Comparison of mitochondrial genome and development of specific PCR primers for identifying two scuticociliates, Pseudocohnilembus persalinus and Uronema marinum.

Parasites & Vectors
Yu-Xi HuangRui-Jun Li

Abstract

Pseudocohnilembus persalinus and Uronema marinum (Ciliophora, Scuticociliatia), as parasitic scuticociliatid ciliates, were isolated from Scophthalmus maximus and Takifugu rubripes, respectively, in our previous studies. These ciliates are morphologically very similar; hence, it is difficult to identify specific scuticociliate species using traditional classification methods for performing taxonomic research and disease control studies. We annotated the mitochondrial genomes of these two scuticociliates on the basis of previous sequencing, including analyses of nucleotide composition, codon usage, Ka/Ks, and p-distance. We also compared the nucleotide and amino acid similarity of the mitochondrial genomes of P. persalinus, U. marinum, and other 12 related ciliates, and a phylogenetic tree was constructed using 16 common genes. We chose the nad4 and nad7 genes to design specific PCR primers for identification. P. persalinus and U. marinum were found to have a close evolutionary relationship. Although codon preferences were similar, differences were observed in the usage of codons such as CGA, CGC, and GTC. Both Ka/Ks and p-distance were less than 1. Except for yejR, ymf57, ymf67, and ymf75, the amino acid sequence similarity bet...Continue Reading

References

Mar 23, 2004·Nucleic Acids Research·Robert C Edgar
Sep 1, 2007·Diseases of Aquatic Organisms·L PuigF Padrós
Apr 10, 2008·Molecular Biology and Evolution·David Posada
Apr 16, 2010·Diseases of Aquatic Organisms·Iva DykováHana Pecková
May 11, 2010·Genomics, Proteomics & Bioinformatics·Dapeng WangJun Yu
Jul 14, 2010·Bioinformatics·Lionel GuySiv G E Andersson
Feb 24, 2012·Systematic Biology·Fredrik RonquistJohn P Huelsenbeck
May 25, 2012·BMC Genomics·Jason R GrantPaul Stothard
Sep 18, 2012·Molecular Phylogenetics and Evolution·Matthias BerntPeter F Stadler
Jun 15, 2013·Developmental and Comparative Immunology·María Carla PiazzonJesús Lamas
Jun 19, 2013·Veterinary Pathology·M F StidworthyS M Thornton
Oct 18, 2013·Molecular Biology and Evolution·Koichiro TamuraSudhir Kumar
Jul 14, 2017·Journal of Ginseng Research·Guisheng LiDeok-Chun Yang
Jul 18, 2017·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Jaipal S ChoudharyChandra S Prabhakar
Jun 28, 2019·Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases·Teivi LaurimäeUrmas Saarma

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