Altered gene expression changes in Arabidopsis leaf tissues and protoplasts in response to Plum pox virus infection

Babu, Mohan; Griffiths, Jonathan S.; Huang, Tyng-Shyan; Wang, Aiming

doi:10.1186/1471-2164-9-325

Cited by 85 publications

(86 citation statements)

References 85 publications

(132 reference statements)

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“…Arabidopsis thaliana, a widely used model species in plant genomics, has also been studied for transcriptome alteration by PPV infection (Babu et al, 2008). PI-PLC and DSPP-like protein were the only hits of that work corresponding to our results.…”

Section: Resultssupporting

confidence: 56%

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Differentially expressed genes in healthy and plum pox virus-infected Nicotiana benthamiana plants

Vozárová¹,

Žilová²,

Šubr³

2015

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Summary. -Viruses use both material and energy sources of their hosts and redirect the production of disposable compounds in order to make viral replication more effi cient. Metabolism of infected organisms is modifi ed by these enhanced requirements as well by their own defense response. Resulting complex story consists of many regulation events on various gene expression levels. Elucidating these processes may contribute to the knowledge on virus-host interactions and to evolving new antiviral strategies. In our work we applied a subtractive cloning technique to compare the transcriptomes of healthy and plum pox virus (PPV)-infected Nicotiana benthamiana plants. Several genes were found to be induced or repressed by the PPV infection. Th e induced genes were mainly related to general stress response or photosynthesis, several repressed genes could be connected with growth defects evoked by the infection. Interestingly, some genes usually up-regulated by fungal or bacterial infection were found repressed in PPV-infected plants. Potential involvement of particular diff erently expressed genes in the process of PPV infection is discussed.Keywords: virus-host interaction; gene expression; subtractive hybridization * Corresponding author. E-mail: virusubr@savba.sk; phone: +421-2-59302447. Abbreviations: APX = ascorbate peroxidase; CAB = chlorophyll a/b-binding protein; DSPP = dentin sialophosphoprotein; FRL = Frigida-like protein; GCS = glycine cleavage system; HMGB = high mobility group B protein; JA = jasmonic acid; MLP = major latex protein; MT = metallothionein; PI-PLC = phosphoinositide-specifi c phospholipase C; PPV = plum pox virus; PRG = photosynthesis-related gene; PS II = photosystem II; ROS = reactive oxygen species; SNS = S-norcoclaurine synthase; SUMO = small ubiquitin-related modifi er; TLP = tetraspanin-like protein; Ub = ubiquitin

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Section: Resultssupporting

confidence: 56%

“…PI-PLC and DSPP-like protein were the only hits of that work corresponding to our results. MT, ferredoxin and MLP were down-regulated, β-galactosidase and HMG proteins up-regulated (opposite to our fi nding) (Babu et al, 2008).…”

Section: Resultsmentioning

confidence: 37%

Differentially expressed genes in healthy and plum pox virus-infected Nicotiana benthamiana plants

Vozárová¹,

Žilová²,

Šubr³

2015

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“…These studies involved cauliflower mosaic caulimovirus (CaMV) [21]; turnip vein clearing (TVCV) [22•], oilseed rape mosaic (OMRV) [22•] and tobacco mosaic (TMV) tobamoviruses [23,24]; potato X potexvirus (PVX) [22•]; cucumber mosaic cucumovirus (CMV) [22•,25,26]; turnip mosaic (TuMV) [22•,27], plum pox (PPV) [28] and tobacco etch (TEV) potyviruses [29]; and mung bean yellow mosaic (MYMV) [30] and cabbage leaf curl (CaLCuV) geminiviruses [31]. However, even using the same host species, direct comparisons across experiments are not straightforward because differences in profiling techniques and platforms, plant ecotypes, sampling schemes, inoculation conditions and dosages, and growth environmental variables may all exert unpredictable effects on the expression pattern of multiple genes.…”

Section: Compiling and Comparing Expression Data For Several Plant VImentioning

confidence: 99%

Detection of food-borne pathogens with DNA arrays on disk

Arnandis-Chover

Morais

Tortajada-Genaro

et al. 2012

Talanta

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ElsevierElena Fito, SF.; Carrera, J.; Rodrigo, J. (2011). A systems biology approach to the evolution of plant-virus interactions. Current Opinion in Plant Biology. 14(4):372-377. doi:10.1016/j.pbi.2011.03.013. Omic approaches to the analysis of plant-virus interactions are becoming increasingly popular. These types of data, in combination with models of interaction networks, will aid in revealing not only host components that are important for the virus life cycle, but also general patterns about the way in which different viruses manipulate host regulation of gene expression for their own benefit and possible mechanisms by which viruses evade host defenses. Here, we review studies identifying host genes regulated by viruses and discuss how these genes integrate in host regulatory and interaction networks, with a particular focus on the physical properties of these networks. A systems biology approach to the evolution of plant-virus interactions The systems biology approachGenomic tools have allowed assessment of gene expression at a genome-wide scale, providing unprecedented views of the host-virus interaction. To make use of all of the information contained in these large data sets, however, it is necessary to use computational and mathematical tools to disentangle the interactions between the molecular components of both biological entities and to identify how these interactions determine the outcome of the infection [1,2••], which is known as the field of genomic systems biology (GSB). GSB is a top-down approach that takes advantage of the recent development of high-throughput experimental techniques for obtaining omic data, and constitutes the antithesis of the reductionist paradigm (with a bottom-up perspective) that has been dominating molecular biology. The GSB approach consists of cycling between the generation of experimental data and modeling by means of reverse-engineering techniques to propose testable hypotheses about biological systems, experimental validation of these hypotheses and quantification of the relevant model parameters, and then using the newly acquired quantitative description to refine the computational model and finally make predictions of the system behavior [3,4•].To complete its infectious cycle, a few components of a virus, including its nucleic acids and encoded proteins, must establish multiple and complex interactions not only among themselves [5,6•,7,8] but also with a myriad of components of the host cell [9,10•,11]. The outcome of all these interactions is that the plant controls the spread of viral infection or, alternatively, the virus overcomes the host defenses and establishes a productive infection that may or may not be associated with the development of symptoms. While the GSB approach is being extensively used in the analysis of animal virus interactions (e.g. hepatitis C, human immunodeficiency, yellow fever, influenza A and herpesviruses), plant virologyhas not yet benefitted to the same extent, and the most relevant studies in the field generally apply some tr...

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“…Heat shock protein 70 (HSP70) family homologs, including Hsp70 (heat shock 70-kDa protein) and Hsc70 (heat shock cognate 70-kDa protein) chaperones, are central components of the cellular chaperone network and are frequently recruited by viruses (6,(8)(9)(10). Hsp70 is activated under stress conditions such as heat, virus infection, and oxidative stress (6,(10)(11)(12)(13)(14)(15)(16)(17)(18)(19). Whereas Hsc70 is generally expressed constitutively, it can also be induced by environmental stresses such as thermal and pesticide stress, as well as virus infection (10,(20)(21)(22)(23).…”

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confidence: 99%

Cucumber Necrosis Virus Recruits Cellular Heat Shock Protein 70 Homologs at Several Stages of Infection

Alam

Rochon

2016

J Virol

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RNA viruses often depend on host factors for multiplication inside cells due to the constraints of their small genome size and limited coding capacity. One such factor that has been exploited by several plant and animal viruses is heat shock protein 70 (HSP70) family homologs which have been shown to play roles for different viruses in viral RNA replication, viral assembly, disassembly, and cell-to-cell movement. Using next generation sequence analysis, we reveal that several isoforms of Hsp70 and Hsc70 transcripts are induced to very high levels during cucumber necrosis virus (CNV) infection of Nicotiana benthamiana and that HSP70 proteins are also induced by at least 10-fold. We show that HSP70 family protein homologs are co-opted by CNV at several stages of infection. We have found that overexpression of Hsp70 or Hsc70 leads to enhanced CNV genomic RNA, coat protein (CP), and virion accumulation, whereas downregulation leads to a corresponding decrease. Hsc70-2 was found to increase solubility of CNV CP in vitro and to increase accumulation of CNV CP independently of viral RNA replication during coagroinfiltration in N. benthamiana. In addition, virus particle assembly into virus-like particles in CP agroinfiltrated plants was increased in the presence of Hsc70-2. HSP70 was found to increase the targeting of CNV CP to chloroplasts during infection, reinforcing the role of HSP70 in chloroplast targeting of host proteins. Hence, our findings have led to the discovery of a highly induced host factor that has been co-opted to play multiple roles during several stages of the CNV infection cycle. IMPORTANCEBecause of the small size of its RNA genome, CNV is dependent on interaction with host cellular components to successfully complete its multiplication cycle. We have found that CNV induces HSP70 family homologs to a high level during infection, possibly as a result of the host response to the high levels of CNV proteins that accumulate during infection. Moreover, we have found that CNV co-opts HSP70 family homologs to facilitate several aspects of the infection process such as viral RNA, coat protein and virus accumulation. Chloroplast targeting of the CNV CP is also facilitated, which may aid in CNV suppression of host defense responses. Several viruses have been shown to induce HSP70 during infection and others to utilize HSP70 for specific aspects of infection such as replication, assembly, and disassembly. We speculate that HSP70 may play multiple roles in the infection processes of many viruses. C ucumber necrosis virus (CNV) is a positive-strand RNA virus in the genus Tombusvirus, family Tombusviridae (1). The CNV genome is monopartite and consists of ϳ4.7 kb of positive polarity single-stranded RNA. The genome contains five open reading frames (ORFs) which encode five different proteins: the auxiliary replicase factor (p33), the RNA-dependent RNA polymerase (RdRp) (p92), the coat protein (CP; p41), the movement protein (p21), and the silencing suppressor (p20) (Fig. 1A). The UAG stop codon of the p...

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Altered gene expression changes in Arabidopsis leaf tissues and protoplasts in response to Plum pox virus infection

Cited by 85 publications

References 85 publications

Differentially expressed genes in healthy and plum pox virus-infected Nicotiana benthamiana plants

Differentially expressed genes in healthy and plum pox virus-infected Nicotiana benthamiana plants

Detection of food-borne pathogens with DNA arrays on disk

Cucumber Necrosis Virus Recruits Cellular Heat Shock Protein 70 Homologs at Several Stages of Infection

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