Genetic Structure and Morphometric Variation among Fragmented Michigan Wild Rice Populations

Diller, Sara N.; McNaught, Andrew S; Swanson, Bradley Jay; Dannenhoffer, Joanne M.; Ogren, Stephanie A.

doi:10.1007/s13157-018-1029-2

Cited by 3 publications

(6 citation statements)

References 56 publications

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“…In this study, Cultivated and Natural Stand collections are genetically distinct from one another based on PCA (Figure 2a), UPGMA tree (Figure S2), and STRUCTURE analysis (Figure 3). These findings indicate that there is little to no gene flow between these two groups (with the exception of Phantom Lake), agreeing with previous diversity studies in NWR using different marker systems (Lu et al, 2005; Kahler et al, 2014; Diller et al, 2018). Limited gene flow in NWR is further supported by recent pollen-mediated gene flow studies that estimated the majority of NWR pollen only travels short distances (7 m) (Gietzel et al, 2021).…”

Section: Discussionsupporting

confidence: 92%

“…In this study, we used GBS to genotype a diverse collection of NWR individuals representing wild populations from across its native range and time as well as cultivated materials from the UMN NWR breeding program. Compared to previous studies based on isozymes (Lu et al, 2005), AFLPs (Diller et al, 2018), and SSRs (Kahler, 2010, Kahler et al, 2014, we generated orders of magnitude more markers. Our expectation was that we would be able to discern fine-scale population structure and reaffirm previous findings due to the scale of our genotyping data.…”

Section: Discussionmentioning

confidence: 99%

“…Biologists and conservationists have widely recognized the value of characterizing genome-wide diversity within a species for use in conservation efforts (Sgro et al, 2011; Santamaria, 2012). However, such studies in NWR have been limited and have heavily relied on outdated molecular marker systems (Lu et al, 2005; Kahler et al, 2014; Diller et al, 2018), which are laborious to produce and often limited in number (Collard et al, 2005). The advent of low-cost high-throughput sequencing has revolutionized the ability to characterize the genetic diversity in large germplasm collections through genotyping-by-sequencing (GBS) technologies, which produce prolific numbers of co-dominant, single-nucleotide polymorphism (SNP) markers (Elshire et al, 2011).…”

Section: Introductionmentioning

confidence: 99%

“…Biologists and conservationists have widely recognized the value of characterizing genome-wide diversity within a species for use in conservation efforts 22,23 . However, few such studies have been conducted for NWR, and molecular studies have heavily relied on obsolete marker systems 5,24,25 , which are laborious to produce and often limited in number 26 . The advent of low-cost high-throughput sequencing, such as genotyping-by-sequencing (GBS), which provides genome-wide coverage of codominant, single-nucleotide polymorphism (SNP) markers, has improved the genetic diversity characterization of extensive and complex germplasm collections 27 .…”

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustrisL.)

Haas

McGilp

Shao

et al. 2022

Preprint

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Northern Wild Rice (NWR; Zizania palustris L.) is an aquatic annual grass with significant ecological, cultural, and economic importance to the Great Lakes region of the United States and Canada. Understanding the genetic diversity of NWR is essential to conservation efforts. In this study, we assembled and genotyped a diverse collection of 789 NWR individuals using genotyping-by-sequencing and obtained 5,955 single-nucleotide polymorphisms (SNPs). Our collection consisted of samples from 12 wild NWR populations, some of which were collected temporally, a representative sampling of cultivated NWR germplasm, and a Zizania aquatica population (outgroup). Using these data, we characterized the genetic diversity, relatedness, and population structure of this broad collection of NWR genotypes. We found that wild populations of NWR clustered primarily by their lake or river of origin as well as larger clustering patterns based on watershed assignment. Contextualizing some clustering patterns with historical knowledge of ecosystem management helped to unravel some of the complexity of the population structure of wild populations. Cultivated materials were genetically distinct from wild populations, suggesting limited gene flow between the semi-domesticated crop and its wild counterparts. Estimates of linkage disequilibrium (LD) in NWR demonstrated that LD decays quickly across the genome and provided insights into the quality of the reference genome assembly of NWR. The first genome-wide scans of putative selection events in cultivated NWR were also evaluated. Overall, this study presents a large set of new SNP markers for use in NWR genetic studies as well as new insights into the gene flow, history, and complexity of wild and cultivated populations of NWR.

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Section: Discussionsupporting

confidence: 92%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustrisL.)

Haas

McGilp

Shao

et al. 2022

Preprint

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“…Carp management is especially recommended for restoring species that are sensitive to carp and of high conservation concern. For example, Z. palustris showed high vulnerability to carp and is a flagship species for conservation because of its ecological and cultural importance and declines throughout its range due to multiple stressors (Diller, McNaught, Swanson, Dannenhoffer, & Ogren, 2018; Pastor et al., 2017). In addition, carp control may have the ancillary benefit of reducing dominance by aquatic invasive plants, providing an opportunity for integrated management across multiple guilds of aquatic invasive species.…”

Section: Discussionmentioning

confidence: 99%

An invasive fish promotes invasive plants in Minnesota lakes

2020

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1. Biological invasions can greatly alter ecological communities, affecting not only the diversity and abundance but also composition of invaded assemblages. This is because invaders' impacts are mediated by characteristics of resident species: some may be highly sensitive to invader impacts while others are unaffected or even facilitated. In some cases, this can result in invasive species promoting further invasions; in particular, herbivory by introduced animals has been shown to disproportionately harm native plants, which can indirectly benefit non-native plants. Here, we investigated whether such patterns emerged through the effects of an invasive fish species on lake plant communities. 2. Specifically, we tested whether invasion of Minnesota (U.S.A.) lakes by Cyprinus carpio (common carp), an omnivorous, benthivorous fish known to reduce abundance and richness of aquatic plants, differentially affected native versus nonnative plant species. We applied statistical models to a large, long-term monitoring dataset (206 macrophyte taxa recorded in 913 lakes over a 20-year time period) to test whether carp altered community composition, to identify which macrophyte species were most sensitive to carp and determine whether species characteristics predicted carp sensitivity, and to characterise consequences of carp invasion on lake-level vegetation attributes. 3. We found that carp exerted strong selective pressure on community composition. Native macrophytes, those with a more aquatic growth form, and those considered less tolerant of disturbance (i.e. higher coefficients of conservatism) were more sensitive to carp. Conversely, no introduced macrophytes exhibited sensitivity to carp and all had higher probabilities of occurrence as carp abundance increased. The net effect of carp invasion was a shift toward less species-rich plant communities characterised by more non-native and disturbance-tolerant species. 4. These results have several implications for conservation and management. First, they reinforce the need to prevent further spread of carp outside of their native range. Where carp have already established, their control should be incorporated into efforts to restore aquatic vegetation; this may be an essential step for recovering particular plant species of high conservation importance. Furthermore, reducing carp abundance could have ancillary benefits of reducing dominance by | 1609 LARKIN et AL.

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Modeling habitat suitability of wild rice (Zizania spp.) to inform restoration efforts in Michigan, U.S.A.

Panda,

Lishawa,

Tallant

et al. 2024

Restoration Ecology

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Wild rice (Zizania aquatica and Zizania palustris) has been an integral component of Michigan wetlands for thousands of years, but is disappearing today due to habitat loss. Identifying suitable habitats and associated environmental conditions for wild rice viability is a critical step toward guiding ongoing restoration efforts statewide. To this end, we used maximum entropy (Maxent), a presence‐only species distribution model, to characterize habitat preferences of wild rice in Michigan and identify suitable habitats for restoration. Extant wild rice occurrences were mapped alongside 11 environmental variables using Maxent to determine probabilities of occurrence throughout the state. The Maxent model (AUC > 0.9) predicted the highest probabilities of wild rice occurrence in the western and southwestern regions of the state. Climatic variables, biotic interactions, and anthropogenic disturbances were all found to influence wild rice occurrence, with land cover, lower May precipitation, and minimum winter temperatures having the highest contributions to model predictions. The results of this study suggest that statewide restoration of wild rice in Michigan may be possible, although localized differences in environmental conditions should be accounted for when selecting restoration sites. With further refinement and the inclusion of more key environmental predictors of wild rice viability, habitat suitability models such as the one created in this study may be powerful and effective tools in guiding wild rice restoration efforts nationally.

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Genetic Structure and Morphometric Variation among Fragmented Michigan Wild Rice Populations

Cited by 3 publications

References 56 publications

Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustrisL.)

Towards Stewardship of Wild Species and Their Domesticated Counterparts: A Case Study in Northern Wild Rice (Zizania palustrisL.)

An invasive fish promotes invasive plants in Minnesota lakes

Modeling habitat suitability of wild rice (Zizania spp.) to inform restoration efforts in Michigan, U.S.A.

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