# Carnation Italian ringspot virus

Carnation Italian ringspot virus (CIRV) is a plant virus that impacts carnation plants (Dianthus caryophyllus). These flowers are a popular choice in ornamental flower arrangements. This article will provide an overview of CIRV. This will include the history of the virus, information on transmission, symptoms, and characteristics, and research about how it relates to plant physiology.

## Viral classification and taxonomy

CIRV falls under the Tombusviridae family, known for its small, spherical virions and monopartite, positive-sense RNA genomes. Within this family, CIRV belongs to the Tombusvirus genus.

### Virus structure

* RNA Genome: CIRV possesses a single-stranded, positive-sense RNA genome. This contains the genetic information required for viral replication and protein production. The viral RNA can serve as the carrier for genetic information and the mRNA for protein production in an infected cell.
* Capsid: The viral RNA is enveloped by a protein coat, known as a capsid, that shields the genetic material from the outside environment. This virus does not have an envelope.
* Symmetry: CIRV's capsid structure has icosahedral symmetry, forming a spherical shape with 20 equilateral triangular faces. This is a common feature among many viruses. The viral particle has a total of 180 single protein subunits.
* Proteins: The capsid mainly consists of a single viral protein called the coat protein, which self-assembles to make the icosahedral structure that encloses the viral RNA.

### Viral RNA gene structure

CIRV encodes five open reading frames (ORFs) that are transcribed within the host cells. The first of which is a 36-kDa protein that is involved in localization to the mitochondria for replication and is known as p36. The second ORF encodes a 95-kDa protein known as p95. This protein is the RNA dependent RNA polymerase. The third ORF encodes the coat protein, which is a 41-kDa protein known as p41. Finally, ORF four and five are nested and encode two proteins, one 22-kDa in size and the other 19-kDa in size (p22 and p19 respectively), that are involved in cell to cell movement of the virus and disease presentation.

### Virus production and assembly

The virus enters the cell to cause infection and completes the life cycle in the cytoplasm. First, the virus experiences uncoating in the cytoplasm and transcription of early genes begins. Next, cytoplasmic viral factories are formed in order to replicate the viral mRNA. Because this is a positive sense RNA virus, the genomic RNA can be directly translated as mRNA by host ribosomes. Once proteins are made, the viral particles will assemble in the cytoplasm of the host cell. The virus encodes an RNA Dependent RNA Polymerase (RdRp) to replicate the RNA.

### Transmission mechanisms

CIRV primarily spreads through mechanical means, including human handling and contaminated tools and equipment. When an infected plant is manipulated or pruned, the virus can be transferred to healthy plants, leading to new infections. This transmission mode emphasizes the importance of maintaining good sanitation practices in nurseries and greenhouses.
Apart from mechanical transmission, aphids can also transmit CIRV in a non-persistent manner. Aphids can acquire the virus from infected plants and transmit it to healthy plants, although their transmission capacity is temporary. Although less common, aphid-mediated transmission can contribute to the virus's dissemination. The virus has been found to be resistant to a variety of treatment methods including temperature changes and UV radiation.

## Viral pathology and disease presentations
### Symptoms and effects on carnations

CIRV infection in carnations results in symptoms that significantly impact the plants. Understanding these symptoms is essential for diagnosing and managing the disease effectively.
* Ring-shaped lesions: One of the most characteristic symptoms of CIRV infection is the development of ring-shaped lesions on carnation leaves. These circular lesions typically have a dark center and a lighter, chlorotic halo. These lesions vary in size and may mar the visual appeal of the plants.
* Mottling and stippling: CIRV-infected carnations often display mottled or stippled patterns on their leaves. Mottling refers to irregular patches of light and dark coloration on the foliage while stippling entails tiny, discolored specks or dots on the leaf surface. These patterns result from disruptions in chlorophyll production and distribution in leaf tissues.
* Yellowing of leaves: CIRV infection can cause the yellowing of carnation leaves, a symptom commonly known as chlorosis. This results from the virus's interference with chlorophyll production, which impacts photosynthesis. Chlorosis reduces a plant's ability to photosynthesize efficiently, leading to stunted growth and diminished overall health.
* Overall weakening of the plant: Beyond the visible symptoms, CIRV infection weakens carnation plants more broadly. The virus interferes with normal plant functions, reducing overall vigor. Weakened plants become more susceptible to environmental conditions, pests, and other diseases, further affecting their health and productivity.

### Alteration of mitochondrial structure of host cells

During infection, this virus can cause structural changes to the mitochondria of the host cells that it infects. This change is often represented by the formation of internal vesicles that are formed from the outer membrane of the mitochondria. These vesicles serve as replication centers to produce more viral RNA. This process is largely dependent on a protein known as p36, which is involved in the localization to the outer membrane of the mitochondria for the formation of these replication vesicles.
This replication also depends on the use of host endosomal sorting complex required for transport (ESCRT). This complex is often used by viruses that need an envelope during infection, such as HIV. It has been characterized that other members of the Tombusviridae family utilize this complex, but recent research has suggested that CIRV also uses this system in its localization to the mitochondrial membrane for replication. This is done via protein-protein interactions and is distinct from other viruses in the family via these exact mechanisms.

## Viral presence in other plants

CIRV has not only been isolated in carnations. Reports out of Korea indicate that viral RNA was isolated using next generation sequencing (NGS) in Chrysanthemum zawadskii var. latilobum (CZ), also known as “Gujeolcho”. This plant serves as an herbal remedy and ornamental plant. After presenting disease symptoms similar to that of CIRV, researchers sequenced these plants and managed to isolate RNA that proved the cause. This was the first known isolation of CIRV in these plants and this research suggests that they could serve as a reservoir for the virus in this region.
The virus has also been isolated from apple, pear and sour cherry in the German Democratic Republic.

## Research and scientific advancements

The study of the Carnation Italian ringspot virus (CIRV) has led to significant scientific advancements. This has contributed to our understanding of plant virology, vector-virus interactions, and the development of control strategies. This section explores critical areas of research and their impact.

### Molecular diagnostics

One of the most significant advancements resulting from CIRV research is the development of molecular diagnostic techniques. These techniques allow for the rapid and accurate detection of CIRV in carnation plants. Molecular diagnostics are essential for early detection when symptoms are not readily visible.
* Polymerase chain reaction (PCR): PCR assays have been developed to detect the presence of CIRV in plant tissues. By amplifying viral genetic material, PCR provides a sensitive and specific method for identifying the virus.
* Serological Assays: Enzyme-linked immunosorbent assays (ELISA) and other serological techniques have also been employed to detect CIRV-specific proteins. These assays are valuable for high-throughput screening of plant samples.

### Resistant varieties

The breeding and genetic modification of carnation varieties for resistance to CIRV have been significant achievements in CIRV research. The development of resistant varieties has been instrumental in mitigating the impact of the virus on carnation crops.
* Breeding programs: Carnation breeding programs have focused on incorporating resistance to CIRV into new cultivars. This has involved crossbreeding existing varieties with resistance to the virus to develop commercially viable resistant carnations.
* Genetic Modification: Genetic engineering techniques have been explored to introduce specific resistance genes into carnation plants. These modified varieties are engineered to express proteins that interfere with viral replication or movement within the plant.

### Epidemiology and transmission

Research into the epidemiology of CIRV has provided valuable insights into how the virus spreads in plant populations. Understanding the dynamics of CIRV transmission has been critical for developing effective control measures.
* Vector-mediated transmission: Studies have investigated the role of aphids in transmitting CIRV. The interactions between aphids and CIRV-infected plants have been examined to determine factors influencing these vectors' virus transmission efficiency.
* Plant-plant transmission: Research has also explored non-vector-mediated transmission of CIRV, mainly through mechanical means. Understanding how the virus can be mechanically transmitted via contaminated tools and equipment has informed sanitation practices.

### Vector biology

Investigations into the biology and behavior of aphids, particularly in the context of CIRV transmission, have improved our knowledge of vector-host interactions.
* Aphid behavior: Research has examined aphid feeding behavior on CIRV-infected plants, focusing on factors influencing the acquisition and transmission of the virus. Understanding these behaviors is crucial for developing strategies to disrupt virus transmission by aphids.
* Vector control: Studies have explored Integrated Pest Management (IPM) practices to control aphid populations in carnation crops. These practices include the use of insecticides, the release of natural predators, and the promotion of cultural practices that deter aphids.
In conclusion, research on CIRV has led to breakthroughs in molecular diagnostics, the development of resistant carnation varieties, the understanding of virus transmission dynamics, and insights into vector biology. These advancements have not only benefited the ornamental flower industry but have also contributed to broader knowledge in the fields of plant virology and plant pathology. CIRV serves as a valuable model system for studying plant viruses' biology and ecology, ultimately informing disease management strategies in various crops.

## Significance in plant pathology and virology

Carnation Italian ringspot virus (CIRV) holds a special place in plant pathology and virology, serving as a model system for studying various aspects of plant viruses and contributing to our broader understanding of these fields.

### Vector-virus Interactions

CIRV is an excellent model for studying the intricate interactions between plant viruses and their vectors, particularly aphids. The virus-vector relationship is crucial in the epidemiology of CIRV and other plant viruses. Understanding how aphids acquire and transmit CIRV has broader implications for vector-borne diseases in agriculture.
Researchers have gained insights into how plant viruses manipulate their insect vectors by investigating the behaviors and mechanisms underlying vector-mediated transmission. These interactions extend beyond CIRV to other viruses that rely on insects for transmission. This knowledge has paved the way for developing novel vector control strategies to disrupt the spread of viral diseases in crops.

### RNA virus biology

As an RNA virus, CIRV has contributed to our understanding of the biology of such viruses. RNA viruses are a diverse group known for their rapid replication rates and mutation-prone genomes. CIRV's RNA-based genome has been a valuable model for studying key processes in RNA virus biology.
Research on CIRV has delved into the mechanisms of RNA replication, viral gene expression, and the role of viral RNA in host plant manipulation. These studies have provided insights into the fundamental processes underlying RNA virus infections, shedding light on the general biology of this virus group.

### Host-pathogen interactions

CIRV research has yielded valuable information about how plant viruses interact with their host plants. Understanding how viruses manipulate host plants to facilitate their infection and spread is a central aspect of plant-pathogen interactions.
The molecular and physiological changes induced by CIRV in carnation plants have provided insights into the mechanisms of virus-induced symptoms, such as ring-shaped lesions and mottling. These studies have broader applications in understanding how pathogens interact with their hosts, including manipulating cellular processes and defense mechanisms.

### Plant disease management

The strategies developed for managing CIRV have served as models for addressing similar challenges other plant viruses pose in various crops. The knowledge gained from CIRV research has informed disease management practices in agriculture and horticulture.
The use of resistant varieties, developed through CIRV research, has been adopted to combat other viral diseases in numerous crops. Breeding programs and genetic modification techniques inspired by CIRV studies have led to the development of plants with enhanced resistance to various pathogens.
In summary, CIRV's significance in plant pathology and virology extends beyond its impact on carnations. It is a valuable model for studying vector-virus interactions, RNA virus biology, host-plant interactions, and disease management strategies. The research on CIRV has contributed to the broader understanding of plant viruses, benefiting the agricultural and horticultural industries and advancing our knowledge of the fundamental processes underlying plant-pathogen interactions.