Using amplified fragment length polymorphisms (AFLP) to study genetic variability in several freshwater rotifer species

2006 ◽  
pp. 109-115
Author(s):  
Sanjuana Hernández-Delgado ◽  
Netzahualcoyotl Mayek-Pérez ◽  
Gustavo Emilio Santos-Medrano ◽  
Roberto Rico-Martínez
Keyword(s):  
Genetic Variability ◽  
Fragment Length ◽  
Rotifer Species ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms

Using Amplified Fragment Length Polymorphisms (AFLP) to Study Genetic Variability in Several Freshwater Rotifer Species

Hydrobiologia ◽  
2005 ◽  
Vol 546 (1) ◽  
pp. 109-115 ◽  
Author(s):  
Sanjuana Hernández-Delgado ◽  
Netzahualcoyotl Mayek-Pérez ◽  
Gustavo Emilio Santos-Medrano ◽  
Roberto Rico-Martínez
Keyword(s):  
Genetic Variability ◽  
Fragment Length ◽  
Rotifer Species ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms

scholarly journals Genetic variability assessment in ‘Muscat’ grapevines including ‘Muscat of Alexandria’ clones from selection programs

2018 ◽  
Vol 16 (2) ◽  
pp. e0702 ◽  
Author(s):  
Rosa Peiró ◽  
Jaume X. Soler ◽  
Andrés Crespo ◽  
Carles Jiménez ◽  
Félix Cabello ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Genetic Variability ◽  
Fragment Length ◽  
Environmental Changes ◽  
Genetic Erosion ◽  
Germplasm Collections ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Cleaved Amplified Polymorphic Sequences ◽  
Ssr Fingerprinting

Genetic variability is needed to face environmental changes and pathogen constrains. In addition, the search for intravarietal variability contributes to the avoidance of genetic erosion, preserving clones that are adapted to particular conditions. Variability is also important to diversify grapevine-derived products. In this work, we have analyzed the genetic variability of ‘Muscat germplasm’ including samples from neglected vineyards from Alicante and Valencia provinces, accessions of the germplasm collections of ‘Colección de Vides de El Encín’ (Alcalá de Henares, Madrid) and ‘La Casa de las Vides’ (Agullent, Valencia), accessions supplied by nurseries of Valencia province, and ‘Muscat of Alexandria’ clones selected using differential ampelographic characteristics in selection programs (La Marina, Alicante). Fifteen microsatellites (SSRs) were used to study intervarietal variability. The SSR fingerprinting allowed the identification of some accessions, variants, and synonymies. Amplified Fragment Length Polymorphisms (AFLPs) markers and Microsatellite-AFLPs were used to determine the variability attended in ‘Muscat of Alexandria’ accessions. A CAPs (Cleaved Amplified Polymorphic Sequences) marker, recently developed for the discrimination of ‘Muscat’ flavor genotypes using the SNP1822 G>T, was assessed and showed that all the analyzed accessions were ‘Muscat’ flavored. The variation found among the analyzed germplasm is very interesting because variants within ‘Muscat of Alexandria’, ‘Muscat Italia’, and ‘Muscat d’Istambul’ have been identified. In addition, intravarietal genetic variation was found among the analyzed accessions in ‘Muscat of Alexandria’ from selection programs.

scholarly journals Amplified fragment length polymorphisms (AFLP's)

2017 ◽  
pp. 119 ◽  
Author(s):  
June Simpson
Keyword(s):  
Molecular Marker ◽  
Restriction Fragment ◽  
Restriction Enzyme ◽  
Fragment Length ◽  
Polymorphic Loci ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Pcr Conditions

AFLP is a combination restriction fragment/PCR molecular marker technique which detects polymorphisms due to changes at or in the vicinity of restriction enzyme sites. The technique detects multiple polymorphic loci throughout the genome and may be used for fingerprinting and mapping purposes. The main advantages of the method are the consistency and reliability of the technique due to stringent PCR conditions and the ability to rapidly detect many polymorphic loci.

Selection criteria for scoring amplified fragment length polymorphisms (AFLPs) positively affect the reliability of population genetic parameter estimates

Genome ◽  
2010 ◽  
Vol 53 (4) ◽  
pp. 302-310 ◽  
Author(s):  
Doris Herrmann ◽  
Bénédicte N. Poncet ◽  
Stéphanie Manel ◽  
Delphine Rioux ◽  
Ludovic Gielly ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Fragment Length ◽  
Population Genetic ◽  
Selection Criteria ◽  
Genetic Parameters ◽  
Data Set ◽  
Marker Selection ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Population Genetic Parameters

A reliable data set is a fundamental prerequisite for consistent results and conclusions in population genetic studies. However, marker scoring of genetic fingerprints such as amplified fragment length polymorphisms (AFLPs) is a highly subjective procedure, inducing inconsistencies owing to personal or laboratory-specific criteria. We applied two alternative marker selection algorithms, the newly developed script scanAFLP and the recently published AFLPScore, to a large AFLP genome scan to test how population genetic parameters and error rates were affected. These results were confronted with replicated random selections of marker subsets. We show that the newly developed marker selection criteria reduced the mismatch error rate and had a notable influence on estimates of genetic diversity and differentiation. Both effects are likely to influence biological inference. For example, genetic diversity (HS) was 29% lower while genetic differentiation (FST) was 8% higher when applying scanAFLP compared with AFLPScore. Likewise, random selections of markers resulted in substantial deviations of population genetic parameters compared with the data sets including specific selection criteria. These randomly selected marker sets showed surprisingly low variance among replicates. We conclude that stringent marker selection and phenotype calling reduces noise in the data set while retaining patterns of population genetic structure.

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