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59 results for “Cladosporium”
Figure 10 in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 10. Nucleotide sequence alignment of the ITS (ITS1, 5.8S rDNA and ITS4) region of the C. sphaerospermum isolate 10 and the other isolates already recorded in NCBI.
Figure 8 in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 8. Nucleotide sequence alignment of the ITS (ITS1, 5.8S rDNA and ITS4) region of the C. sphaerospermum isolate 9 and the other isolates already recorded in NCBI.
Figure 5. A phylogenetic tree was generated using the neighbor-joining method which shows the genetic relationship between C. sphaerospermum 2 in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 5. A phylogenetic tree was generated using the neighbor-joining method which shows the genetic relationship between C. sphaerospermum 2 (as indicated in red circle) and the other C. sphaerospermum isolates deposited in GenBank (NCBI)
Figure 3. A in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 3. A phylogenetic tree constructed by the neighbor-joining method depending on a comparison of the nucleotide sequences obtained from the C. sphaerospermum isolates (1-13).
Figure 2 in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 2. The similarity and difference in the nucleotide sequences of the C. sphaerospermum isolates (1-13) identified in the present study. Similar nucleotides are stated in dots. Numbers given on the right side of the figure represent the nucleotide sequences obtained from the C. sphaerospermum isolates.
Figure 1. 1 in Morphological and molecular identification of Cladosporium sphaerospermum isolates collected from tomato plant residues
Figure 1. 1% Agarose gel electrophoresis of PCR products amplified using the primer pair ITS1 and ITS4 from the C. sphaerospermum isolates (1-13) obtained from tomato plant residues collected from different regions of Najaf and Karbala provinces. M: 1Kbp DNA Ladder (Promega, USA).
Linked collectors and determiners for: Muestra de Cladosporium tenuissimum asociado a la roña en gulupa, en el departamento de Tolima.
Natural history specimen data linked to collectors and determiners held within, "Muestra de Cladosporium tenuissimum asociado a la roña en gulupa, en el departamento de Tolima". Claims or attributions were made on Bionomia by volunteer Scribes, <a href="https://bionomia.net/dataset/21c371db-3ff7-4bdf-8de0-18b52bfe5f8c">https://bionomia.net/dataset/21c371db-3ff7-4bdf-8de0-18b52bfe5f8c</a> using specimen data from the dataset aggregated by the Global Biodiversity Information Facility, <a href="https://gbif.org/dataset/21c371db-3ff7-4bdf-8de0-18b52bfe5f8c">https://gbif.org/dataset/21c371db-3ff7-4bdf-8de0-18b52bfe5f8c</a>. Formatted as a Frictionless Data package.
Cryptic Diversity in Cladosporium cladosporioides Resulting from Species Delimitation Analysis
<p><strong>Concatenated loci alignment (.fasta), Maximum-Likelihood, Maximum-Parsimony and Bayesian reconstruction of <em>Cladosporium cladosporioides</em> phylogeny. </strong></p> <p>Files represent dataset of the study: "Cryptic Diversity in Cladosporium cladosporioides Resulting from Species Delimitation Analysis"</p> <p> </p> <p>ABSTRACT</p> <p>Establishing a stable taxonomy is particularly important for understanding fungal biodiversity, as well as the evolution of particular traits related to symbiotic interactions. <em>Cladosporium cladosporioides </em>is an extremely widespread fungus involved in associations ranging from mutualistic to pathogenic, and is the most represented <em>Cladosporium</em> species in genetic sequence databases, such as Genbank. Although the taxonomy of <em>Cladosporium</em> species is subjected to frequent revisions, which nowadays mostly rely on molecular data, few studies explored cryptic diversity of this genus using the recently developed species delimitation methods. Considering a previous study which reported several hypothetical species within <em>C. cladosporioides</em>, here we try to fill the gap of knowledge about phylogenetic relationships for this species and tested four different methods of species delimitation using the combined DNA barcodes ITS, <em>translation elongation factor 1</em> and <em>actin</em>. The analyses involved 105 isolates revealing that currently available sequences of <em>C. cladosporioides</em> in GenBank actually represent more than one species. Moreover, we reported the erroneous taxonomical assignment of several isolates that should be ascribed to <em>C. anthropophilum</em>. Our results revealed a certain degree of discordance among species delimitation methods, which can be efficiently treated using conservative approaches, in order to minimize the risk of considering false positives.</p>
Repetitive DNA annotation of Cladosporium fulvum Race 5
<p>This dataset consists of repetitive DNA annotation of the genome of <em>Cladosporium fulvum i</em>solate Race 5 (GenBank GCA_020509005.2). Repeats were identified with two versions of RepeatModeler v1.0.11 and v2.0.2. The repeat libraries obtained by both versions are in distinct files: RM1_lib.fasta and RM2_lib.fasta for versions 1 and 2 of RepeatModeler, respectively. The repeat libraries were used to mask the genome of <em>C. fulvum</em> Race 5 using RepeatMasker v4.1.2-p1. The obtained locations of repeats are shown in the GFF files.</p> <p>This dataset is associated with the following publication: A chromosome-scale genome assembly of the tomato pathogen <em>Cladosporium fulvum</em> reveals a compartmentalized genome architecture and the presence of a dispensable chromosome. <em>Microbial Genomics</em>, 2022.</p>
New Cladosporium species from normal and galled flowers of Lamiaceae
<p>Alignments and philogenetic trees underlying the figures presented in : "<strong>New <em>Cladosporium</em> species from normal and galled flowers of Lamiaceae"</strong></p>
FIGURE 5 in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE 5. Cladosporium brigadeirensis (VIC 44238, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–K. Macronematous conidiophores. E. Mult-branched conidiophore. I. Conidiogenous cell details. J. Terminal and intercalary conidiogenous cells. K. Secondary ramoconidia prolongation. L. Micronematous conidiophores. M. Microcyclic conidiogenesis. Scale bars: E = 50 µM; F–M = 20 µM.
FIGURE 7 in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE 7. Cladosporium pseudotenuissimum (VIC 44422, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–J. Macronematous conidiophores and conidia. E, F. Micronematous conidiophores at arrows. K. Conidiogenous cel with conidia. L. Bubble-like swelling details. M. Microcyclic conidiogenesis (black arrow) and Ramoconidia (red arrow). Scale bars: E = 50 µM; F–M = 20 µM.
FIGURE 6 in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE 6. Cladosporium chusqueae (VIC 44239, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–K. Macronematous conidiophores and conidia. G. Terminal conidiophore. H. Short peg-like prolongation. I. Bent conidiophore; J–K. Conidiophore branched near the base at a 90º angle. L. Micronematous conidiophores. M. Microcyclic conidiogenesis. Scale bars: E = 50 µM; F–M = 20 µM.
FIGURE. Cladosporium benschii (VIC 44412, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–J. Non-geniculate macronematous conidiophores and conidia. K. Conidiogenous cells with slightly protuberant loci. L. Micronematous conidiophores. M. Microcyclic conidiogenesis. Scale bars: E–M = 20 µM. in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. Cladosporium benschii (VIC 44412, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–J. Non-geniculate macronematous conidiophores and conidia. K. Conidiogenous cells with slightly protuberant loci. L. Micronematous conidiophores. M. Microcyclic conidiogenesis. Scale bars: E–M = 20 µM.
FIGURE. Cladosporium bambusicola (VIC 44237, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–F. Conidiophore and bigger conidia. G–H. Conidiophores and smaller conidia. I. Stromatic hyphal aggregation. J–K. Micronematous conidiophores. L. Ramoconidia and conidia. M. Microcyclic conidiogenesis. Scale bars: E = 50 µM; F–M = 20 µM. in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. Cladosporium bambusicola (VIC 44237, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–F. Conidiophore and bigger conidia. G–H. Conidiophores and smaller conidia. I. Stromatic hyphal aggregation. J–K. Micronematous conidiophores. L. Ramoconidia and conidia. M. Microcyclic conidiogenesis. Scale bars: E = 50 µM; F–M = 20 µM.
FIGURE. Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, ex-neotype, or reference strain). in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, ex-neotype, or reference strain).
FIGURE. (Continued) Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, exneotype, or reference strain). in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. (Continued) Multilocus phylogenetic tree inferred from Bayesian analysis based on the combined TEF1-α and ACT sequences. Bayesian posterior probabilities are indicated next to the nodes. The tree was rooted with Cladosporium herbarum CBS 121621. The species in this study are indicated in bold. Types of species are indicated after the culture collection number (T = ex-type, ex-epitype, exneotype, or reference strain).
FIGURE. Cladosporium aulonemiae (VIC 44413, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–G. Macronematous conidiophores and numerous conidia; H–I. Formation of loci in close succession; I. Spread polysaccharide-like material; J. Micronematous conidiophores; K. Ramoconidia and conidia; L. Microcyclic conidiogenesis; M. Stromatic hyphal aggregation. Scale bars: E–M = 20 µM. in Six new species of Cladosporium associated with decayed leaves of native bamboo (Bambusoideae) in a fragment of Brazilian Atlantic Forest
FIGURE. Cladosporium aulonemiae (VIC 44413, holotype). A–D. Colonies on A. Potato dextrose agar; B. Malt extract agar; C. Oatmeal agar; D. Synthetic nutrient-poor agar, after 14 days at 25 ºC, under near-ultraviolet light, respectively. E–G. Macronematous conidiophores and numerous conidia; H–I. Formation of loci in close succession; I. Spread polysaccharide-like material; J. Micronematous conidiophores; K. Ramoconidia and conidia; L. Microcyclic conidiogenesis; M. Stromatic hyphal aggregation. Scale bars: E–M = 20 µM.
Supplementary Tables for the genome architecture of the fungal plant pathogens Cladosporium fulvum and Erysiphe necator and its relevance to pathogenicity
<p>This repository contains supplementary tables for the PhD disseration titled "The genome architecture of the fungal plant pathogens <em>Cladosporium fulvum</em> and <em>Erysiphe necator</em> and its relevance to pathogenicity".</p> <p> </p> <p> </p>
Transcriptome data of the analysis of two isolates of the tomato pathogen Cladosporium fulvum during host interaction
<p>This dataset contains sequences of assembled transcripts from isolates Race 5 and Race 4 of the tomato pathogen Cladosporium fulvum during interaction with its host.</p> <p><strong>transcripts:</strong> Assembled transcripts in FASTA and GTF fomats. The GTF files have coordinates of the transcripts in the reference genomes of isolates Race 5 (GCA_020509005.2) and Race 4 (GCA_035196885.1). The other FASTA files include the predicted open reading frames (ORFs) in the transcripts. The nucleotide coding sequence and translated amino acid sequences of the ORFs are in separated FASTA files. In the file names isolate Race 5 is indicated with '*R5*', and isolate Race 4 is indicated with '*R4*'. Description of the files is shown below:</p> <ul> <li><code>representatives_R4_diff_introns.fasta</code>: full-length transcript sequences from isolate Race 4.</li> <li><code>representatives_R5_diff_introns.fasta</code>: full-length transcript sequences from isolate Race 5.</li> <li><code>representatives_R4_diff_introns.gtf</code>: coordinates of the transcripts from isolate Race 4 in the genome of Race 4.</li> <li><code>representatives_R5_diff_introns.gtf</code>: coordinates of the transcripts from isolate Race 5 in the genome of Race 5.</li> <li><code>representatives_orfs_aa_R4_diff_introns.fasta:</code> predicted protein sequences encoded in the transcripts from isolate Race 4.</li> <li><code>representatives_orfs_aa_R5_diff_introns.fasta</code>: predicted protein sequences encoded in the transcripts from isolate Race 5.</li> <li><code>representatives_orfs_cds_R4_diff_introns.fasta</code>: predicted coding sequences in the transcripts from isolate Race 4.</li> <li><code>representatives_orfs_cds_R5_diff_introns.fasta</code>: predicted coding sequences in the transcripts from isolate Race 5.</li> </ul> <p><strong>expression:</strong> Contains tab-separated files with the expression values (transcripts per million - TPM) of the transcripts from isolates Race 5 and Race 4 at specific time points (2, 4, 6, 8, 10, 12, and 14 dpi) during interaction with tomato. TPM values were estimated with the alignment-free method Salmon.</p>
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