Search filters

List of works by James K Hane

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

scientific article

A comprehensive draft genome sequence for lupin (Lupinus angustifolius), an emerging health food: insights into plant-microbe interactions and legume evolution.

scientific article published on 24 August 2016

A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres.

scientific article

A novel mode of chromosomal evolution peculiar to filamentous Ascomycete fungi.

scientific article

A whole genome scan of SNP data suggests a lack of abundant hard selective sweeps in the genome of the broad host range plant pathogenic fungus Sclerotinia sclerotiorum

article

Accessories Make the Outfit: Accessory Chromosomes and Other Dispensable DNA Regions in Plant-Pathogenic Fungi

scientific article published on 28 June 2018

Adapting legume crops to climate change using genomic approaches.

scientific article published on 30 March 2018

Analysis of conglutin seed storage proteins across lupin species using transcriptomic, protein and comparative genomic approaches.

scientific article published on 19 April 2015

Bioinformatic prediction of plant-pathogenicity effector proteins of fungi.

scientific article published on 17 February 2018

Chromosome-level genome assembly and manually-curated proteome of model necrotroph Parastagonospora nodorum Sn15 reveals a genome-wide trove of candidate effector homologs, and redundancy of virulence-related functions within an accessory chromosome

scientific article published on 25 May 2021

CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts.

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 a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population divergence

scientific article published on January 2013

Comparative genomics of the wheat fungal pathogen Pyrenophora tritici-repentis reveals chromosomal variations and genome plasticity

scientific article published on 23 April 2018

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

scientific article

Comprehensive Annotation of the Parastagonospora nodorum Reference Genome Using Next-Generation Genomics, Transcriptomics and Proteogenomics

scientific article

Construction of a comparative genetic map in faba bean (Vicia faba L.); conservation of genome structure with Lens culinaris

scientific article

Deep proteogenomics; high throughput gene validation by multidimensional liquid chromatography and mass spectrometry of proteins from the fungal wheat pathogen Stagonospora nodorum

scientific article

Development of genomic resources for the narrow-leafed lupin (Lupinus angustifolius): construction of a bacterial artificial chromosome (BAC) library and BAC-end sequencing ⬇️

scientific article published on October 21, 2011

Dothideomycete plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum

scientific article

Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement

scientific article published on 27 January 2013

Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations

scientific article

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

scientific article

Evolution of Linked Avirulence Effectors in Leptosphaeria maculans Is Affected by Genomic Environment and Exposure to Resistance Genes in Host Plants ⬇️

scientific article published on November 4, 2010

Exploring the genetic and adaptive diversity of a pan-Mediterranean crop wild relative: narrow-leafed lupin

scientific article published on 20 January 2018

Extensive macrosynteny between Medicago truncatula and Lens culinaris ssp. culinaris.

scientific article published on 22 November 2006

Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis

scientific article

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

scientific article

Mass-spectrometry data for Rhizoctonia solani proteins produced during infection of wheat and vegetative growth.

scientific article

Next-generation re-sequencing as a tool for rapid bioinformatic screening of presence and absence of genes and accessory chromosomes across isolates of Zymoseptoria tritici.

scientific article published in June 2015

OcculterCut: A Comprehensive Survey of AT-Rich Regions in Fungal Genomes

scientific article published on 11 June 2016

Overview of genomic and bioinformatic resources for Zymoseptoria tritici

scientific article published on June 2015

Pan-Parastagonospora Comparative Genome Analysis-Effector Prediction and Genome Evolution

scientific article published on 01 September 2018

Prediction of pathogenicity genes involved in adaptation to a lupin host in the fungal pathogens Botrytis cinerea and Sclerotinia sclerotiorum via comparative genomics

article

Proteomic Analysis of Rhizoctonia solani Identifies Infection-specific, Redox Associated Proteins and Insight into Adaptation to Different Plant Hosts.

scientific article published on 25 January 2016

Reactive Oxygen Species Play a Role in the Infection of the Necrotrophic Fungi, Rhizoctonia solani in Wheat

scientific article

Selective sweeps in populations of the broad host range plant pathogenic fungus Sclerotinia sclerotiorum

article

The Arabidopsis KH-Domain RNA-Binding Protein ESR1 Functions in Components of Jasmonate Signalling, Unlinking Growth Restraint and Resistance to Stress

scientific article published on 18 May 2015

The first gene-based map of Lupinus angustifolius L.-location of domestication genes and conserved synteny with Medicago truncatula.

scientific article

The genome sequence of the biocontrol fungus Metarhizium anisopliae and comparative genomics of Metarhizium species.

scientific article

The western Mediterranean region provided the founder population of domesticated narrow-leafed lupin

scientific article published on 17 September 2018

Transcriptome analysis of Stagonospora nodorum: gene models, effectors, metabolism and pantothenate dispensability

scientific article published on 6 December 2011

Transcriptome sequencing of different narrow-leafed lupin tissue types provides a comprehensive uni-gene assembly and extensive gene-based molecular markers

scientific article

Utilizing Gene Tree Variation to Identify Candidate Effector Genes in Zymoseptoria tritici.

scientific article published on 2 February 2016

Paulina is supported by:

About Paulina

Help