Genomic insights into the carbohydrate catabolism of Cairneyella variabilis gen. nov. sp. nov., the first reports from a genome of an ericoid mycorrhizal fungus from the southern hemisphere.

This paper describes a novel species of ericoid mycorrhizal fungus from Australia, Cairneyella variabilis, Midgley and Tran-Dinh, gen. nov. sp. nov. The genome of C. variabilis was sequenced and a draft genome assembled. The draft genome of C. variabilis is 52.4 Mbp in length, and to our knowledge, this is the first study to present a genome of an ericoid mycorrhizal fungus from the southern hemisphere. Using the SignalP and dbCAN bioinformatic pipelines, a study of the catabolic potential of C. variabilis was undertaken and showed genes for an array of degradative enzymes, most of which appear to be secreted from the hyphae, to access a suite of different carbon sources. Isolates of C. variabilis have been previously shown to utilise cellulose, carboxymethyl cellulose (CMC), cellobiose, xylan, pectin, starch and tannic acid for growth, and in the current study, putative enzymes for these processes were revealed. These enzymes likely play key roles in nutrient cycling and other edaphic processes in heathland environments. ITS phylogenetic analyses showed C. variabilis to be distinct from the fungi of the "Hymenoscyphus ericae aggregate".

DNA mutation detection using denaturing high-performance liquid chromatography (DHPLC).

DHPLC is an efficient method for candidate gene scanning with a high level of automation. Single-base substitutions and insertions or deletions of up to 1.5 kb in PCR amplified DNA fragments can be detected. The method exploits the differential retention of homoduplex and heteroduplex DNA species under conditions of partial thermal denaturation. DHPLC provides a useful platform for high-throughput mutation detection and SNP discovery.

The EPAS1 gene influences the aerobic-anaerobic contribution in elite endurance athletes.

EPAS1 is a gene involved in complex oxygen sensing. It is expressed in microvascular endothelial cells, lung epithelial cells, cardiac myocytes and the brain. An association study was undertaken comparing elite endurance athletes classified into two groups according to a power-time model of performance intensity: power-time-maximum (PT-MAX; N=242, event duration 50 s to 10 min) and power-time-steady state (PT-SS; N=151, event duration ~2-10 h), with normal controls (N=444) using 12 SNPs across EPAS1. Ordinal regression analysis of allele frequencies revealed significant differences at SNPs 2 and 3 (P=0.01). Haplotype analysis revealed the presence of haplotypes involving SNPs 2-5 that significantly differentiated (P<0.05) the groups based on an ordinal ranking using the power-time classification. These same haplotypes differentiated the PT-MAX group in which a significant decrease in a haplotype (F: G-C-C-G; OR=0.57, P=0.02, 95% CI 0.36-0.92) and increase in a second haplotype (G: A-T-G-G; OR=1.75, P=0.03, 95% CI 1.05-2.91) was observed compared to controls. The PT-SS group was differentiated from the PT-MAX group by a third haplotype (H: A-T-G-A; OR=0.46, P=0.04, 95% CI 0.22-0.96). Since EPAS1 has a role as a sensor capable of integrating cardiovascular function, energetic demand, muscle activity and oxygen availability into physiological adaptation, we propose that DNA variants in EPAS1 influence the relative contribution of aerobic and anaerobic metabolism and hence the maximum sustainable metabolic power for a given event duration.

Distribution of Amanita spp. genotypes under eastern Australian sclerophyll vegetation.

Basidiomes of Amanita alboverrucosa, A. ochrophylla, and A. pyramidifera were collected from native mixed sclerophyll forest sites and of A. conicoverrucosa and A. punctata from planted stands of Eucalyptus maculata in New South Wales, Australia. DNA was extracted from stipe tissue and subjected to inter-simple sequence repeat (ISSR) PCR analysis conducted using the primers (GTG)5 and (GACA)4 in order to determine genotype distribution at each site. Two to nine genotypes of one of the species were identified at each field site. Genotypes of A. ochrophylla, A. conicoverrucosa and A. punctata were spread over areas of ca 10-60 m diam, suggesting vegetative spread via large below-ground mycelial genets. In contrast, genotypes of A. alboverrucosa were more spatially restricted, suggesting recent establishment via basidiospores and more limited below-ground vegetative spread. Two groups of A. pyramidifera basidiomes that were separated by ca 600 m were found to be of the same genotype. While this might reflect long distance spread of below-ground mycelium in this taxon, the proximity of the basidiomes to a roadway makes movement of vegetative basidiome tissue via vehicular activity and subsequent establishment equally plausible.

Utilisation of inorganic and organic nitrogen sources by Amanita species native to temperate eastern Australia.

The abilities of isolates of Amanita alboverrucosa, A. conicoverrucosa, A. fuscosquamosa, A. nauseosa, A. ochrophylla, A. pyramidifera, A. roseolamellata, A. xanthocephala and six unidentified Amanita species from eastern Australian temperate sclerophyll forests to utilise a range of inorganic and organic nitrogen sources for growth was examined in axenic liquid cultures. All taxa utilised NH4+ and at least some amino acids readily, while biomass yields on NO3- and histidine were generally low. All taxa were able to utilise bovine serum albumin, but for most taxa biomass yields on this substrate were significantly lower than on NH4+. Significant intraspecific variation in biomass yield was observed on all substrates for taxa for which multiple isolates were screened. As a group, eastern Australian Amanita species thus have the potential to utilise nitrogen from a broad range of organic substrates and this might be important in the nitrogen nutrition of their ectomycorrhizal tree hosts in sclerophyll forests.

Variation in nitrogen source utilisation by nine Amanita muscaria genotypes from Australian Pinus radiata plantations.

The abilities of nine genotypes of Amanita muscaria (L.:Fr) Pers. to utilise a range of inorganic and organic nitrogen sources for growth was examined in axenic liquid cultures. Considerable intraspecific variation was observed in biomass yields on all substrates; however biomass yield was highest on glutamine and/or NH4+ for all genotypes. Yields on aspartic acid, glutamic acid and histidine were generally low relative to NH4+, while utilisation of arginine and glycine showed marked variation between genotypes. Eight genotypes produced significantly less biomass on bovine serum albumin than on NH4+, raising questions regarding classification of A. muscaria as a 'protein fungus'.