Dataset Information

Development and characterization of simple sequence repeat markers for the invasive tetraploid waterweed Elodea nuttallii (Hydrocharitaceae).

ABSTRACT: Premise of the Study:To enhance the understanding of the recent invasion process of the clonal waterweed Elodea nuttallii (Hydrocharitaceae), analyses of population structure and genotypic diversity need to be undertaken, for which genetic markers are needed. Methods and Results:High-throughput sequencing of DNA enriched for microsatellites was used to develop 24 loci that were characterized in E. nuttallii, 21 of which were polymorphic, with the number of alleles ranging from two to 10. In two populations, expected heterozygosity ranged among loci between zero and 0.796. In the congener E. canadensis, all markers yielded PCR products, 19 of which were polymorphic, with two to nine alleles and expected heterozygosity ranging from zero to 0.690 in two populations. Conclusions:The markers described should be useful for future studies of population structure and clonal diversity of E. nuttallii as well as E. canadensis in their native and invasive range.

SUBMITTER: Weickardt I

PROVIDER: S-EPMC5947605 | biostudies-literature | 2018 Apr

REPOSITORIES: biostudies-literature

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Development and characterization of simple sequence repeat markers for the invasive tetraploid waterweed <i>Elodea nuttallii</i> (Hydrocharitaceae).

Weickardt Isabell I Zehnsdorf Andreas A Durka Walter W

Applications in plant sciences 20180401 4

<h4>Premise of the study</h4>To enhance the understanding of the recent invasion process of the clonal waterweed <i>Elodea nuttallii</i> (Hydrocharitaceae), analyses of population structure and genotypic diversity need to be undertaken, for which genetic markers are needed.<h4>Methods and results</h4>High-throughput sequencing of DNA enriched for microsatellites was used to develop 24 loci that were characterized in <i>E. nuttallii</i>, 21 of which were polymorphic, with the number of alleles ra ...[more]

PMID: 30131888

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Project description:Claviceps purpurea is a pathogen that infects most members of Pooideae, a subfamily of Poaceae, and causes ergot, a floral disease in which the ovary is replaced with a sclerotium. When the ergot body is accidently consumed by either man or animal in high enough quantities, there is extreme pain, limb loss and sometimes death.This study was initiated to develop simple sequence repeat (SSRs) markers for rapid identification of C. purpurea. SSRs were designed from sequence data stored at the National Center for Biotechnology Information database. The study consisted of 74 ergot isolates, from four different host species, Lolium perenne, Poa pratensis, Bromus inermis, and Secale cereale plus three additional Claviceps species, C. pusilla, C. paspali and C.fusiformis. Samples were collected from six different counties in Oregon and Washington over a 5-year period. Thirty-four SSR markers were selected, which enabled the differentiation of each isolate from one another based solely on their molecular fingerprints. Discriminant analysis of principle components was used to identify four isolate groups, CA Group 1, 2, 3, and 4, for subsequent cluster and molecular variance analyses. CA Group 1 consisting of eight isolates from the host species P. pratensis, was separated on the cluster analysis plot from the remaining three groups and this group was later identified as C. humidiphila. The other three groups were distinct from one another, but closely related. These three groups contained samples from all four of the host species. These SSRs are simple to use, reliable and allowed clear differentiation of C. humidiphila from C. purpurea. Isolates from the three separate species, C. pusilla, C. paspali and C.fusiformis, also amplified with these markers.The SSR markers developed in this study will be helpful in defining the population structure and genetics of Claviceps strains. They will also provide valuable tools for plant breeders needing to identify resistance in crops or for researchers examining fungal movements across environments.

Dataset Information

Development and characterization of simple sequence repeat markers for the invasive tetraploid waterweed Elodea nuttallii (Hydrocharitaceae).

Publications

Development and characterization of simple sequence repeat markers for the invasive tetraploid waterweed <i>Elodea nuttallii</i> (Hydrocharitaceae).

Similar Datasets

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