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With 280 accepted species, the genus Riccardia S.F.Gray (Aneuraceae) is one of the most speciose genera of simple thalloid liverworts. The current classification of this genus is based on morphological and limited-sampling molecular studies. Very few molecular data are available and a comprehensive view of evolutionary relationships within the genus is still lacking. A phylogeny focusing on relationships within the large genus Riccardia has not been conducted. Here we propose the first worldwide molecular phylogeny of the genus Riccardia, based on Bayesian inference and parsimony ratchet analyses of sequences from three plastid regions (psbA-trnH, rps4, trnL-F). The results support the monophyly of Riccardia and a new monospecific genus, Afroriccardia Reeb & Gradst. gen. nov., is described based on molecular and morphological evidence. The results indicate that several currently recognized infrageneric divisions and a few species are not monophyletic, suggesting that further analyses are needed to arrive at a proper understanding of the phylogeny of the genus. Although evidence for an Andean clade was found, most of the species appear scattered in different clades without clear geographical segregation. Broader sampling and further analyses are necessary in order to improve our understanding of the phylogeny of this poorly known liverwort genus.
The New World genus Chariessa Forster (Coleoptera: Cleroidea: Cleridae) is revised and includes C. catalina Opitz, new species, C. elegans Horn, C. dichroa (LeConte), C. floridana Schaeffer, C. pilosa (Forster), C. texana Wolcott, C. ramicornis Perty, C. vestita (Chevrolat), and C. duponti (Spinola). Enoplium pilosa var. marginata Say is synonymized with Chariessa pilosa Forster. Lectotypes are designated for C. pilosa (Forster), C. ramicornis Perty, and C. vestita (Chevrolat). Available information indicates that Chariessa adult and immature individuals are predatory on lignicolous insects with a particular affinity for cerambycids and buprestids that infest species of oak. It is postulated that Pleistocene speciation generated the North American components of Chariessa with more ancient southern species generated during the Middle Tertiary; after closures of the Middle American portals and orogeny of the South American Andes. Included in this treatise is a discussion of natural history, key to species, narratives of zoogeography and phylogeny, one diagram of a phylogenetic tree, 35 line drawings, eight SEM micrographs, twelve habitus photographs, nine photographs of male genitalia, and five distributional maps.
Acrodiscus Zanardini is a poorly known monotypic endemic Mediterranean genus based on A. vidovichii (Menegh.) Zanardini. Rarely reported, its reproductive structures have remained undocumented, leaving its exact taxonomic position uncertain. Solely on the basis of its vegetative structure, Zanardini provisionally placed it in the family Cryptonemiaceae of the order Cryptonemiales (currently the Halymeniaceae of the Halymeniales), although he was uncertain as to whether the new genus actually belonged to that family or should instead be included in the Gigartinaceae of the Gigartinales (where Meneghini had originally placed it). In the present study we have extensively sampled A. vidovichii and documented its vegetative and tetrasporangial features. As well, we provide molecularsequence data (COI-5P, rbcL, LSU) that indicate its phylogenetic affinities. We confirm Acrodiscus as a member of the Halymeniaceae and its status as an independent genus. Searches of several institutional herbaria have allowed us to locate and lectotypify Meneghini’s Chondrus? vidovichii by the discovery of his original material now held at the Herbarium Horti Pisani (Pisa, Italy).
Phylogenetic reconstruction from transposable elements (TEs) offers an additional perspective to study evolutionary processes. However, detecting phylogenetically informative TE insertions requires tedious experimental work, limiting the power of phylogenetic inference. Here, we analyzed the genomes of seven bear species using high-throughput sequencing data to detect thousands of TE insertions. The newly developed pipeline for TE detection called TeddyPi (TE detection and discovery for Phylogenetic Inference) identified 150,513 high-quality TE insertions in the genomes of ursine and tremarctine bears. By integrating different TE insertion callers and using a stringent filtering approach, the TeddyPi pipeline produced highly reliable TE insertion calls, which were confirmed by extensive in vitro validation experiments. Analysis of single nucleotide substitutions in the flanking regions of the TEs shows that these substitutions correlate with the phylogenetic signal from the TE insertions. Our phylogenomic analyses show that TEs are a major driver of genomic variation in bears and enabled phylogenetic reconstruction of a well-resolved species tree, despite strong signals for incomplete lineage sorting and introgression. The analyses show that the Asiatic black, sun, and sloth bear form a monophyletic clade, in which phylogenetic incongruence originates from incomplete lineage sorting. TeddyPi is open source and can be adapted to various TE and structural variation callers. The pipeline makes it possible to confidently extract thousands of TE insertions even from low-coverage genomes (∼10×) of nonmodel organisms. This opens new possibilities for biologists to study phylogenies and evolutionary processes as well as rates and patterns of (retro-)transposition and structural variation.
The Australian wolf spider genus Tetralycosa Roewer, 1960, with Lycosa meracula Simon, 1909 (junior synonym of Lycosa oraria L. Koch, 1877) as type species, is revised to include 13 species, eight of which are described as new here: Tetralycosa adarca sp. nov., T. alteripa (McKay, 1976), T. arabanae Framenau, Gotch & Austin, 2006, T. baudinettei sp. nov., T. caudex sp. nov., T. eyrei (Hickman, 1944), T. floundersi sp. nov., T. halophila sp. nov., T. oraria (L. Koch, 1876), T. orariola sp. nov., T. williamsi sp. nov., T. wundurra (McKay, 1979) comb. nov. and T. rebecca sp. nov. Members of Tetralycosa are halotolerant, exclusively inhabiting saline environments such as coastal beaches, and mound springs, clay pans and salt lakes in the Australian interior. A phylogenetic analysis of the genus identified a monophyletic clade of eight species that live permanently on the barren surface of salt lakes suggesting a single radiation into this extremely inhospitable habitat. Some of these Tetralycosa species are currently known from single salt lakes only and with increasing disturbances of these systems by mining, agriculture an