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In silico fingerprinting (ISIF): a user-friendly in silico AFLP program.
Journal article

In silico fingerprinting (ISIF): a user-friendly in silico AFLP program.

  • Paris M Institute of Integrative Biology, ETH Zurich, Zurich, Switzerland. margotparis1@gmail.com
  • Després L
  • 2012-06-06
Published in:
  • Methods in molecular biology (Clifton, N.J.). - 2012
Aedes
Amplified Fragment Length Polymorphism Analysis
Animals
Arabidopsis
Base Sequence
Computer Simulation
DNA Primers
DNA Restriction Enzymes
Genome
Models, Genetic
Molecular Sequence Data
Polymorphism, Restriction Fragment Length
Software
English The Amplified fragment Length Polymorphism (AFLP) is one of the cost-effective and useful fingerprinting techniques to study non-model species. One crucial AFLP step in the AFLP procedure is the choice of restriction enzymes and selective bases providing good-quality AFLP profiles. Here, we present a user-friendly program (ISIF) that allows carrying out in silico AFLPs on species for which whole genome sequences are available. Carrying out in silico analyses as preliminary tests can help to optimize the experimental work by allowing a rapid screening of candidate restriction enzymes and the combinations of selective bases to be used. Furthermore, using in silico AFLPs is of great interest to limit homoplasy and amplification of repetitive elements to target genomic regions of interest or to optimize complex and costly high-throughput genomic experiments.
Language
  • English
Open access status
closed
Identifiers
Persistent URL
https://sonar.ch/global/documents/180840
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