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. 2022 May 18;43(3):423–441. doi: 10.24272/j.issn.2095-8137.2021.379

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Editorial Office of Zoological Research, Kunming Institute of Zoology, Chinese Academy of Sciences

This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Differences in PERV sequence diversity, copy number of PERVs with transposable potentiality and TIPs between Chinese and Western pig breeds

A: Sequence diversity of PERVs without LTRs in Eurasian pig breeds. The number of k-mer types in the reads aligned to PERVs without LTRs can reflect the sequence diversity of PERVs. The left venn diagram shows the numbers of specific k-mer types of PERVs not shared and common k-mer types of PERVs shared between all Chinese and Western pigs; the middle one shows the relation between Chinese and Western domestic pigs; the right one shows the relation between Chinese and Western wild boars. B: The percentage of PERVs with transposable potentiality in 63 Chinese and Western pigs. The above bar plot with pink background shows the percentage of seven PERVs with complete gag, pol, and env ORF in all Chinese (32) and Western (31) pigs. The bar plot below with green background shows the percentage of four PERVs with incomplete gene structure but with complete pol ORF in all Chinese and Western pigs. C: Total copy number of eleven PERVs with transposition potentialities in different pig breeds. D: PERV TIPs in ten Chinese and Western pig breeds. The left horizontal bar plot shows the total number of PERV TIPs in each pig breed. The top bar plot shows the number of PERV TIPs for each intersection. Only 86 all breed-common, 6 Chinese pig breed-common, 6 Western pig breed-common, and 150 breed-specific TIP loci are showed.