Comparison of Colletotrichum orbiculare and Several Allied Colletotrichum spp. for mtDNA RFLPs, Intron RFLP and Sequence Variation, Vegetative Compatibility, and Host Specificity (original) (raw)
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The plant pathology journal, 2014
Genetic diversity and differentiation of 50 Colletotrichum spp. isolates from legume crops studied through multigene loci, RAPD and ISSR analysis. DNA sequence comparisons by six genes (ITS, ACT, Tub2, CHS-1, GAPDH, and HIS3) verified species identity of C. truncatum, C. dematium and C. gloeosporiodes and identity C. capsici as a synonym of C. truncatum. Based on the matrix distance analysis of multigene sequences, the Colletotrichum species showed diverse degrees of intera and interspecific divergence (0.0 to 1.4%) and (15.5-19.9), respectively. A multilocus molecular phylogenetic analysis clustered Colletotrichum spp. isolates into 3 well-defined clades, representing three distinct species; C. truncatum, C. dematium and C. gloeosporioides. The ISSR and RAPD and cluster analysis exhibited a high degree of variability among different isolates and permitted the grouping of isolates of Colletotrichum spp. into three distinct clusters. Distinct populations of Colletotrichum spp. isolat...
The Colletotrichum orbiculare species complex: Important pathogens of field crops and weeds
Colletotrichum orbiculare causes anthracnose of Cucurbitaceae and is phylogenetically closely related to pathogens of several other herbaceous hosts belonging to the Asteraceae, Fabaceae and Malvaceae. Most of them are known for their hemibiotrophic infection strategy and as destructive pathogens either of field crops or weeds. In order to study the phylogenetic relationships of these fungi, a multilocus analysis (ITS, GAPDH, CHS-1, HIS3, ACT, TUB2, GS) of 42 strains of C. orbiculare and related species was conducted. The analysis resulted in nine clades that confirmed the four species previously known as belonging to this species complex, C. lindemuthianum, C. malvarum, C. orbiculare and C. trifolii, and recognised four new species from weeds, namely C. bidentis, C. sidae, C. spinosum and C. tebeestii. The name C. orbiculare itself is widely used in plant pathology and science, but is invalid according to current nomenclatural rules. Therefore we described a new species with the same epithet and a type specimen that agrees with our current understanding of this species, and is linked to a living culture. Following the recent epitypification of C. lindemuthianum, we chose appropriate specimens with associated strains to serve as epitypes of C. malvarum and C. trifolii, and selected an authentic specimen of C. trifolii as lectotype.
Mitochondrial DNA Part B The complete mitogenome of Colletotrichum lupini var. setosum
The structure of Colletotrichum lupini mitogenome is typical of a fungus from the genus Colletotrichum similar to C. acutatum and C. lindemuthianum. The sequenced mitogenome has a total length of 36 554 bp. The nucleotide composition in the following genome is: 35.7% -A, 16.5% -C, 13.4% -G and 29.9% -T. In the C. lupini mitogenome we identified 46 genes: 15 protein coding genes, two ribosomal RNAs and 29 tRNA genes.
Morphological and molecular characterization of five Colletotrichum species from India
2005
Twenty Colletotrichum isolates comprising of five species C. capsici. C. dematium, C. falcatum, C. gloeosporioides and C. lindemuthianum from different geographical locations of India (New Delhi 4, Sikkim 2, Solan 3, Pantnagar 3, Daurala 2, Culcutta 1, Lucknow 1, Navasari 1, Pune 1, Dapoli 1 and Karnal 1) isolated from different crops (sugarcane, bell pepper, lal mirich, Gomphrena, Melia, bottle brush, Passiflora foetida, ashwagandha, egg plant, grape, cattleya, cashew nut, French bean, and soybean) were analyzed with RAPD markers. Morphological and cultural characters of these different species were correlated with the RAPD data. PCR amplification of total genomic DNA with 16 random primers generated unique banding patterns depending upon primer and the isolate. Sugarcane isolates 4800 and 4803 produced identical banding pattern while other isolates produced dissimilar bands within the particular species indicating the genetic diversity among the isolates within a species. Morpholo...
Biological Research, 2010
The genetic variation among nine soybean-originating isolates of Colletotrichum truncatum from different Brazilian states was studied. Nitrate non-utilizing (nit) mutants were obtained with potassium chlorate and used to characterize vegetative compatibility reactions, heterokaryosis and RAPD profile. Based on pairings of nit mutants from the different isolates, five vegetative complementation groups (VCG) were identified, and barriers to the formation of heterokaryons were observed among isolates derived from the same geographic area. No complementation was observed among any of the nit mutants recovered from the isolate A, which was designed heterokaryon-self-incompatible. Based on RAPD analysis, a polymorphism was detected among the wild isolate C and their nit1 and NitM mutants. RAPD amplification, with five different primers, also showed polymorphic profiles among Brazilian C. truncatum isolates. Dendrogram analysis resulted in a similarity degree ranging between 0.331 and 0.882 among isolates and identified three RAPD groups. Despite the lack of a correlation between the RAPD analysis and the vegetative compatibility grouping, results demonstrated the potential of VCG analysis to differentiate C. truncatum isolates genotypically similar when compared by RAPD.
Genes, 2020
Colletotrichum species form one of the most economically significant groups of pathogenic fungi and lead to significant losses in the production of major crops-in particular, fruits, vegetables, ornamental plants, shrubs, and trees. Members of the genus Colletotrichum cause anthracnose disease in many plants. Due to their considerable variation, these fungi have been widely investigated in genetic studies as model organisms. Here, we report the complete mitochondrial genome sequences of four Colletotrichum species (C. fioriniae, C. lupini, C. salicis, and C. tamarilloi). The reported circular mitogenomes range from 30,020 (C. fioriniae) to 36,554 bp (C. lupini) in size and have identical sets of genes, including 15 protein-coding genes, two ribosomal RNA genes, and 29 tRNA genes. All four mitogenomes are characterized by a rather poor repetitive sequence content with only forward repeat representatives and a low number of microsatellites. The topology of the phylogenetic tree reflects the systematic positions of the studied species, with representatives of each Colletotrichum species complex gathered in one clade. A comparative analysis reveals consistency in the gene composition and order of Colletotrichum mitogenomes, although some highly divergent regions are also identified, like the rps3 gene which appears as a source of potential diagnostic markers for all studied Colletotrichum species.
ITS-based diversity of Colletotrichum from India
Current Research in Environmental & Applied Mycology, 2013
Rapid and precise species identification of plant pathogens such as Colletotrichum is essential for their effective control. Colletotrichum species have been traditionally identified based on conidial morphology and host-specificity. Recently, extra emphasis has been placed on DNA sequence comparison for rapid and accurate identification. In this study, we have analyzed the suitability of using internal transcribed spacer (ITS)/ 5.8S rRNA gene, which is the universal fungal barcode marker towards accurate identification of Colletotrichum species. We have sequenced 207 isolates of Colletotrichum and compared their ITS/ 5.8S rRNA gene-sequence data with that of the 183 reference sequences available for the 143 accepted Colletotrichum type strains. The results of phylogenetic analysis based on ITS/ 5.8S rRNA gene-sequence dataset along with sequencecomparison hints at the nomenclatural ambiguity of many isolates, which were initially diagnosed based on morphological characters. A local-BLAST analysis of the 588 GenBank sequences from India shows that 79% of the sequences were erroneously named and 97% of the 159 isolates procured from Indian culture collection centres were found to be misidentified. Mycologists need to work on identification of a potential secondary barcode for this genus as ITS/ 5.8S rRNA is found to be ineffective in accurate identification of Colletotrichum. Researchers should also follow a polyphasic approach for species identification, which would definitely not be rapid; nevertheless would be more reliable and accurate.
Czech Mycology, 2013
In this study, we employed multilocus phylogenetic analysis for species identification of six Colletotrichum isolates belonging to the C. boninense species complex from India. Maximum parsimony analysis of the ITS/ 5.8S RNA, partial act, cal, chs1, gapdh, his3 and tub2 gene regions identified morphologically similar species, C. cymbidiicola, C. karstii and C. phyllanthi from diverse plant samples of Indian origin. Morphological description and photographic illustrations of C. phyllanthi from freshly collected material are provided, as the ex-type culture of C. phyllanthi deposited in CBS is in non-sporulating state. This is the first report of C. cymbidiicola and C. karstii from India. We are also reporting two new hosts: Bauhinia variegata (Orchid tree) and Bougainvillea glabra (Paper flower) for C. phyllanthi, and one new host: Olea dioica (Rose sandalwood) for C. karstii.