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Ramularia collo-cygni genome, DK05

ABSTRACT: De novo genome assembly and comparative genomics of the newly important barley pathogen Ramularia collo-cygni.

PROVIDER: PRJEB11432 | ENA |

REPOSITORIES: ENA

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Dataset's files

Source:

			Action	DRS
	CZLF01.dat.gz	Other
	CZLF01.fasta.gz	Fasta.gz
	CZLF01.master.dat	Other
	ERR1078370_1.fastq.gz	Fastqsanger.gz
	ERR1078370_2.fastq.gz	Fastqsanger.gz

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Barley leaf infection with Ramularia collo-cygni

Project description:Barley plants (cv Fairytale and Tripple) were infected with two Ramularia collo-cygni isolates. Either DK05 or NZ11. Transcript and protein profiles were compared.

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Fungicide Resistance Evolving in Ramularia collo-cygni Population in Estonia.

Project description:Ramularia leaf spot caused by the fungus Ramularia collo-cygni, has recently become widespread in Estonian barley fields. Currently, disease control in barley fields relies on SDHI and DMI fungicides, which might be threatened by R. collo-cygni isolates that are well-adapted to fungicide pressure. In a two-year study, 353 R. collo-cygni isolates were collected from spring barley fields in Estonia. A total of 153 R. collo-cygni isolates were examined for sensitivity to azoles (DMIs; prothioconazole-desthio, epoxiconazole, mefentrifluconazole) and succinate dehydrogenase inhibitors (SDHIs; boscalid, fluxapyroxad). Epoxiconazole was the least effective and a new fungicide mefentrifluconazole was the most effective DMI. Among SDHIs, fluxapyroxad was more effective than boscalid. Also, single R. collo-cygni isolates with high resistance to tested fungicides occurred, which could affect fungicide control of the pathogen. The entire collection of R. collo-cygni was analysed for mutations in fungicide target proteins. Six mutations were identified in CYP51 gene, the most dominant being I381T, I384T, and S459C. Also, numerous point mutations in the SdhC gene were present. The mutation G143A in strobilurin target protein CytB dominates in over 80% of the R. collo-cygni population, confirming the low efficacy of strobilurin fungicides in barley disease control.

| S-EPMC8307248 | biostudies-literature

The genome of the emerging barley pathogen Ramularia collo-cygni.

Project description:BackgroundRamularia collo-cygni is a newly important, foliar fungal pathogen of barley that causes the disease Ramularia leaf spot. The fungus exhibits a prolonged endophytic growth stage before switching life habit to become an aggressive, necrotrophic pathogen that causes significant losses to green leaf area and hence grain yield and quality.ResultsThe R. collo-cygni genome was sequenced using a combination of Illumina and Roche 454 technologies. The draft assembly of 30.3 Mb contained 11,617 predicted gene models. Our phylogenomic analysis confirmed the classification of this ascomycete fungus within the family Mycosphaerellaceae, order Capnodiales of the class Dothideomycetes. A predicted secretome comprising 1053 proteins included redox-related enzymes and carbohydrate-modifying enzymes and proteases. The relative paucity of plant cell wall degrading enzyme genes may be associated with the stealth pathogenesis characteristic of plant pathogens from the Mycosphaerellaceae. A large number of genes associated with secondary metabolite production, including homologs of toxin biosynthesis genes found in other Dothideomycete plant pathogens, were identified.ConclusionsThe genome sequence of R. collo-cygni provides a framework for understanding the genetic basis of pathogenesis in this important emerging pathogen. The reduced complement of carbohydrate-degrading enzyme genes is likely to reflect a strategy to avoid detection by host defences during its prolonged asymptomatic growth. Of particular interest will be the analysis of R. collo-cygni gene expression during interactions with the host barley, to understand what triggers this fungus to switch from being a benign endophyte to an aggressive necrotroph.

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Expression profiles of Ramularia collo-cygni (strain urug 2) grown on 6 conditions revealed common and different sets of regulated genes

Project description:The fungal RNA from 6 different conditions, especially one that mimics the plant environment (Barley Straw Agar –BSagar) was also sequenced to help in one hand the annotation and in other hand to uncover putative gene of interest that might be involved in the pathogenicity or the fungicide resistances for example.

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Expression profiles of Ramularia collo-cygni (strain urug 2) grown on 6 conditions revealed common and different sets of regulated genes

Project description:Expression profiles of Ramularia collo-cygni (strain urug 2) grown on 6 conditions revealed common and different sets of regulated genes

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