Development of genome-wide polymorphic microsatellite markers for Trichinella spiralis.

Abstract:

BACKGROUND:Trichinella nematodes are globally distributed food-borne pathogens, in which Trichinella spiralis is the most common species in China. Microsatellites are a powerful tool in population genetics and phylogeographic analysis. However, only a few microsatellite markers were reported in T. spiralis. Thus, there is a need to develop and validate genome-wide microsatellite markers for T. spiralis. METHODS:Microsatellites were selected from shotgun genomic sequences using MIcroSAtellite identification tool (MISA). The identified markers were validated in 12 isolates of T. spiralis in China. RESULTS:A total of 93,140 microsatellites were identified by MISA from 9267 contigs in T. spiralis genome sequences, in which 16 polymorphic loci were selected for validation by PCR with single larvae from 12 isolates of T. spiralis in China. There were 7-19 alleles per locus (average 11.25 alleles per locus). The observed heterozygosity (HO) and expected heterozygosity (HE) ranged from 0.325 to 0.750 and 0.737 to 0.918, respectively. The polymorphism information content (PIC) ranged from 0.719 to 0.978 (average 0.826). Among the 16 loci, markers for 10 loci could be amplified from all 12 international standard strains of Trichinella spp. CONCLUSIONS:Sixteen highly polymorphic markers were selected and validated for T. spiralis. Primary phylogenetic analysis showed that these markers might serve as a useful tool for genetic studies of Trichinella parasites.

journal_name

Parasit Vectors

journal_title

Parasites & vectors

authors

Li TT,Tang B,Bai X,Wang XL,Luo XN,Yan HB,Zhu HF,Jia H,Liu XL,Liu MY

doi

10.1186/s13071-020-3929-2

subject

Has Abstract

pub_date

2020-02-11 00:00:00

pages

58

issue

1

issn

1756-3305

pii

10.1186/s13071-020-3929-2

journal_volume

13

pub_type

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