The Gloeophyllales is a recently described order of Agaricomycotina containing a morphologically diverse array of polypores (Gloeophyllum), agarics (Neolentinus, Heliocybe) and resupinate fungi (Veluti-Veluticeps, Boreostereum, Chaetodermella), most of which have been demonstrated to produce a brown-rot mode of wood decay and are found preferentially on coniferous substrates. Multiple phylogenetic studies have included taxa of Gloeophyllales, but none have sampled the order thoroughly, and so far only ribosomal RNA genes have been used. Consequently the limits and higher level placement of the Gloeophyllales are obscure. We obtained sequence data for three protein-coding genes (rpb2, atp6, tef1) and three rRNA regions (nuc-ssu, nuc-lsu, 5.8S) in 19 species of Gloeophyllales representing seven genera and analyzed them together with a diverse set of Agaricomycotina, emphasizing Polyporales. Boreostereum, which is suspected to produce a white rot, is the sister group of the rest of the Gloeophyllales, all of which produce a brown rot. Gloeophyllum contains at least two independent clades, one of which might correspond to the genus Osmoporus. White rot and resupinate fruiting bodies appear to be plesiomorphic in Gloeophyllales. Relaxed molecular clock analyses suggest that the Gloeophyllales arose in the Cretaceous, after the origin of Pinaceae.
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The Veracruz Reef System National Park (PNSAV) is located in the central region of Veracruz, off the coast of the municipalities of Veracruz, Boca del Río and Antón Lizardo. It is a complex and important system within the Gulf of Mexico, since it has been declared a biosphere reserve by UNESCO, a Ramsar wetland and an essential component of the southwestern Gulf of Mexico Reef Corridor. Lobophora contains 28 currently recognized species and has a pantropical distribution that includes the Atlantic, Pacific, and Indian Oceans in both hemispheres. Recently, some species have been identified from Western Atlantic Ocean, mainly in the Caribbean Sea. However, very little is known about Lobophora species diversity on the Mexican coast. In this study, morphological and molecular analyses (MAAT) using cytochrome c oxidase 3 (COX3) sequences as a barcode gene were used to study Lobophora spp. The results indicate that there are two species on the Mexican coasts, Lobophora declerckii and L. variegata. Lobophora declerckii represents a new record for the southwest of the Gulf of Mexico and, the presence of L. variegata was confirmed for the Mexican Caribbean.
The marine dinoflagellate genus Prorocentrum Ehrenberg comprises many species occupying primarily benthic or epiphytic habitats, particularly in tropical and sub-tropical waters. Despite concerted efforts to establish phylogenetic associations, there remain unresolved issues in defining morphospecies and membership in species complexes. The study described herein addressed the inter- and infraspecific relationships of members of the Prorocentrum lima and Prorocentrum hoffmannianum species complexes (PLSC and PHSC, respectively) by applying multivariate approaches in morphotaxonomy, molecular phylogenetics and chemodiversity to establish affinities among multiple clonal isolates. Morphotaxonomic analysis showed consistency with classical morphospecies descriptors, and high variability in cell size and dimensions, but did not challenge current species complex concepts. Phylogenetic analysis of ITS/5.8S rDNA sequences from isolates from the Gulf of California, Caribbean Sea, and Gulf of Mexico coasts compared with archived global GenBank sequences served to define five consistent clades with separation of the PLSC and PHSC. Secondary structure modeling of ITS2 rRNA variation based on compensatory base changes (CBC) was effective in resolving details of the respective species complexes and even indicated putative incipient or cryptic speciation due to potential hybridization barriers. This study represents the largest (n = 67 isolates) chemodiversity analysis of polyketide-derived toxins associated with diarrheic shellfish poisoning (DSP) from a benthic dinoflagellate genus. Relative composition of some analogs (OA, OA-D8, DTX1, DTX1a, and DTX1a-D8), including two new undescribed isomers, distinguished P. lima from P. hoffmannianum sensu lato, but without clear associations with substrate type or geographical origin. Although all P. lima and most (one exception) P. hoffmannianum were toxigenic, the total cell toxin content could not be linked at the species level. This research demonstrates that clonal chemodiversity in toxin composition cannot yet be effectively applied to define ecological niches or species interactions within local assemblages. Phylogenetic analysis of the ITS/5.8 rDNA, particularly when combined with secondary structure modeling, rather than only a comparison of LSU rDNA sequences, is a more powerful approach to identify cryptic speciation and to resolve species complexes within benthic dinoflagellate groups.
Bayesian posterior probabilities are wrongly considered by many systematists as indicative of character support, and equivalent to non-parametric bootstrap frequencies. Here I argue against this view. Non-parametric bootstrap is indicative of the amount of evidence in a data matrix supporting each clade in the tree, while Bayesian posterior probabilities are not intended to represent that property. Clades with high posterior probability may not have a large amount of characters favouring them, and their frequencies are the result of the particular sampling procedure of the Bayesian Markov chain Monte Carlo method, which tends to sample very similar topologies according to their posterior probabilities. Both metrics may relate to the notion of confidence, but depict different properties.
The distribution and endemicity patterns of Gomphales in Mexico are analyzed here for the first time. Richness and corrected endemism were obtained from a dataset of 3,483 records for 97 species, using a cell-grid system of one degree per side. The central region of Mexico (Tlaxcala, Veracruz, Hidalgo and Estado de México states), which includes most of the Trans-Mexican Volcanic Belt and Sierra Madre Oriental biogeographic provinces, had the highest richness values, but Mexican areas in the Pacific Coast (Jalisco and Michoacán states) and southeastern Mexico (Oaxaca and Chiapas states) had the most distinctive composition, as measured by the corrected endemism index. Two main distributional patterns were recovered: a) montane: at elevations above 1000 m on coniferous, pine-oak, oak and cloud forests, typified by the presence of species of Ramaria and Clavariadelphus, b) lowlands: at elevations below 1000 m mainly in evergreen, rainforest and deciduous tropical forests characterized by the presence of four tropical species of Lentaria, two tropical species of Gomphus endemic to Mexico, and four tropical species of Phaeoclavulina. The eight species of Gomphales endemic to Mexico have very restricted distribution, mostly in non-protected areas, and are not considered under special protection programs. The present contribution delineates general patterns of distribution for the Gomphales, and documents its diversity and endemism in Mexico.
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