Transcriptome analysis of the white pine blister rust pathogen Cronartium ribicola: de novo assembly, expression profiling, and identification of candidate effectors

BMC Genomics
Jun-Jun LiuArezoo Zamany

Abstract

The fungus Cronartium ribicola (Cri) is an economically and ecologically important forest pathogen that causes white pine blister rust (WPBR) disease on five-needle pines. To cause stem cankers and kill white pine trees the fungus elaborates a life cycle with five stages of spore development on five-needle pines and the alternate host Ribes plants. To increase our understanding of molecular WP-BR interactions, here we report genome-wide transcriptional profile analysis of C. ribicola using RNA-seq. cDNA libraries were constructed from aeciospore, urediniospore, and western white pine (Pinus monticola) tissues post Cri infection. Over 200 million RNA-seq 100-bp paired-end (PE) reads from rust fungal spores were de novo assembled and a reference transcriptome was generated with 17,880 transcripts that were expressed from 13,629 unigenes. A total of 734 unique proteins were predicted as a part of the Cri secretome from complete open reading frames (ORFs), and 41 % of them were Cronartium-specific. This study further identified a repertoire of candidate effectors and other pathogenicity determinants. Differentially expressed genes (DEGs) were identified to gain an understanding of molecular events important during the WPBR fungus l...Continue Reading

References

Jul 13, 2000·Journal of Molecular Biology·O EmanuelssonG von Heijne
Feb 28, 2002·Fungal Genetics and Biology : FG & B·Xueshu YuNina Piggott
Sep 4, 2003·Genome Research·Li LiDavid S Roos
Dec 4, 2004·Molecular Genetics and Genomics : MGG·B LeuthnerP H Schreier
May 30, 2006·Fungal Genetics and Biology : FG & B·N M DonofrioR A Dean
Jan 12, 2007·Proceedings of the National Academy of Sciences of the United States of America·Ivo G BonecaStephen E Girardin
Oct 19, 2007·Nucleic Acids Research·Rainer WinnenburgJacob Köhler
Oct 24, 2008·Phytopathology·Bohun B Kinloch, Gayle E Dupper
Apr 30, 2009·Annual Review of Phytopathology·Ioannis Stergiopoulos, Pierre J G M de Wit
Dec 2, 2010·Molecular Plant Pathology·Michael RavensdalePeter N Dodds
May 4, 2011·Proceedings of the National Academy of Sciences of the United States of America·Sébastien DuplessisFrancis Martin
May 31, 2011·Database : the Journal of Biological Databases and Curation·Caitlin MurphyAdrian Tsang
Oct 1, 2011·Nature Methods·Thomas Nordahl PetersenHenrik Nielsen
Mar 8, 2012·PLoS Pathogens·Rohan G T Lowe, Barbara J Howlett
May 31, 2012·Nucleic Acids Research·Yanbin YinYing Xu
Dec 12, 2012·Cold Spring Harbor Symposia on Quantitative Biology·J WinS Kamoun
Jan 26, 2013·Proteomics·Vincent GirardDominique Job
Mar 23, 2013·Microbiology·Rikki F FrederiksenJørgen J Leisner
May 15, 2013·The Plant Journal : for Cell and Molecular Biology·Eric KemenKurt Mendgen
Aug 15, 2013·Phytopathology·A W SchoettleK S Burns
Oct 17, 2013·Nature Reviews. Microbiology·Martha C Giraldo, Barbara Valent
Oct 24, 2013·Nature Communications·Wenming ZhengZhensheng Kang
Oct 26, 2013·Molecular Plant-microbe Interactions : MPMI·Narayana M UpadhyayaPeter N Dodds

❮ Previous
Next ❯

Citations

Dec 17, 2018·The New Phytologist·Cécile LorrainSébastien Duplessis
Nov 26, 2019·Molecular Plant-microbe Interactions : MPMI·Si-Qi TaoSébastien Duplessis
Oct 30, 2020·Molecular Plant-microbe Interactions : MPMI·Jing ZhaoZhensheng Kang
Feb 24, 2021·Molecular Plant-microbe Interactions : MPMI
Jun 3, 2021·Annual Review of Phytopathology·Sebastien DuplessisM Catherine Aime
Oct 21, 2020·Microbiological Research·Rajdeep JaswalT R Sharma

❮ Previous
Next ❯

Datasets Mentioned

BETA
GBSG00000000
AF353616
SRR1583552
GBSG01000000
PRJNA261951
SRP031625

Methods Mentioned

BETA
RNA-seq
GTPases
PCR

Software Mentioned

Expression Suite
BLASTp
BLAST
InterProScan
TMHMM
BLAST2GO
TargetP
Primer3
signalP
CLC

Related Concepts

Related Feeds

Cell Checkpoints & Regulators

Cell cycle checkpoints are a series of complex checkpoint mechanisms that detect DNA abnormalities and ensure that DNA replication and repair are complete before cell division. They are primarily regulated by cyclins, cyclin-dependent kinases, and the anaphase-promoting complex/cyclosome. Here is the latest research.

Bacterial Cell Wall Structure

Bacterial cell walls are made of peptidoglycan (also called murein), which is made from polysaccharide chains cross-linked by unusual peptides containing D-amino acids. Here is the latest research on bacterial cell wall structures.

Biosynthetic Transformations

Biosyntheic transformtions are multi-step, enzyme-catalyzed processes where substrates are converted into more complex products in living organisms. Simple compounds are modified, converted into other compounds, or joined together to form macromolecules. Discover the latest research on biosynthetic transformations here.

Bacterial Cell Wall Structure (ASM)

Bacterial cell walls are made of peptidoglycan (also called murein), which is made from polysaccharide chains cross-linked by unusual peptides containing D-amino acids. Here is the latest research on bacterial cell wall structures.

Adult Stem Cells

Adult stem cells reside in unique niches that provide vital cues for their survival, self-renewal, and differentiation. They hold great promise for use in tissue repair and regeneration as a novel therapeutic strategies. Here is the latest research.

Apoptosis

Apoptosis is a specific process that leads to programmed cell death through the activation of an evolutionary conserved intracellular pathway leading to pathognomic cellular changes distinct from cellular necrosis