scholarly journals Transcriptome Analysis Reveals the Important Role of WRKY28 in Fusarium oxysporum Resistance

2021 ◽  
Vol 12 ◽  
Author(s):  
Jian Diao ◽  
Jiaqi Wang ◽  
Ping Zhang ◽  
Xin Hao ◽  
Yang Wang ◽  
...  

Root rot of Populus davidiana × P. alba var. pyramidalis Louche (Pdpap) is caused by Fusarium oxysporum. We used RNA sequencing to study the molecular mechanisms and response pattern of Pdpap infected by F. oxysporum CFCC86068. We cloned the PdpapWRKY28 transcription factor gene and transformed the recombinant vector pBI121-PdpapWRKY28 into Pdpap. The resistance function of PdpapWRKY28 was verified using physiological and biochemical methods. By means of RNA sequencing, we detected 1,403 differentially expressed genes (DEGs) that are common in the different treatments by F. oxysporum. Furthermore, we found that overexpression of the PdpapWRKY28 gene may significantly improve the resistance of Pdpap plants to F. oxysporum. Our research reveals a key role for PdpapWRKY28 in the resistance response of Pdpap to F. oxysporum. Additionally, our results provide a theoretical basis for in-depth research on resistance breeding to combat root rot.

Plant Disease ◽  
2001 ◽  
Vol 85 (7) ◽  
pp. 735-739 ◽  
Author(s):  
Y. Rekah ◽  
D. Shtienberg ◽  
J. Katan

The saltcedar shrub Tamarix nilotica grows as a weed in the Arava region of Israel. This weed is commonly found in cultivated fields naturally infested with Fusarium oxysporum f. sp. radicis-lycopersici, the causal agent of tomato crown and root rot. Young bushes, 20 to 40 cm tall, were randomly uprooted from different fields. The roots were cut into segments which were placed on Fusarium-selective medium. Although the plants did not show any symptoms of disease, the roots of the shrub were colonized by the pathogen. The incidence of infected saltcedar plants and level of root colonization by F. oxysporum f. sp. radicis-lycopersici decreased with increasing distance of the sampling location from a tomato field infected with crown and root rot. F. oxysporum f. sp. radicis-lycopersici was also isolated from chaff of inflorescence samples taken from mature T. nilotica shrubs. Identity of the pathogen isolates obtained from T. nilotica roots and chaff samples was verified by pathogenicity and vegetative compatibility tests. Roots of T. nilotica plants sown under greenhouse conditions in soil naturally infested with F. oxysporum f. sp. radicis-lycopersici became colonized by the pathogen. Uprooting and removing saltcedar plants throughout the season from fields not cultivated with tomatoes lowered the inoculum density of F. oxysporum f. sp. radicis-lycopersici in the soil from 611 to 6 and from 176 to 10 CFU/g of soil in the 1998-99 and 1999-2000 growing seasons, respectively. These results demonstrate that T. nilotica may contribute to the buildup of the pathogen populations in the absence of a susceptible host. Colonization of saltcedar by F. oxysporum f. sp. radicis-lycopersici is an additional mechanism for survival of this pathogen in the fields and for dissemination through the spread of infested seed or chaff of T. nilotica.


2020 ◽  
Author(s):  
Hélène Scheer ◽  
Caroline de Almeida ◽  
Emilie Ferrier ◽  
Quentin Simonnot ◽  
Laure Poirier ◽  
...  

AbstractUridylation is a widespread modification destabilizing eukaryotic mRNAs. Yet, molecular mechanisms underlying TUTase-mediated mRNA degradation remain mostly unresolved. Here, we report that the Arabidopsis TUTase URT1 participates in a molecular network connecting several translational repressors/decapping activators. URT1 directly interacts with DECAPPING 5 (DCP5), the Arabidopsis ortholog of human LSM14 and yeast Scd6, and this interaction connects URT1 to additional decay factors like DDX6/Dhh1-like RNA helicases. Nanopore direct RNA sequencing reveals a global role of URT1 in shaping poly(A) tail length, notably by preventing the accumulation of excessively deadenylated mRNAs. Based on in vitro and in planta data, we propose a model that explains how URT1 could reduce the accumulation of oligo(A)-tailed mRNAs both by favoring their degradation and because 3’ terminal uridines intrinsically hinder deadenylation. Importantly, preventing the accumulation of excessively deadenylated mRNAs avoids the biogenesis of illegitimate siRNAs that silence endogenous mRNAs and perturb Arabidopsis growth and development.


2020 ◽  
pp. 1-18
Author(s):  
Manzoor R. Khan ◽  
Zaki A. Siddiqui

Abstract Effect of Meloidogyne incognita, Pectobacterium betavasculorum and Rhizoctonia solani alone, pre, post and simultaneous inoculations to find out role of each pathogen on growth, chlorophyll and carotenoid, superoxide dismutase (SOD), catalase (CAT), peroxidase (POD), ascorbate peroxidase (APX), glutathione peroxidase (GPX), glutathione reductase (GR) activities and proline, H2O2 and malondialdehyde (MDA) of beetroot (Beta vulgaris L). Inoculation of plants with M. incognita / P. betavasculorum or R. solani reduced plant growth (root dry weight) (42.0%), chlorophyll (24.2%) and carotenoid (47.7%) while inoculation of pathogens under study resulted in increased activities of antioxidant enzymes, proline, H2O2 and MDA. Combined inoculation of pathogens under study resulted in greater reduction of plant growth (74.9%), chlorophyll (55.3%) and carotenoid (83.7%) than individual pathogen. Greatest reduction in plant growth, chlorophyll and carotenoid and maximum activities of antioxidant enzymes, proline, H2O2 and MDA were observed when M. incognita was inoculated 20 days prior to P. betavasculorum plus R. solani. P. betavasculorum and R. solani reduced galling and nematode multiplication but maximum reduction in galling (82.8%) and nematode multiplication (82.7%) was observed when P. betavasculorum plus R. solani were inoculated prior to nematodes. Necrosis soft rot and root rot indices by P. betavasculorum and R. solani were 3 respectively. Disease indices were 5 when two or more pathogens were inoculated together. Prior inoculation of M. incognita predisposed beetroots to P. betavasculorum and R. solani and aggravates the disease.


2016 ◽  
Vol 46 (6) ◽  
pp. 943-949 ◽  
Author(s):  
Geraldo Salgado-Neto ◽  
Marcos André Braz Vaz ◽  
Jerson Vanderlei Carús Guedes ◽  
Marlove Fátima Brião Muniz ◽  
Elena Blume

ABSTRACT: The scientific and economic importance of soybean root rot justifies the study of this disease, especially the role of insects as dispersers in the spread of root pathogens. The objective was to identify and evaluate qualitatively and quantitatively the role of Cyclocephala modesta, Dyscinetus gagatesand Diloboderus abderus(Coleoptera: Melolonthidae) in the dispersion of root pathogens in cultivated fields. The fungi were identified to the species level with DNA extraction and sequencing of these organisms within Melolonthidae larvae. Larvae were dissected and separated into the parts: mouth parts, prothorax, cuticle and digestive tract (alimentary canal). The Internal Transcribed Spacer region of the rRNA was amplified and compared to sequences deposited in GenBank. This is the first record of dispersion Fusarium oxysporumby Cyclocephala modesta, Dyscinetus gagatesand Diloboderus abderus (Coleoptera: Melolonthidae) under soybean in Brazil.


Blood ◽  
2018 ◽  
Vol 132 (Supplement 1) ◽  
pp. 1907-1907
Author(s):  
Wing Yu Man ◽  
Tiffany Khong ◽  
Andrew Spencer

Abstract Introduction Multiple myeloma (MM) is a plasma cell malignancy that manifests continuous cell dissemination to multiple bone marrow (BM) niches and extramedullary (EM) sites. However, the molecular mechanisms behind this phenomenon remain elusive. CD45, a receptor tyrosine phosphatase, is an important regulator for T-cell and B-cell signaling pathways. In MM, the loss of CD45 expression has been correlated with earlier disease progression and inferior treatment outcomes. The downstream targets of CD45, Src family kinases (SFK), are associated with cell migration in many malignancies. It is also known to interact with proline-rich kinase (Pyk2) that binds to cytoskeleton-regulating proteins. Our previous in vitro studies demonstrated a 'metastatic' phenotype for CD45 negative MM. We hypothesise that CD45 acts as a marker for disease progression and mediates cell mobility through SFKs. Method CD45 expression in human myeloma cell lines (HMCL) was assessed by flow cytometry. To investigate the functions of CD45 in MM, CRISPR-Cas9 mediated CD45 knockout (CD45KO) models were established from a HMCL, OCI-MY1. The resulting phenotypic and transcriptional changes were identified by immunoblotting, modified Boyden chamber assays, RNA sequencing and Phospho Explorer Antibody Array. SFK inhibitor (Saracatinib), Pyk2 inhibitor (PF573228) and siRNAs were used to validate the role of SFK (predominately Lyn and Fyn) and Pyk2 in migration. Results We first compared 2 pairs of HMCL contemporaneously derived from BM and extramedullary disease (EM) in the same patient: TK1 (BM) and TK2 (EM), and TK17 (EM) and TK18 (BM). Both TK1 and TK18 had higher CD45 expression than their paired HMCL as expected. To avoid confounding intercellular genetic heterogeneity, we generated CD45KO models from OCI-MY1 and the loss of extracellular and intracellular portion of CD45 was confirmed by flow cytometry and immunoblotting. OCI-MY1 CD45KO cells showed significant SFK (Lyn and Fyn) and Pyk2 inactivation as compared to CD45 wild-type (CD45WT) cells. These cells demonstrated a significant reduction in homing capacity towards healthy and MM-patient derived BM stromal cells (reduced to 11.5% and 2.7%, p<0.0001, respectively) compared with the CD45WT cells. Treatment of CD45WT cells with Saracatinib and PF573228 similarly inhibited the homing capacity (47.3%, p<0.0001 and 71.3%, p<0.01 respectively). Moreover, silencing of Lyn and Fyn with siRNAs in CD45WT cells recapitulated the findings seen with the CD45KO cells (76%, p<0.01 and 55%, p<0.001, reduction in homing, respectively). The inactivation of SFK prompted us to investigate the transcriptional changes in the CD45KO cells. RNA sequencing identified differentially expressed migration-related genes in the CD45KO cell, in particular ADAM19, PARVB, AFAP1L2 and ITGAL, thus raising the possibility that dysregulation of these genes led to the observed reduction of homing potential of the CD45KO cells. To further understand the role of CD45 phosphatase activity, we analysed protein phosphorylation profiles in the CD45KO and CD45WT cells. In addition to the recognised inactivation of SFK and Pyk2, the Phospho Explorer Antibody Array also demonstrated reduced phosphorylation of JAK1 (Y1022), TYK2 (Y1054), c-Raf (S259) and MDM2 (S166), and increased phosphorylation of IRS-1 (S794), SHP-2 (Y580), c-Jun (Y170) and STAT6 (T645). We are currently investigating the correlation of these phosphorylation and MM homing mechanisms. Conclusion Our data demonstrate that CD45 plays an important role in regulating MM homing towards BM stroma by modulating SFK and Pyk2 activity with the loss of CD45 expression also resulting in the dysregulation of migration-related genes and widespread phosphorylation changes. Further in vivo studies evaluating the 'metastatic' impact of loss of CD45 expression are in progress. Disclosures No relevant conflicts of interest to declare.


2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Hélène Scheer ◽  
Caroline de Almeida ◽  
Emilie Ferrier ◽  
Quentin Simonnot ◽  
Laure Poirier ◽  
...  

AbstractUridylation is a widespread modification destabilizing eukaryotic mRNAs. Yet, molecular mechanisms underlying TUTase-mediated mRNA degradation remain mostly unresolved. Here, we report that the Arabidopsis TUTase URT1 participates in a molecular network connecting several translational repressors/decapping activators. URT1 directly interacts with DECAPPING 5 (DCP5), the Arabidopsis ortholog of human LSM14 and yeast Scd6, and this interaction connects URT1 to additional decay factors like DDX6/Dhh1-like RNA helicases. Nanopore direct RNA sequencing reveals a global role of URT1 in shaping poly(A) tail length, notably by preventing the accumulation of excessively deadenylated mRNAs. Based on in vitro and in planta data, we propose a model that explains how URT1 could reduce the accumulation of oligo(A)-tailed mRNAs both by favoring their degradation and because 3’ terminal uridines intrinsically hinder deadenylation. Importantly, preventing the accumulation of excessively deadenylated mRNAs avoids the biogenesis of illegitimate siRNAs that silence endogenous mRNAs and perturb Arabidopsis growth and development.


2021 ◽  
Vol 8 ◽  
Author(s):  
John Henderson ◽  
Praveen K. Dubey ◽  
Mallikarjun Patil ◽  
Sarojini Singh ◽  
Shubham Dubey ◽  
...  

Doxorubicin (DOX, an anthracycline) is a widely used chemotherapy agent against various forms of cancer; however, it is also known to induce dose-dependent cardiotoxicity leading to adverse complications. Investigating the underlying molecular mechanisms and strategies to limit DOX-induced cardiotoxicity might have potential clinical implications. Our previous study has shown that expression of microRNA-377 (miR-377) increases in cardiomyocytes (CMs) after cardiac ischemia-reperfusion injury in mice, but its specific role in DOX-induced cardiotoxicity has not been elucidated. In the present study, we investigated the effect of anti-miR-377 on DOX-induced cardiac cell death, remodeling, and dysfunction. We evaluated the role of miR-377 in CM apoptosis, its target analysis by RNA sequencing, and we tested the effect of AAV9-anti-miR-377 on DOX-induced cardiotoxicity and mortality. DOX administration in mice increases miR-377 expression in the myocardium. miR-377 inhibition in cardiomyocyte cell line protects against DOX-induced cell death and oxidative stress. Furthermore, RNA sequencing and Gene Ontology (GO) analysis revealed alterations in a number of cell death/survival genes. Intriguingly, we observed accelerated mortality and enhanced myocardial remodeling in the mice pretreated with AAV9-anti-miR-377 followed by DOX administration as compared to the AAV9-scrambled-control-pretreated mice. Taken together, our data suggest that in vitro miR-377 inhibition protects against DOX-induced cardiomyocyte cell death. On the contrary, in vivo administration of AAV9-anti-miR-377 increases mortality in DOX-treated mice.


2020 ◽  
Vol 4 (s1) ◽  
pp. 15-16
Author(s):  
Jheel Patel ◽  
Erik Dustrude ◽  
Melissa Haulcomb ◽  
Liangping Li ◽  
Guanglong Jiang ◽  
...  

OBJECTIVES/GOALS: Normal fear learning produces avoidance behavior that promotes survival, but excessive and persistent fear after trauma can lead to development of phobias and post-traumatic stress disorder (PTSD). Our goal is to understand the mechanism and identify novel genetic targets underlying fear responses. METHODS/STUDY POPULATION: Involvement of the amygdala in fear acquisition is well established and requires activation of N-methyl-D-aspartic acid receptors (NMDARs). At a cellular level, NMDAR activation leads to production of nitric oxide (NO) by a process mediated by interaction between postsynaptic density protein 95 (PSD95) and neuronal nitric oxide synthase (nNOS). To elucidate mechanisms underlying the role of the PSD95-nNOS-NO pathway in conditioned fear, here we use rodent behavioral paradigms, pharmacological treatment with a small molecular PSD95-nNOS inhibitor, co-immunoprecipitation, Western blotting, and RNA-sequencing. RESULTS/ANTICIPATED RESULTS: We show that fear conditioning enhances the PSD95-nNOS interaction and that the small-molecule ZL006 inhibits this interaction. Treatment with ZL006 also attenuates rodent cued-fear consolidation and prevents fear-mediated shifts in glutamatergic receptor and current densities in the basolateral amygdala (BLA). With RNA-sequencing, expression of 516 genes was altered in the BLA following fear expression; of these genes, 83 were restored by systemic ZL006 treatment. Network data and gene ontology enrichment analysis with Ingenuity Pathway Analysis and DAVID software found that cell-cell interaction, cognition-related pathways, and insulin-like growth factor binding were significantly altered. DISCUSSION/SIGNIFICANCE OF IMPACT: Our results reveal novel genetic targets that underlie plasticity of fear-memory circuitry via their contribution of NMDAR-mediated fear consolidation and can inform future strategies for targeting fear related disorders like PTSD. CONFLICT OF INTEREST DESCRIPTION: Anantha Shekhar and Yvonne Lai are co-founders of Anagin, Inc., which is developing some of the related molecules for the treatment of PTSD.


2020 ◽  
Vol 48 (3) ◽  
pp. 1019-1034 ◽  
Author(s):  
Rachel M. Woodhouse ◽  
Alyson Ashe

Gene regulatory information can be inherited between generations in a phenomenon termed transgenerational epigenetic inheritance (TEI). While examples of TEI in many animals accumulate, the nematode Caenorhabditis elegans has proven particularly useful in investigating the underlying molecular mechanisms of this phenomenon. In C. elegans and other animals, the modification of histone proteins has emerged as a potential carrier and effector of transgenerational epigenetic information. In this review, we explore the contribution of histone modifications to TEI in C. elegans. We describe the role of repressive histone marks, histone methyltransferases, and associated chromatin factors in heritable gene silencing, and discuss recent developments and unanswered questions in how these factors integrate with other known TEI mechanisms. We also review the transgenerational effects of the manipulation of histone modifications on germline health and longevity.


2020 ◽  
Vol 48 (2) ◽  
pp. 429-439 ◽  
Author(s):  
Jorge Gago ◽  
Danilo M. Daloso ◽  
Marc Carriquí ◽  
Miquel Nadal ◽  
Melanie Morales ◽  
...  

Besides stomata, the photosynthetic CO2 pathway also involves the transport of CO2 from the sub-stomatal air spaces inside to the carboxylation sites in the chloroplast stroma, where Rubisco is located. This pathway is far to be a simple and direct way, formed by series of consecutive barriers that the CO2 should cross to be finally assimilated in photosynthesis, known as the mesophyll conductance (gm). Therefore, the gm reflects the pathway through different air, water and biophysical barriers within the leaf tissues and cell structures. Currently, it is known that gm can impose the same level of limitation (or even higher depending of the conditions) to photosynthesis than the wider known stomata or biochemistry. In this mini-review, we are focused on each of the gm determinants to summarize the current knowledge on the mechanisms driving gm from anatomical to metabolic and biochemical perspectives. Special attention deserve the latest studies demonstrating the importance of the molecular mechanisms driving anatomical traits as cell wall and the chloroplast surface exposed to the mesophyll airspaces (Sc/S) that significantly constrain gm. However, even considering these recent discoveries, still is poorly understood the mechanisms about signaling pathways linking the environment a/biotic stressors with gm responses. Thus, considering the main role of gm as a major driver of the CO2 availability at the carboxylation sites, future studies into these aspects will help us to understand photosynthesis responses in a global change framework.


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