Development of microsatellite markers and a preliminary assessment of population structuring in the rice weevil, Sitophilus oryzae (L.)

Thangaraj, Sonai Rajan, McCulloch, , Graham A., Subbarayalu, Mohankumar, Subramaniam, Chandrasekaran and Walter, Gimme H. (2016) Development of microsatellite markers and a preliminary assessment of population structuring in the rice weevil, Sitophilus oryzae (L.). Journal of Stored Products Research, 66 12-17. doi:10.1016/j.jspr.2015.12.005


Author Thangaraj, Sonai Rajan
McCulloch, , Graham A.
Subbarayalu, Mohankumar
Subramaniam, Chandrasekaran
Walter, Gimme H.
Title Development of microsatellite markers and a preliminary assessment of population structuring in the rice weevil, Sitophilus oryzae (L.)
Formatted title
Development of microsatellite markers and a preliminary assessment of population structuring in the rice weevil, Sitophilus oryzae (L.)
Journal name Journal of Stored Products Research   Check publisher's open access policy
ISSN 0022-474X
1879-1212
Publication date 2016-03-01
Sub-type Article (original research)
DOI 10.1016/j.jspr.2015.12.005
Open Access Status Not Open Access
Volume 66
Start page 12
End page 17
Total pages 6
Place of publication Kidlington, Oxford, United Kingdom
Publisher Pergamon Press
Collection year 2017
Language eng
Formatted abstract
The rice weevil, Sitophilus oryzae is one of the primary pests of stored grains worldwide. To develop and implement an effective integrated pest management strategy, an understanding of the population structuring of this destructive pest is vital. In this study we used Illumina paired-end sequencing to develop S. oryzae species-specific microsatellite markers, and used these markers to conduct a preliminary assessment of population structuring in four populations of S. oryzae from three countries (Australia, China, and USA). 7,635,996 raw sequencing reads were produced, with 11,794 microsatellites detected and 214,257 primer options designed. 48 microsatellite markers were selected for further validation, with 10 markers amplifying consistently across the four S. oryzae populations. These markers displayed a high level of polymorphism overall (6.67 alleles/locus), though this was slightly lower within populations (3.10–4.88 alleles/locus). We used the markers to conduct a preliminary assessment of genetic structuring among the four S. oryzae populations: three laboratory cultures (New South Wales, Queensland, and Santai) and a field collected population from Kansas. Analyses suggest high levels of genetic differentiation between the sample locations, with a global FST of 0.239, and pairwise FST values ranging from 0.100 to 0.395. Bayesian clustering analyses suggest these four populations formed four distinct clusters, with a similar pattern identified by Principal Coordinate Analysis. These microsatellite markers, together with our preliminary population genetic analyses, will provide a valuable resource for population genetic research, and contribute to effective integrated pest management strategies in the future.
Keyword Illumina paired-end sequencing
Microsatellite markers
Population genetics
Sitophilus oryzae
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: HERDC Pre-Audit
School of Biological Sciences Publications
 
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