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Quantifying Replication Slippage Error in Cryptosporidium Metabarcoding Studies.
Knox, Matthew A; Biggs, Patrick J; Garcia-R, Juan Carlos; Hayman, David T S.
Afiliación
  • Knox MA; School of Veterinary Science.
  • Biggs PJ; School of Veterinary Science.
  • Garcia-R JC; School of Natural Sciences, Massey University, Palmerston North, Manawatu-Wanganui, New Zealand.
  • Hayman DTS; School of Veterinary Science.
J Infect Dis ; 230(1): e144-e148, 2024 Jul 25.
Article en En | MEDLINE | ID: mdl-39052741
ABSTRACT
Genetic variation in Cryptosporidium, a common protozoan gut parasite in humans, is often based on marker genes containing trinucleotide repeats, which differentiate subtypes and track outbreaks. However, repeat regions have high replication slippage rates, making it difficult to discern biological diversity from error. Here, we synthesized Cryptosporidium DNA in clonal plasmid vectors, amplified them in different mock community ratios, and sequenced them using next-generation sequencing to determine the rate of replication slippage with dada2. Our results indicate that slippage rates increase with the length of the repeat region and can contribute to error rates of up to 20%.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Cryptosporidium / Replicación del ADN Límite: Humans Idioma: En Revista: J Infect Dis Año: 2024 Tipo del documento: Article Pais de publicación: Estados Unidos
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Cryptosporidium / Replicación del ADN Límite: Humans Idioma: En Revista: J Infect Dis Año: 2024 Tipo del documento: Article Pais de publicación: Estados Unidos