (0.78), which was comparatively higher than all other cultivar pairs. On the other hand, Pravasankar and Neelam cultivar pair was more distinct to each other with the lowest intervarietal similarity coefficient 0.38. This study showed clearly that cultivars from Orissa unveiled maximum diversity and indicated the potential of RAPD markers for the identification of management of mango germplasm for breeding purposes.  Key words: Molecular characterization, Mango germplasm, Dversity  D.O.I. 10.3329/ptcb.v20i1.5972 Plant Tissue Cult. & Biotech. 20(1): 91-99, 2010 (June)

Inter Simple Sequence Repeat (ISSR) markers to assess genetic diversity and relatedness within strawberry genotypes

2008 ◽  
Vol 88 (2) ◽  
pp. 313-322 ◽  
Author(s):  
S. C. Debnath ◽  
S. Khanizadeh ◽  
A. R. Jamieson ◽  
C. Kempler
Keyword(s):  
Genetic Diversity ◽  
Simple Sequence Repeat ◽  
Genetic Similarity ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Group Method ◽  
Sequence Repeat ◽  
Breeding Lines ◽  
Pair Group ◽  
Simple Sequence

The goal of this study was to determine the level of genetic diversity and relatedness among 16 strawberry (Fragaria H ananassa Duch.) cultivars and 11 breeding lines developed in Canada, using Inter Simple Sequence Repeat (ISSR) markers. Seventeen primers generated 225 polymorphic ISSR-PCR bands. Cluster analysis by the unweighted pair-group method with arithmetic averages (UPGMA) revealed a substantial degree of genetic similarity among the genotypes ranging from 63 to 77% that were in agreement with the principal coordinate (PCO) analysis. Geographical distribution for the place of breeding program explained only 1.4% of total variation as revealed by analysis of molecular variance (AMOVA). The ISSR markers detected a sufficient degree of polymorphism to differentiate among strawberry genotypes, making this technology valuable for cultivar identification and for the more efficient choice of parents in current strawberry breeding programs. Key words: Fragaria × ananassa, DNA fingerprinting, multivariate analysis, breeding, genetic similarity

Genetic diversity and relationships among Secale L. based on RAMP markers

2004 ◽  
Vol 1 (2) ◽  
pp. 73-78 ◽  
Author(s):  
Shang Hai-Ying ◽  
Zheng You-Liang ◽  
Wei Yu-Ming ◽  
Wu Wei ◽  
Yan Ze-Hong
Keyword(s):  
Genetic Diversity ◽  
Genetic Relationships ◽  
Pcr Amplification ◽  
Group Method ◽  
Transitional Region ◽  
Arithmetic Average ◽  
Pair Group ◽  
Broad Leaf ◽  
Polymorphic Bands ◽  
High Level

AbstractGenetic diversity and relationships among 21 accessions of Secale L., including three species and 10 subspecies, were evaluated using RAMP markers. Forty-one out of 80 (50.5%) RAMP primers, which produced clear and polymorphic bands, were selected for PCR amplification of genomic DNA. A total of 446 bands were amplified from the 41 primers, and 428 of these bands (about 96%) were polymorphic. Three to 19 polymorphic bands could be amplified from each primer, with an average of 10.4 bands. The RAMP-based genetic similarity (GS) values among the 21 Secale accessions ranged from 0.266 to 0.658, with a mean of 0.449. A high level of genetic variation was found between or within the wild populations and the cultivars. Based on the GS matrix, a dendrogram was constructed using the unweighted pair group method with arithmetic average (UPGMA). All 21 accessions could be distinguished by RAMP markers. Clustering results showed that the genetic diversity of Secale based on RAMP markers was correlated with geographical distribution. Six rye cultivars, originating from Poland, Portugal, Mexico, Hungary, Armenia and Ukraine, were clustered into one group. The six countries are all located in the transitional region of broad-leaf forests between maritime and continental temperate zones, with narrow latitude span. In comparison, the other five cultivars from countries scattered over a region with large latitude span were distributed within different groups or subgroups. Genetic relationships based on RAMP markers had great deviation from the original taxonomy. Some subspecies of the same species were distributed within different groups, while some accessions of different species were closely clustered into one subgroup. These results suggest that RAMP markers could be an effective technique for detecting genetic diversity among Secale and give some useful information about its phylogenic relationships.

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