The Annotation of Repetitive Elements in the Genome of Channel Catfish (Ictalurus Punctatus)

Overview

Journal PLoS One

Specialties General Medicine
Science

Date 2018 May 16

PMID 29763462

Citations 7

Authors

Zihao Yuan

Tao Zhou

Lisui Bao

Shikai Liu

Huitong Shi

Yujia Yang

Dongya Gao

Rex Dunham

Geoff Waldbieser

Zhanjiang Liu

Affiliations

Soon will be listed here.

Abstract

Channel catfish (Ictalurus punctatus) is a highly adaptive species and has been used as a research model for comparative immunology, physiology, and toxicology among ectothermic vertebrates. It is also economically important for aquaculture. As such, its reference genome was generated and annotated with protein coding genes. However, the repetitive elements in the catfish genome are less well understood. In this study, over 417.8 Megabase (MB) of repetitive elements were identified and characterized in the channel catfish genome. Among them, the DNA/TcMar-Tc1 transposons are the most abundant type, making up ~20% of the total repetitive elements, followed by the microsatellites (14%). The prevalence of repetitive elements, especially the mobile elements, may have provided a driving force for the evolution of the catfish genome. A number of catfish-specific repetitive elements were identified including the previously reported Xba elements whose divergence rate was relatively low, slower than that in untranslated regions of genes but faster than the protein coding sequences, suggesting its evolutionary restrictions.

Citing Articles

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