Whole-genome and time-course dual RNA-Seq analyses reveal chronic pathogenicity-related gene dynamics in the ginseng rusty root rot pathogen Ilyonectria robusta

Database Resources of the National Genomics Data Center in 2020

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Cylindrocarpon destructans/Ilyonectria radicicola -species complex: Causative agent of ginseng root-rot disease and rusty symptoms

(2018) Mohamed El-Agamy Farh et al.   Journal of Ginseng Research

Whole Genome Sequencing of Fusarium fujikuroi Provides Insight into the Role of Secretory Proteins and Cell Wall Degrading Enzymes in Causing Bakanae Disease of Rice

(2017) Bishnu M. Bashyal et al.   Frontiers in Plant Science

GSA: Genome Sequence Archive *

(2017) Yanqing Wang et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

Whole genome sequencing and comparative genomics of closely related Fusarium Head Blight fungi: Fusarium graminearum, F. meridionale and F. asiaticum

(2016) Sean Walkowiak et al.   BMC GENOMICS

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

Comparative and transcriptional analysis of the predicted secretome in the lignocellulose-degrading basidiomycete fungus Pleurotus ostreatus

(2016) Manuel Alfaro et al.   ENVIRONMENTAL MICROBIOLOGY

Dual RNA-seq unveils noncoding RNA functions in host–pathogen interactions

(2016) Alexander J. Westermann et al.   NATURE

PHI-base: a new interface and further additions for the multi-species pathogen–host interactions database

(2016) Martin Urban et al.   NUCLEIC ACIDS RESEARCH

Time-Course Transcriptome Analysis Reveals Resistance Genes of Panax ginseng Induced by Cylindrocarpon destructans Infection Using RNA-Seq

(2016) Yuan Gao et al.   PLoS One

Draft genome sequencing and secretome analysis of fungal phytopathogen Ascochyta rabiei provides insight into the necrotrophic effector repertoire

(2016) Sandhya Verma et al.   Scientific Reports

Genetic and Epigenetic Diversities Shed Light on Domestication of Cultivated Ginseng (Panax ginseng)

(2015) Ming-Rui Li et al.   Molecular Plant

Rfam 12.0: updates to the RNA families database

(2014) Eric P. Nawrocki et al.   NUCLEIC ACIDS RESEARCH

High-Resolution Transcript Profiling of the Atypical Biotrophic Interaction betweenTheobroma cacaoand the Fungal PathogenMoniliophthora perniciosa

(2014) Paulo José Pereira Lima Teixeira et al.   PLANT CELL

Genome and Transcriptome Analysis of the Fungal Pathogen Fusarium oxysporum f. sp. cubense Causing Banana Vascular Wilt Disease

(2014) Lijia Guo et al.   PLoS One

The role of effectors and host immunity in plant–necrotrophic fungal interactions

(2014) Xuli Wang et al.   Virulence

Genetic Diversity and Pathogenicity of Cylindrocarpon destructans Isolates Obtained from Korean Panax ginseng

(2014) Jeong Young Song et al.   MYCOBIOLOGY

Insights into organ-specific pathogen defense responses in plants: RNA-seq analysis of potato tuber-Phytophthora infestans interactions

(2013) Liangliang Gao et al.   BMC GENOMICS

Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

(2013) Chen-Shan Chin et al.   NATURE METHODS

First Report of Ilyonectria robusta Associated with Black Foot Disease of Grapevine in Southern Brazil

(2013) R. F. dos Santos et al.   PLANT DISEASE

The evolution and pathogenic mechanisms of the rice sheath blight pathogen

(2013) Aiping Zheng et al.   Nature Communications

Molecular detection of Cylindrocarpon destructans in infected Chinese ginseng roots and soil

(2012) Junfan Fu   AFRICAN JOURNAL OF BIOTECHNOLOGY

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

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

The Predicted Secretome of the Plant Pathogenic Fungus Fusarium graminearum: A Refined Comparative Analysis

(2012) Neil A. Brown et al.   PLoS One

Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology

(2012) Adam C. English et al.   PLoS One

Simultaneous RNA-Seq Analysis of a Mixed Transcriptome of Rice and Blast Fungus Interaction

(2012) Yoshihiro Kawahara et al.   PLoS One

The Ustilago maydis Effector Pep1 Suppresses Plant Immunity by Inhibition of Host Peroxidase Activity

(2012) Christoph Hemetsberger et al.   PLoS Pathogens

A novel hybrid gene prediction method employing protein multiple sequence alignments

(2011) Oliver Keller et al.   BIOINFORMATICS

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

The Transcriptome of Fusarium graminearum During the Infection of Wheat

(2011) Erik Lysøe et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Cylindrocarpon root rot: multi-gene analysis reveals novel species within the Ilyonectria radicicola species complex

(2011) Ana Cabral et al.   MYCOLOGICAL PROGRESS

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Delimitation of Neonectria and Cylindrocarpon (Nectriaceae, Hypocreales, Ascomycota) and related genera with Cylindrocarpon-like anamorphs

(2011) P. Chaverri et al.   STUDIES IN MYCOLOGY

Anti-Apoptotic Machinery Protects the Necrotrophic Fungus Botrytis cinerea from Host-Induced Apoptotic-Like Cell Death during Plant Infection

(2011) Neta Shlezinger et al.   PLoS Pathogens

When and how to kill a plant cell: Infection strategies of plant pathogenic fungi

(2010) Ralf Horbach et al.   JOURNAL OF PLANT PHYSIOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Plant immunity: towards an integrated view of plant–pathogen interactions

(2010) Peter N. Dodds et al.   NATURE REVIEWS GENETICS

Transcriptome profiling of Fusarium solani f. sp. eumartii -infected potato tubers provides evidence of an inducible defense response

(2010) Sebastián D’Ippólito et al.   PHYSIOLOGICAL AND MOLECULAR PLANT PATHOLOGY

T-REKS: identification of Tandem REpeats in sequences with a K-meanS based algorithm

(2009) Julien Jorda et al.   BIOINFORMATICS

Comparative genomics of MAP kinase and calcium–calcineurin signalling components in plant and human pathogenic fungi

(2009) Nicolas Rispail et al.   FUNGAL GENETICS AND BIOLOGY

Genome, transcriptome, and secretome analysis of wood decay fungusPostia placentasupports unique mechanisms of lignocellulose conversion

(2009) Diego Martinez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The secretome of the maize pathogen Ustilago maydis

(2008) Olaf Mueller et al.   FUNGAL GENETICS AND BIOLOGY

High-throughput functional annotation and data mining with the Blast2GO suite

(2008) S. Gotz et al.   NUCLEIC ACIDS RESEARCH