Trichoderma koningiopsis (Hypocreaceae) has the smallest mitogenome of the genus Trichoderma.

Introduction: Fungal mitogenomes exhibit remarkable variation in conformation, size, gene content, arrangement and expression, including their intergenic spacers and introns. Methods: The complete mitochondrial genome sequence of the mycoparasitic fungus Trichoderma koningiopsis was determined using the Illumina next-generation sequencing technology. We used data from our recent Illumina NGS-based project of T. koningiopsis genome sequencing to study its mitochondrial genome. The mitogenome was assembled, annotated, and compared with other fungal mitogenomes. Results: T. koningiopsis strain POS7 mitogenome is a circular molecule of 27,560 bp long with a GC content of 27.80%. It harbors the whole complement of the 14 conserved mitochondrial protein-coding genes (PCG) such as atp6, atp8, atp9, cox1, cox2, cox3, cob, nad1, nad2, nad3, nad4, nad4L, nad5, and nad6, also found in the same gene order to other Hypocreales. The mitogenome also contains 26 transfer RNA genes (tRNAs), 5 of them with more than one copy. Other genes also present in the assembled mitochondrial genome are a small rRNA subunit and a large rRNA subunit containing ribosomal protein S3 gene. Despite the small genome size, two introns were detected in the T. koningiopsis POS7 mitogenome, one of them in cox3 gene and the other in rnl gene, accounting 7.34% of this mitogenome with a total size of 2,024 bp. A phylogenetic analysis was done using the 14 PCGs genes of T. koningiopsis strain POS7 mitogenome to compare them with those from other fungi of the Subphyla Pezizomycotina and Saccharomycotina. T. koningiopsis strain POS7 was clustered together with other representatives of Trichoderma lineage, within the Hypocreales group, which is also supported by previous phylogenetic studies based on nuclear markers. Discussion: The mitochondrial genome of T. koningiopsis POS7 will allow further investigations into the taxonomy, phylogenetics, conservation genetics, and evolutionary biology of this important genus as well as other closely related species.

Are dark septate endophytes an ancestral ecological state in the evolutionary history of the order Chaetothyriales?

Dark septate endophytes (DSE) are pigmented fungi that colonize plant roots. They represent a morpho-functional status composed of many species belonging to the phylum Ascomycota, distributed in different orders. The order Chaetothyriales has representatives with diverse lifestyles, among which the rock-inhabiting one has been proposed to be the ancestral ecological character state. However, all taxa have the phenotypic characteristic of being highly melanized. This trait has been considered relevant in most Chaetothyriales because it allows them to tolerate extreme or toxic environmental conditions. In the present study, aiming to reconstruct the evolutionary history of this order, we analyzed the contribution of the DSE habit to the diversification of the Chaetothyriales. We also report the distribution of the DSE habit among the main families and/or clades within the order. Our results suggest that DSE had a key position in the evolution of the order Chaetothyriales, both as an ancestral ecological character and as a character from which other specialized forms such as Domatium probably derived.

Fungal Mitogenomes: Relevant Features to Planning Plant Disease Management.

Mitochondrial genomes (mt-genomes) are characterized by a distinct codon usage and their autonomous replication. Mt-genomes encode highly conserved genes (mt-genes), like proteins involved in electron transport and oxidative phosphorylation but they also carry highly variable regions that are in part responsible for their high plasticity. The degree of conservation of their genes is such that they allow the establishment of phylogenetic relationships even across distantly related species. Here, we describe the mechanisms that generate changes along mt-genomes, which play key roles at enlarging the ability of fungi to adapt to changing environments. Within mt-genomes of fungal pathogens, there are dispensable as well as indispensable genes for survival, virulence and/or pathogenicity. We also describe the different complexes or mechanisms targeted by fungicides, thus addressing a relevant issue regarding disease management. Despite the controversial origin and evolution of fungal mt-genomes, the intrinsic mechanisms and molecular biology involved in their evolution will help to understand, at the molecular level, the strategies for fungal disease management.

Assemblage of dematiaceous and Ingoldian fungi associated with leaf litter of decomposing Typha latifolia L. (Typhaceae) in riverine wetlands of the Pampean plain (Argentina) exposed to different water quality.

The purpose of this study was to analyze the rate of sporulation, richness, and spore diversity of dematiaceous and Ingoldian fungi colonizing Typha latifolia leaves during a 40-day period of decomposition, as well as the loss of mass in Typha latifolia, in four riverine wetlands of Pampean plain (Argentina) with different water quality. Higher sporulation rates, richness, and diversity of the fungi as well as loss of mass of the leaves that they colonized were associated with lower water quality. Anguilospora longissima, Arthrinium sp., Margaritispora aquatica, and Tricellula botryosa were dominant taxa. Redundancy analysis showed two fungal assemblages related to different environmental conditions. One assemblage was related to higher nutrient levels and higher temperature, characterized mainly by dematiaceous fungi. The other assemblage was related to higher levels of pH and dissolved oxygen, which was mainly represented by Ingoldian fungi. The results obtained in our study demonstrated the link between these fungal assemblages and changes in water quality, revealing their potential as indicators of environmental changes in rivers exposed to different types of land use.

Enhancing laccase production by white-rot fungus Funalia floccosa LPSC 232 in co-culture with Penicillium commune GHAIE86.

To obtain enzymatic preparations with higher laccase activity levels from Funalia floccosa LPSC 232, available for use in several applications, co-cultures with six filamentous microfungi were tested. A laccase non-producing soil fungus, identified as Penicillium commune GHAIE86, showed an outstanding ability to increase laccase activity (3-fold as compared to that for monoculture) when inoculated in 6-day-old F. floccosa cultures. Maximum laccase production with the F. floccosa and P. commune co-culture reached 60 U/mL, or twice that induced by chemical treatments alone. Our study demonstrated that co-culture with soil fungi might be a promising method for improving laccase production in F. floccosa. Although the enhancement of laccase activity was a function of P. commune inoculation time, two laccase isoenzymes produced by F. floccosa remained unchanged when strains were co-cultured. These data are compatible with the potential of F. floccosa in agricultural applications in soil, whose enzyme machinery could be activated by soil fungi such as P. commune.

Draft Genome Sequences of Sporulating (CIDEFI-213) and Nonsporulating (CIDEFI-212) Strains of Stemphylium lycopersici.

Stemphylium lycopersici (Pleosporales) is a pathogenic fungus found on a broad range of plant hosts. It is one of the causal agents of gray leaf spot disease in tomato that causes severe yield reductions and economic losses worldwide. Here, we present the draft genome sequences and the gene annotations of two strains of S. lycopersici, nonsporulating strain CIDEFI-212 and sporulating strain CIDEFI-213.

The mitochondrial genome of the plant-pathogenic fungus Stemphylium lycopersici uncovers a dynamic structure due to repetitive and mobile elements.

Stemphylium lycopersici (Pleosporales) is a plant-pathogenic fungus that has been associated with a broad range of plant-hosts worldwide. It is one of the causative agents of gray leaf spot disease in tomato and pepper. The aim of this work was to characterize the mitochondrial genome of S. lycopersici CIDEFI-216, to use it to trace taxonomic relationships with other fungal taxa and to get insights into the evolutionary history of this phytopathogen. The complete mitochondrial genome was assembled into a circular double-stranded DNA molecule of 75,911 bp that harbors a set of 37 protein-coding genes, 2 rRNA genes (rns and rnl) and 28 tRNA genes, which are transcribed from both sense and antisense strands. Remarkably, its gene repertoire lacks both atp8 and atp9, contains a free-standing gene for the ribosomal protein S3 (rps3) and includes 13 genes with homing endonuclease domains that are mostly located within its 15 group I introns. Strikingly, subunits 1 and 2 of cytochrome oxidase are encoded by a single continuous open reading frame (ORF). A comparative mitogenomic analysis revealed the large extent of structural rearrangements among representatives of Pleosporales, showing the plasticity of their mitochondrial genomes. Finally, an exhaustive phylogenetic analysis of the subphylum Pezizomycotina based on mitochondrial data reconstructed their relationships in concordance with several studies based on nuclear data. This is the first report of a mitochondrial genome belonging to a representative of the family Pleosporaceae.

The Use of Gamma Radiation for the Treatment of Cultural Heritage in the Argentine National Atomic Energy Commission: Past, Present, and Future.

The use of gamma radiation for treating biodeteriorated cultural heritage on paper has been studied at the Comisión Nacional de Energía Atómica-CNEA (Argentina) since 2001. In order to preserve books, publications, and documents that have been attacked by insects or fungi, gamma radiation techniques have been used at CNEA. The activities include basic research as well as their applications in infected documents and papers currently used in libraries and archives. New papers were subjected to accelerated ageing in order to evaluate the effects of gamma radiation on their physical and mechanical properties. Current studies include resistance to radiation in two batches of highly cellulolytic fungi, associated with indoor environment. They are present in papers and adhesives used for conservation purposes at the Laboratory of Preventive Conservation and Restoration of Documents. A joint study has been started in CNEA with the National University of La Plata.

α-L-rhamnosidase and ß-D-glucosidase activities in fungal strains isolated from alkaline soils and their potential in naringin hydrolysis.

α-L-Rhamnosidases (EC 3.2.1.40) and ß-D-glucosidases (EC 3.2.1.21) obtained from several microbial sources are potential catalysts in food, beverage, and pharmaceutical industries. However, the enzyme preparations currently used have limitations related to the stability and activity of the enzyme as well to their reuse. A microtiter screening was carried out in 55 fungal strains isolated from alkaline soils, to obtain active α-L-rhamnosidases and ß-D-glucosidases at pH 9.0. While α-L-rhamnosidase activity was detected in 45% of the strains tested, ß-D-glucosidase activity was found only in 27%. Based on the fungal ability to produce α -L-rhamnosidase activity, cultures were supplemented with naringin to study the activities of the enzymes and the potential of the fungal strains on naringin hydrolysis. About 70% of the fungal strains tested increased the activities of both enzymes in the naringin-supplemented cultures as compared to non-supplemented ones. This effect was higher in Acrostalagmus luteo-albus LPSC 427 (15.3 fold) for α-L-rhamnosidase activity and Metarrhizium anisopliae LPSC 996 (51.1 fold) for ß-D-glucosidase activity. All the enzyme preparations tested hydrolyzed naringin at pH 9.0, being that obtained from Acremonium murorun LPSC 927 cultures the one which showed highest hydrolysis. Here, different fungal species are reported for the first time for their ability to produce α-L-rhamnosidase and ß-D-glucosidase activity at alkaline pH.

Decolorization of synthetic dyes by the deuteromycete Pestalotiopsis guepinii CLPS no. 786 strain.

The ability of Pestalotiopsis guepinii CLPS no. 786 to decolorize 13 dyes of varied structure was analyzed and compared with that of the basidiomycete Phanerochaete chrysosporium . Nine dyes representing anthrapyridone, azo, N-heterocyclic and triphenylmethane chromophores, but none with the O-heterocyclic group, were decolorized by P. guepinii when added to an agar medium. Studies with liquid cultures revealed that P. guepinii transformed both crystal violet and methylene blue B dyes, and adsorbed different chromophores onto its mycelium.

Screening for ligninolytic enzymes in autochthonous fungal strains from Argentina isolated from different substrata.

The production of different extracellular ligninolytic enzymes was studied in autochthonous fungal strains from Argentina isolated from litter derived from hydrocarbon-polluted sites and from basidiocarps frowing on wood in forests. The strains tested were cultivated in a carbon-limited medium with shaking. Laccase activity reached higher levels than aryl-alcohol oxidase and manganese-dependent peroxidase activities in liquid cultures from different fungi. No lignin peroxidase activity was found in any strain assayed. Some species are reported for the first time as producers of different ligninolytic enzymes.