Now showing items 1-20 of 23

    • Abrupt deceleration of molecular evolution linked to the origin of arborescence in ferns. 

      Korall, Petra; Schuettpelz, Eric; Pryer, Kathleen M (Evolution; international journal of organic evolution, 2010-09)
      Molecular rate heterogeneity, whereby rates of molecular evolution vary among groups of organisms, is a well-documented phenomenon. Nonetheless, its causes are poorly understood. For animals, generation time is frequently ...
    • An Exploration into Fern Genome Space. 

      Wolf, Paul G; Sessa, Emily B; Marchant, Daniel Blaine; Li, Fay-Wei; Rothfels, Carl J; Sigel, Erin M; Gitzendanner, Matthew A; ... (13 authors) (Genome Biol Evol, 2015-08-26)
      Ferns are one of the few remaining major clades of land plants for which a complete genome sequence is lacking. Knowledge of genome space in ferns will enable broad-scale comparative analyses of land plant genes and genomes, ...
    • Between two fern genomes. 

      Sessa, Emily B; Banks, Jo Ann; Barker, Michael S; Der, Joshua P; Duffy, Aaron M; Graham, Sean W; Hasebe, Mitsuyasu; ... (19 authors) (Gigascience, 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 ...
    • Deciding among green plants for whole genome studies. 

      Pryer, Kathleen M; Schneider, Harald; Zimmer, Elizabeth A; Ann Banks, Jo (Trends in plant science, 2002-12)
      Recent comparative DNA-sequencing studies of chloroplast, mitochondrial and ribosomal genes have produced an evolutionary tree relating the diversity of green-plant lineages. By coupling this phylogenetic framework to the ...
    • Evidence for a Cenozoic radiation of ferns in an angiosperm-dominated canopy. 

      Schuettpelz, Eric; Pryer, Kathleen M (Proceedings of the National Academy of Sciences of the United States of America, 2009-07)
      In today's angiosperm-dominated terrestrial ecosystems, leptosporangiate ferns are truly exceptional--accounting for 80% of the approximately 11,000 nonflowering vascular plant species. Recent studies have shown that this ...
    • Evolutionary relationships within the Neotropical, eusporangiate fern genus Danaea (Marattiaceae). 

      Christenhusz, MJ; Tuomisto, H; Metzgar, JS; Pryer, KM (Molecular phylogenetics and evolution, 2008-01)
      Genera within the eusporangiate fern family Marattiaceae have long been neglected in taxonomic and systematic studies. Here we present the first phylogenetic hypothesis of relationships within the exclusively Neotropical ...
    • Fern genomes elucidate land plant evolution and cyanobacterial symbioses. 

      Li, Fay-Wei; Brouwer, Paul; Carretero-Paulet, Lorenzo; Cheng, Shifeng; de Vries, Jan; Delaux, Pierre-Marc; Eily, Ariana; ... (42 authors) (Nature plants, 2018-07-02)
      Ferns are the closest sister group to all seed plants, yet little is known about their genomes other than that they are generally colossal. Here, we report on the genomes of Azolla filiculoides and Salvinia cucullata ...
    • Ferns diversified in the shadow of angiosperms. 

      Schneider, Harald; Schuettpelz, Eric; Pryer, Kathleen M; Cranfill, Raymond; Magallón, Susana; Lupia, Richard (Nature, 2004-04)
      The rise of angiosperms during the Cretaceous period is often portrayed as coincident with a dramatic drop in the diversity and abundance of many seed-free vascular plant lineages, including ferns. This has led to the widespread ...
    • Genes Translocated into the Plastid Inverted Repeat Show Decelerated Substitution Rates and Elevated GC Content. 

      Li, Fay-Wei; Kuo, Li-Yaung; Pryer, Kathleen M; Rothfels, Carl J (Genome biology and evolution, 2016-08-25)
      Plant chloroplast genomes (plastomes) are characterized by an inverted repeat (IR) region and two larger single copy (SC) regions. Patterns of molecular evolution in the IR and SC regions differ, most notably by a reduced ...
    • Horizontal transfer of an adaptive chimeric photoreceptor from bryophytes to ferns. 

      Li, Fay-Wei; Villarreal, Juan Carlos; Kelly, Steven; Rothfels, Carl J; Melkonian, Michael; Frangedakis, Eftychios; Ruhsam, Markus; ... (36 authors) (Proceedings of the National Academy of Sciences of the United States of America, 2014-05)
      Ferns are well known for their shade-dwelling habits. Their ability to thrive under low-light conditions has been linked to the evolution of a novel chimeric photoreceptor--neochrome--that fuses red-sensing phytochrome and ...
    • Incongruence between primary sequence data and the distribution of a mitochondrial atp1 group II intron among ferns and horsetails. 

      Wikström, Niklas; Pryer, Kathleen M (Molecular phylogenetics and evolution, 2005-09)
      Using DNA sequence data from multiple genes (often from more than one genome compartment) to reconstruct phylogenetic relationships has become routine. Augmenting this approach with genomic structural characters (e.g., intron ...
    • Infraspecific diversification of the star cloak fern (Notholaena standleyi) in the deserts of the United States and Mexico. 

      Kao, Tzu-Tong; Rothfels, Carl J; Melgoza-Castillo, Alicia; Pryer, Kathleen M; Windham, Michael D (American journal of botany, 2020-04-07)
      PREMISE:Not all ferns grow in moist and shaded habitats. One well-known example is Notholaena standleyi, a species that thrives in deserts of the southwestern United States and Mexico. This species exhibits several "chemotypes" ...
    • Is there foul play in the leaf pocket? The metagenome of floating fern Azolla reveals endophytes that do not fix N2 but may denitrify. 

      Dijkhuizen, Laura W; Brouwer, Paul; Bolhuis, Henk; Reichart, Gert-Jan; Koppers, Nils; Huettel, Bruno; Bolger, Anthony M; ... (15 authors) (The New phytologist, 2018-01)
      Dinitrogen fixation by Nostoc azollae residing in specialized leaf pockets supports prolific growth of the floating fern Azolla filiculoides. To evaluate contributions by further microorganisms, the A. filiculoides microbiome ...
    • Natural hybridization between genera that diverged from each other approximately 60 million years ago. 

      Rothfels, Carl J; Johnson, Anne K; Hovenkamp, Peter H; Swofford, David L; Roskam, Harry C; Fraser-Jenkins, Christopher R; Windham, Michael D; ... (8 authors) (Am Nat, 2015-03)
      A fern from the French Pyrenees-×Cystocarpium roskamianum-is a recently formed intergeneric hybrid between parental lineages that diverged from each other approximately 60 million years ago (mya; 95% highest posterior density: ...
    • Overcoming deep roots, fast rates, and short internodes to resolve the ancient rapid radiation of eupolypod II ferns. 

      Rothfels, Carl J; Larsson, Anders; Kuo, Li-Yaung; Korall, Petra; Chiou, Wen-Liang; Pryer, Kathleen M (Systematic biology, 2012-05)
      Backbone relationships within the large eupolypod II clade, which includes nearly a third of extant fern species, have resisted elucidation by both molecular and morphological data. Earlier studies suggest that much of the ...
    • Phytochrome diversity in green plants and the origin of canonical plant phytochromes. 

      Li, Fay-Wei; Melkonian, Michael; Rothfels, Carl J; Villarreal, Juan Carlos; Stevenson, Dennis W; Graham, Sean W; Wong, Gane Ka-Shu; ... (9 authors) (Nat Commun, 2015-07-28)
      Phytochromes are red/far-red photoreceptors that play essential roles in diverse plant morphogenetic and physiological responses to light. Despite their functional significance, phytochrome diversity and evolution across ...
    • rbcL and matK earn two thumbs up as the core DNA barcode for ferns. 

      Li, Fay-Wei; Kuo, Li-Yaung; Rothfels, Carl J; Ebihara, Atsushi; Chiou, Wen-Liang; Windham, Michael D; Pryer, Kathleen M (PloS one, 2011-01)
      BACKGROUND: DNA barcoding will revolutionize our understanding of fern ecology, most especially because the accurate identification of the independent but cryptic gametophyte phase of the fern's life history--an endeavor ...
    • Reconciling extreme branch length differences: decoupling time and rate through the evolutionary history of filmy ferns. 

      Schuettpelz, Eric; Pryer, Kathleen M (Systematic biology, 2006-06)
      The rate of molecular evolution is not constant across the Tree of Life. Characterizing rate discrepancies and evaluating the relative roles of time and rate along branches through the past are both critical to ...
    • The evolution of chloroplast genes and genomes in ferns. 

      Wolf, Paul G; Der, Joshua P; Duffy, Aaron M; Davidson, Jacob B; Grusz, Amanda L; Pryer, Kathleen M (Plant molecular biology, 2011-07)
      Most of the publicly available data on chloroplast (plastid) genes and genomes come from seed plants, with relatively little information from their sister group, the ferns. Here we describe several broad evolutionary patterns ...
    • The evolutionary history of ferns inferred from 25 low-copy nuclear genes. 

      Rothfels, Carl J; Li, Fay-Wei; Sigel, Erin M; Huiet, Layne; Larsson, Anders; Burge, Dylan O; Ruhsam, Markus; ... (23 authors) (Am J Bot, 2015-07)
      UNLABELLED: • PREMISE OF THE STUDY: Understanding fern (monilophyte) phylogeny and its evolutionary timescale is critical for broad investigations of the evolution of land plants, and for providing the point of comparison ...