Colletotrichum clavatum sp. nov. identified as the causal agent of olive anthracnose in Italy

Molecular analyses of a large population of isolates, previously identified as group B or genetic group A4 of the Colletotrichum acutatum species complex, mainly of Italian origin from olive, but also from other hosts collected since 1992, confirmed a well-resolved phylogenetic lineage with distinctive phenotypic characters which can be recognized as a separate species. Based on RAPD genomic fingerprinting, ITS and β-tubulin DNA sequences, this species was clearly distinct from C. acutatum sensu stricto, C. fioriniae and C. simmondsii as well as from the genetic groups A1, A6, A7 and A8, all previously referred to as C. acutatum sensu lato. Group A4 is widespread in Europe, being responsible for olive anthracnose epidemics in some Mediterranean countries, including Greece, Italy, Montenegro, Portugal and Spain; moreover, it causes anthracnose diseases on a wide range of other hosts including about 20 different genera of woody and herbaceous plants, ornamentals and fruit trees. This new anamorphic taxon is described as Colletotrichum clavatum sp. nov

Dieback of Pinus nigra Seedlings Caused by a Strain of Trichoderma viride

Four different fungi (Trichoderma viride, T. harzianum, Phomopsis sp., and Mortierella sp.) were isolated from 6-year-old Pinus nigra plants showing stunting and high incidence of mortality in a reforestation area of the National Park of Abruzzo, Lazio, and Molise (central Italy). Tests conducted on P. nigra revealed the pathogenic behavior of T. viride isolates with 30 to 80% mortality in artificially inoculated 2-year-old seedlings. The pathogenicity of these isolates was also observed in 10-year-old P. nigra trees and on lemon fruit. This result, in agreement with the constant isolation of T. viride from diseased plants, suggests the possible role of this fungus in the decline of P. nigra plants. T. harzianum and two reference isolates of T. viridarium and T. trixiae did not cause any symptoms, while Phomopsis sp. and Mortierella sp. caused limited necroses around the inoculation point in a few seedlings. Their role in the decline of P. nigra seedlings was considered irrelevant. According to phylogenetic analyses, pathogenic isolates of T. viride clustered in a very uniform group containing strains from different geographic origin and hosts, but none previously reported as a biocontrol agent

Molecular analysis of Colletotrichum species in the carposphere and phyllosphere of olive.

A metagenomic approach based on the use of genus specific primers was developed and utilized to characterize Colletotrichum species associated with the olive phyllosphere and carposphere. Selected markers enabled the specific amplification of almost the entire ITS1-5.8S-ITS2 region of the rDNA and its use as barcode gene. The analysis of different olive samples (green and senescent leaves, floral residues, symptomatic and asymptomatic fruits, and litter leaves and mummies) in three different phenological phases (June, October and December) enabled the detection of 12 genotypes associated with 4 phylotypes identified as C. godetiae, C. acutatum s.s., C. gloeosporioides s.s. and C. kahawae. Another three genotypes were not identified at the level of species but were associated with the species complexes of C. acutatum, C. gloeosporioides and C. boninense sensu lato. Colletotrichum godetiae and C. acutatum s.s. were by far the most abundant while C. gloeosporioides s.s. was detected in a limited number of samples whereas ther phylotypes were rarely found. The high incidence of C. acutatum s.s. represents a novelty for Italy and more generally for the Mediterranean basin since it had been previously reported only in Portugal. As regards to the phenological phase, Colletotrichum species were found in a few samples in June and were diffused on all assessed samples in December. According to data new infections on olive tissues mainly occur in the late fall. Furthermore, Colletotrichum species seem to have a saprophytic behavior on floral olive residues. The method developed in the present study proved to be valuable and its future application may contribute to the study of cycle and aetiology of diseases caused by Colletotrichum species in many different pathosystems

Plant Genotype Shapes the Bacterial Microbiome of Fruits, Leaves, and Soil in Olive Plants

The plant microbiome plays an important role in plant biology, ecology, and evolution. While recent technological developments enabled the characterization of plant-associated microbiota, we still know little about the impact of different biotic and abiotic factors on the diversity and structures of these microbial communities. Here, we characterized the structure of bacterial microbiomes of fruits, leaves, and soil collected from two olive genotypes (Sinopolese and Ottobratica), testing the hypothesis that plant genotype would impact each compartment with a different magnitude. Results show that plant genotype differently influenced the diversity, structure, composition, and co-occurence network at each compartment (fruits, leaves, soil), with a stronger effect on fruits compared to leaves and soil. Thus, plant genotype seems to be an important factor in shaping the structure of plant microbiomes in our system, and can be further explored to gain functional insights leading to improvements in plant productivity, nutrition, and defenses

List of species and isolates utilized to evaluate the specificity of <i>Colletotrichum</i>-genus-specific primers and corresponding positive (+) or negative (-) amplification results obtained in PCR reactions with pure culture DNA samples.

<p>List of species and isolates utilized to evaluate the specificity of <i>Colletotrichum</i>-genus-specific primers and corresponding positive (+) or negative (-) amplification results obtained in PCR reactions with pure culture DNA samples.</p

List of <i>Colletotrichum</i> species and ITS genotypes identified in different olive tissues collected in three olive orchards on the Gioia Tauro plain (southern Italy).

<p>*Number of samples in which each genotype was detected</p><p>**Accession numbers</p><p>The number of samples and the orchards (Cfr. <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0114031#pone-0114031-t002" target="_blank">Table 2</a>) in which each genotype was detected is reported together with GenBank accession numbers for sequences. Genotypes were grouped according to their phylogenetic identification (Cfr. <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0114031#pone-0114031-g001" target="_blank">Fig. 1</a>).</p><p>List of <i>Colletotrichum</i> species and ITS genotypes identified in different olive tissues collected in three olive orchards on the Gioia Tauro plain (southern Italy).</p