Inbreeding, low genetic diversity, and spatial genetic structure in the endemic Hawaiian lobeliads Clermontia fauriei and Cyanea pilosa ssp. longipedunculata

Jennings, Heather; Wallin, Kelly; Brennan, John T.; Vallé, Antonio Del; Guzman, Aidee; Hein, Daniel; Hunter, Steven; Lewandowski, Abby; Olson, Stephaney; Parsons, Haley; Scheidt, Samantha; Wang, Zhezhen; Werra, Andrew; Kartzinel, Rebecca Y.; Givnish, Thomas J.

doi:10.1007/s10592-015-0785-2

Cited by 15 publications

(11 citation statements)

References 26 publications

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“…Due to the agglomeration of plants in the same location, pollinating insects usually visit inflorescences of the same plant and nearby plants. The low genetic diversity identified in this study may be associated with the cross between related individuals (Jennings et al, 2016).…”

Section: Discussionmentioning

confidence: 80%

Research Article Assessment of genetic diversity of a native population of Eplingiella fruticosa: a plant with therapeutic potential.

et al. 2017

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ABSTRACT. Eplingiella fruticosa (Salzm. ex Benth.) Harley & J.F.B. Pastore, ex Hyptis fruticosa Salzm. ex Benth. is an aromatic and medicinal plant of the family Lamiaceae, found mainly in regions with intense anthropic activity. Information on the genetic diversity of this species is scarce. However, it can be assessed using molecular markers that identify the level of diversity among phenotypically identical individuals. The present study aimed to characterize the genetic diversity of a native population of E. fruticosa from the State of Sergipe using ISSR molecular markers. Samples of 100 plants were collected in 11 municipalities of the State of Sergipe and analyzed using eight ISSR primers, resulting in 72 informative bands. The cluster analysis obtained using the neighbor joining method resulted in three groups: Group I consisted of 50 plants, mainly from the municipalities of Areia Branca, Estância, Japaratuba, Moita Bonita, Pirambu, and Salgado; Group II was .250), and the greatest distance occurred between plants EPF50 and EPF96 (0.9778). The Shannon index had a mean value of 0.42, and diversity was considered moderate. Heterozygosity had a mean value of 0.267 and was considered low. Polymorphic information content (0.253) was considered moderately informative. Genetic diversity of E. fruticosa plants was intermediate, and the results of the present study can assist in the conservation and use of the genetic resources of this species.

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Section: Discussionmentioning

confidence: 80%

Research Article Assessment of genetic diversity of a native population of Eplingiella fruticosa: a plant with therapeutic potential.

et al. 2017

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“…The genetic diversity of R. cyanocarpum (0.0634–0.0683 with all loci, 0.0682–0.0730 with neutral loci) was higher compared with previous studies on other plant species using ddRAD sequencing. For example, a much lower level was found in endangered Viola uliginosa (0.013–0.023) ( Lee et al, 2020 ), Clermontia fauriei (0.0014), and Cyanea pilosa (0.0012) populations ( Jennings et al, 2016 ); we are not aware of other studies on rhododendrons using ddRAD-seq. We can therefore conclude that genetic diversity in Rhododendron cyanocarpum is higher despite its small population size.…”

Section: Discussionmentioning

confidence: 98%

Conservation Genomics of a Threatened Rhododendron: Contrasting Patterns of Population Structure Revealed From Neutral and Selected SNPs

et al. 2020

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Though it is well-acknowledged that next generation sequencing (NGS) technologies can provide further insights into plant conservation management than traditional molecular markers, studies employing NGS to address conservation genomics and subsequent conservation strategies for threatened plants are still rare. Rhododendron is the largest genus of woody plants in China, and many species are threatened, however, to date there has been no conservation genetic research using NGS in this genus. In the present study, we investigated the conservation genetics of R. cyanocarpum , a threatened species endemic to the Cangshan Mountains in Yunnan, China, using a double digest restriction-site-associated DNA-sequencing (ddRAD-seq) approach. Due to the availability of sufficient SNPs, we were able to distinguish between neutral and putatively selected SNPs and were able to further investigate the genetic diversity, population structure, and differentiation in R. cyanocarpum , as well as make an estimation of its demographic history. A total of 6,584 SNPs were obtained, of which 5,729 were neutral (detected using Tajima’s D). In terms of the 5,729 neutral SNPs, R. cyanocarpum had a higher genetic diversity (π = 0.0702 ± 0.0017, H e = 0.0675 ± 0.0016) than other plant species assessed using Rad-seq methods, while population differentiation ( F st from 0.0314 to 0.0452) was weak. Interestingly, contrasting patterns of population structure were revealed from all neutral and selected SNPs, with distinct genetic clusters forming for all SNPs and neutral SNPs, but no distinct subgroups for selected ones. Moreover, we were able to detect changes in effective population size ( N e ) of R. cyanocarpum from 150,000 years ago, including a bottleneck event ca. 60,000 years ago, followed by recovery of N e over a short period, and a subsequent gradual decline in N e to date. Implications for conserving R. cyanocarpum based on these main results are then discussed.

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“…Estimates of nucleotide diversities from our study populations (0.013–0.023) were at an intermediate level compared with previous studies on other plant species using ddRAD sequencing. For example, much lower levels were found in endangered Hawaiian lobelioid Clermontia (0.0014) and Cyanea (0.0012) populations (Jennings et al, ) and much higher estimates were detected in endangered Indian orchids Geodorum densiflorum (0.036), Dendrobium densiflorum (0.106), and Rhynchostylis retusa (0.113). Levels similar to our study were found in Cymbidium aloifolium (0.014) (Roy, Moitra, & Sarker, ).…”

Section: Discussionmentioning

confidence: 99%

Using genomic information for management planning of an endangered perennial, Viola uliginosa

Lee

Ranta

Saarikivi

et al. 2020

Ecology and Evolution

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Species occupying habitats subjected to frequent natural and/or anthropogenic changes are a challenge for conservation management. We studied one such species, Viola uliginosa, an endangered perennial wetland species typically inhabiting sporadically flooded meadows alongside rivers/lakes. In order to estimate genomic diversity, population structure, and history, we sampled five sites in Finland, three in Estonia, and one each in Slovenia, Belarus, and Poland using genomic SNP data with double‐digest restriction site‐associated DNA sequencing (ddRAD‐seq). We found monophyletic populations, high levels of inbreeding (mean population FSNP = 0.407–0.945), low effective population sizes (Ne = 0.8–50.9), indications of past demographic expansion, and rare long‐distance dispersal. Our results are important in implementing conservation strategies for V. uliginosa, which should include founding of seed banks, ex situ cultivations, and reintroductions with individuals of proper origin, combined with continuous population monitoring and habitat management.

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Inbreeding, low genetic diversity, and spatial genetic structure in the endemic Hawaiian lobeliads Clermontia fauriei and Cyanea pilosa ssp. longipedunculata

Cited by 15 publications

References 26 publications

Research Article Assessment of genetic diversity of a native population of Eplingiella fruticosa: a plant with therapeutic potential.

Research Article Assessment of genetic diversity of a native population of Eplingiella fruticosa: a plant with therapeutic potential.

Conservation Genomics of a Threatened Rhododendron: Contrasting Patterns of Population Structure Revealed From Neutral and Selected SNPs

Using genomic information for management planning of an endangered perennial, Viola uliginosa

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