James Hane
James Hane
Senior Research Fellow, Project Leader - Bioinformatics, Center for Crop and Disease Management
Verified email at - Homepage
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Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement
RK Varshney, C Song, RK Saxena, S Azam, S Yu, AG Sharpe, S Cannon, ...
Nature biotechnology 31 (3), 240-246, 2013
Finished genome of the fungal wheat pathogen Mycosphaerella graminicola reveals dispensome structure, chromosome plasticity, and stealth pathogenesis
SB Goodwin, SB M'Barek, B Dhillon, AHJ Wittenberg, CF Crane, JK Hane, ...
PLoS Genetics 7 (6), e1002070, 2011
Effector diversification within compartments of the Leptosphaeria maculans genome affected by Repeat-Induced Point mutations
T Rouxel, J Grandaubert, JK Hane, C Hoede, AP Van de Wouw, ...
Nature communications 2 (1), 1-10, 2011
Dothideomycete–plant interactions illuminated by genome sequencing and EST analysis of the wheat pathogen Stagonospora nodorum
JK Hane, RGT Lowe, PS Solomon, KC Tan, CL Schoch, JW Spatafora, ...
The Plant Cell 19 (11), 3347-3368, 2007
A comprehensive draft genome sequence for lupin (Lupinus angustifolius), an emerging health food: insights into plant–microbe interactions and legume evolution
JK Hane, Y Ming, LG Kamphuis, MN Nelson, G Garg, CA Atkins, PE Bayer, ...
Plant Biotechnology Journal 15 (3), 318-330, 2017
Comparative genomics of a plant-pathogenic fungus, Pyrenophora tritici-repentis, reveals transduplication and the impact of repeat elements on pathogenicity and population …
VA Manning, I Pandelova, B Dhillon, LJ Wilhelm, SB Goodwin, AM Berlin, ...
G3: Genes| Genomes| Genetics 3 (1), 41-63, 2013
Evolution of linked avirulence effectors in Leptosphaeria maculans is affected by genomic environment and exposure to resistance genes in host plants
AP Van de Wouw, AJ Cozijnsen, JK Hane, PC Brunner, BA McDonald, ...
PLoS pathogens 6 (11), e1001180, 2010
RIPCAL: a tool for alignment-based analysis of repeat-induced point mutations in fungal genomic sequences
J Hane, R Oliver
BMC bioinformatics 9 (1), 478, 2008
The first gene-based map of Lupinus angustifolius L.-location of domestication genes and conserved synteny with Medicago truncatula
MN Nelson, HTT Phan, SR Ellwood, PM Moolhuijzen, J Hane, A Williams, ...
Theoretical and Applied Genetics 113 (2), 225-238, 2006
Genome Sequencing and Comparative Genomics of the Broad Host-Range Pathogen Rhizoctonia solani AG8
JK Hane, JP Anderson, AH Williams, J Sperschneider, KB Singh
PLOS Genetics 10 (5), e1004281, 2014
Construction of a comparative genetic map in faba bean (Vicia faba L.); conservation of genome structure with Lens culinaris
S Ellwood, H Phan, M Jordan, J Hane, A Torres, C Avila, S Cruz-Izquierdo, ...
BMC genomics 9 (1), 380, 2008
CodingQuarry: highly accurate hidden Markov model gene prediction in fungal genomes using RNA-seq transcripts
AC Testa, JK Hane, SR Ellwood, RP Oliver
BMC Genomics 16 (1), 170, 2015
A novel mode of chromosomal evolution peculiar to filamentous Ascomycete fungi
JK Hane, T Rouxel, BJ Howlett, GHJ Kema, SB Goodwin, RP Oliver
Genome Biol 12 (5), R45, 2011
Extensive macrosynteny between Medicago truncatula and Lens culinaris ssp. culinaris
HTT Phan, SR Ellwood, JK Hane, R Ford, M Materne, RP Oliver
Theoretical and Applied Genetics 114 (3), 549-558, 2007
A first genome assembly of the barley fungal pathogen Pyrenophora teres f. teres
SR Ellwood, Z Liu, RA Syme, Z Lai, JK Hane, F Keiper, CS Moffat, ...
Genome Biol 11 (11), R109, 2010
Transcriptome sequencing of different narrow‐leafed lupin tissue types provides a comprehensive uni‐gene assembly and extensive gene‐based molecular markers
LG Kamphuis, JK Hane, MN Nelson, L Gao, CA Atkins, KB Singh
Plant biotechnology journal 13 (1), 14-25, 2015
OcculterCut: a comprehensive survey of AT-rich regions in fungal genomes
AC Testa, RP Oliver, JK Hane
Genome biology and evolution 8 (6), 2044-2064, 2016
Comparative genomics and prediction of conditionally dispensable sequences in legume–infecting Fusarium oxysporum formae speciales facilitates identification of candidate effectors
AH Williams, M Sharma, LF Thatcher, S Azam, JK Hane, J Sperschneider, ...
BMC Genomics 17 (1), 1, 2016
Accessories make the outfit: accessory chromosomes and other dispensable DNA regions in plant-pathogenic Fungi
S Bertazzoni, AH Williams, DA Jones, RA Syme, KC Tan, JK Hane
Molecular Plant-Microbe Interactions 31 (8), 779-788, 2018
The genome sequence of the biocontrol fungus Metarhizium anisopliae and comparative genomics of Metarhizium species
JA Pattemore, JK Hane, AH Williams, BAL Wilson, BJ Stodart, GJ Ash
BMC Genomics 15 (1), 660, 2014
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