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Conflicting phylogenies for early land plants are caused by composition biases ...
Cox, C. J.; Li, Blaise; Foster, Peter G.; Embley, T. Martin; Civan, PeterPlants are the primary producers of the terrestrial ecosystems that dominate much of the natural environment. Occurring approximately 480 Ma (Sanderson 2003; Kenrick et al. 2012), the evolutionary transition of plants from an aquatic to a terrestrial environment was accompanied by several major developmental innovations.
Phylogenetically and spatially close marine sponges harbour divergent bacterial...
Hardoim, C. C. P.; Esteves, A. I. S.; Pires, F. R.; Gonçalves, J. M. S.; Cox, C. J.; Xavier, J. R.; Costa, R.Recent studies have unravelled the diversity of sponge-associated bacteria that may play essential roles in sponge health and metabolism. Nevertheless, our understanding of this microbiota remains limited to a few host species found in restricted geographical localities, and the extent to which the sponge host determines the composition of its own microbiome remains a matter of debate. We address bacterial abun...
Microbial community composition and function in permanently cold seawater and s...
Teske, A.; Durbin, A.; Ziergovel, K.; Cox, C. J.; Arnosti, C.Heterotrophic microbial communities in seawater and sediments metabolize much of the organic carbon produced in the ocean. Although carbon cycling and preservation depend critically on the capabilities of these microbial communities, their compositions and capabilities have seldom been examined simultaneously at the same site. To compare the abilities of seawater and sedimentary microbial communities to initiat...
Deep sequencing of Ptilidium (Ptilidiaceae) suggests evolutionary stasis in liv...
Forrest, L. L.; Wickett, N. J.; Cox, C. J.; Goffinet, B.Background and aims – Organellar genome sampling is patchy for non-vascular groups, with the earliest land plants poorly represented; currently only two liverworts, two mosses and one hornwort have sequenced, annotated plastid genomes. This is in part due to methodological difficulties that have hampered attempts to generate plastid genome data from liverworts. In this paper we present a method that overcomes s...
Global patterns of moss diversity: taxonomic and molecular inferences
Shaw, A. J.; Cox, C. J.; Goffinet, B.Taxonomic and molecular data were utilized to test the hypothesis that moss diversity is greatest near the equator. Species richness estimates from 86 taxonomic checklists representing global moss diversity do not support the hypothesis that, in general, mosses are more species-rich in the tropics than at higher latitudes.
Phylogenetic significance of the rpoA loss in the chloroplast genome of mosses
Goffinet, B.; Wickett, N. J.; Shaw, A. J.; Cox, C. J.A recent survey of arthrodontous mosses revealed that their chloroplast genome lacks the gene encoding the alpha subunit of the RNA polymerase (i.e., rpoA), and that at least in Physcomitrella patens the gene has been transferred to the nuclear genome. Subsequently the gene was recorded from the cytoplasmic genome in Takakia and Sphagnum. Here we extend the survey to representatives of all major lineages of mos...
Phylogeny and evolution of medical species of candida and related taxa: a multi...
Diezmann, S.; Cox, C. J.; Schönian, G.; Vilgalys, R. J.; Mitchell, T. G.Hemiascomycetes are species of yeasts within the order Saccharomycetales. The order encompasses disparate genera with a variety of life styles, including opportunistic human pathogens (e.g., Candida albicans), plant pathogens (e.g., Eremothecium gossypii), and cosmopolitan yeasts associated with water and decaying vegetation. To analyze the phylogeny of medically important species of yeasts, we selected 38 huma...
Circumscription, classification, and taxonomy of Amblystegiaceae (Bryopsida) in...
Vanderpoorten, A.; Hedenäs, L.; Cox, C. J.; Shaw, A. J.Results from a previous broad-scale analysis employing trnL-trnF sequence data for 168 Hypnalean and 11 Hookerialean taxa, and an analysis employing two chloroplast regions, trnL-trnF and atpB-rbcL, one nuclear region, the internal transcribed spacers of 18S-26S rDNA, plus 68 morphological characters for a reduced data set of 54 Hypnalean taxa, were used to circumscribe Amblystegiaceae. The analyses provided tw...
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