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Plant Pathogenic Fungi and Oomycetes

Overview of attention for book
Cover of 'Plant Pathogenic Fungi and Oomycetes'

Table of Contents

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    Book Overview
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    Chapter 1 Quantifying Re-association of a Facultative Endohyphal Bacterium with a Filamentous Fungus
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    Chapter 2 Characterizing Mycoviruses
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    Chapter 3 Analysis of Secondary Metabolites from Plant Endophytic Fungi
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    Chapter 4 Protocols for Investigating the Leaf Mycobiome Using High-Throughput DNA Sequencing
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    Chapter 5 Characterizing Small RNAs in Filamentous Fungi Using the Rice Blast Fungus, Magnaporthe oryzae , as an Example
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    Chapter 6 Plant Small RNAs Responsive to Fungal Pathogen Infection
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    Chapter 7 Sequential Phosphopeptide Enrichment for Phosphoproteome Analysis of Filamentous Fungi: A Test Case Using Magnaporthe oryzae
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    Chapter 8 Assays for MAP Kinase Activation in Magnaporthe oryzae and Other Plant Pathogenic Fungi
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    Chapter 9 Visualizing the Movement of Magnaporthe oryzae Effector Proteins in Rice Cells During Infection
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    Chapter 10 Illuminating Phytophthora Biology with Fluorescent Protein Tags
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    Chapter 11 Methods for Transient Gene Expression in Wild Relatives of Potato
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    Chapter 12 Host-Induced Gene Silencing (HIGS) for Elucidating Puccinia Gene Function in Wheat
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    Chapter 13 From Short Reads to Chromosome-Scale Genome Assemblies
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    Chapter 14 BLASTmap: A Shiny-Based Application to Visualize BLAST Results as Interactive Heat Maps and a Tool to Design Gene-Specific Baits for Bespoke Target Enrichment Sequencing
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    Chapter 15 A Computational Protocol to Analyze Metatranscriptomic Data Capturing Fungal–Host Interactions
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    Chapter 16 Application of the Cre/lox System to Construct Auxotrophic Markers for Quantitative Genetic Analyses in Fusarium graminearum
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    Chapter 17 Protocol of Phytophthora capsici Transformation Using the CRISPR-Cas9 System
  19. Altmetric Badge
    Chapter 18 Generating Gene Silenced Mutants in Phytophthora sojae
Attention for Chapter 5: Characterizing Small RNAs in Filamentous Fungi Using the Rice Blast Fungus, Magnaporthe oryzae , as an Example
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  • Good Attention Score compared to outputs of the same age and source (74th percentile)

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Chapter title
Characterizing Small RNAs in Filamentous Fungi Using the Rice Blast Fungus, Magnaporthe oryzae , as an Example
Chapter number 5
Book title
Plant Pathogenic Fungi and Oomycetes
Published in
Methods in molecular biology, September 2018
DOI 10.1007/978-1-4939-8724-5_5
Pubmed ID
30182228
Book ISBNs
978-1-4939-8723-8, 978-1-4939-8724-5
Authors

Vidhyavathi Raman, Blake C. Meyers, Ralph A. Dean, Nicole M. Donofrio, Raman, Vidhyavathi, Meyers, Blake C., Dean, Ralph A., Donofrio, Nicole M.

Abstract

The goal of this chapter is to provide a framework of sequential steps for small RNA (sRNA) analysis in filamentous fungi. Here, we present protocols for (1) comparative analysis of sRNAs in different conditions, (2) comparisons of sRNA libraries to RNAseq data and (3) identification and analysis of methylguanosine-capped and polyadenylated sRNAs (CPA-sRNAs). This species of small RNA is particularly interesting in Magnaporthe oryzae, as they map to transcription start and end sites of protein-coding genes. While we do not provide specific command lines for scripts, we provide a general framework for steps needed to carry out all three types of analyses, including relevant references, websites and free online tools. Screenshots are provided from our own customized interface using M. oryzae as an example, to assist the reader in visualizing many of the steps.

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X Demographics

X Demographics

The data shown below were collected from the profiles of 4 X users who shared this research output. Click here to find out more about how the information was compiled.
 Mendeley readers

Mendeley readers

The data shown below were compiled from readership statistics for 10 Mendeley readers of this research output. Click here to see the associated Mendeley record.

Geographical breakdown

Country Count As %
Unknown 10 100%

Demographic breakdown

Readers by professional status Count As %
Unspecified 1 10%
Lecturer > Senior Lecturer 1 10%
Other 1 10%
Student > Doctoral Student 1 10%
Student > Bachelor 1 10%
Other 2 20%
Unknown 3 30%
Readers by discipline Count As %
Biochemistry, Genetics and Molecular Biology 3 30%
Agricultural and Biological Sciences 2 20%
Unspecified 1 10%
Immunology and Microbiology 1 10%
Unknown 3 30%
Attention Score in Context

Attention Score in Context

This research output has an Altmetric Attention Score of 3. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 10 September 2018.
All research outputs
#13,550,758
of 23,102,082 outputs
Outputs from Methods in molecular biology
#3,627
of 13,208 outputs
Outputs of similar age
#169,816
of 335,873 outputs
Outputs of similar age from Methods in molecular biology
#62
of 247 outputs
Altmetric has tracked 23,102,082 research outputs across all sources so far. This one is in the 41st percentile – i.e., 41% of other outputs scored the same or lower than it.
So far Altmetric has tracked 13,208 research outputs from this source. They receive a mean Attention Score of 3.4. This one has gotten more attention than average, scoring higher than 72% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 335,873 tracked outputs that were published within six weeks on either side of this one in any source. This one is in the 48th percentile – i.e., 48% of its contemporaries scored the same or lower than it.
We're also able to compare this research output to 247 others from the same source and published within six weeks on either side of this one. This one has gotten more attention than average, scoring higher than 74% of its contemporaries.

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