A de-novo-assembly-based Data Analysis Pipeline for Plant Obligate Parasite Metatranscriptomic Studies

A de-novo-assembly-based Data Analysis Pipeline for Plant Obligate Parasite Metatranscriptomic Studies

Current and emerging plant diseases caused by obligate parasitic microbes such as rusts, downy mildews, and powdery mildews threaten worldwide crop production and food safety. These obligate parasites are typically unculturable in the laboratory, posing technical challenges to characterize them at t...

Full description

Bibliographic Details
Main Authors:	Li Guo, Kelly S Allen, Greg A Deiulio, Yong Zhang, Angela M Madeiras, Robert L Wick, Li-Jun Ma
Format:	Article
Language:	English
Published:	Frontiers Media S.A. 2016-07-01
Series:	Frontiers in Plant Science
Subjects:	host-pathogen interaction RNA-Seq metatranscriptomics Downy mildew de novo assembly obligate biotroph
Online Access:	http://journal.frontiersin.org/Journal/10.3389/fpls.2016.00925/full

Similar Items

High-throughput time series expression profiling of Plasmopara halstedii infecting Helianthus annuus reveals conserved sequence motifs upstream of co-expressed genes
by: Sakshi Bharti, et al.
Published: (2023-03-01)

Identification of Arabidopsis Loci Required for Susceptibility to the Downy Mildew Pathogen Hyaloperonospora parasitica
by: Mireille Van Damme, et al.
Published: (2005-06-01)

Linking jasmonic acid to grapevine resistance against the biotrophic oomycete Plasmopara viticola.
by: Ana eGuerreiro, et al.
Published: (2016-04-01)

MetaGT: A pipeline for de novo assembly of metatranscriptomes with the aid of metagenomic data
by: Daria Shafranskaya, et al.
Published: (2022-10-01)

Application of Target Enrichment Sequencing for Population Genetic Analyses of the Obligate Plant Pathogens Pseudoperonospora cubensis and P. humuli in Michigan
by: Julian C. Bello, et al.
Published: (2021-10-01)

“Jumping Jack”: Genomic Microsatellites Underscore the Distinctiveness of Closely Related Pseudoperonospora cubensis and Pseudoperonospora humuli and Provide New Insights Into Their Evolutionary Past
by: Marcin Nowicki, et al.
Published: (2021-07-01)

Metatranscriptomic dynamics after Verticillium dahliae infection and root damage in Olea europaea
by: Jose Manuel Martí, et al.
Published: (2020-02-01)

Spore Germination of the Obligate Biotroph Spongospora subterranea: Transcriptome Analysis Reveals Germination Associated Genes
by: Sadegh Balotf, et al.
Published: (2021-06-01)

Management of Cucurbit Downy Mildew in Florida
by: Mason J. Newark, et al.
Published: (2019-07-01)

Potensi Pengusulan Jenis Baru Peronosclerospora sorghi Asal Nusa Tenggara Timur
by: Ummu Salamah Rustiani, et al.
Published: (2021-03-01)

Overexpression of a Broccoli Defensin Gene BoDFN Enhances Downy Mildew Resistance
by: Ming JIANG, et al.
Published: (2012-07-01)

Distinct Biphasic mRNA Changes in Response to Asian Soybean Rust Infection
by: Martijn van de Mortel, et al.
Published: (2007-08-01)

Patterns of genomic variation in the poplar rust fungus Melampsora larici-populina identify pathogenesis-related factors
by: Antoine ePersoons, et al.
Published: (2014-09-01)

Effects of plant conduction systems and organic fertilizer management on disease incidence and severity in ‘Osiana’ and ‘Carola’ roses
by: Márcia de Nazaré Oliveira Ribeiro, et al.
Published: (2015-04-01)

Viburnum Downy Mildew
by: Aaron J. Palmateer
Published: (2016-08-01)

Pathotypes of Pseudoperonospora Cubensis (Berk. et Curt.) Rostow, Causal Agent of Downy Mildew and Induced Defense Responses in the Host
by: Salati, Mansour
Published: (2011)

Foliar Application of a Tagatose-Based Product Reduces Downy Mildew Symptoms through Induction of Grapevine Resistance and Anti-Oomycete Action
by: Nikola Mijailovic, et al.
Published: (2022-02-01)

THE EFFECTIVENESS COMBINATION OF RESISTANT VARIETIES AND METALAXIL FUNGICIDE IN CONTROLLING DOWNY MILDEW DISEASE (Peronosclerospora maydis) IN MAIZE PLANT
by: Syahrir Pakki, et al.
Published: (2019-03-01)

PATH-ANALYSIS ON SEVERAL CHARACTERS IN POTENTIAL OF CORN PRODUCTION AND RESISTANCE TO DOWNY MILDEW
by: Eko Hary Pudjiwati, et al.
Published: (2013-06-01)

Correlations between the contents of phytic acid and inorganic phosphorous and downy mildew resistance of corn inbred lines
by: Pantipa Na Chiangmai, et al.
Published: (2015-10-01)

Taxonomic and Functional Compositions Impacted by the Quality of Metatranscriptomic Assemblies
by: Maggie C. Y. Lau, et al.
Published: (2018-06-01)

Research Advances in Genetic Mechanisms of Major Cucumber Diseases Resistance
by: Yujin He, et al.
Published: (2022-05-01)

Comparative proteomic profiles of resistant/susceptible cucumber leaves in response to downy mildew infection
by: Chengzhen Sun, et al.
Published: (2021-07-01)

SAMSA2: a standalone metatranscriptome analysis pipeline
by: Samuel T. Westreich, et al.
Published: (2018-05-01)

Breeding melon (Cucumis melo) with resistance to powdery mildew and downy mildew
by: Lei Cui, et al.
Published: (2022-09-01)

Simultaneous detection of downy mildew and powdery mildew pathogens on Cucumis sativus and other cucurbits using duplex-qPCR and HRM analysis
by: Kishore Babu Bandamaravuri, et al.
Published: (2020-08-01)

Climate change and vine protection : the case of mildews management in Burgundy
by: Zito S., et al.
Published: (2018-01-01)

Complete genome sequence data of Bacillus pumilus GLB197, an effective antagonist of grape downy mildew
by: Qingchao Zeng, et al.
Published: (2020-06-01)

Development of real-time onion disease monitoring system using image acquisition
by: Du-Han KIM, Kyeong-Hwan LEE, Chang-Hyun CHOI, Tae-Hyun CHOI, Yong-Joo KIM
Published: (2018-11-01)

Emergence of a New Rust Disease of Virginia Creeper (Parthenocissus quinquefolia) through a Host Range Expansion of Neophysopella vitis
by: Dong-Hwan Na, et al.
Published: (2022-05-01)

Hyperparasitism on Plasmopara viticola by Simplicillium lanosoniveum
by: Hongmiao Shen, et al.
Published: (2022-06-01)

Fantastic Downy Mildew Pathogens and How to Find Them: Advances in Detection and Diagnostics
by: Andres F. Salcedo, et al.
Published: (2021-02-01)

Fungicide Resistance Evolution and Detection in Plant Pathogens: <i>Plasmopara viticola</i> as a Case Study
by: Federico Massi, et al.
Published: (2021-01-01)

Occurrence of Peronospora dianthicola on carnations in the Czech Republic
by: Ivana Šafránková
Published: (2012-06-01)

Identification of Lipid Markers of Plasmopara viticola Infection in Grapevine Using a Non-targeted Metabolomic Approach
by: Lise Negrel, et al.
Published: (2018-03-01)

The Effector Repertoire of the Hop Downy Mildew Pathogen Pseudoperonospora humuli
by: Savithri Purayannur, et al.
Published: (2020-08-01)

Yield increase and disease suppression of sweet corn (Zea mays var. Bonanza) by the application of chitosan-based biostimulant
by: Sri Wahyuni, et al.
Published: (2019-10-01)

OUTBREAK OF MAIZE DOWNY MILDEW (Sclerophthora macrospora) IN SLOVENIA IN 1999
by: Stanislav Trdan, et al.
Published: (2000-12-01)

CHEMICAL CONTROL OF THE DOWNY MILDEW (Peronosclerospora sorghi) IN SORGHUM
by: NICÉSIO FILADELFO JANSSEN DE ALMEIDA PINTO, et al.
Published: (2006-04-01)

Comparative Analysis of Transcriptomics and Metabolomics Reveals Defense Mechanisms in Melon Cultivars against <i>Pseudoperonospora cubensis</i> Infection
by: Yueming Ling, et al.
Published: (2023-12-01)