Aaron Duffy

Journal Article American journal of botany · September 2024 PremiseSphagnum magellanicum (Sphagnaceae, Bryophyta) has been considered to be a single semi-cosmopolitan species, but recent molecular analyses have shown that it comprises a complex of at least seven reciprocally monophyletic groups, that are d ... Full text Cite

Parallel patterns of genetic diversity and structure in circumboreal species of the Sphagnum capillifolium complex.

Journal Article American journal of botany · May 2024 PremiseShared geographical patterns of population genetic variation among related species is a powerful means to identify the historical events that drive diversification. The Sphagnum capillifolium complex is a group of closely related peat mosse ... Full text Cite

The Sphagnum cuspidatum complex: phylogeny, species delimitation, and morphology

Journal Article Biological Journal of the Linnean Society · April 1, 2024 The use of species as a concept is an important metric for assessing biological diversity and ecosystem function. However, delimiting species based on morphological characters can be difficult, especially in aquatic plants that exhibit high levels of varia ... Full text Cite

Divergent selection and climate adaptation fuel genomic differentiation between sister species of Sphagnum (peat moss).

Journal Article Annals of botany · November 2023 Background and aimsNew plant species can evolve through the reinforcement of reproductive isolation via local adaptation along habitat gradients. Peat mosses (Sphagnaceae) are an emerging model system for the study of evolutionary genomics and hav ... Full text Cite

Clonality, local population structure and gametophyte sex ratios in cryptic species of the Sphagnum magellanicum complex.

Journal Article Annals of botany · October 2023 Background and aimsSphagnum (peatmoss) comprises a moss (Bryophyta) clade with ~300-500 species. The genus has unparalleled ecological importance because Sphagnum-dominated peatlands store almost a third of the terrestrial carbon pool and peatmoss ... Full text Cite

Sphagnum diabolicum sp. nov. and S. magniae sp. nov.; morphological variation and taxonomy of the "S. magellanicum complex"

Journal Article Bryologist · February 20, 2023 Until a few years ago, Sphagnum magellanicum was understood to be a single widespread species with an intercontinental range. Recent work by Norwegian sphagnologists showed that S. magellanicum s.str. is restricted to southern South America and plants know ... Full text Cite

Newly identified sex chromosomes in the Sphagnum (peat moss) genome alter carbon sequestration and ecosystem dynamics.

Journal Article Nature plants · February 2023 Peatlands are crucial sinks for atmospheric carbon but are critically threatened due to warming climates. Sphagnum (peat moss) species are keystone members of peatland communities where they actively engineer hyperacidic conditions, which improves their co ... Full text Cite

Phylogenomic structure and speciation in an emerging model: the Sphagnum magellanicum complex (Bryophyta).

Journal Article The New phytologist · November 2022 Sphagnum magellanicum is one of two Sphagnum species for which a reference-quality genome exists to facilitate research in ecological genomics. Phylogenetic and comparative genomic analyses were conducted based on resequencing data from 48 samples and RADs ... Full text Cite

Demographic history and gene flow in the peatmosses Sphagnum recurvum and Sphagnum flexuosum (Bryophyta: Sphagnaceae).

Journal Article Ecology and evolution · November 2022 Population size changes and gene flow are processes that can have significant impacts on evolution. The aim of this study was to investigate the relationship of geography to patterns of gene flow and population size changes in a pair of closely related ... Full text Cite

Heterogeneous genetic structure in eastern North American peat mosses (Sphagnum)

Journal Article Biological Journal of the Linnean Society · April 1, 2022 Bryophytes generally have broad geographical ranges that suggest high dispersal ability. The aim of this study was to test hypotheses about dispersal limitation, as indicated by isolation by distance, in four spore-producing species of the moss genus Sphag ... Full text Cite

Morphological-molecular incongruence in Sphagnum majus ssp. majus and ssp. norvegicum

Journal Article Bryologist · April 1, 2022 Species delimitation is problematic in many plant groups and among the mosses, Sphagnum is one of the more contentious genera because of high levels of morphological variation. The allopolyploid species, Sphagnum majus, comprises one such problematic compl ... Full text Cite

Phylogenetic structure in the Sphagnum recurvum complex (Bryophyta) in relation to taxonomy and geography.

Journal Article American journal of botany · September 2020 PremiseThe Sphagnum recurvum complex comprises a group of closely related peat mosses that are dominant components of many northern wetland ecosystems. Taxonomic hypotheses for the group range from interpreting the whole complex as one polymorphic ... Full text Cite

Multi-year professional development grounded in educative curriculum focused on integrating technology with reformed science teaching principles

Journal Article Sch. Sci. Math. · December 2016 Visions of science teaching and learning in the newest U.S. standards documents are dramatically different than those found in most classrooms. This research addresses these differences through closely examining one professional development (PD) project th ... Cite

Independent gametophytes of Hymenophyllum wrightii in North America: not as rare as we thought

Journal Article Am. Fern J. · 2015 Abstract Hymenophyllum wrightii is a filmy fern known primarily from Japan and Korea. In North America, it is known as a sporophyte only in Haida Gwaii (Queen Charlotte Islands), British Columbia, Canada. Rare independent, filmy fern gametophytes found fro ... Cite

Between two fern genomes

Journal Article Gigascience · September 2014 Ferns are the only major lineage of vascular plants not represented by a sequenced nuclear genome. This lack of genome sequence information significantly impedes our ability to understand and reconstruct genome evolution not only in ferns, but across all l ... Open Access Cite

Genotyping-by-sequencing for Populus population genomics: an assessment of genome sampling patterns and filtering approaches

Journal Article PLoS One · April 2014 Continuing advances in nucleotide sequencing technology are inspiring a suite of genomic approaches in studies of natural populations. Researchers are faced with data management and analytical scales that are increasing by orders of magnitude. With such dr ... Cite

Science teaching orientations and technology-enhanced tools for student learning

Journal Article Res. Bull. Fac. Educ. Welf. Sci. Oita Univ. · October 2013 This qualitative study examines teacher orientations and technology-enhanced tools for student learning within a science literacy framework. Data for this study came from a group of 10 eighth grade science teachers. Each of these teachers was a participant ... Cite

Ecological investigations within an interactive plant community simulation

Journal Article Science Scope · 2013 Cite

Enabling behavior reuse in development of virtual environment applications

Conference Simulation Conference (WSC), Proceedings of the 2012 Winter · December 2012 Virtual environments (VEs) provide simulated 3D spaces in which users can interact, collaborate, and visualize in real time. Accordingly, virtual environments have the potential to transform education, creating classrooms that ignore geographic boundaries ... Cite

Phylogeny of a neotropical clade in the Gesneriaceae: more tales of convergent evolution

Journal Article Int. J. Plant Sci. · October 2012 The Gesneriaceae is a family known for convergent evolution of complex floral forms. As a result, defining genera and resolving evolutionary relationships among such genera using morphological data alone has been challenging and often does not accurately r ... Cite

Investigating human impact in the environment with faded scaffolded inquiry supported by technologies

Journal Article Science Activities: Classroom Projects and Curriculum Ideas · 2012 ABSTRACT Teaching science as inquiry is advocated in all national science education documents and by leading science and science teaching organizations. In addition to teaching science as inquiry, we recognize that learning experiences need to connect to s ... Cite

Promotion of hepatocarcinogenesis by perfluoroalkyl acids in rainbow trout

Journal Article Toxicol. Sci. · October 2011 Previously, we reported that perfluorooctanoic acid (PFOA) promotes liver cancer in a manner similar to that of 17β-estradiol (E2) in rainbow trout. Also, other perfluoroalkyl acids (PFAAs) are weakly estrogenic in trout and bind the trout liver estrogen r ... Cite

The evolution of chloroplast genes and genomes in ferns

Journal Article Plant molecular biology · 2011 Open Access Cite

Complete plastome sequences of Equisetum arvense and Isoetes flaccida: implications for phylogeny and plastid genome evolution of early land plant lineages

Journal Article BMC Evol. Biol. · October 2010 BACKGROUND: Despite considerable progress in our understanding of land plant phylogeny, several nodes in the green tree of life remain poorly resolved. Furthermore, the bulk of currently available data come from only a subset of major land plant clades. He ... Cite

Learning with web tools, simulations, and other technologies in science classrooms

Journal Article J. Sci. Educ. Technol. · October 2010 This position paper proposes the enhancement of teacher and student learning in science classrooms by tapping the enormous potential of information communication and technologies (ICTs) as cognitive tools for engaging students in scientific inquiry. This p ... Cite

The evolution of chloroplast genome structure in ferns

Journal Article Genome · September 2010 The plastid genome (plastome) is a rich source of phylogenetic and other comparative data in plants. Most land plants possess a plastome of similar structure. However, in a major group of plants, the ferns, a unique plastome structure has evolved. The gene ... Cite

Chloroplast genome sequence of the moss Tortula ruralis: gene content, polymorphism, and structural arrangement relative to other green plant chloroplast genomes

Journal Article BMC Genomics · February 2010 BACKGROUND: Tortula ruralis, a widely distributed species in the moss family Pottiaceae, is increasingly used as a model organism for the study of desiccation tolerance and mechanisms of cellular repair. In this paper, we present the chloroplast genome seq ... Cite

Phylogenetic use of inversions in fern chloroplast genomes

Journal Article Am. Fern J. · April 2009 Cite

Conservation of selection on matK following an ancient loss of its flanking intron

Journal Article Gene · February 2009 The chloroplast gene trnK and its associated group II intron appear to be absent in a large and ancient clade that includes nearly 90% of fern species. However, the maturase protein encoded within the intron (matK) is still present and located on the bound ... Cite