Genetic structure of Spirometra mansoni (Cestoda: Diphyllobothriidae) populations in China revealed by a Target SSR-seq method

Table 5 Comparisons of the Target SSR-seq method established in the present study with other existing methods in simple sequence repeat genotyping of parasites

Category	Target SSR-Seq	AmpSeq-SSR^a	Based on whole genome sequencing^a	Based on Sanger sequencing	Traditional SSR genotyping techniques
Category	Target SSR-Seq	AmpSeq-SSR^a	Based on whole genome sequencing^a	Based on Sanger sequencing	Agarose electrophoresis	PAGE electrophoresis	Capillary electrophoresis
Number of PCR cycles	11	16	5–20	40	40	40	40
Slippage possibility^b	Very low	Low	Low	High	High	High	High
Sequencing depth	> 1000	595	5–10	NA	NA	NA	NA
Experimental procedure	Very simple	Simple	Simple	Simple	Complex	Complex	Simple
Genotyping accuracy	Very high	High	Low	Low	Very low	Low	Low
Time consumption	Short	Short	Short	Very long	Very long	Very long	Very long
Costs	Low	High	Very high	Low	Low	Low	High

PAGE Polyacylamide gel electrophoresis
^aNo report of this method being applied to the study of parasites was found, so other fields of study were referred to
^bThe greater number of the PCR cycles, the greater the possibility to incur DNA polymerase slippage

ISSN: 1756-3305