Genetic Diversity and Population Structure in Solanum nigrum Based on Single-Nucleotide Polymorphism (SNP) Markers

Solanum nigrum is a noxious weed in agricultural ecosystem that limits many crops’ production. The aim of the present study was to understand level genetic diversity and population structure S. China. A specific-locus amplified fragment (SLAF) sequencing method conducted detect single-nucleotide polymorphisms (SNPs) genomes from 66 populations total 616,533 high-quality SNPs were identified 189,840 SLAFs, with an average depth 10.59× fold Q30 value 93% GC content 42.78%. It showed considerable amount variability among samples. differentiation indicated there low (Fst < 0.1000) geographical populations. cluster analysis divided into two subgroups, some samples adjacent position roughly clustered together, which correlation between geographic origins. suggested could have originated three different clusters. Xinjiang site only location where all clusters found, these genetically diverse. These results high degree difference nigrum. SNP markers wide exists China, may contribute adaptation infestation this species.