Is PCR‐DGGE an Innovative Molecular Tool for the Detection of Microbial Plant Pathogens?

Sheikha, Aly Farag El; Ray, Ramesh C.

doi:10.1002/9781118533024.ch17

Cited by 5 publications

(2 citation statements)

References 97 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Various methods are used in plant disease diagnosis for species identification, including gene sequence-based techniques with pure culture, 16S rRNA gene method but involve low resolution, whole-genome sequencing using pure culture, and antibody-based assays, such as ELISA ( El Sheikha and Ray, 2014 ). However, limitations associated with these methods are a lengthy pathogen identification protocol to obtain pure culture and prior knowledge of pathogens.…”

Section: Metagenomics and Sustainable Agriculturementioning

confidence: 99%

Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review

et al. 2022

View full text Add to dashboard Cite

Agricultural productivity is highly influenced by its associated microbial community. With advancements in omics technology, metagenomics is known to play a vital role in microbial world studies by unlocking the uncultured microbial populations present in the environment. Metagenomics is a diagnostic tool to target unique signature loci of plant and animal pathogens as well as beneficial microorganisms from samples. Here, we reviewed various aspects of metagenomics from experimental methods to techniques used for sequencing, as well as diversified computational resources, including databases and software tools. Exhaustive focus and study are conducted on the application of metagenomics in agriculture, deciphering various areas, including pathogen and plant disease identification, disease resistance breeding, plant pest control, weed management, abiotic stress management, post-harvest management, discoveries in agriculture, source of novel molecules/compounds, biosurfactants and natural product, identification of biosynthetic molecules, use in genetically modified crops, and antibiotic-resistant genes. Metagenomics-wide association studies study in agriculture on crop productivity rates, intercropping analysis, and agronomic field is analyzed. This article is the first of its comprehensive study and prospects from an agriculture perspective, focusing on a wider range of applications of metagenomics and its association studies.

show abstract

Section: Metagenomics and Sustainable Agriculturementioning

confidence: 99%

Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review

et al. 2022

View full text Add to dashboard Cite

show abstract

“…Molecular methods, including PCR-based techniques and DNA sequencing, are useful for identifying species, strains, and source populations of migratory individuals and populations [8][9][10][11]. Furthermore, these methods should be cost-effective and easy to use for routine analysis of large numbers of samples [10,12].…”

Section: Introductionmentioning

confidence: 99%

A rapid multiplex PCR assay for species identification of Asian rice planthoppers (Hemiptera: Delphacidae) and its application to early-instar nymphs in paddy fields

Yashiro

Sanada‐Morimura

2021

PLoS ONE

View full text Add to dashboard Cite

Rice (Oryza sativa L.) is the main cereal crop in many Asian countries. The Asian rice planthoppers, Nilaparvata lugens (Stål) (brown planthopper), Sogatella furcifera (Horváth) (white-backed planthopper), and Laodelphax striatellus (Fallén) (small brown planthopper) (Hemiptera: Delphacidae), are the most economically important pests of rice. These three rice planthopper species often co-occur in the same paddy field. Traditionally, species identification of individuals of the three rice planthopper species has relied on morphological characters, but accurate discrimination of early-instar nymphs is very difficult, even for expert researchers. In this study, we developed a rapid one-step multiplex PCR assay using conserved and species-specific 5.8S-ITS2 rDNA gene primers for simultaneous identification of individuals of the three rice planthopper species. The multiplex PCR results showed that the three rice planthopper species could be identified accurately based on the length of the resultant amplicon, regardless of the individual developmental stage. Furthermore, we applied this assay for the first accurate quantification of early-instar nymphs of each rice planthopper species in paddy fields. Notably, we found that the species composition of early-instar nymphs cannot be extrapolated from that of adults. Thus, the multiplex PCR assay developed here facilitates detection of each rice planthopper species at the beginning of outbreaks in paddy fields.

show abstract

Colonization Characteristics of Poplar Fungal Disease Biocontrol Bacteria N6-34 and the Inhibitory Effect on Pathogenic Fungi by Real-Time Fluorescence Quantitative PCR Detection

Zhang

Sun

et al. 2021

Curr Microbiol

View full text Add to dashboard Cite

Is PCR‐DGGE an Innovative Molecular Tool for the Detection of Microbial Plant Pathogens?

Cited by 5 publications

References 97 publications

Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review

Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review

A rapid multiplex PCR assay for species identification of Asian rice planthoppers (Hemiptera: Delphacidae) and its application to early-instar nymphs in paddy fields

Colonization Characteristics of Poplar Fungal Disease Biocontrol Bacteria N6-34 and the Inhibitory Effect on Pathogenic Fungi by Real-Time Fluorescence Quantitative PCR Detection

Contact Info

Product

Resources

About