期刊
PARASITOLOGY
卷 149, 期 13, 页码 1709-1719出版社
CAMBRIDGE UNIV PRESS
DOI: 10.1017/S0031182022001184
关键词
Mitogenome; Paragonimidae; Paragonimus skrjabini miyazakii; phylogenetic analysis; repeat units; skewness value; Troglotremata
类别
资金
- Vietnam National Foundation for Science and Technology Development (NAFOSTED) [108.02-2020.07]
The complete circular mitogenome of Paragonimus skrjabini miyazakii has been obtained, and the differences in base usage patterns and codon frequencies among different Paragonimus species have been revealed.
The complete circular mitogenome of Paragonimus skrjabini miyazakii (Platyhelminthes: Paragonimidae) from Japan, obtained by PacBio long-read sequencing, was 17 591 bp and contained 12 protein-coding genes (PCGs), 2 mitoribosomal RNA and 22 transfer RNA genes. The atp8 gene was absent, and there was a 40 bp overlap between nad4L and nad4. The long non-coding region (4.3 kb) included distinct types of long and short repeat units. The pattern of base usage for PCGs and the mtDNA coding region overall in Asian and American Paragonimus species (P. s. miyazakii, P. heterotremus, P. ohirai and P. kellicotti) and the Indian form of P. westermani was T > G > A > C. On the other hand, East-Asian P. westermani used T> G > C > A. Five Asian and American Paragonimus species and P. westermani had TIT/Phe, TTG/Leu and GTT/Val as the most frequently used codons, whereas the least-used codons were different in each species and between regional forms of P. westermani. The phylogenetic tree reconstructed from a concatenated alignment of amino acids of 12 PCGs from 36 strains/26 species/5 families of trematodes confirmed that the Paragonimidae is monophyletic, with 100% nodal support. Paragonimus skrjabini miyazakii was resolved as a sister to P. heterotrernus. The P. westermani lade was clearly separate from remaining congeners. The latter Glade was comprised of 2 subclades, one of the East-Asian and the other of the Indian Type 1 samples. Additional mitogenomes in the Paragonimidae are needed for genomic characterization and are useful for diagnostics, identification and genetic/ phylogenetic/ epidemiological/ evolutionary studies of the Paragonimidae.
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