mBio · 2023 · 23 citations · 113 references
AgriculturePlant BiologyPlant SciencesHost-pathogen InteractionsPlant GeneticsPlant-microbe InteractionsFungal DevelopmentFungal PathogenesisPlant Disease ResistancePlant PathogenesisPlant-pathogen InteractionsPlant-pathogenic FungiAppressorium FormationAppressorium MorphologyFungal Infection ProcessesGene Expression During InfectionPathogen-plant InteractionsSpore Germination EntrySpore Germination PhysiologySpore Germination Structures
Fusarium graminearum and Magnaporthe oryzae are two of the most important pathogens of cereal grains worldwide. Despite years of research, strong host resistance has not been identified for F. graminearum, so other methods of control are essential. The pathogen takes advantage of multiple entry points to infect the host, including breaches in the florets due to senescence of flower parts and penetration of the weakened trichome bases to breach the epidermis. In contrast, M. oryzae directly punctures leaves that it infects, and resistant cultivars have been characterized. The threat of either pathogen causing a major disease outbreak is ever present. Comparative transcriptomics demonstrated its potential to reveal novel and effective disease prevention strategies that affect the initial stages of disease. Shedding light on the basis of this diversity of infection strategies will result in development of increasingly specific control strategies.
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The Sequence Alignment/Map format and SAMtools
Heng Li, Alec Wysoker, Tim Fennell et al. · Bioinformatics · 2009 · 67.5K citations · Full text
HTSeq—a Python framework to work with high-throughput sequencing data
Simon Anders, Paul Theodor Pyl, Wolfgang Huber · Bioinformatics · 2014 · 22.7K citations · Full text
StringTie enables improved reconstruction of a transcriptome from RNA-seq reads
Mihaela Pertea, Geo Pertea, Corina Antonescu et al. · Nature Biotechnology · 2015 · 15.5K citations · Full text