scholarly journals DNA-based marker systems and their utility in entomology

2006 ◽  
Vol 17 (1) ◽  
pp. 21-33 ◽  
Author(s):  
Fakrudin Bashasab ◽  
Vijaykumar ◽  
Krishnareddy Kambalpally ◽  
Basavaraj Patil ◽  
Mahaling Kuruvinashetti
Keyword(s):  
Fragment Length ◽  
Complex Traits ◽  
Expressed Sequence Tag ◽  
Environmental Influence ◽  
Nucleotide Polymorphisms ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Morphological Differences ◽  
Entomological Research ◽  
Taxonomic Groups

Morphological differences and similarities have been used to group and classify organisms, such as insects, into major taxonomic groups. However, discerning finer differences among strains, races and biotypes is usually difficult due to the influence of environment. Protein-basedmarking of individuals was used extensively before DNA-basedmarkers were employed. Variation at the DNA level is remarkable, and the unit change is heritable in a simple manner. At present, many DNA-based marker systems are available to address specific questions, both in basic and applied entomological research, that can circumvent the limitations of conventional approaches to a large extent. DNA-basedmarkers, being neutral to environmental influence and abundant, have helped understand genetics of complex traits in animal and plant systems. The present review primarily aims at familiarizing the DNA-based marker systems along with their utility. The techniques described include restriction fragment length polymorphisms (RFLPs), randomly amplified polymorphic DNAs (RAPDs), amplified fragment length polymorphisms (AFLPs), microsatellites/simple sequence repeats (SSRs), expressed sequence tag (EST) based marker system, single nucleotide polymorphisms (SNPs) and other derivedmarker systems along with their genetic nature and relative comparison.

scholarly journals DNA analyses and their applications in plant breeding

2012 ◽  
Vol 38 (No. 1) ◽  
pp. 29-40 ◽  
Author(s):  
J. Ovesná ◽  
K. Poláková ◽  
L. Leišová
Keyword(s):  
Molecular Markers ◽  
Fragment Length ◽  
Genome Mapping ◽  
Genome Structure ◽  
Detailed Knowledge ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Expressed Sequence

In recent years, molecular markers have been developed based on the more detailed knowledge of genome structure. Considerable emphasis has been laid on the use of molecular markers in practical breeding and genotype identification. This review attempts to give an account of different molecular markers currently available for genome mapping and for tagging different traits – restriction fragment length polymorphisms (RFLPs), random amplified polymorphic DNAs (RAPDs), amplified fragment length polymorphisms (AFLPs) and microsatellites. Other markers, expressed sequence tags (ESTs) and single nucleotide polymorphisms (SNPs) are also mentioned. The importance of structural, functional genomic and comparative mapping is also discussed.

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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