Water- and temperature-dependence of DNA damage and repair in the fruticose lichen Cladonia arbuscula ssp. mitis exposed to UV-B radiation

The induction of cyclobutane pyrimidine dimers (CPDs) by ultraviolet‐B radiation (UV‐B, 280–315 nm) and repair mechanisms were studied in the lichen Cladonia arbuscula ssp. mitis exposed to different temperatures and water status conditions. In addition, the development and repair of CPDs were studied in relation to the different developmental stages of the lichen thallus podetial branches. Air‐dried lichen thalli exposed to UV‐B radiation combined with relatively high visible light (HL, 800 μmol m^?2 s^?1; 400–700 nm) for 7 days showed a progressive increase of CPDs with no substantial repair, although HL was present during and after irradiation with UV‐B. Fully hydrated lichen thalli, that had not been previously exposed to UV‐B radiation for 7 days, were given short‐term UV‐B radiation treatment at 25°C, and accumulated DNA lesions in the form of CPDs, with repair occurring when they were exposed to photoreactivating conditions (2 h of 300 μmol m^?2 s^?1, 400–700 nm). A different pattern was observed when fully hydrated thalli were exposed to short‐term UV‐B radiation at 2°C, in comparison with exposure at 25°C. High levels of CPDs were induced at 2°C under UV‐B irradiation, without significant repair under subsequent photoreactivating light. Likewise, when PAR (300 μmol m^?2 s^?1) and UV‐B radiation were given simultaneously, the CPD levels were not lowered. Throughout all experiments the youngest, less differentiated parts of the lichen thallus – namely ‘tips’, according to our arbitrary subdivision – were the parts showing the highest levels of CPD accumulation and the lowest levels of repair in comparison with the older thallus tissue (‘stems’). Thus the experiments showed that Cladonia arbuscula ssp. mitis is sensitive to UV‐B irradiation in the air‐dried state and is not able to completely repair the damage caused by the radiation. Furthermore, temperature plays a role in the DNA damage repairing capacity of this lichen, since even when fully hydrated, C. arbuscula ssp. mitis did not repair DNA damage at the low temperatures.     

Phylogeny of the Genus Cladonia s.lat. (Cladoniaceae, Ascomycetes) Inferred from Molecular, Morphological, and Chemical Data

Phylogenetic relationships within the genus Cladonia , including Cladina (Cladoniaceae, Lecanoromycetes), were reconstructed based upon simultaneous analyses of DNA sequences and morphological and chemical data. We used sequences from the internal transcribed spacer 1 (ITS1), the 5.8 rDNA gene, and the internal transcribed spacer 2 (ITS2) of the nuclear rDNA gene cluster, and partial sequences from the protein-coding β-tubulin gene. The analyses included 235 specimens of 168 taxa representing all currently recognized sections of Cladonia and Cladina and the outgroup genera Cladia, Pycnothelia , and Ramalea . Analyses were performed using optimization alignment with three different parameter values. The results of all analyses support the inclusion of Cladina in Cladonia . The current sectional division of Cladonia was not supported, and a new provisional classification for the genus is proposed.     

Sequence Insertions and ITS Data Provide Congruent Information on Roccella canariensis and R. tuberculata (Arthoniales, Euascomycetes) Phylogeny

Four Roccella species, R. canariensis, R. fimbriata, R. montagnei, and R. tuberculata, were found to possess sequence insertions in up to four locations in the first half of the SSU rDNA. Insertions from one of these positions have been classified as group I introns, while the others may represent degenerative forms of group I introns or messenger RNA introns. Two of the insertion-containing taxa, R. canariensis and R. tuberculata, differ only in their dispersal strategy: R. canariensis is sexual, producing only fruiting bodies and R. tuberculata is sterile, producing only vegetative propagules, i.e., soredia. Because insertions occurred in specimens of both taxa, they were used to examine the phylogenetic relationships between and within the two species. The sequence insertions from each of the four positions were aligned and cladistically analyzed separately. Internal transcribed spacers (ITS) were additionally sequenced to study the phylogeny of all R. canariensis and R. tuberculata specimens. Three other Roccella species (R. babingtonii, R. fimbriata, and R. montagnei) and Dirina catalinariae were used as outgroups in this parsimony analysis. Sequence insertions were found to be potentially useful in phylogenetic studies, although due to the sequence dissimilarity, homology relations were difficult to establish above the species level and in some cases even within the species. The phylogenies obtained from the insertion matrices were totally consistent with the ITS data and the insertions were concluded to have been inherited. When the insertion and ITS data were combined for total evidence, R. canariensis and R. tuberculata did not form distinct lineages in the phylogenetic tree, but appeared mixed in well-supported groups containing both sorediate and fertile specimens.     

The sister group relation of parmeliaceae (Lecanorales, Ascomycota)

The family Parmeliaceae (Lecanorales, Ascomycota) is possibly the largest, best known and most thoroughly studied lichen family within its order. Despite this fact the relationship between Parmeliaceae and other groups in Lecanorales is still poorly known. The aim of the present study is to contribute to finding the sister group of Parmeliaceae as an aid in future studies on the phylogeny and character evolution of the group. We do this by sampling all potential relatives to the Parmeliaceae that we have identified, i.e. Gypsoplaca, Japewia, Mycoblastus, Protoparmelia, and Tephromela, a good representation of the major groups within the Parmeliaceae s. lat. and a good representation of other taxa in the core Lecanorales. We use molecular data from two genes, the large subunit of the nuclear ribosomal RNA gene (nrLSU) and the small subunit of the mitochondrial ribosomal RNA gene (mrSSU), and a Bayesian analysis of the combined data. The results show that the closest relatives to Parmeliaceae are the two genera Protoparmelia and Gypsoplaca, which are crustose lichens. Parmeliaceae in our sense is a well supported group, including also the family segregates Alectoriaceae, Hypogymniaceae, Usneaceae and Anziaceae.     

Chemosyndromes in the lichen genus Teloschistes (Teloschistaceae, Lecanorales)

The secondary metabolites of 150 specimens belonging to 29 species of Teloschistes were analysed with HPLC. Seven anthraquinones were detected of which parietin dominated with minor proportions of emodin, teloschistin, fallacinal and parietinic acid. The depsidones vicanicin, caloploicin, and isofulgidin occurred together with some compounds of unknown identity in varying proportions in T. flavicans, T. peruensis, T. stellatus, and one unnamed taxon. Nine chemosyndromes were found in the genus. Most species had only one chemosyndrome, but T. flavicans s. lat. had six syndromes. The geographical distribution patterns of these chemosyndromes in T. flavicans are discussed as well as the applicability of chemical characters for species delimitation in Teloschistes.     

Parmelina quercina (Parmeliaceae, Lecanorales) includes four phylogenetically supported morphospecies

Morphological and phylogenetic relationships of the worldwide Mediterranean lichen forming fungus, Parmelina quercina , have been studied. Specimens from western Europe, western North America and southern Australia were analysed using molecular data (nuITS rDNA, nuLSU rDNA and mtSSU rDNA) and selected morphological features (upper cortex maculae, scanning electron microscopy examination of the epicortex, ascospores and conidia shape and size, and amphithecial retrorse rhizines). The results conclusively reveal that: (1) there is not one single species but four separate species in the Mediterranean or sub Mediterranean areas of the world. Parmelina quercina and Parmelina carporrhizans (Euroasiatic species), Parmelina coleae sp. nov. (North America) and Parmelina elixia sp. nov. (Australia); (2) largely debated P. carporrhizans is not a synonym of P. quercina but supported as a valid species circumscribed to Macaronesic relict sites; (3) the geographical isolation of the Australian population is correlated with a large genetic distance; (4) morphological characters (ascospores and conidial variability and thallus epicortex) correlate with the phylogenetic hypothesis; (5) the new or revalidated species within Parmelina quercina are not cryptic species but morphologically recognizable taxa.  © 2007 The Linnean Society of London, Biological Journal of the Linnean Society , 2007, 91 , 455–467.     

Comparative studies on the polysaccharides of Cladonia alpestris (reindeer moss), Cladonia confusa,and Cladonia amaurocraea

The chemical structures of polysaccharide components of three species of the lichen genus Cladonia were compared. C. alpestris and C. confusa are similar in overall growth appearance despite different habitats, and each contains traces of water-insoluble nigeran. The residual lichens gave almost pure d-galacto-d-mannans isolated via insoluble Cu complexes formed with Fehling solution. They were not identical but structurally related having (1→6)-linked α-d-mannopyranosyl main-chains substituted in different patterns by β-d-galacto- and α-d-mannopyranosyl groups. Supernatant solutions of the Fehling-solution precipitation contained high proportions of β-d-galactofuranosyl residues. The polysaccharide of C. alpestris contained consecutive (1→2)-linked α-d-mannopyranosyl units substituted in the 6-position by β-d-galactofuranose, whereas that of C. confusa was a d-galactan with both pyranosyl and furanosyl forms. The d-glucan component of C. amaurocraea was isolated together with d-galacto-d-mannan as insoluble Cu complexes. The former was isolated in good yield and proved to be water-insoluble pustulan. The galactomannan had the same overall structure as those of C. alpestris and C. confusa, but showed differences according to the ¹³C-n.m.r. spectra.     

The application and citation of the generic nameParmeliopsis (Lecanorales,Parmeliaceae)

The nomenclatural history of the generic nameParmeliopsis is reviewed. Its correct citation is found to beParmeliopsis (Nyl. exStizenb.)Nyl., dating from 1866, not 1869 as commonly cited, withP. placorodia (Ach.)Nyl. as holotype species. There is consequently no nomenclatural problem to the adoption ofForaminella Fricke Meyer, typified byF. ambigua (Wulfen)Fricke Meyer for theParmeliopsis species with falcate conidia. A synopsis of the nomenclature of the North American and European species of both these genera is included.     

On the ascus types in thePhysciaceae (Lecanorales)

Comparative studies in thePhysciaceae revealed that characters of the apical apparatus of asci differ between the various genera. Two major ascus types are observable in this family. They are found to correspond with certain ascospore types.     

In situ analysis of the bacterial community associated with the reindeer lichen Cladonia arbuscula reveals predominance of Alphaproteobacteria

The diversity and spatial pattern of the bacterial community hosted by the shrub-like reindeer lichen Cladonia arbuscula were investigated by general DNA staining and FISH, coupled with confocal laser scanning microscopy (CLSM). Using an optimized protocol for FISH using cryosections of small lichen fragments, we found about 6 x 10(7) bacteria g(-1) of C. arbuscula. Approximately 86% of acridine orange-stained cells were also stained by the universal FISH probe EUB338. Using group-specific FISH probes, we detected a dominance of Alphaproteobacteria (more than 60% of all bacteria), while the abundance of Actinobacteria and Betaproteobacteria was much lower (<10%). Firmicutes were rarely detected, and no Gammaproteobacteria were present. Bacterial cells of different taxonomic groups are embedded in a biofilm-like, continuous layer on the internal surface of the C. arbuscula podetia, mainly occurring in small colonies of a few to a few hundred cells. The other parts of the lichen showed a lower bacterial colonization. alpha-proteobacterial 16S rRNA genes were amplified using total DNA extracts from C. arbuscula and separated by single-strand conformation polymorphism (SSCP). Sequencing of excised bands revealed the dominance of Acetobacteraceae.     

Cladonia (sect. Cocciferae) norvegica, a new lichen species

Cladonia (sect. Cocciferae , subsect. Ochroleucae) norvegica T0nsb. & Holien sp. nov., is closely related to C. bacilliformis (Nyl.) DT. & Sarnth. but is morphologically, chemically, and ecologically distinct. Superficially it may resemble C. (sect. Cladonia) coniocraea auct., which is often growing with it. C. norvegica is known from Norway only.     

Cetradonia,a new genus in the new family Cetradoniaceae (Lecanorales,Ascomycota)

Abstract:A taxonomic revision of the lichen genus Gymnoderma Nyl. sensu Yoshimura & Sharp (Cladoniaceae) based on an integrative analysis of polyphasic characters supports the segregation of a new genusCetradonia J.-C.Wei & Ahti in a new family Cetradoniaceae J.-C.Wei & Ahti. The monotypic genus and family are based on Cladonia linearis Evans. In addition, two species are recognized in genus Neophyllis F. Wilson and two species are retained in the genus Gymnoderma Nyl. of the Cladoniaceae.     

The effect of the substrate on the growth and reproduction of the lichens Cladonia rangiferina and C. mitis

The growth rate and percentage of fertile individuals were studied in the lichens Cladonia rangiferina and C. mitis growing on various substrates in a heath-lichen pine forest and a bilberry-cowberry pine forest with Pleurozium and other mosses, both on the White Sea coast. The substrates were soil, rocks, and pine wood. The proportion of different forms of C. rangiferina growing on the same substrate was compared between the two forest types. C. rangiferina f. rangiferina was more abundant on soil, while C. rangiferina f. crispata dominated on wood. The effect of the substrate on the development of different lichen forms is discussed. The maximum growth rate and the maximum percentage of fertile individuals were recorded in the lichens growing on soil; these parameters were minimal in the lichens growing on wood. These differences were more pronounced in C. rangiferina than in C. mitis. The effects of the nutritive quality and the humidity of the substrate on the growth rate and apothecia formation in lichens are discussed.     

Phylogeny of caddisflies (Insecta, Trichoptera)

Trichoptera are holometabolous insects with aquatic larvae that, together with the Lepidoptera, comprise the Amphiesmenoptera. Previous phylogenetic hypotheses and progress on our ongoing data collection are summarized. Fragments of the large and small subunit nuclear ribosomal RNAs (D1, D3, V4–5), the nuclear elongation factor 1 alpha gene and a fragment of mitochondrial cytochrome oxidase 1 (COI) were sequenced, and molecular data were combined with previously published morphological data. Equally and differentially weighted parsimony analyses were conducted in order to present a phylogeny of Trichoptera, including 43 of 45 families. Our phylogeny closely resembles that proposed by Herbert Ross with respect to the relationships among suborders, with a monophyletic Annulipalpia at the base of the tree, and a clade consisting of Spicipalpia plus a monophyletic Integripalpia. The monophyly of Spicipalpia is weakly supported in the combined equally weighted analysis, and Spicipalpia is paraphyletic in the differentially weighted analysis. Within Integripalpia, our phylogeny recovered monophyletic Plenitentoria, Brevitentoria and Sericostomatoidea. Leptoceroidea was unresolved in the equally weighted analysis and monophyletic in the differentially weighted analysis. Within Annulipalpia, we recovered a basal but paraphyletic Philopotamoidea and a monophyletic Hydropsychoidea.     

Palm-Pitviper (Bothriechis) Phylogeny, mtDNA, and Consilience

The phylogeny of the neotropical palm-pitviper genus Bothriechis has been previously inferred from morphology and allozymes. These nuclear-based data sets were found to be congruent and also consilient with the geologic history of the region. We present mtDNA sequence data as an additional data set in the inference of Bothriechis phylogeny and analyze it separately and combined with previous data. The mtDNA phylogeny is incongruent with the nuclear data sets. Based on a number of factors, we hypothesize that the incongruence is due to both mtDNA introgression and lineage sorting. We argue that mtDNA represents extrinsic data and as such should be used as a consilient data set.     

Phylogeny of Parabuthus (Scorpiones, Buthidae)

A cladistic analysis of the 20 southern African species of Parabuthus Pocock, 1 890 (Scorpiones, Buthidae) and five of the eight north-eastern African and Arabian species is presented, based on 53 characters, mostly of the adult morphology. The resultant topology is largely congruent with Lamoral's (1978) unpublished topology for 14 Namibian species. Monophyly of the genus Parabuthus is supported, but monophyly of the disjunct southern African vs. north-eastern African and Arabian species is unsupported. The implications of the cladogram for understanding ecological specialization in Parabuthus , Afrotropical arid biogeography and Parabuthus envenomation are discussed.     

Phylogeny and classification of Muscini (Diptera, Muscidae)

Worldwide in distribution, the tribe Muscini comprises 21 accepted genera and about 350 species. In the present study, a cladistic analysis based upon adult morphological characters is carried out in order to discuss the monophyly of the tribe and its genera, the intergeneric relationships and, in some cases, also the intrageneric relationships. As a result, Muscini is supported as a monophyletic tribe sister-group of Stomoxyini. Except for Morellia Robineau-Desvoidy, Curranosia Paterson, and Eudasyphora Townsend, all the remaining genera are monophyletic. The results are dubious for Polietes Rondani, which was then provisionally kept unchanged. Morellia was broadened to include the Neotropical endemic genera Parapyrellia Townsend, Trichomorellia Stein, and Xenomorellia Malloch. Therefore, a new classification is proposed for Morellia in which it is divided into four subgenera: Morellia s.s. , Parapyrellia , Trichomorellia , and Xenomorellia . Furthermore, the previously proposed subgenus Dasysterna Zimin is given new status as a genus; however, as it is preoccupied by Dasysterna Dejean, the new replacement name Ziminellia nom. nov. is proposed herewith. Eudasyphora was found to be a paraphyletic group relative to Dasyphora Robineau-Desvoidy; both genera are hence synonymized, and Dasyphora is classified in three subgenera: Dasyphora s.s. , Eudasyphora , and Rypellia Malloch. The analysis demonstrated that the traditional classification of Musca Linnaeus into subgenera is artificial and, moreover, that the use of characters from male genitalia could be strongly informative for classifying the genus in phylogeny-supported species groups. Finally, the new classification proposal for Muscini recognizes 18 genera and, furthermore, two undescribed genus-ranked taxa are indicated.  © 2007 The Linnean Society of London, Zoological Journal of the Linnean Society , 2007, 149 , 493–532.     

Chemistry,Anatomy and Morphology of Foliicolous Species of Fellhanera and Badimia (Lichenized Ascomycotina: Lecanorales)

A comparison of secondary chemistry and a variety of anatomical and morphological characters of Fellhanera and Badimia (Pilocarpaceae) has been conducted in an effort to clarify the systematic position of both genera. Based on our results we conclude that Fellhanera and Badimia are closely related and separated mainly by the slightly different paraphyses, amyloid reactions of their asci, apothecial size, and the presence or absence of campylidia. Fellhanera badimioides sp.n. is described, and the following systematic changes are proposed: Badimia cateilea (Vain.) comb.n. B. lecanorina (Zahlbr.) comb.n., B. tuckermanii (R.Sant.) comb.n. and Fellhanera stanhopeae (Müll. Arg.) comb.n.