scholarly journals Using Amplified Fragment-length Polymorphisms (AFLPs) to Identify Peach Cultivars

2003 ◽  
Vol 128 (5) ◽  
pp. 672-677 ◽  
Author(s):  
Maria José Aranzana ◽  
Joaquim Carbó ◽  
Pere Arús
Keyword(s):  
Cluster Analysis ◽  
Length Polymorphism ◽  
Fragment Length ◽  
Somatic Mutations ◽  
Prunus Persica ◽  
Fragment Length Polymorphism ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Wide Range ◽  
Plant Characteristics

A sample of 210 cultivars of Prunus persica (L.) Batsch, with a wide range of fruit and plant characteristics, was studied for variability using nine polymorphic amplified fragment length polymorphism (AFLP) primer combinations. Forty-seven AFLPs allowed identification of 196 (93%) different genotypes, 187 of which could be distinguished with three primer combinations. Eleven cultivars with the same AFLP phenotype corresponded to known somatic mutations (sports), but from the four sports of the `Springcrest' group, two (`Maycrest' and `Queencrest') differed at three AFLPs from the others (`Starcrest' and `Early Maycrest'). Cluster analysis allowed differentiation of most cultivars with nonmelting fruit flesh, generally used for canning, from the melting-flesh peach and nectarine cultivars used for fresh consumption.

scholarly journals Use of Amplified Fragment Length Polymorphisms for Typing Corynebacterium diphtheriae

2000 ◽  
Vol 38 (10) ◽  
pp. 3843-3845 ◽  
Author(s):  
Aruni De Zoysa ◽  
Androulla Efstratiou
Keyword(s):  
Length Polymorphism ◽  
Fragment Length ◽  
Fragment Length Polymorphism ◽  
Amplified Fragment Length Polymorphism ◽  
Corynebacterium Diphtheriae ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms

Amplified fragment length polymorphism (AFLP) was investigated for the differentiation of Corynebacterium diphtheriaeisolates. Analysis using Taxotron revealed 10 distinct AFLP profiles among 57 isolates. Strains with ribotype patterns D1, D4, and D12 could not be distinguished; however, the technique discriminated isolates of ribotype patterns D3, D6, and D7 further. AFLP was rapid, fairly inexpensive, and reproducible and could be used as an alternative to ribotyping.

Systematic relationships in Lathyrus sect. Lathyrus (Fabaceae) based on amplified fragment length polymorphism (AFLP) data

2002 ◽  
Vol 80 (9) ◽  
pp. 962-969 ◽  
Author(s):  
Abdelfattah Badr ◽  
Hanaa El Shazly ◽  
Haddad El Rabey ◽  
Linda E Watson
Keyword(s):  
Phylogenetic Tree ◽  
Length Polymorphism ◽  
Fragment Length ◽  
Fragment Length Polymorphism ◽  
Neighbor Joining ◽  
Aflp Data ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Close Relationship ◽  
Systematic Relationships

Amplified fragment length polymorphisms (AFLP) were utilized to examine systematic relationships in Lathyrus L. sect. Lathyrus (Fabaceae). In addition to a parsimony-based phylogenetic tree, AFLP-based trees were constructed using Dice, Jaccard, and mean character difference coefficients to produce distance-based trees using the UPGMA and neighbor-joining methods. All trees clearly show a close relationship among accessions of the same species, confirming the monophyly of the species examined. All analyses indicate that species of the section Lathyrus are distinct from species of other sections. These findings confirm the monophyly of the section and contradict proposals to split it. They do not support the segregation of L. gorgoni in the section Gorgonia. Within the section Lathyrus, several relationships are present but are only weakly supported. The use of AFLP data to resolve systematic relationships in the genus Lathyrus is further demonstrated.Key words: Lathyrus, Fabaceae, systematics, AFLP.

scholarly journals Amplified Fragment Length Polymorphism Analysis of Genetic Diversity and Relationships of Wild and Cultivated Peach (Prunus persica L.)

HortScience ◽  
2015 ◽  
Vol 50 (1) ◽  
pp. 44-50 ◽  
Author(s):  
Fanjuan Meng ◽  
Mu Peng ◽  
Fachun Guan
Keyword(s):  
Genetic Diversity ◽  
Fragment Length ◽  
Prunus Persica ◽  
Fragment Length Polymorphism ◽  
Genetic Relationships ◽  
Principal Component ◽  
Polymorphism Analysis ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Principal Axes

To date, a narrow genetic base is a serious obstacle in peach (Prunus persica L.) production. Wild peach resources are useful germplasms for breeding new cultivars. In this study, amplified fragment length polymorphisms (AFLPs) were used to analyze the genetic diversity and relationships of wild and cultivated peach germplasms. These results showed that AFLP is an efficient technique for identifying the genetic relationships of wild and cultivated peach. Thirteen AFLP primer combinations generated a total of 377 scorable and clear fragments, all of which (100%) were polymorphic. Moreover, the polymorphism information content (PIC) values ranged from 0.91 to 0.96 with a mean of 0.95. The results of the principal component analysis (PCoA) largely corresponded to those obtained using cluster analysis. The three principal axes accounted for 2.6%, 5.79%, and 25.26% of the total variation, respectively. In conclusion, wild peach germplasms should receive special attention to ensure their conservation.

scholarly journals Genomic Relatedness of ChlamydiaIsolates Determined by Amplified Fragment Length Polymorphism Analysis

1999 ◽  
Vol 181 (15) ◽  
pp. 4469-4475 ◽  
Author(s):  
Adam Meijer ◽  
Servaas A. Morré ◽  
Adriaan J. C. Van Den Brule ◽  
Paul H. M. Savelkoul ◽  
Jacobus M. Ossewaarde
Keyword(s):  
Cluster Analysis ◽  
Length Polymorphism ◽  
Fragment Length ◽  
Fragment Length Polymorphism ◽  
Amplified Fragment Length Polymorphism ◽  
Chlamydia Psittaci ◽  
Rrna Genes ◽  
Aflp Analysis ◽  
Polymorphism Analysis ◽  
Genomic Relatedness

ABSTRACT The genomic relatedness of 19 Chlamydia pneumoniaeisolates (17 from respiratory origin and 2 from atherosclerotic origin), 21 Chlamydia trachomatis isolates (all serovars from the human biovar, an isolate from the mouse biovar, and a porcine isolate), 6 Chlamydia psittaci isolates (5 avian isolates and 1 feline isolate), and 1 Chlamydia pecorum isolate was studied by analyzing genomic amplified fragment length polymorphism (AFLP) fingerprints. The AFLP procedure was adapted from a previously developed method for characterization of clinical C. trachomatis isolates. The fingerprints of all C. pneumoniae isolates were nearly identical, clustering together at a Dice similarity of 92.6% (± 1.6% standard deviation). The fingerprints of the C. trachomatis isolates of human, mouse, and swine origin were clearly distinct from each other. The fingerprints of the isolates from the human biovar could be divided into at least 12 different types when the presence or absence of specific bands was taken into account. The C. psittacifingerprints could be divided into a parakeet, a pigeon, and a feline type. The fingerprint of C. pecorum was clearly distinct from all others. Cluster analysis of selected isolates from all species revealed groups other than those based on sequence data from single genes (in particular, omp1 and rRNA genes) but was in agreement with available DNA-DNA hybridization data. In conclusion, cluster analysis of AFLP fingerprints of representatives of all species provided suggestions for a grouping of chlamydiae based on the analysis of the whole genome. Furthermore, genomic AFLP analysis showed that the genome of C. pneumoniae is highly conserved and that no differences exist between isolates of respiratory and atherosclerotic origins.

Amplified fragment length polymorphism analysis of different geographic populations of the gypsy moth, Lymantria dispar (Lepidoptera: Lymantriidae)

1999 ◽  
Vol 89 (1) ◽  
pp. 79-88 ◽  
Author(s):  
A. Reineke ◽  
P. Karlovsky ◽  
C.P.W. Zebitz
Keyword(s):  
Cluster Analysis ◽  
Length Polymorphism ◽  
Gypsy Moth ◽  
Lymantria Dispar ◽  
Fragment Length ◽  
Fragment Length Polymorphism ◽  
Insect Pests ◽  
Amplified Fragment Length Polymorphism ◽  
Aflp Analysis ◽  
Polymorphism Analysis

AbstractThe gypsy moth, Lymantria dispar Linnaeus, is one of the most serious insect pests of palaearctic and nearctic hardwood forests. We used amplified fragment length polymorphism (AFLP) to detect genetic diversity within and among gypsy moth populations. Five AFLP primer combinations were used on 98 L. dispar samples from different parts of Europe, Asia and North America, detecting a total of 481 polymorphic and 58 monomorphic fragments. Genetic similarities based on these data were calculated and cluster analysis was performed to graphically display groupings between isolates. Lymantria dispar individuals from close geographical areas of Europe were mostly grouped together in cluster analysis resulting in the formation of subgroups corresponding to the origin of the samples. Supporting this observation, clustering of individuals from 22 neighbouring populations in southern Germany agreed well with the region they originated from. Thus, AFLP analysis revealed the existence of a certain degree of genetic variability between European gypsy moth populations that could be explained by the accumulation of polymorphisms resulting from both historical population bottlenecks and the adaptation to different environmental conditions. The results of this study therefore demonstrate that AFLP analysis is a sensitive technique for distinguishing genotypes from different geographic origins as well as from neighbouring local populations and provides sufficient molecular markers for future characterization of the gypsy moth genome.

scholarly journals Genetic Similarity Among Brassica oleracea L. Genotypes as Measured by Restriction Fragment Length Polymorphisms

1993 ◽  
Vol 118 (2) ◽  
pp. 298-303 ◽  
Author(s):  
James Nienhuis ◽  
Mary K. Slocum ◽  
Dawn A. DeVos ◽  
Roger Muren
Keyword(s):  
Brassica Oleracea ◽  
Restriction Fragment ◽  
Fragment Length ◽  
Genetic Similarity ◽  
Fragment Length Polymorphism ◽  
Pedigree Information ◽  
Banding Patterns ◽  
Length Polymorphisms ◽  
Wide Range ◽  
Restriction Fragment Length

Genetic similarities were calculated among 89 Brassica oleracea L. genotypes, which included 62 broccolis (var. italica), 16 cauliflowers (var. botrytis), and 11 cabbages (var. capitata). These entries represented a wide range of commercially available germplasm, including open-pollinated cultivars, commercial hybrids, the inbred parents of several hybrid cultivars, and 27 entries that were provided as unknowns. Sixteen random genomic clones were used as probes in Southern hybridizations to detect restriction fragment length polymorphism (RFLP). From each of the random probes, an average of four polymorphic bands were classified as to their presence or absence for each genotype. The genetic similarity between ail pairs of genotypes was calculated. A multidimensional scaling (MDS) plot indicated that the broccoli, cauliflower, and cabbage groups were clustered with very little overlap. Within groups, genetic similarity corresponded to relationships based on available pedigree information. Comparison of banding patterns between hypothetical and actual hybrids was used to correctly identify the parents of several parent-hybrid combinations. The RFLP pattern of a hybrid and one of the parents (female) were used to predict the genotype and identity of the other parent (male).

scholarly journals Endopolygalacturonase and the Melting Flesh (M) Locus in Peach

1996 ◽  
Vol 121 (2) ◽  
pp. 231-235 ◽  
Author(s):  
Diane R. Lester ◽  
Wayne B. Sherman ◽  
Brian J. Atwell
Keyword(s):  
Restriction Fragment Length Polymorphism ◽  
Western Blotting ◽  
Restriction Fragment ◽  
Length Polymorphism ◽  
Fragment Length ◽  
Prunus Persica ◽  
Fragment Length Polymorphism ◽  
Variable Population ◽  
Complete Deletion ◽  
Restriction Fragment Length

Southern analysis of two ripening-related polygalacturonase (PG) genes of peach [Prunus persica (L.) Batsch] detected a restriction fragment length polymorphism (RFLP) in one that had been previously identified as encoding the endoPG enzyme of melting flesh fruit. This RFLP distinguished the melting flesh cultivars Flavorcrest and Flordaking from the nonmelting flesh cultivars Carolyn, Early Gold Queen, Fla. 86-28C, and Fla. 9-26C. Complete deletion of endoPG-related genomic sequences was demonstrated in the nonmelting flesh variety Fla. 9-20C. In a blind trial, segregation of the endoPG RFLP was followed in relation to the melting flesh trait in a population of 20 trees from `Fla. 86-28C' × `Springcrest' in which the trait was segregating 1:1. Cosegregation of the RFLP with the trait occurred for 17 out of 20 trees. Practical aspects of scoring the melting flesh trait in a genetically variable population may account for incomplete segregation. EndoPG protein was detected by western blotting in fruit of the melting flesh cultivars Flavorcrest and Fragar, but not in fruit of the nonmelting flesh cultivar Carolyn. Results from this study and earlier work are used to discuss the hypothesis that the endoPG gene corresponds to the melting flesh (M) locus of peach.

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