The transcriptome of compatible and incompatible interactions of potato (Solanum tuberosum) with Phytophthora infestans revealed by DeepSAGE analysis.

PloS One
Gabor GyetvaiChristiane Gebhardt

Abstract

Late blight, caused by the oomycete Phytophthora infestans, is the most important disease of potato (Solanum tuberosum). Understanding the molecular basis of resistance and susceptibility to late blight is therefore highly relevant for developing resistant cultivars, either by marker-assissted selection or by transgenic approaches. Specific P. infestans races having the Avr1 effector gene trigger a hypersensitive resistance response in potato plants carrying the R1 resistance gene (incompatible interaction) and cause disease in plants lacking R1 (compatible interaction). The transcriptomes of the compatible and incompatible interaction were captured by DeepSAGE analysis of 44 biological samples comprising five genotypes, differing only by the presence or absence of the R1 transgene, three infection time points and three biological replicates. 30,859 unique 21 base pair sequence tags were obtained, one third of which did not match any known potato transcript sequence. Two third of the tags were expressed at low frequency (<10 tag counts/million). 20,470 unitags matched to approximately twelve thousand potato transcribed genes. Tag frequencies were compared between compatible and incompatible interactions over the infection time ...Continue Reading

References

May 1, 1992·Molecular & General Genetics : MGG·C Leonards-SchippersC Gebhardt
Oct 20, 1995·Science·V E VelculescuK W Kinzler
Jun 11, 1996·Proceedings of the National Academy of Sciences of the United States of America·L DiatchenkoP D Siebert
Nov 1, 1996·Plant Molecular Biology·C P MoehsW R Belknap
Feb 21, 1998·Proceedings of the National Academy of Sciences of the United States of America·D LeisterP Schulze-Lefert
Dec 11, 1999·Nucleic Acids Research·M Kanehisa, S Goto
Nov 10, 2001·Annual Review of Phytopathology·C Gebhardt, J P Valkonen
May 10, 2002·The Plant Journal : for Cell and Molecular Biology·Agim BallvoraChristiane Gebhardt
Jun 13, 2002·Molecular Plant-microbe Interactions : MPMI·Friederike TrognitzRebecca Nelson
Nov 22, 2002·Functional & Integrative Genomics·Jinrong WanAndrew F Bent
Jul 23, 2003·Proceedings of the National Academy of Sciences of the United States of America·Junqi SongJiming Jiang
Jul 21, 2004·Bioinformatics·Tim BeissbarthTerence P Speed
Dec 21, 2004·Nucleic Acids Research·Svenja MeyerChristiane Gebhardt
Apr 6, 2005·The Plant Journal : for Cell and Molecular Biology·Sanwen HuangRichard G F Visser
May 17, 2005·Proceedings of the National Academy of Sciences of the United States of America·Miles R ArmstrongPaul R J Birch
Jun 18, 2005·The Plant Journal : for Cell and Molecular Biology·Maxime Caillau, W Paul Quick
Oct 11, 2005·The Plant Journal : for Cell and Molecular Biology·Edwin A G van der VossenSjefke Allefs
Apr 11, 2006·Annual Review of Phytopathology·L C van LoonC M J Pieterse
Dec 1, 2006·Plant Biotechnology Journal·Andreas M RickertChristiane Gebhardt
Feb 12, 2008·Trends in Genetics : TIG·Elaine R Mardis
Feb 22, 2008·Methods in Molecular Biology·Gerben J SchaafJan M Ruijter
Jun 1, 1996·Genome Génome / Conseil National De Recherches Canada·J H Jørgensen
Jul 11, 2008·Current Opinion in Plant Biology·A Corina VlotSang-Wook Park
Aug 19, 2008·Molecular Plant Pathology·William Fry
Oct 10, 2008·Molecular Plant-microbe Interactions : MPMI·Pieter M J A van PoppelFrancine Govers
Dec 9, 2008·Trends in Plant Science·Jesse A PolandRebecca J Nelson
Apr 8, 2009·Molecular Plant-microbe Interactions : MPMI·Simon J FosterJonathan D G Jones
May 19, 2009·Molecular Plant-microbe Interactions : MPMI·Anoma A LokossouEdwin A G van der Vossen

❮ Previous
Next ❯

Citations

Mar 29, 2013·Plant, Cell & Environment·Kaat De CremerBarbara De Coninck
Oct 1, 2018·Functional Plant Biology : FPB·S SundareshaSwarup K Chakrabarti
Jul 27, 2017·Scientific Reports·Fabio RezzonicoJohannes Fahrentrapp
Sep 30, 2018·Planta·Poonam Kanwar, Gopaljee Jha
Jun 13, 2018·International Journal of Molecular Sciences·Xiaohui YangGuangcun Li
Oct 24, 2020·Current Genomics·Minaxi SharmaPratishtha Gupta
Jan 26, 2021·Biochemical Society Transactions·Nadine Töpfer

❮ Previous
Next ❯

Datasets Mentioned

BETA
TC207935
TC196885

Methods Mentioned

BETA
PCR
transgenic
PCA
dissection

Software Mentioned

edgeR
DESeq
Perl
CARMAweb
scripts
AMIGO
BLASTp
Bingo
DEGseq
NormaliseTagTable

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.