Abstract
Papaya ringspot virus (PRSV) is a catastrophic disease that causes huge yield losses in papaya cultivation around the world. Yield losses in severely infected plants can be upto 100%. Because of this disease, papaya cultivation has been shifted to other crops in some areas of the world. Many conventional methods and breeding approaches are used against this disease, which turns out to be less effective. Considering the yield loss caused by PRSV in papaya, it is high time to focus on alternative control methods. To implement effective management strategies, molecular approaches such as Marker Assisted Breeding (MAS) or transgenic methods involving post-transcriptional gene silencing targeting the genome viz., coat protein, replicase gene, or HC Pro can be pursued. However, the public's reluctance to widely accept the transgenic approach due to health and environmental concerns necessitates a consideration of non-transgenic alternatives. Prioritizing safety and ensuring efficient virus control, non-transgenic approaches which encompass cross-protection, genome editing, and topical applications of dsRNA to induce gene silencing within the host, can be adopted. This review aims to provide comprehensive insights of various molecular tools used in managing PRSV which in turn will help in sustainable agriculture.
Similar content being viewed by others
Avoid common mistakes on your manuscript.
Introduction
Papaya (Carica papaya L.), often referred to as the "Wonder Fruit of the Tropics," is a fruit crop with significant economic value that is cultivated extensively in tropical and subtropical areas across the globe. In India, papaya is cultivated in an area of 148.81 thousand hectares with a production of 5341.83 million tonnes and productivity 35.90 tonnes per hectare [1]. In Tamil Nadu, India it is grown in an area of 3.21 thousand hectares, with a production of 0.219 million tonnes and productivity of 68.40 tonnes per hectare [2]. Numerous pests and diseases cause significant losses in papaya production, with papaya ring spot disease being the most destructive. The rapid spread of the virus allows it to infect upto 100% plants, causing a serious reduction in yield loss. In an area that is severely affected, farmers have to stop growing papaya due to the devastating effects of the infection [3]. In light of the yield loss attributed to the disease, various management strategies have been implemented to combat the virus. While many conventional approaches employed years ago persist today, their outcomes in controlling the virus have proven less effective. This review focusses on the importance of the papaya ringspot virus (PRSV), symptomatology, and transmission as well as different molecular techniques including breeding approaches, transgenic and non-transgenic strategies employed in combating PRSV in papaya.
Genome organisation
PRSV belongs to the genus Potyvirus, the largest group of the plant virus under the family Potyviridae. The virion of PRSV is a non-enveloped, monopartite, filamentous and flexuous rod-shaped, single-stranded positive RNA genome measuring 760–800 × 12 nm. The genome of PRSV is about 10,326 nucleotides with 5’ VPg and 3’ poly-A tail encapsidated by viral coat protein (CP). A single open reading frame (ORF) beginning at nucleotide 86 and closing at nucleotide 10,120 encodes a polyprotein with 3344 amino acids (aa) (Fig. 1). The typical virus particle contains 5.5% nucleic acid and 94.5% protein. The thermal activation point (TIP), the longevity in vitro (LIV) and purified virion buoyant density in cesium chloride are 54–60 °C, 0.3 days and 1.32 g cm−3 respectively [4]. The proteolytic cleavage of this protein results in 8–9 smaller proteins with various functions viz., P1 (63 kDa), helper component-protease (HC-Pro, 52 kDa), P3 (46 kDa), 6K1 (6 kDa), cylindrical inclusion protein (CI, 72 kDa), 6K2 (6 kDa), nuclear inclusion a (NIa, 48 kDa), nuclear inclusion b (NIb, 59 kDa) and coat protein (CP, 35 kDa) [5].
Among these P1, HC-Pro and NIa-Pro act as virus-encoded endoproteases. P1 shared 67–84% aa sequence identity and is the most variable region among other PRSV isolates while other segments like HC-Pro, P3, 6K1, CI, 6K2, VPg, NIa, NIb and CP shared 91–100% aa similarity [6]. P1 not only acts as a proteinase but is also responsible for cell-to-cell and systemic movement of the virus in infected plants. HC-Pro is a non-virion versatile protein involved in vector transmission, proteinase, pathogenicity, long distance movement and suppression of post-transcriptional gene silencing (PTGS)—a crucial defense mechanism employed by plants against viral infections [7]. Notably, HC-Pro is a highly effective suppressor of RNA silencing, a process that plays a crucial role in the regulation of gene expression and development in plants. This suppression of RNA silencing can have significant implications, as it can disrupt the microRNA-mediated developmental pathways in the host plant, thereby contributing to the establishment and proliferation of the heterologous virus[8].
The P3 function is unknown, but it is considered to play a possible role in replication [9]. 6K1 is involved in RNA replication, regulation, and inhibition of NIa nuclear translocation [4]. CI protein is involved in NTPase, NTP binding, RNA binding and RNA helicase activity, membrane attachment, cell-to-cell movement, induces amorphous and cylindrical inclusion body in the host cell cytoplasm[5]; 6K2 has the same function with 6K1 [4]. NIa contains two domains namely N-terminal viral protein genome-linked (VPg) and C-terminal protease domain. VPg acts as a primer for RNA synthesis initiators [5]. NIb acts as an RNA-dependent RNA polymerase [9] Both NIa and NIb are involved in the production of nuclear inclusion body [10]. CP involves encapsidation of viral RNA, vector transmission, pathogenicity, and cell-to-cell movement [11]. The 5’ untranslatable region (UTR region) of the PRSV genome of 85 bp is similar to other Potyvirus and is a rich source of A and U residues indicating that this region serves a shared functional role but is 63- 121 bases shorter [12].
Symptomatology and transmission
PRSV has two predominant pathotypes: the papaya (P) type infects Caricaceae, Cucurbitaceae and Chenopodiaceae, whereas the watermelon (W) type infects Cucurbitaceae and Chenopodiaceae. Typical symptoms produced by PRSV P type on papaya (Fig. 2) include leaf mosaic and chlorosis, flower abortion, stunting of infected plants, shoe string-like symptoms on young leaves, leaves malformation and puckering, moist oily-saturated streaks on the petiole and upper portion of the trunk [10]. Infection during the early vegetative stages results in stunting of plants, bunchy top, and never bear fruit, which would lead to complete yield loss. On the other hand, infection during the reproductive stages results in yellowing of the entire leaf and development of ring spot on fruits resulting in 85.0–90.0% yield loss [13]. As a result, fruit sugar levels drop by 50% or more and fruit production is reduced drastically [10]. PRSV is transmitted to healthy plants through sap of the infected plants [14], seeds (23.40%) as well as by several species of aphids viz., Myzus persicae (93.33%), Aphis gossypii (90.00%) and Aphis craccivora (83.33%) respectively in a non-persistent manner [15]. Hence, the disease severity in farmer field is very high because of its easily transmissible nature. Therefore, proper and well-planned management strategies are required to prevent the spread of the virus.
Management of papaya ringspot disease
The farming community has implemented various strategies to combat the papaya ring spot disease, but none of them have yielded effective results. Reinforcing the plant's resilience against viral infection, curtailing the virus's spread, and eradicating or averting the source of infection form the basic concepts of virus control. The approaches employed to manage viral diseases can be broadly categorized into conventional methods, breeding approaches, and transgenic and non-transgenic approaches. A detailed explanation of the various PRSV control techniques and flowchart (Fig. 3) is provided below.
Conventional approaches
The key cultural or agronomic methods for preventing the spread of PRSV include shifting cultivation [3]; ensuring an adequate isolation distance from previously infected fields; the use of virus-free healthy seedlings; modification of the transplanting period, encircling papaya plantations with border crops to prevent aphid-vector access, destroying of infected plants, weeds and other reservoir plants; and alternate cropping system [16]. Despite efforts, these methods of controlling the virus proved unsuccessful. Rouging did not completely stop the infection, and using insecticides wasn't effective because aphids spread the virus before they were eliminated. Complete eradication of orchards is ineffective because some virus strains can survive in weeds, other perennial plants, and annual plants, especially those that are cucurbits [17]. Hence, to effectively control virus spread and maintain papaya productivity, it is imperative to look for alternative and effective control strategies.
Breeding strategies
Farmers can control plant viruses most easily and affordably by using resistant cultivars. However, it takes time to introduce resistance genes into commercial cultivars because it needs to be present in the germplasm of the target species. Before initiating the breeding process, it is crucial to confirm that the resistance is not compromised by any pre-existing virus strains, or whether the virus can quickly adapt to get past it. Many species in the genus Vasconcellea showed complete resistance to PRSV, making them an important source of promising genes which can be exploited in papaya breeding program. However, because of their genetic distance, intergeneric hybridization between Carica and Vasconcellea could not be successfully carried out, leading to infertility, abortion of developing embryos, and inadequate hybrid vigour. These outcomes have made it difficult to transfer resistance genes to papaya using traditional methods [18]. Furthermore, traditional breeding techniques between wild and cultivated papaya species cannot produce PRSV-resistant varieties due to their sexual incompatibility with each other [19].
Molecular markers, on the other hand, are employed in the breeding of papayas to identify hybrids, ascertain the genetic proximity between different genotypes, and pinpoint specific sequences associated with desirable characters that can serve as markers [20]. Molecular markers can shorten the periods needed for a breeding program by assisting in the selection of hybrids resistant to PRSV. Randomly amplified polymorphic DNA (RAPD) was employed to evaluate the genetic associations between Vasconcellea and C. papaya species as well as among papaya cultivars [21]. V. cundinamarcensis was found to have markers associated with PRSV resistance identified using a variation of this method called randomly amplified DNA fingerprint (RAF) [22]. Psilk4, a CAPS marker, has demonstrated 99% accuracy in identifying resistant genotypes when used to separate V. parviflora X V. cundinamarcensis F2 progeny for PRSV resistance [18].
Marker-assisted breeding has utilized molecular markers associated with PRSV-1 gene due to its dominant inheritance [23]. Fluorescence in situ hybridization (FISH) was used by Fabiane et al. [24] to investigate genomic and chromosomal relationships among the species of Caricaceae. The microsatellite loci of papaya released by de Oliveira et al. [25] furnished an extensive collection of genetic markers. A total of 16 primer pairs were investigated by Alamery and Drew [26] which revealed that no resistance genes were found to be associated with simple sequence repeat (SSR) markers in the segregating populations and the hybridity of F1 was confirmed by one marker, SP16. Four markers associated with PRSV resistance in V. pubescens were found by Razali and Drew [27] in an interspecific mapping population of V. pubescens and V. parviflora. One of them was a practical marker that was found in the same spot as PRSV-1 and shared similarities with genes for serine threonine protein kinase (STK) [16].
Transgenic approaches
Transgenic plants resistant to viruses can be developed using the concept of pathogen-derived resistance (PDR). In PDR, the pathogen sequence or genes are introduced into the target plant to protect it from the pathogen or closely related groups[28, 29]. An effective RNA-mediated protection requires a transgene that is highly similar to the challenging virus [5]. Gene silencing involves targeting any viral sequence to confer resistance, without the need for protein expression [30]. The transgenic papaya line developed through RNA-mediated mechanisms is mainly based on PTGS which depends on the homology sequence between the viral genome and corresponding transgenes [31]. Various transgenic papaya lines have been developed targeting the genomic regions of PRSV (Table 1). Scientists at American and Chinese universities have currently approved and developed four genetically modified papaya events. The first genetically modified papaya was produced by two events that were developed at Cornell University and the University of Hawaii. They were derived from the cultivar "Sunset" and were named 55-1 (OECD UID: CPH-CP551-8) and 63-1 (OECD UID: CPH-CP631-7). The "Huanong No.1" event, which was not registered with the OECD, was released concurrently by South China Agricultural University. X17-2 (OECD UID: UFL-X17CP-9) developed at the University of Florida is the fourth event, deregulated in the United States and registered by the EPA in 2016 [17]. However, developing PRSV-resistant transgenic plants is challenging due to differences among geographically distinct isolates [5].
Coat protein-mediated resistance
The mechanism behind CP-mediated resistance is that CP will interfere in the early stage of virus infection by preventing virus replication and movement thereby restricting the spread of viral infections within the plant. The first successful papaya transgenic line was developed by Fitch et al. [32] by incorporating PRSV HA 5-1 CP gene resistant to severe Hawaii HA strain via microprojectile bombardment into immature zygotic embryos by the constructing plasmid containing neomycin phosphotransferase II (nptII) gene [5, 14]. Transgenic papaya line 55-1 developed by triggering PTGS are highly resistant to Hawaii PRSV isolates. The resistance is due to the sequence identity between the challenge virus CP gene coding region and CP transgene [43]. Rainbow and SunUp, that have been developed through CP-mediated mechanisms, were the first transgenic fruit trees being commercialized [44]. These two varieties provide an excellent solution to Hawaii's PRSV problems [45]. However, Rainbow, a CP-hemizygous line developed by a cross between SunUp and non-transgenic Kapoho, is found to be susceptible outside Hawaii. SunUp is a CP-homozygous line of 55-1 and susceptible to isolates from Taiwan and Thailand but shows resistance toward Brazil and Jamaica isolates [46] [44]. Crossings between GM and non-GM papaya produced additional varieties with less significance in the world's production. One such is the micro-propagated "Laie Gold," a hybrid between the non-GM "Kamiya" and the "Rainbow" F2 that is distinguished by shorter trees and initially higher yields [47].
The resistance of five X17-2 progenies to the PRSV strains H1K, H1C, and H1A that naturally occur in Florida was assessed between 1999 and 2007 through pollination with non-GM varieties. Unlike non-GM plants, which showed severe disease symptoms, they were resistant to H1K and tolerant to the other two strains [17]. According to APHIS [48], Florida papaya growers may find success with hybrids created from the PRSV-resistant X17-2. Cheng et al. [33] constructed Ti binary vector pBGCP using the CP gene of the Taiwanese PRSV YK strain through Agro-mediated transformation and the lines obtained were resistant to PRSV YK as well as to three different geographical strains from Thailand, Hawaii and Mexico. However, after 18 months of the fourth field trial, symptoms of severe papaya ringspot disease appeared [49] which was later confirmed as papaya leaf distortion mosaic virus (PLDMV) [50]. It was reported that CP-mediated transgenic papaya lines which were resistant to PRSV were found to be susceptible to PLDMV. A chimeric construct containing the CP genes of PRSV and PLDMV can be used to create a transgenic papaya line that is double resistant to both viruses [14]. Thus, the development of effective PRSV-resistant plants appears to be possible with the use of CP-mediated mechanisms.
Replicase-mediated resistance
Replicase-mediated resistance can be employed by introducing replicase gene into the plant. This gene will interfere with the virus replication by triggering RNA interference (RNAi) mechanisms thereby preventing virus replication in transgenic plants. Replicase protein serves as the basis for the resistance mechanism because transgenes encode the primary structure of the protein, which is altered by mutations, resulting in the resistance phenotype. The structures of replicase genes varied amongst different genera [11]. The first demonstration of replicase gene-mediated resistance was demonstrated in Nicotiana tabacum against the TMV [51]. Chen et al. [42] developed transgenic papaya resistance to PRSV by introducing a virus replicase gene. Agrobacterium tumefaciens carrying the pRPTW vector was used to transform embryogenic calli of the cultivar 'Tai-nong-2'. Mini Ti plasmid vector pRok was constructed under the instruction of the CaMV 35S promoter and terminator nopaline synthase gene (NOS) with replicase gene fragment orienting 3’-truncated and 5’-extended. Replicase-containing transgenic papaya plants were found to be protective against PRSV, and those with mutated replicase genes exhibited a high level of resistance to the virus [52]. China deregulated ‘Huanong No.1’, a transgenic PRSV-resistant papaya variety for commercial production in 2006 [53]. This cultivar was obtained through PDR but instead of the CP gene, the replicase gene was used [5, 10]. In the first five to six years, the transgenic papaya plants with the replicase gene showed no signs of resistance loss [54]. However, during the past few years, Zhao et al. [55] reported resistance breakdown of PRSV in "Huanong No. 1."
HC-Pro-mediated resistance
HC-Pro is an important component of PRSV that helps in vector transmission, RNA silencing suppression, cell-to-cell movement, responsible for synergisms between potyviruses and unrelated viruses that leads to severe symptom production and virus accumulation in infected leaves [5, 11]. Transgenic plants with strong virus resistance are predicted to arise from the silencing of the HC-Pro gene, which will directly downregulate viral RNAs and increase host antiviral silencing activity [56]. HC-Pro is a crucial element that must be taken into account for PRSV-resistant papaya to develop on the Indian subcontinent [57]. Cheng et al. [58] developed new mutants of the PRSV YK strain by modifying the HC-Pro of PRSV YK. Among the mutants, F7I and F7I + F206L, displayed mild symptoms in papaya plants, indicating that the virus was less successful in suppressing RNA silencing in these mutants than in the wild type. Under greenhouse conditions, F7I and F7I + F206L mutants were stable, offered complete protection against the PRSV YK strain, and were found to be difficult for aphids to spread the virus.
However, papaya plants developed using PTGS through transgenic approaches encounter reduced public acceptance due to biosafety concerns. Consequently, there is a pressing need to devise alternative methods that address both aspects i.e., effective plant control and public safety. This prompts a consideration of non-transgenic methods, which can be used for the management of the virus.
Non- transgenic approaches
An alternative strategy for controlling PRSV involves non-transgenic approaches, such as cross-protection, genome editing and topical application of dsRNA. These methods harness RNAi mechanisms, serving as intrinsic plant immune responses, to facilitate the recovery of virus-infected plants. Additionally, they contribute to the control of insect vectors through gene-silencing mechanisms thereby preventing the spread of the virus. We are set to discuss the details of each method as well as shown in Fig. 4, unravelling its intricacies to provide a clear understanding of its mechanisms and practical applications.
Cross-protection
Cross protection is a mechanism in which a plant when infected systematically with a mild strain of virus prevents the infection of a severe strain of the same virus. The key feature for practical application is the availability of mild protective virus strains. However, this naturally occurring mild strain when used for practical application was not mild enough to control the virus disease. Thus, the effort of selecting mild strains from the natural population to control viral disease was shifted to artificial mutagenesis [59]. Two attenuated PRSV mutates viz., HA 5-1 and HA 6-1 were inoculated on papaya seedlings and found to be symptomless without the plant's size being reduced. But when this sap was tested in double antigen sandwich-enzyme linked immunosorbent assay (DAS-ELISA) using antiserum against PRSV, it was found to be positive indicating symptomless infection was not due to slow replication or low concentration of virus [34]. Under greenhouse conditions, the mild mutant PRSV HA 5-1 was used against severe PRSV HA to protect papaya seedlings. Prior to inoculation with severe strain PRSV HA, the seedlings were pre-infected by gently rubbing the individual leaves with mild strain PRSV HA 5-1 at five to six-leaf stages at different time intervals [60]. It was found that most of the plants were symptomless even after 3 months from the day of inoculation. However, mock-inoculation of papaya seedlings with buffer first followed by re-inoculation with PRSV HA produces severe symptoms at 15 days [34].
In vivo, construction of mild strain cDNA using the backbone of HA 5-1 expressing NIa, NIb and CP regions from TG5, severe Vietnam strain, either singly or combined revealed that, mild recombinant HA5-1/TG5-CP3′ maintained high levels of protection against homologous HA and greatly enhanced protection against heterologous TG-5. Similarly, papaya plants with HA 5-1 recombinants containing single CP3′ fragments from Taiwan YK, Vietnam ST2 severe strains, and Thailand SMK strains also greatly boost defence against the corresponding heterologous strains [61]. Chiang et al. [62] used a mild mutant of the severe strain of the PRSV, HA 5-1, as a model to study the genetic basis of attenuation. They tested the infectivity of the recombinants produced by crossing HA 5-1 with HA on papaya and Chenopodium quinoa. Infectious clones containing recombinants of mutated P1 and HC-Pro reduced infection on papaya with no obvious symptoms similar to the mild strain. Additionally, the Indian Agricultural Research Institute, Regional Station in Pune, India, has attempted to control the severe strain of PRSV isolates in Pune using a mild strain of PRSV that occurs naturally and offers 66% resistance [3]. Even though this technique of using attenuated virus strain to control economic damage of severe virus strain was effective, it has several demerits [63].
Genome editing
The development of virus-resistant plants can be accelerated using CRISPR-associated short palindromic repeats (CRISPR). These modern advances in genome editing have made it possible to engineer plants with antiviral defences that are highly effective. CRISPR/Cas9 technology, in particular, functions like a molecular cutter by rupturing specific sequences in its substrate's DNA or RNA molecules. Engaging resistance against plant viruses through CRISPR-Cas technology has shown to be a promising strategy [64]. PRSV relies mostly on host factors (eIF4E or eIF(iso)4E) to complete its life cycle by interacting viral VPg with the hosts [65, 66]. CRISPR Cas9 specifically targeted eukaryotic initiation factor 4E (elF4E), a gene located in the host genome. It is known that this gene plays a role in the potyvirus infection process. Through its interaction with the viral protein known as VPg, the elF4E gene aids in the replication of the viruses [67]. CRISPR-based genome editing for papaya breeding is now possible owing to the availability of whole-genome sequences and papaya genetic transformation technologies [68]. The transgenic plant can be developed by either editing genes of the host which are crucial for virus multiplication or by directly targeting the virus [63, 69]. The translation-promoting 3′ poly A tail of mRNA and the potyviral 5′ m7G cap structure are bound by the eIF4E complex. Further viral infection is prevented when this interaction is disrupted by either mutagenesis or silencing [70]. However, to control viral diseases in tropical fruit crops, more studies on the diverse uses of the CRISPR/Cas9 methodology are needed. Application of the CRISPR/Cas9 system has already been made to fruit crops grown in tropical and subtropical areas but studies on a few important tropical fruit crops, like pineapple, are non-existent or very rare like papaya for disease resistance [71]. Even so, CRISPR/Cas is fast emerging as a potent tool for creating non-transgenic plant varieties that are resistant to viral diseases, thereby reducing the loss of agricultural productivity and promoting food security.
Topical application of dsRNA
To combat plant diseases, biotechnologists are investigating non-transgenic strategies that can generate strong resistance to viruses. Similar to transgenic RNAi-derived resistance exogenous application of dsRNA molecules can specifically induce RNAi-derived non-transgenic virus resistance plant [72]. The first case of Potyvirus resistance to both the homologous isolate and an additional PRSV isolate was conferred by applying dsRNA molecules exogenously from one PRSV isolate. The PRSV-Tirupati isolate's dsRNA molecules from the CP and HC-Pro genes provided complete resistance to infection. Additionally, the same dsRNA molecules were extremely successful in combating PRSV-Delhi isolate on the papaya cv. Pusa Nanha, providing resistance of 94% and 81%, respectively [73]. Shen et al. [74] used PRSV CP-mediated intron-containing hairpin dsRNAs or hpRNA-CP279 expressed in Escherichia coli strain M-JM109lacY for developing non-transgenic resistance papaya by directly spraying on plant. Resistance analyses and ELISA data confirmed that, manual co-inoculation of TRIzol-extracted ihpRNA-CP279 and PRSV showed resistance throughout the test period of more than 2 months after post inoculation whereas sequential inoculation of PRSV and ihpRNA-CP279 with 1–2 days interval leads to delay of PRSV symptoms by 3 to 4 days but fail to provide complete protection against PRSV.
However, naked RNA being unstable can be easily degraded when exposed to the environment. To increase the shelf life of RNA and to facilitate efficient transportation inside the plant, nano-based carriers like clay nanosheets, chitosan, lipid-modified polyethyleneimine, carbon dots, mesoporous silica nanoparticles, carbon nanotubes, DNA nanostructures etc. can be used [75]. One such example is the use of clay nanosheets for the delivery of dsRNA. Exogenous application of clay nanosheet dsRNA increases the protection period up to 20 days following the application. This protection can be observed regardless of the viral inoculation sites suggesting that dsRNA can transport from topical application sites to other tissues [76]. Some of the dsRNA delivery methods include mechanical inoculation, spreading by brushes or pipettes, spray application, use of RNA adhesion materials, loading on nano-carrier and delivery by root soaking [77]. This method of topical application of dsRNA is a more environmentally friendly, long-term, and socially acceptable method. In addition, this method has various benefits over plants developed by tissue-culture and genome-editing techniques, including simple multiplexing, minimal risks of producing off-target effects and somaclonal variant plants, minimal metabolic load on host plants as a result of non-constitutive induction of RNAi, and a host of other benefits results [78].
Targeting insect vector
Controlling insect vectors is one of the most important strategies for managing the dissemination of virus diseases. The use of insecticides in large amounts not only has a negative impact on the environment but also harms the beneficial insects. Nowadays, with the advancement of molecular sciences, gene silencing mechanisms can be employed as novel pest management strategies. For silencing plant insect vectors, there are two approaches: the first approach is silencing the target gene involved in the synthesis of essential cellular components, insect hormone homeostasis, energy metabolism, chitin metabolism, digestive metabolisms, detoxification, immunity, insecticide resistance, and other processes [79] and the second approach interferes with virus transmission pathway. Various techniques can be used to introduce RNAi inside the vector body. The RNAi experiment's success is contingent upon the target gene, the dsRNA's length range, and the mode of delivery. Target gene silencing must significantly reduce the insect's fitness or result in its death for RNAi to be considered effective [80].
Different hemipteran species, including aphids, have been subjected to RNAi and it been noted that it works best when directed against the genes of the salivary glands and midgut. For dsRNA in hemipterans, three main delivery methods have been used: feeding transgenic plants, oral delivery, and microinjection. Out of all these, microinjection is the least used because it is relatively more expensive and does not allow for manipulation because the tiny insect's physical damage triggers an immune response. Hemipterans have demonstrated efficacy when fed an oral diet containing dsRNA [81]. It is a less complicated method of delivering dsRNA and does not harm the insect. However, it is less effective due to low silencing efficiency and unable to generate large amounts of dsRNA. Furthermore, the creation of transgenic plants that produce dsRNA targeting particular insect vital genes is another method that has been applied to hemipterans. The main concept to bear in mind when using this technique is the expression of enough dsRNA to cause the insects to exhibit lethal phenotypes. The dsRNA should be engineered to be extremely specific to the target gene and to have a distinct binding mechanism. This is a very important step because it should make sure that there is no chance of non-specific targeting of other genes and organisms [82].
Another method is the topical application of dsRNA or siRNA formulation. Despite the cuticle barrier of insects, dsRNA or siRNA has been shown to enter and cause death to numerous insects. However, the ability of dsRNA to enter inside the insect body is quite limited due to the thick cuticle. Nanoparticles such as liposomes, chitosan and cationic dendrimers improve shelf-life, and stability and facilitate better uptake across the cell membranes [83]. BioClay loaded with dsRNA when applied exogenously to the host protects from the virus when applied five days before exposure to aphids Myzus persicae [84]. Building on the above ideas, we can formulate powerful management strategies to control aphid vectors responsible for PRSV dissemination through the application of RNAi gene silencing mechanisms.
Future perspective and conclusion
The prevalence of PRSV poses a significant challenge to global papaya production. Traditional methods and breeding approaches have proven ineffective in the control of PRSV, necessitating the evolution of transgenic papaya varieties using gene technology. However, instances of transgenic resistance breakdown, as observed in "Rainbow" and "SunUp," raise concerns. Despite this, the adoption of PRSV-resistant transgenic papaya remains slow, influenced by factors such as societal acceptance, environmental concerns and adherence to biosafety laws. Recent research indicates that PRSV-resistant transgenic papaya presents no discernible threat. An alternative approach involves controlling the spread of PRSV between plants by targeting insect vectors through gene silencing mechanisms, such as RNAi. Additionally, emerging gene editing technologies like CRISPR/Cas9 offer a non-transgenic means of developing PRSV-resistant plants. Another avenue involves the topical application of dsRNA or siRNA, providing non-transgenic alternatives for creating PRSV-resistant plants.
With continued research into non-transgenic alternatives like RNAi applications through foliar application, along with advancements in gene technology, it is possible that in the near future, more robust and extensively used papaya varieties resistant to PRSV will be introduced, promoting safe and sustainable papaya production worldwide.
Data availability
No datasets were generated or analysed during the current study.
References
Indiastat 2024 Area, Production and Productivity of Papaya in India (1950–1951 to 2023–2024–2nd Advance Estimates). https://www.indiastat.com/table/agriculture/area-production-productivity-papaya-india-1950-195/14865. Accessed 17 Aug 2024
Indiastat 2024 Selected State-wise Area, Production and Productivity of Papaya in India (2023–2024–2nd Advance Estimates). https://www.indiastat.com/table/agriculture/selected-state-wise-area-production-productivity-p/1455632. Accessed 17 Aug 2024
Sharma SK, Tripathi S (2021) Overcoming limitations of resistance breeding in Carica papaya L. against papaya ringspot virus—recent approaches. Plant Virus-Host Interact 489–506
Gonsalves D, Tripathi S, Carr JB, Suzuki JY (2010) Papaya ringspot virus. Plant Health Instr 10:1094
Azad MAK, Amin L, Sidik NM (2014) Gene technology for papaya ringspot virus disease management. Sci World J 2014:768038
Mangrauthia SK, Parameswari B, Praveen S, Jain RK (2009) Comparative genomics of papaya ringspot virus pathotypes P and W from India. Arch Virol 154:727–730
Anandalakshmi R, Pruss GJ, Ge X et al (1998) A viral suppressor of gene silencing in plants. Proc Natl Acad Sci 95:13079–13084
Kasschau KD, Carrington JC (2001) Long-distance movement and replication maintenance functions correlate with silencing suppression activity of potyviral HC-Pro. Virology 285:71–81
Sharma P, Sahu AK, Verma RK et al (2014) Current status of Potyvirus in India. Arch Phytopathol Plant Prot 47:906–918
Tripathi S, Suzuki JY, Ferreira SA, Gonsalves D (2008) Papaya ringspot virus -P: characteristics, pathogenicity, sequence variability and control. Mol Plant Pathol 9:269–280. https://doi.org/10.1111/j.1364-3703.2008.00467.x
Umer M, Mubeen M, Iftikhar Y, et al (2022) Papaya ring spot virus: an understanding of a severe positive-sense single stranded RNA viral disease and its management
Yeh S-D, Jan F-J, Chiang C-H et al (1992) Complete nucleotide sequence and genetic organization of papaya ringspot virus RNA. J Gen Virol 73:2531–2541
Premchand U, Mesta RK, Devappa V et al (2023) Survey, detection, characterization of papaya ringspot virus from southern India and management of papaya ringspot disease. Pathogens 12:824
Yeh S-D (2007) 5. Current status of the transgenic approach for control of papaya ringspot virus. Bus Potential Agric Biotechnol Prod Asian Product Organ Tokyo
Singh S, Awasti LP, Kumar P, Jagre A (2017) Diagnostic characteristics of Papaya ringspot virus isolates infecting papaya (Carica papaya L.) in India. Juniper Online J Immuno Virol 1:1–9
Sharma SK, Tripathi S (2018) On-farm management of papaya ringspot virus in papaya by modifying cultural practices. In: Plant viruses. CRC Press, pp 321–332
Baranski R, Klimek-Chodacka M (2019) Approved genetically modified (GM) horticultural plants: a 25-year perspective. Folia Hortic 31:3–49
Dillon S, Ramage C, Ashmore S, Drew RA (2006) Development of a codominant CAPS marker linked to PRSV-P resistance in highland papaya. Theor Appl Genet 113:1159–1169
Gonsalves D, Vegas A, Prasartsee V et al (2006) Developing papaya to control Papaya ringspot virus by transgenic resistance, intergeneric hybridization, and tolerance breeding. Plant Breed Rev 26:35–73
Eustice M, Yu Q, Lai CW et al (2008) Development and application of microsatellite markers for genomic analysis of papaya. Tree Genet Genomes 4:333–341
Jobin-Decor MP, Graham GC, Henry RJ, Drew RA (1997) RAPD and isozyme analysis of genetic relationships between Carica papaya and wild relatives. Genet Resour Crop Evol 44:471–477
Dillon SK, Drew RA, Ramage C (2004) Development of a co-dominant scar marker linked to a putative prsv-p resistance locus in wild “papaya.” In: International symposium on harnessing the potential of horticulture in the Asian-Pacific region, vol 694, pp 101–104
Drew RA, Magdalita PM, O’Brien CM (1997) Development of Carica interspecific hybrids. In: International Symposium on Biotechnology of Tropical and Subtropical Species Part 2 461. pp 285–292
Fabiane RC, Pereira TN, Hodnett GL et al (2008) Fluorescent in situ hybridization of 18S and 5S rDNA in papaya (Carica papaya L.) and wild relatives. Caryologia 61:411–416
De Oliveira EJ, Amorim VBO, Matos ELS et al (2010) Polymorphism of microsatellite markers in papaya (Carica papaya L.). Plant Mol Biol Report 28:519–530
Alamery S, Drew R (2011) Studies on the genetics of prsv-p resistance genes in intergeneric hybrids between Carica papaya and Vasconcellea quercifolia. In: 3rd international symposium on papaya, vol 1022, pp 55–61
Razali RHM, Drew R (2012) A review of PRSV-P resistance genes in vasconcellea species and their application to PRSV-P resistance in Carica papaya. In: 2rd international symposium on biotechnology of fruit species, vol 1048, pp 65–74
Baulcombe DC (1996) Mechanisms of pathogen-derived resistance to viruses in transgenic plants. Plant Cell 8:1833
Beachy RN, Loesch-Fries S, Tumer NE (1990) Coat protein-mediated resistance against virus infection. Annu Rev Phytopathol 28:451–472
Goswami S, Kumar RR, Chinnusamy V, Praveen S (2017) In planta silencing of NSs and Hc-Pro through RNAi constructs: to develop durable resistance. Indian J Plant Physiol 22:577–586
Jia R, Zhao H, Huang J et al (2017) Use of RNAi technology to develop a PRSV-resistant transgenic papaya. Sci Rep 7:12636
Fitch MM, Manshardt RM, Gonsalves D et al (1990) Stable transformation of papaya via microprojectile bombardment. Plant Cell Rep 9:189–194
Cheng Y-H, Yang J-S, Yeh S-D (1996) Efficient transformation of papaya by coat protein gene of papaya ringspot virus mediated by Agrobacterium following liquid-phase wounding of embryogenic tissues with caborundum. Plant Cell Rep 16:127–132
Yeh S-D, Gonsalves D, Wang HL et al (1988) Control of papaya ringspot virus by cross protection. Plant Dis 72:375–380
Lines RE, Persley D, Dale JL et al (2002) Genetically engineered immunity to papaya ringspot virus potyvirus in Australian papaya cultuvars. Mol Breed 10:119–129. https://doi.org/10.1023/A:1020381110181
Souza Júnior MT, Nickel O, Gonsalves D (2005) Development of virus resistant transgenic papayas expressing the coat protein gene from a Brazilian isolate of Papaya ringspot virus. Fitopatol Bras 30:357–365. https://doi.org/10.1590/S0100-41582005000400004
Zimmerman TW, Joseph L, St. Brice N, Kowalski JA (2005) Development and selection for homozygous transgenic papaya seedling. In: 1st international symposium on papaya, vol 740, pp 177–182
Davis MJ, Ying Z (2004) Development of papaya breeding lines with transgenic resistance to Papaya ringspot virus. Plant Dis 88:352–358. https://doi.org/10.1094/PDIS.2004.88.4.352
Tennant P, Ahmad MH, Gonsalves D (2005) Field resistance of coat protein transgenic papaya to Papaya ringspot virus in Jamaica. Plant Dis 89:841–847. https://doi.org/10.1094/PD-89-0841
Sakuanrungsirikul S, Sarindu N, Prasartsee V et al (2005) Update on the development of virus-resistant papaya: virus-resistant transgenic papaya for people in rural communities of Thailand. Food Nutr Bull 26:S307–S311. https://doi.org/10.1177/15648265050264S310
Phironrit N, Chowpongpang S, Warin N, et al (2005) Small scale field testing of PRSV resistance in transgenic papaya line KN116/5. In: 1st international symposium on papaya, vol 740, pp 169–176
Chen G, Ye CM, Huang JC et al (2001) Cloning of the papaya ringspot virus (PRSV) replicase gene and generation of PRSV-resistant papayas through the introduction of the PRSV replicase gene. Plant Cell Rep 20:272–277
Tennant PF, Gonsalves C, Ling KS et al (1994) Differential protection against papaya ringspot virus isolates in coat protein gene transgenic papaya and classically cross-protected papaya. Phytopathology 84:1359–1365
Gonsalves D (2002) Coat protein transgenic papaya:“acquired” immunity for controlling Papaya ringspot virus. Interface Innate Acquir Immun 266:73–83
Ferreira SA, Pitz KY, Manshardt R et al (2002) Virus coat protein transgenic papaya provides practical control of papaya ringspot virus in Hawaii. Plant Dis 86:101–105. https://doi.org/10.1094/PDIS.2002.86.2.101
Tennant P, Fermin G, Fitch MM et al (2001) Papaya ringspot virus resistance of transgenic Rainbow and SunUp is affected by gene dosage, plant development, and coat protein homology. Eur J Plant Pathol 107:645–653
Gonsalves D (2004) Transgenic papaya in Hawaii and beyond. AgBioforum 71:36–40
APHIS 2008 APHIS (2Petition for nonregulated status for the X17-2 line of papaya: a Papaya ringspot virus—resistant papaya. USDA APHIS. http://www.aphis.usda.gov/brs/aphisdocs/04_33701p.pdf. Accessed 17 Aug 2024
Bau H-J, Cheng Y-H, Yu T-A et al (2003) Broad-spectrum resistance to different geographic strains of Papaya ringspot virus in coat protein gene transgenic papaya. Phytopathology 93:112–120
Maoka T, Kashiwazaki S, Tsuda S et al (1996) Nucleotide sequence of the capsid protein gene of papaya leaf-distortion mosaic potyvirus. Arch Virol 141:197–204
Golemboski DB, Lomonossoff GP, Zaitlin M (1990) Plants transformed with a tobacco mosaic virus nonstructural gene sequence are resistant to the virus. Proc Natl Acad Sci 87:6311–6315
Wei X, Lan C, Lu Z, Ye C (2007) Analysis on virus resistance and fruit quality for T4 generation of transgenic papaya. Front Biol China 2:284–290
Guo J, Yang L, Liu X et al (2009) Characterization of the exogenous insert and development of event-specific PCR detection methods for genetically modified Huanong No. 1 papaya. J Agric Food Chem 57:7205–7212
Mendoza EMT, Laurena AC, Botella JR (2008) Recent advances in the development of transgenic papaya technology. Biotechnol Annu Rev 14:423–462
Zhao G, Yan P, Shen W, et al (2015) Complete genome sequence of papaya ringspot virus isolated from genetically modified papaya in Hainan Island, China. Genome Announc. https://doi.org/10.1128/genomea.01056-15
Shen W, Yan PU, Gao LE et al (2010) Helper component-proteinase (HC-Pro) protein of Papaya ringspot virus interacts with papaya calreticulin. Mol Plant Pathol 11:335–346
Mangrauthia SK, Singh P, Praveen S (2010) Genomics of helper component proteinase reveals effective strategy for papaya ringspot virus resistance. Mol Biotechnol 44:22–29
Cheng H-W, Lin T-T, Huang C-H et al (2023) Modification of papaya ringspot virus HC-Pro to generate effective attenuated mutants for overcoming the problem of strain-specific cross protection. Plant Dis 107:1757–1768
Gonsalves D, Ishii M (1981) Purification and serology of papaya ringspot virus 70:1028–1032
Yeh S-D, Gonsalves D (1984) Evaluation of induced mutants of papaya ringspot virus for control by cross protection. Phytopathology 74:1086–1091
Tran T-T-Y, Lin T-T, Chang C-P et al (2022) Generation of mild recombinants of papaya ringspot virus to minimize the problem of strain-specific cross-protection. Phytopathology 112:708–719. https://doi.org/10.1094/phyto-06-21-0272-r
Chiang C-H, Lee C-Y, Wang C-H et al (2007) Genetic analysis of an attenuated Papaya ringspot virus strain applied for cross-protection. Eur J Plant Pathol 118:333–348
Hamim I, Borth WB, Marquez J et al (2018) Transgene-mediated resistance to Papaya ringspot virus: challenges and solutions. Phytoparasitica 46:1–18
Wright AV, Nuñez JK, Doudna JA (2016) Biology and applications of CRISPR systems: harnessing nature’s toolbox for genome engineering. Cell 164:29–44
Lellis AD, Kasschau KD, Whitham SA, Carrington JC (2002) Loss-of-susceptibility mutants of Arabidopsis thaliana reveal an essential role for eIF (iso) 4E during potyvirus infection. Curr Biol 12:1046–1051
Ruffel S, Gallois J-L, Moury B et al (2006) Simultaneous mutations in translation initiation factors eIF4E and eIF (iso) 4E are required to prevent pepper veinal mottle virus infection of pepper. J Gen Virol 87:2089–2098
Fidan H, Calis O, Ari E et al (2023) Knockout of elF4E using CRISPR/Cas9 for large-scale production of resistant cucumber cultivar against WMV, ZYMV, and PRSV. Front Plant Sci 14:1143813
Tuo D, Ma C, Yan P, et al (2023) Genetic transformation and gene delivery strategies in Carica papaya L. Trop Plants. https://doi.org/10.48130/TP-2023-0005
Hsu PD, Lander ES, Zhang F (2014) Development and applications of CRISPR-Cas9 for genome engineering. Cell 157:1262–1278
Jiang J, Laliberté J-F (2011) The genome-linked protein VPg of plant viruses—a protein with many partners. Curr Opin Virol 1:347–354
Vieira MS, Cabral RLR, Favaratto L et al (2024) Tropical fruit virus resistance in the era of next-generation plant breeding. SynBio 2:267–284
Kaldis A, Berbati M, Melita O et al (2018) Exogenously applied dsRNA molecules deriving from the Zucchini yellow mosaic virus (ZYMV) genome move systemically and protect cucurbits against ZYMV. Mol Plant Pathol 19:883–895
Vadlamudi T, Patil BL, Kaldis A et al (2020) DsRNA-mediated protection against two isolates of Papaya ringspot virus through topical application of dsRNA in papaya. J Virol Methods 275:113750
Shen W, Yang G, Chen Y et al (2014) Resistance of non-transgenic papaya plants to papaya ringspot virus (PRSV) mediated by intron-containing hairpin dsRNAs expressed in bacteria. Acta Virol 58:261–266
Ji CY, Heo K-J, Jeong R, Kim M (2023) RNAi-based pesticides: a magic bullet to deal with plant viruses. In: Plant RNA viruses. Elsevier, pp 525–555
Mitter N, Worrall EA, Robinson KE et al (2017) Clay nanosheets for topical delivery of RNAi for sustained protection against plant viruses. Nat Plants 3:1–10
Dubrovina AS, Kiselev KV (2019) Exogenous RNAs for gene regulation and plant resistance. Int J Mol Sci 20:2282
Basavaraj YB, Parameshwari B, Kumar A, et al (2023) Papaya ring spot virus: status of 80 years of global research. In: Plant RNA viruses. Elsevier, pp 135–172
Lu Y, Deng X, Zhu Q et al (2023) The dsRNA delivery, targeting and application in pest control. Agronomy 13:714
Kanakala S, Ghanim M (2016) RNA interference in insect vectors for plant viruses. Viruses 8:329
Singh S, Gupta M, Pandher S et al (2018) Selection of housekeeping genes and demonstration of RNAi in cotton leafhopper, Amrasca biguttula biguttula (Ishida). PLoS ONE 13:e0191116
Nitnavare RB, Bhattacharya J, Singh S et al (2021) Next generation dsRNA-based insect control: success so far and challenges. Front Plant Sci 12:673576
Yan S, Ren B-Y, Shen J (2021) Nanoparticle-mediated double-stranded RNA delivery system: a promising approach for sustainable pest management. Insect Sci 28:21–34
Worrall EA, Bravo-Cazar A, Nilon AT et al (2019) Exogenous application of RNAi-inducing double-stranded RNA inhibits aphid-mediated transmission of a plant virus. Front Plant Sci 10:265
Acknowledgements
The authors are grateful for the support given by Professor and Head, Department of Plant Pathology, TNAU, Coimbatore for providing infrastructure and DST-SERB No: CRG/2020/004589 for providing facilities.
Funding
The research work was supported by the INSPIRE fellowship under INSPIRE program (No. DST/INSPIRE Fellowship/2023/IF230015), Department of Science and Technology, Government of India.
Author information
Authors and Affiliations
Contributions
RKJ: Investigation, Methodology, Experimentation and Analysis. SH: Conceptualization, Supervision, Complete editing; GK; MM: Methodology, Resources, data interpretation, KKK, MJ: Review & Editing, TCC: Supervision, Editing.
Corresponding author
Ethics declarations
Conflict of interest
The authors declare that they have no known competing financial interests or personal relationships that could have appeared to influence the work reported in this paper.
Ethical approval, consent to participate, consent to publish
This declaration is not applicable.
Additional information
Publisher's Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Rights and permissions
Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.
About this article
Cite this article
Jyotika, R.K., Harish, S., Karthikeyan, G. et al. Molecular approaches for the management of papaya ringspot virus infecting papaya: a comprehensive review. Mol Biol Rep 51, 981 (2024). https://doi.org/10.1007/s11033-024-09920-9
Received:
Accepted:
Published:
DOI: https://doi.org/10.1007/s11033-024-09920-9