Journal: Applications in Plant Sciences

Abbreviation

Appl. Plant Sci.

Publisher

Wiley

Journal Volumes

ISSN

2168-0450

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2014 - 201942020 - 20241
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Publications 1 - 5 of 5
  • Characterization Of Microsatellite Loci In Lichen-Forming Fungi Of Bryoria Section Implexae (Parmeliaceae)
    Item type: Journal Article
    Nadyeina, Olga; Cornejo, Carolina; Boluda, Carlos G.; et al. (2014)
    Applications in Plant Sciences
    • Premise of the study: The locally rare, haploid, lichen‐forming fungi Bryoria capillaris, B. fuscescens, and B. implexa are associated with boreal forests and belong to Bryoria sect. Implexae. Recent phylogenetic studies consider them to be conspecific. Microsatellite loci were developed to study population structure in Bryoria sect. Implexae and its response to ecosystem disturbances. • Methods and Results: We developed 18 polymorphic microsatellite markers using 454 pyrosequencing data assessed in 82 individuals. The number of alleles per locus ranged from two to 13 with an average of 4.6. Nei's unbiased gene diversity, averaged over loci, ranged from 0.38 to 0.52. The markers amplified with all three species, except for markers Bi05, Bi15, and Bi18. • Conclusions: The new markers will allow the study of population subdivision, levels of gene introgression, and levels of clonal spread of Bryoria sect. Implexae. They will also facilitate an understanding of the effects of forest disturbance on genetic diversity of these lichen species.
  • Characterization Of Fungus-Specific Microsatellite Markers In The Lichen Fungus Usnea Subfloridana (Parmeliaceae)
    Item type: Journal Article
    Torra, Tiiu; Cornejo, Carolina; Cheenacharoen, Saran; et al. (2014)
    Applications in Plant Sciences
    • Premise of the study: Microsatellite loci were developed for the haploid lichenized fungal species Usnea subfloridana to study its population subdivision and the species’ response to forest disturbance, fragmentation, and environmental pollution. • Methods and Results: We developed 14 polymorphic microsatellite markers using 454 pyrosequencing data of U. subfloridana. The number of alleles per locus ranged from three to 15, and Nei's unbiased gene diversity averaged over nine markers without null alleles ranged from 0.64 to 0.67. Evaluation of the cross‐species amplification in U. glabrescens and U. wasmuthii indicates that these markers are also informative in other Usnea species. • Conclusions: These markers will allow us to investigate the effects of forest management and environmental pollution on genetic population structure of U. subfloridana and closely related species. Moreover, they will help facilitate phylogeographic studies of U. subfloridana across the species’ distribution area in Europe.
  • Seed classification with random forest models
    Item type: Journal Article
    Reek, Josephine Elena; Hille Ris Lambers, Janneke; Perret, Eleonore; et al. (2024)
    Applications in Plant Sciences
    Premise: To improve forest conservation monitoring, we developed a protocol to automatically count and identify the seeds of plant species with minimal resource requirements, making the process more efficient and less dependent on human operators. Methods and Results: Seeds from six North American conifer tree species were separated from leaf litter and imaged on a flatbed scanner. In the most successful species-classification approach, an ImageJ macro automatically extracted measurements for random forest classification in the software R. The method allows for good classification accuracy, and the same process can be used to train the model on other species. Conclusions: This protocol is an adaptable tool for efficient and consistent identification of seed species or potentially other objects. Automated seed classification is efficient and inexpensive, making it a practical solution that enhances the feasibility of large-scale monitoring projects in conservation biology.
  • Characterization Of Microsatellite Loci In The Himalayan Lichen Fungus Lobaria Pindarensis (Lobariaceae)
    Item type: Journal Article
    Devkota, Shiva; Cornejo, Carolina; Werth, Silke; et al. (2014)
    Applications in Plant Sciences
    • Premise of the study: Microsatellite loci were developed for the rare, Himalayan, endemic haploid lichen fungus, Lobaria pindarensis, to study its population subdivision and the species’ response to forest disturbance and fragmentation. • Methods and Results: We developed 18 polymorphic microsatellite markers using 454 pyrosequencing data and assessed them in 109 individuals. The number of alleles per locus ranged from three to 11 with an average of 6.9. Nei's unbiased gene diversity, averaged over loci, ranged from 0.514 to 0.685 in the three populations studied. The cross‐amplification success with related species (L. chinensis, L. gyrophorica, L. isidiophora, L. orientalis, L. pulmonaria, L. spathulata, and Lobaria sp.) was generally high and decreased with decreasing relationship to L. pindarensis. • Conclusions: The new markers will allow the study of genetic diversity and differentiation within L. pindarensis across its distribution. Moreover, they will enable us to study the effects of forest management on the genetic population structure of this tree‐colonizing lichen and to carry out population genetic studies of related species in East Asia.
  • Development of 12 Polymorphic Microsatellite Loci for the Endangered Seychelles Palm Lodoicea maldivica (Arecaceae)
    Item type: Journal Article
    Morgan, Emma J.; Määttänen, Kirsti; Kaiser-Bunbury, Christopher N.; et al. (2016)
    Applications in Plant Sciences
    Premise of the study: The evolutionarily and ecologically distinct coco de mer palm Lodoicea maldivica (Arecaceae) is endemic to two islands in the Seychelles. Before colonization of the islands by man, the endangered palm formed large monodominant stands, but its natural range is now restricted to four main populations and several patches of isolated individuals. Microsatellite markers were designed to investigate the genetic structure of the remaining natural populations of L. maldivica. Methods and Results: We developed 12 polymorphic and three monomorphic microsatellite markers for this species, with a mean number of alleles per locus of 13.2 (range 5–21) and expected heterozygosity values ranging from 0.31–0.91 for the polymorphic loci. Conclusions: These markers enable us to study the patterns of genetic diversity, contemporary seed dispersal, and the fine‐scale spatial genetic structure of this important conservation flagship species.
Publications 1 - 5 of 5