scholarly journals In Planta Transcriptome and Proteome Profiles of Spongospora subterranea in Resistant and Susceptible Host Environments Illuminates Regulatory Principles Underlying Host–Pathogen Interaction

Biology ◽  
2021 ◽  
Vol 10 (9) ◽  
pp. 840
Author(s):  
Sadegh Balotf ◽  
Richard Wilson ◽  
Robert S. Tegg ◽  
David S. Nichols ◽  
Calum R. Wilson
Keyword(s):  
Management Strategies ◽  
Potato Cultivar ◽  
Proteome Analysis ◽  
Economic Loss ◽  
Differentially Expressed ◽  
Resistant Cultivar ◽  
Nucleic Acid Metabolism ◽  
Spongospora Subterranea ◽  
In Planta ◽  
Susceptible Host

Spongospora subterranea is an obligate biotrophic pathogen, causing substantial economic loss to potato industries globally. Currently, there are no fully effective management strategies for the control of potato diseases caused by S. subterranea. To further our understanding of S. subterranea biology during infection, we characterized the transcriptome and proteome of the pathogen during the invasion of roots of a susceptible and a resistant potato cultivar. A total of 7650 transcripts from S. subterranea were identified in the transcriptome analysis in which 1377 transcripts were differentially expressed between two cultivars. In proteome analysis, we identified 117 proteins with 42 proteins significantly changed in comparisons between resistant and susceptible cultivars. The functional annotation of transcriptome data indicated that the gene ontology terms related to the transportation and actin processes were induced in the resistant cultivar. The downregulation of enzyme activity and nucleic acid metabolism in the resistant cultivar suggests a probable influence of these processes in the virulence of S. subterranea. The protein analysis results indicated that the majority of differentially expressed proteins were related to the metabolic processes and transporter activity. The present study provides a comprehensive molecular insight into the multiple layers of gene regulation that contribute to S. subterranea infection and development in planta and illuminates the role of host immunity in affecting pathogen responses.

scholarly journals Transcriptomic Profiling in Fins of Atlantic Salmon Parasitized with Sea Lice: Evidence for an Early Imbalance Between Chalimus-Induced Immunomodulation and the Host’s Defense Response

2020 ◽  
Vol 21 (7) ◽  
pp. 2417 ◽  
Author(s):  
Navaneethaiyer Umasuthan ◽  
Xi Xue ◽  
Albert Caballero-Solares ◽  
Surendra Kumar ◽  
Jillian D. Westcott ◽  
...  
Keyword(s):  
Atlantic Salmon ◽  
Defense Response ◽  
Redox Homeostasis ◽  
Management Strategies ◽  
Global Gene Expression ◽  
Immune Defense ◽  
Sea Lice ◽  
Susceptible Host ◽  
Network Analyses ◽  
Attachment Sites

Parasitic sea lice (e.g., Lepeophtheirus salmonis) cause costly outbreaks in salmon farming. Molecular insights into parasite-induced host responses will provide the basis for improved management strategies. We investigated the early transcriptomic responses in pelvic fins of Atlantic salmon parasitized with chalimus I stage sea lice. Fin samples collected from non-infected (i.e., pre-infected) control (PRE) and at chalimus-attachment sites (ATT) and adjacent to chalimus-attachment sites (ADJ) from infected fish were used in profiling global gene expression using 44K microarrays. We identified 6568 differentially expressed probes (DEPs, FDR < 5%) that included 1928 shared DEPs between ATT and ADJ compared to PRE. The ATT versus ADJ comparison revealed 90 DEPs, all of which were upregulated in ATT samples. Gene ontology/pathway term network analyses revealed profound changes in physiological processes, including extracellular matrix (ECM) degradation, tissue repair/remodeling and wound healing, immunity and defense, chemotaxis and signaling, antiviral response, and redox homeostasis in infected fins. The QPCR analysis of 37 microarray-identified transcripts representing these functional themes served to confirm the microarray results with a significant positive correlation (p < 0.0001). Most immune/defense-relevant transcripts were downregulated in both ATT and ADJ sites compared to PRE, suggesting that chalimus exerts immunosuppressive effects in the salmon’s fins. The comparison between ATT and ADJ sites demonstrated the upregulation of a suite of immune-relevant transcripts, evidencing the salmon’s attempt to mount an anti-lice response. We hypothesize that an imbalance between immunomodulation caused by chalimus during the early phase of infection and weak defense response manifested by Atlantic salmon makes it a susceptible host for L. salmonis.

scholarly journals Identification of lncRNAs Involved in PCV2 Infection of PK-15 Cells

Pathogens ◽  
2020 ◽  
Vol 9 (6) ◽  
pp. 479
Author(s):  
Jin He ◽  
Chaoliang Leng ◽  
Jiazhen Pan ◽  
Aoqi Li ◽  
Hua Zhang ◽  
...  
Keyword(s):  
Molecular Mechanisms ◽  
Target Genes ◽  
Severe Disease ◽  
Enrichment Analysis ◽  
Economic Loss ◽  
Porcine Circovirus Type ◽  
Pcv2 Infection ◽  
Differentially Expressed ◽  
Porcine Circovirus ◽  
Swine Industry

Porcine circovirus type 2 (PCV2) can cause severe disease in infected pigs, resulting in massive economic loss for the swine industry. Transcriptomic and proteomic approaches have been widely employed to identify the underlying molecular mechanisms of the PCV2 infection. Numerous differentially expressed mRNAs, miRNAs, and proteins, together with their associated signaling pathways, have been identified during PCV2 infection, paving the way for analysis of their biological functions. Long noncoding RNAs (lncRNAs) are important regulators of multiple biological processes. However, little is known regarding their role in the PCV2 infection. Hence, in our study, RNA-seq was performed by infecting PK-15 cells with PCV2. Analysis of the differentially expressed genes (DEGs) suggested that the cytoskeleton, apoptosis, cell division, and protein phosphorylation were significantly disturbed. Then, using stringent parameters, six lncRNAs were identified. Additionally, potential targets of the lncRNAs were predicted using both cis- and trans-prediction methods. Interestingly, we found that the HOXB (Homeobox B) gene cluster was probably the target of the lncRNA LOC106505099. Enrichment analysis of the target genes showed that numerous developmental processes were altered during PCV2 infection. Therefore, our study revealed that lncRNAs might affect porcine embryonic development through the regulation of the HOXB genes.

scholarly journals Uterine transcriptome analysis reveals mRNA expression changes associated with the ultrastructure differences of eggshell in young and aged laying hens

BMC Genomics ◽  
2020 ◽  
Vol 21 (1) ◽  
Author(s):  
Jia Feng ◽  
Hai-jun Zhang ◽  
Shu-geng Wu ◽  
Guang-hai Qi ◽  
Jing Wang
Keyword(s):  
Antigen Processing ◽  
Laying Hens ◽  
Late Phase ◽  
Economic Loss ◽  
Matrix Proteins ◽  
Differentially Expressed ◽  
Eggshell Formation ◽  
Eggshell Quality ◽  
Age Related ◽  
Altered Gene

Abstract Background Lower eggshell quality in the late laying period leads to economic loss. It is a major threat to the quality and safety of egg products. Age-related variations in ultrastructure were thought to induce this deterioration. Eggshell formation is a highly complex process under precise regulation of genes and biological pathways in uterus of laying hens. Herein, we evaluated the physical, mechanical and ultrastructure properties of eggshell and conducted RNA sequencing to learn the transcriptomic differences in uterus between laying hens in the peak (young hens) and late phase (aged hens) of production. Results The declined breaking strength and fracture toughness of eggshell were observed in aged hen group compared to those in young hen group, accompanied with ultrastructure variations including the increased thickness of mammillary layer and the decreased incidence of early fusion. During the initial stage of eggshell formation, a total of 183 differentially expressed genes (DEGs; 125 upregulated and 58 downregulated) were identified in uterus of laying hens in the late phase in relative to those at peak production. The DEGs annotated to Gene Ontology terms related to antigen processing and presentation were downregulated in aged hens compared to young hens. The contents of proinflammatory cytokine IL-1β in uterus were higher in aged hens relative to those in young hens. Besides, the genes of some matrix proteins potentially involved in eggshell mineralization, such as ovalbumin, versican and glypican 3, were also differentially expressed between two groups. Conclusions Altered gene expression of matrix proteins along with the compromised immune function in uterus of laying hens in the late phase of production may conduce to age-related impairments of eggshell ultrastructure and mechanical properties. The current study enhances our understanding of the age-related deteriorations in eggshell ultrastructure and provides potential targets for improvement of eggshell quality in the late laying period.

COMPARATIVE PROTEOME ANALYSIS FROM ERWINIA AMYLOVORA GROWN IN VITRO AND IN PLANTA

2008 ◽  
pp. 179-181
Author(s):  
M. Thoelen ◽  
J.P. Noben ◽  
J. Robben ◽  
R. Valcke ◽  
T. Deckers
Keyword(s):  
Erwinia Amylovora ◽  
Proteome Analysis ◽  
In Planta

scholarly journals Expression Signatures of Long Noncoding RNAs in Adolescent Idiopathic Scoliosis

2015 ◽  
Vol 2015 ◽  
pp. 1-9 ◽  
Author(s):  
Xiao-Yang Liu ◽  
Liang Wang ◽  
Bin Yu ◽  
Qian-yu Zhuang ◽  
Yi-Peng Wang
Keyword(s):  
Adolescent Idiopathic Scoliosis ◽  
Idiopathic Scoliosis ◽  
Acid Metabolism ◽  
Bone Mineralization ◽  
Noncoding Rnas ◽  
Long Noncoding Rnas ◽  
Differentially Expressed ◽  
Nucleic Acid Metabolism ◽  
Healthy Children ◽  
Healthy Control

Purpose. Adolescent idiopathic scoliosis (AIS), the most common pediatric spinal deformity, is considered a complex genetic disease. Causing genes and pathogenesis of AIS are still unclear. This study was designed to identify differentially expressed long noncoding RNAs (lncRNAs) involving the pathogenesis of AIS.Methods. We first performed comprehensive screening of lncRNA and mRNA in AIS patients and healthy children using Agilent human lncRNA + mRNA Array V3.0 microarray. LncRNAs expression in different AIS patients was further evaluated using quantitative PCR.Results. A total of 139 lncRNAs and 546 mRNAs were differentially expressed between AIS patients and healthy control. GO and Pathway analysis showed that these mRNAs might be involved in bone mineralization, neuromuscular junction, skeletal system morphogenesis, nucleotide and nucleic acid metabolism, and regulation of signal pathway. Four lncRNAs (ENST00000440778.1, ENST00000602322.1, ENST00000414894.1, and TCONS_00028768) were differentially expressed between different patients when grouped according to age, height, classification, severity of scoliosis, and Risser grade.Conclusions. This study demonstrates the abnormal expression of lncRNAs and mRNAs in AIS, and the expression of some lncRNAs was related to clinical features. This study is helpful for further understanding of lncRNAs in pathogenesis, treatment, and prognosis of AIS.

scholarly journals Emergence of African Swine Fever in Poland (2014–2021). Successes and Failures in Disease Eradication

Agriculture ◽  
2021 ◽  
Vol 11 (8) ◽  
pp. 738
Author(s):  
Grzegorz Woźniakowski ◽  
Zygmunt Pejsak ◽  
Artur Jabłoński
Keyword(s):  
Wild Boar ◽  
Management Strategies ◽  
African Swine Fever ◽  
Economic Loss ◽  
Wild Boar Population ◽  
Long Distance ◽  
Domestic Pig ◽  
Effective Measure ◽  
Disease Eradication ◽  
Pig Production

African swine fever (ASF) in Poland has been a major concern for pig production for the last seven years. The main constrains in ASF eradication in Poland are due to the high density of wild boar in ASF-affected areas of the country. Other factors, responsible for long-distance ASF spread to new regions of the country, are mainly related to human-mediated activity and lack of awareness of the potential disease threat to pig production. In the case of pig holdings, the only effective measure of ASF prevention is strict implementation of biosecurity rules. Despite many efforts to implement these measures, the disease occurred in a number of voivodeships, poviats and counties of Poland, primarily in eastern Poland; however, starting from 2019, also in the western part of the country. Further recommendations to eradicate ASF in Poland or at least to minimize the economic loss caused by ASF in pig production include effective wild boar population management strategies along with the implementation of strict biosecurity measures. The observations from the last seven years of ASF epizootic in Poland clearly indicate that the disease could not have been effectively controlled in wild boar population and could only be restricted in domestic pig population following severe biosecurity rules. As for ASF spread control in wild boar population, the measures applied in other EU countries include active wild boar carcass search and disposal along with sanitary and reduction hunting. These measures have also been shown non-effective. The only solution for future sustainable pig production in Poland seems to be strict collaboration between pig producers, veterinary inspection, and hunting associations.

scholarly journals RNAi for Western Corn Rootworm Management: Lessons Learned, Challenges, and Future Directions

Insects ◽  
2022 ◽  
Vol 13 (1) ◽  
pp. 57
Author(s):  
Molly Darlington ◽  
Jordan D. Reinders ◽  
Amit Sethi ◽  
Albert L. Lu ◽  
Partha Ramaseshadri ◽  
...  
Keyword(s):  
Environmental Protection Agency ◽  
Management Strategies ◽  
Housekeeping Genes ◽  
Diabrotica Virgifera Virgifera ◽  
The United States ◽  
Western Corn Rootworm ◽  
Lessons Learned ◽  
Corn Rootworm ◽  
In Planta ◽  
Commercial Use

The western corn rootworm (WCR), Diabrotica virgifera virgifera LeConte, is considered one of the most economically important pests of maize (Zea mays L.) in the United States (U.S.) Corn Belt with costs of management and yield losses exceeding USD ~1–2 billion annually. WCR management has proven challenging given the ability of this insect to evolve resistance to multiple management strategies including synthetic insecticides, cultural practices, and plant-incorporated protectants, generating a constant need to develop new management tools. One of the most recent developments is maize expressing double-stranded hairpin RNA structures targeting housekeeping genes, which triggers an RNA interference (RNAi) response and eventually leads to insect death. Following the first description of in planta RNAi in 2007, traits targeting multiple genes have been explored. In June 2017, the U.S. Environmental Protection Agency approved the first in planta RNAi product against insects for commercial use. This product expresses a dsRNA targeting the WCR snf7 gene in combination with Bt proteins (Cry3Bb1 and Cry34Ab1/Cry35Ab1) to improve trait durability and will be introduced for commercial use in 2022.

scholarly journals Identification of defense related gene families and their response against powdery and downy mildew infections in Vitis vinifera

BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Neetu Goyal ◽  
Garima Bhatia ◽  
Naina Garewal ◽  
Anuradha Upadhyay ◽  
Kashmir Singh
Keyword(s):  
Vitis Vinifera ◽  
Downy Mildew ◽  
Defense Mechanisms ◽  
Molecular Mechanisms ◽  
Differential Expression Analysis ◽  
Gene Families ◽  
Pathogen Resistance ◽  
Differentially Expressed ◽  
Phylogenetic Study ◽  
In Planta

Abstract Background Grapevine (Vitis vinifera) productivity has been severely affected by various bacterial, viral and fungal diseases worldwide. When a plant is infected with the pathogen, various defense mechanisms are subsequently activated in plants at various molecular levels. Thus, for substantiating the disease control in an eco-friendly way, it is essential to understand the molecular mechanisms governing pathogen resistance in grapes. Results In our study, we performed genome-wide identification of various defensive genes expressed during powdery mildew (PM) and downy mildew (DM) infections in grapevine. Consequently, we identified 6, 21, 2, 5, 3 and 48 genes of Enhanced Disease Susceptibility 1 (EDS1), Non-Race-specific Disease Resistance (NDR1), Phytoalexin deficient 4 (PAD4), Nonexpressor of PR Gene (NPR), Required for Mla-specified resistance (RAR) and Pathogenesis Related (PR), respectively, in the grapevine genome. The phylogenetic study revealed that V. vinifera defensive genes are evolutionarily related to Arabidopsis thaliana. Differential expression analysis resulted in identification of 2, 4, 7, 2, 4, 1 and 7 differentially expressed Nucleotide-binding leucine rich repeat receptor (NLR), EDS1, NDR1, PAD4, NPR, RAR1 and PR respectively against PM infections and 28, 2, 5, 4, 1 and 19 differentially expressed NLR, EDS1, NDR1, NPR, RAR1 and PR respectively against DM infections in V. vinifera. The co-expression study showed the occurrence of closely correlated defensive genes that were expressed during PM and DM stress conditions. Conclusion The PM and DM responsive defensive genes found in this study can be characterized in future for impelling studies relaying fungal and oomycete resistance in plants, and the functionally validated genes would then be available for conducting in-planta transgenic gene expression studies for grapes.

Sign in / Sign up

Export Citation Format

Share Document