Comparative genomics of plant pathogenic Diaporthe species and transcriptomics of Diaporthe caulivora during host infection reveal insights into pathogenic strategies of the genus

Whole-genome sequence of Diaporthe citri isolate NFHF-8-4, the causal agent of citrus melanose

(2021) Xiang-Yu Liu et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

High-Quality Genome Resource of Diaporthe destruens Causing Foot Rot Disease of Sweet Potato

(2021) LiFei Huang et al.   PLANT DISEASE

Disarming the Host: Detoxification of Plant Defense Compounds During Fungal Necrotrophy

(2021) Nathaniel M. Westrick et al.   Frontiers in Plant Science

Aflatoxin Biosynthesis and Genetic Regulation: A Review

(2020) Isaura Caceres et al.   Toxins

Soybean Stem Canker Caused by Diaporthe caulivora; Pathogen Diversity, Colonization Process, and Plant Defense Activation

(2020) Eilyn Mena et al.   Frontiers in Plant Science

Whole genome sequence of Diaporthe capsici, a new pathogen of walnut blight

(2020) Xinmei Fang et al.   GENOMICS

Analysis of the species spectrum of the Diaporthe/Phomopsis complex in European soybean seeds

(2020) Behnoush Hosseini et al.   MYCOLOGICAL PROGRESS

High-Quality Genome Resource of the Pathogen of Diaporthe (Phomopsis) phragmitis Causing Kiwifruit Soft Rot

(2020) Pu Liu et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

The Genome Sequence of the Citrus Melanose Pathogen Diaporthe citri and Two Citrus related Diaporthe species

(2020) Yunpeng Gai et al.   PHYTOPATHOLOGY

DBS: a fast and informative segmentation algorithm for DNA copy number analysis

(2019) Jun Ruan et al.   BMC BIOINFORMATICS

Identification and inheritance of an Rdc gene resistance to soybean stem canker (Diaporthe phaseolorum var. caulivora)

(2019) A. M. Peruzzo et al.   EUROPEAN JOURNAL OF PLANT PATHOLOGY

Assembly of long, error-prone reads using repeat graphs

(2019) Mikhail Kolmogorov et al.   NATURE BIOTECHNOLOGY

Association mapping of a locus that confers southern stem canker resistance in soybean and SNP marker development

(2019) João Vitor Maldonado dos Santos et al.   BMC GENOMICS

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

Polyketide synthases of Diaporthe helianthi and involvement of DhPKS1 in virulence on sunflower

(2018) Michelina Ruocco et al.   BMC GENOMICS

Reactive oxygen species metabolism and plant-fungal interactions

(2018) Lauren M. Segal et al.   FUNGAL GENETICS AND BIOLOGY

Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0

(2018) Jana Sperschneider et al.   MOLECULAR PLANT PATHOLOGY

Inoculation method impacts symptom development associated with Diaporthe aspalathi, D. caulivora, and D. longicolla on soybean (Glycine max)

(2018) Krishna Ghimire et al.   PLANT DISEASE

Family-Four Aldehyde Dehydrogenases Play an Indispensable Role in the Pathogenesis of Magnaporthe oryzae

(2018) Waheed Abdul et al.   Frontiers in Plant Science

High diversity of Diaporthe species associated with dieback diseases in China, with twelve new species described

(2018) Qin Yang et al.   MycoKeys

Genera of phytopathogenic fungi: GOPHY 2

(2018) Y. Marin-Felix et al.   STUDIES IN MYCOLOGY

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

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

(2017) Jana Sperschneider et al.   NEW PHYTOLOGIST

The Verticillium dahliae SnodProt1-Like Protein VdCP1 Contributes to Virulence and Triggers the Plant Immune System

(2017) Yi Zhang et al.   Frontiers in Plant Science

Plant-Pathogen Effectors: Cellular Probes Interfering with Plant Defenses in Spatial and Temporal Manners

(2016) Tania Y. Toruño et al.   Annual Review of Phytopathology

Genomic characterization of plant cell wall degrading enzymes and in silico analysis of xylanses and polygalacturonases of Fusarium virguliforme

(2016) Hao-Xun Chang et al.   BMC MICROBIOLOGY

Regulation of the fungal secretome

(2016) Sean W. McCotter et al.   CURRENT GENETICS

Fungal diversity notes 367–490: taxonomic and phylogenetic contributions to fungal taxa

(2016) Kevin D. Hyde et al.   FUNGAL DIVERSITY

Disease Management in the Genomics Era—Summaries of Focus Issue Papers

(2016) S. J. Klosterman et al.   PHYTOPATHOLOGY

Elucidating the Role of Effectors in Plant-Fungal Interactions: Progress and Challenges

(2016) Carrie Selin et al.   Frontiers in Microbiology

BRAKER1: Unsupervised RNA-Seq-Based Genome Annotation with GeneMark-ET and AUGUSTUS: Table 1.

(2015) Katharina J. Hoff et al.   BIOINFORMATICS

Bandage: interactive visualization ofde novogenome assemblies: Fig. 1.

(2015) Ryan R. Wick et al.   BIOINFORMATICS

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens

(2015) Abraham Morales-Cruz et al.   BMC GENOMICS

The Diaporthe sojae species complex: Phylogenetic re-assessment of pathogens associated with soybean, cucurbits and other field crops

(2015) Dhanushka Udayanga et al.   Fungal Biology

Fungal diversity notes 1–110: taxonomic and phylogenetic contributions to fungal species

(2015) Jian Kui Liu et al.   FUNGAL DIVERSITY

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Effector P: predicting fungal effector proteins from secretomes using machine learning

(2015) Jana Sperschneider et al.   NEW PHYTOLOGIST

First Report of Phomopsis Stem Canker of Sunflower (Helianthus annuus) Caused by Diaporthe gulyae in Canada

(2015) F. M. Mathew et al.   PLANT DISEASE

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

Species limits in Diaporthe: molecular re-assessment of D. citri, D. cytosporella, D. foeniculina and D. rudis

(2014) D. Udayanga et al.   PERSOONIA

featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

(2013) Y. Liao et al.   BIOINFORMATICS

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Comparative analysis of fungal genomes reveals different plant cell wall degrading capacity in fungi

(2013) Zhongtao Zhao et al.   BMC GENOMICS

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

Survival of Diaporthe phaseolorum var. caulivora (causal agent of soybean stem canker) artificially inoculated in different crop residues

(2012) Pablo Grijalba et al.   Tropical Plant Pathology

Screening synteny blocks in pairwise genome comparisons through integer programming

(2011) Haibao Tang et al.   BMC BIOINFORMATICS

Characterization of the Gene Encoding Pisatin Demethylase (FoPDA1) inFusarium oxysporum

(2011) Jeffrey J. Coleman et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Resolving the Diaporthe species occurring on soybean in Croatia

(2011) J.M. Santos et al.   PERSOONIA

Stem cankers on sunflower (Helianthus annuus) in Australia reveal a complex of pathogenic Diaporthe (Phomopsis) species

(2011) S.M. Thompson et al.   PERSOONIA

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Specific resistance to soybean stem canker conferred by theRdm4locus

(2009) M. A. Chiesa et al.   PLANT PATHOLOGY