List of works - Jana Sperschneider

A Near-Complete Haplotype-Phased Genome of the Dikaryotic Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici Reveals High Interhaplotype Diversity.

scientific article published on 20 February 2018

A chromosome-level, fully phased genome assembly of the oat crown rust fungus <i>Puccinia coronata</i> f. sp. <i>avenae</i>: a resource to enable comparative genomics in the cereal rusts

scientific article published in 2022

A comparative hidden Markov model analysis pipeline identifies proteins characteristic of cereal-infecting fungi

scientific article

A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungus Rhizophagus irregularis

scientific article published on 21 October 2022

A near complete haplotype-phased genome of the dikaryotic wheat stripe rust fungus Puccinia striiformis f. sp. tritici reveals high inter-haplotype diversity

article

Advances and challenges in computational prediction of effectors from plant pathogenic fungi

scientific article published on 28 May 2015

ApoplastP: prediction of effectors and plant proteins in the apoplast using machine learning.

scientific article published on 15 December 2017

Changing the Game: Using Integrative Genomics to Probe Virulence Mechanisms of the Stem Rust Pathogen Puccinia graminis f. sp. tritici

scientific article

Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors.

scientific article published on 5 March 2016

Comparative genomics of Australian isolates of the wheat stem rust pathogen Puccinia graminis f. sp. tritici reveals extensive polymorphism in candidate effector genes

scientific article

Comparative secretome analysis of Rhizoctonia solani isolates with different host ranges reveals unique secretomes and cell death inducing effectors

scientific article

Computational Methods for Predicting Effectors in Rust Pathogens

scientific article

De Novo Assembly and Phasing of Dikaryotic Genomes from Two Isolates of Puccinia coronata f. sp. avenae, the Causal Agent of Oat Crown Rust.

scientific article published on 20 February 2018

Diversifying selection in the wheat stem rust fungus acts predominantly on pathogen-associated gene families and reveals candidate effectors

scientific article published on September 2014

DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model

scientific article

EffectorP: predicting fungal effector proteins from secretomes using machine learning

scientific article published on 17 December 2015

Evaluation of Secretion Prediction Highlights Differing Approaches Needed for Oomycete and Fungal Effectors.

scientific article

Genome sequencing and comparative genomics of the broad host-range pathogen Rhizoctonia solani AG8.

scientific article

Genome-Wide Analysis in Three Fusarium Pathogens Identifies Rapidly Evolving Chromosomes and Genes Associated with Pathogenicity.

scientific article published on 19 May 2015

Identification and profiling of narrow-leafed lupin (Lupinus angustifolius) microRNAs during seed development

scientific article published on 14 February 2019

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0.

scientific article published on 22 March 2018

KnotSeeker: heuristic pseudoknot detection in long RNA sequences.

scientific article

LOCALIZER: subcellular localization prediction of both plant and effector proteins in the plant cell.

scientific article published on 16 March 2017

Loss of AvrSr50 by somatic exchange in stem rust leads to virulence for Sr50 resistance in wheat.

scientific article published in December 2017

Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data

scientific article published on 25 March 2022

Predicting pseudoknotted structures across two RNA sequences

scientific article

The stem rust fungus Puccinia graminis f. sp. tritici induces centromeric small RNAs during late infection that are associated with genome-wide DNA methylation

scientific article published on 15 September 2021

List of works by Jana Sperschneider

A Near-Complete Haplotype-Phased Genome of the Dikaryotic Wheat Stripe Rust Fungus Puccinia striiformis f. sp. tritici Reveals High Interhaplotype Diversity.

A chromosome-level, fully phased genome assembly of the oat crown rust fungus <i>Puccinia coronata</i> f. sp. <i>avenae</i>: a resource to enable comparative genomics in the cereal rusts

A comparative hidden Markov model analysis pipeline identifies proteins characteristic of cereal-infecting fungi

A highly contiguous genome assembly reveals sources of genomic novelty in the symbiotic fungus Rhizophagus irregularis

A near complete haplotype-phased genome of the dikaryotic wheat stripe rust fungus Puccinia striiformis f. sp. tritici reveals high inter-haplotype diversity

Advances and challenges in computational prediction of effectors from plant pathogenic fungi

ApoplastP: prediction of effectors and plant proteins in the apoplast using machine learning.

Changing the Game: Using Integrative Genomics to Probe Virulence Mechanisms of the Stem Rust Pathogen Puccinia graminis f. sp. tritici

Comparative genomics and prediction of conditionally dispensable sequences in legume-infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors.

Comparative genomics of Australian isolates of the wheat stem rust pathogen Puccinia graminis f. sp. tritici reveals extensive polymorphism in candidate effector genes

Comparative secretome analysis of Rhizoctonia solani isolates with different host ranges reveals unique secretomes and cell death inducing effectors

Computational Methods for Predicting Effectors in Rust Pathogens

De Novo Assembly and Phasing of Dikaryotic Genomes from Two Isolates of Puccinia coronata f. sp. avenae, the Causal Agent of Oat Crown Rust.

Diversifying selection in the wheat stem rust fungus acts predominantly on pathogen-associated gene families and reveals candidate effectors

DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model

EffectorP: predicting fungal effector proteins from secretomes using machine learning

Evaluation of Secretion Prediction Highlights Differing Approaches Needed for Oomycete and Fungal Effectors.

Genome sequencing and comparative genomics of the broad host-range pathogen Rhizoctonia solani AG8.

Genome-Wide Analysis in Three Fusarium Pathogens Identifies Rapidly Evolving Chromosomes and Genes Associated with Pathogenicity.

Identification and profiling of narrow-leafed lupin (Lupinus angustifolius) microRNAs during seed development

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0.

KnotSeeker: heuristic pseudoknot detection in long RNA sequences.

LOCALIZER: subcellular localization prediction of both plant and effector proteins in the plant cell.

Loss of AvrSr50 by somatic exchange in stem rust leads to virulence for Sr50 resistance in wheat.

Physical separation of haplotypes in dikaryons allows benchmarking of phasing accuracy in Nanopore and HiFi assemblies with Hi-C data

Predicting pseudoknotted structures across two RNA sequences

The stem rust fungus Puccinia graminis f. sp. tritici induces centromeric small RNAs during late infection that are associated with genome-wide DNA methylation