Small RNA Profiling of Cucurbit Yellow Stunting Disorder Virus from Susceptible and Tolerant Squash (Cucurbita pepo) Lines

RNA silencing is a crucial mechanism of the antiviral immunity system in plants. Small RNAs guide Argonaut proteins to target viral RNA or DNA, preventing virus accumulation. Small RNA profiles in Cucurbita pepo line PI 420328 with tolerance to cucurbit yellow stunting disorder virus (CYSDV) were compared with those in Gold Star, a susceptible cultivar. The lower CYSDV symptom severity in PI 420328 correlated with lower virus titers and fewer sRNAs derived from CYSDV (vsRNA) compared to Gold Star. Elevated levels of 21- and 22-nucleotide (nt) size class vsRNAs were observed in PI 420328, indicating more robust and efficient RNA silencing in PI 420328. The distribution of vsRNA hotspots along the CYSDV genome was similar in both PI 420328 and Gold Star. However, the 3’ UTRs, CPm, and p26 were targeted at a higher frequency in PI 420328.

[1]  D. Baulcombe,et al.  Roles of RNA silencing in viral and non-viral plant immunity and in the crosstalk between disease resistance systems , 2022, Nature Reviews Molecular Cell Biology.

[2]  R. Srinivasan,et al.  Persistent, and Asymptomatic Viral Infections and Whitefly-Transmitted Viruses Impacting Cantaloupe and Watermelon in Georgia, USA , 2022, Viruses.

[3]  D. Riley,et al.  Wild Radish (Raphanus raphanistrum L.) Is a Potential Reservoir Host of Cucurbit Chlorotic Yellows Virus , 2022, Viruses.

[4]  Rodrick Z. Mwatuwa,et al.  Field Evaluation of Cucurbita Germplasm for Resistance to Whiteflies and Whitefly-transmitted Viruses , 2022, HortScience.

[5]  Yuling Bai,et al.  Small RNA Profiling of Susceptible and Resistant Ty-1 Encoding Tomato Plants Upon Tomato Yellow Leaf Curl Virus Infection , 2021, Frontiers in Plant Science.

[6]  A. Barman,et al.  Yellow Squash and Zucchini Cultivar Selection for Resistance to Cucurbit Leaf Crumple Virus in the Southeastern United States , 2021, HortTechnology.

[7]  J. Navas-Castillo,et al.  Tomato chlorosis virus-encoded p22 suppresses auxin signaling to promote infection via interference with SKP1-Cullin-F-boxTIR1 complex assembly. , 2021, Plant, cell & environment.

[8]  A. Culbreath,et al.  High Throughput Sequencing-Aided Survey Reveals Widespread Mixed Infections of Whitefly-Transmitted Viruses in Cucurbits in Georgia, USA , 2021, Viruses.

[9]  T. Shidore,et al.  Small RNA profiling analysis of two recombinant strains of potato virus Y in infected tobacco plants. , 2020, Virus research.

[10]  L. Papayiannis,et al.  Interplay of Cucurbit yellow stunting disorder virus with Cucurbit chlorotic yellows virus and transmission dynamics by Bemisia tabaci MED. , 2020, Plant disease.

[11]  O. Voinnet,et al.  Movement and differential consumption of short interfering RNA duplexes underlie mobile RNA interference , 2020, Nature Plants.

[12]  S. Gautam,et al.  Virus-virus interactions in a plant host and in a hemipteran vector: Implications for vector fitness and virus epidemics. , 2020, Virus research.

[13]  Hong Zhang,et al.  Plant 22-nt siRNAs mediate translational repression and stress adaptation , 2020, Nature.

[14]  T. Candresse,et al.  Plant virome reconstruction and antiviral RNAi characterization by deep sequencing of small RNAs from dried leaves , 2019, Scientific Reports.

[15]  Yiguo Hong,et al.  Mini review: Revisiting mobile RNA silencing in plants. , 2019, Plant science : an international journal of experimental plant biology.

[16]  J. McCreight,et al.  Emergence and epidemiology of Cucurbit yellow stunting disorder virus in the American Desert Southwest, and development of host plant resistance in melon. , 2017, Virus research.

[17]  C. dePamphilis,et al.  MicroRNAs from the parasitic plant Cuscuta campestris target host messenger RNAs , 2017, Nature.

[18]  N. Mitter,et al.  The effects of potato virus Y-derived virus small interfering RNAs of three biologically distinct strains on potato (Solanum tuberosum) transcriptome , 2017, Virology Journal.

[19]  H. Vaucheret,et al.  DCL2‐ and RDR6‐dependent transitive silencing of SMXL4 and SMXL5 in Arabidopsis dcl4 mutants causes defective phloem transport and carbohydrate over‐accumulation , 2017, The Plant journal : for cell and molecular biology.

[20]  Peng Li,et al.  Clay nanosheets for topical delivery of RNAi for sustained protection against plant viruses , 2017, Nature Plants.

[21]  Runmao Lin,et al.  Characterization and function of Tomato yellow leaf curl virus-derived small RNAs generated in tolerant and susceptible tomato varieties , 2016 .

[22]  L. Farinelli,et al.  MISIS-2: A bioinformatics tool for in-depth analysis of small RNAs and representation of consensus master genome in viral quasispecies. , 2016, Journal of virological methods.

[23]  N. Taylor,et al.  Comparative analysis of virus-derived small RNAs within cassava (Manihot esculenta Crantz) infected with cassava brown streak viruses , 2016, Virus research.

[24]  J. Carrington,et al.  Antiviral roles of plant ARGONAUTES. , 2015, Current opinion in plant biology.

[25]  J. Navarro,et al.  Comparative analysis among the small RNA populations of source, sink and conductive tissues in two different plant-virus pathosystems , 2015, BMC Genomics.

[26]  A. Dhingra,et al.  Comparative analysis of virus-specific small RNA profiles of three biologically distinct strains of Potato virus Y in infected potato (Solanum tuberosum) cv. Russet Burbank. , 2014, Virus research.

[27]  Shuai Li,et al.  Characterization of Small Interfering RNAs Derived from Sugarcane Mosaic Virus in Infected Maize Plants by Deep Sequencing , 2014, PloS one.

[28]  N. Mitter,et al.  Differential Expression of Tomato Spotted Wilt Virus-Derived Viral Small RNAs in Infected Commercial and Experimental Host Plants , 2013, PloS one.

[29]  I. Tzanetakis,et al.  Epidemiology of criniviruses: an emerging problem in world agriculture , 2013, Front. Microbiol..

[30]  Xueping Zhou,et al.  Population Diversity of Rice Stripe Virus-Derived siRNAs in Three Different Hosts and RNAi-Based Antiviral Immunity in Laodelphgax striatellus , 2012, PloS one.

[31]  L. Farinelli,et al.  Profile of small interfering RNAs from cotton plants infected with the polerovirus Cotton leafroll dwarf virus , 2011, BMC Molecular Biology.

[32]  H. Scholthof,et al.  Identification of an ARGONAUTE for Antiviral RNA Silencing in Nicotiana benthamiana1[C][W][OA] , 2011, Plant Physiology.

[33]  M. J. Adams,et al.  Characterization of siRNAs derived from rice stripe virus in infected rice plants by deep sequencing , 2010, Archives of Virology.

[34]  K. Mayer,et al.  Deep-sequencing of plant viral small RNAs reveals effective and widespread targeting of viral genomes. , 2009, Virology.

[35]  E. Kabelka,et al.  Characterization of Resistance to Squash Silverleaf Disorder in Summer Squash , 2009 .

[36]  W. Wintermantel,et al.  A New Expanded Host Range of Cucurbit yellow stunting disorder virus Includes Three Agricultural Crops. , 2009, Plant disease.

[37]  D. K. Willis,et al.  Variation in Tomato spotted wilt virus titer in Frankliniella occidentalis and its association with frequency of transmission. , 2009, Phytopathology.

[38]  O. Voinnet.  Post-transcriptional RNA silencing in plant-microbe interactions: a touch of robustness and versatility. , 2008, Current opinion in plant biology.

[39]  Gregory J. Hannon,et al.  Sorting of Small RNAs into Arabidopsis Argonaute Complexes Is Directed by the 5′ Terminal Nucleotide , 2008, Cell.

[40]  Olivier Voinnet,et al.  Antiviral Immunity Directed by Small RNAs , 2007, Cell.

[41]  Nicolas Bouché,et al.  An antagonistic function for Arabidopsis DCL2 in development and a new function for DCL4 in generating viral siRNAs , 2006, The EMBO journal.

[42]  Jinsong Bao,et al.  Hierarchical Action and Inhibition of Plant Dicer-Like Proteins in Antiviral Defense , 2006, Science.

[43]  I. Henderson,et al.  Dissecting Arabidopsis thaliana DICER function in small RNA processing, gene silencing and DNA methylation patterning , 2006, Nature Genetics.

[44]  Olivier Voinnet,et al.  The diversity of RNA silencing pathways in plants. , 2006, Trends in genetics : TIG.

[45]  Edwards Allen,et al.  DICER-LIKE 4 functions in trans-acting small interfering RNA biogenesis and vegetative phase change in Arabidopsis thaliana. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[46]  G. Szittya,et al.  Size Selective Recognition of siRNA by an RNA Silencing Suppressor , 2003, Cell.

[47]  M. Aranda,et al.  Further variability within the genus Crinivirus, as revealed by determination of the complete RNA genome sequence of Cucurbit yellow stunting disorder virus. , 2003, The Journal of general virology.

[48]  H. Lecoq,et al.  CUCURBIT YELLOW STUNTING DISORDER VIRUS - A NEW THREAT TO CUCURBITS IN LEBANON , 2000 .

[49]  A. López-Sesé,et al.  Resistance to cucurbit yellowing stunting disorder virus (CYSDV) in Cucumis melo L. , 2000 .

[50]  R. Srinivasan,et al.  First report of Cucurbit yellow stunting disorder virus in cucurbits in Georgia, United States. , 2018 .

[51]  H. Vaucheret,et al.  Respective contributions of Arabidopsis DCL2 and DCL4 to RNA silencing. , 2015, The Plant journal : for cell and molecular biology.

[52]  L. Farinelli,et al.  MISIS: a bioinformatics tool to view and analyze maps of small RNAs derived from viruses and genomic loci generating multiple small RNAs. , 2014, Journal of virological methods.

[53]  J. McCreight,et al.  Potential new sources of genetic resistance in melon to Cucurbit yellow stunting disorder virus. , 2008 .

[54]  D. Gallitelli,et al.  Emerging and Reemerging Virus Diseases of Plants , 2008 .

[55]  W. Wintermantel.  Emergence of Greenhouse Whitefly (Trialeurodes vaporariorum) Transmitted Criniviruses as Threats to Vegetable and Fruit Production in North America. , 2004 .

[56]  M. Gómez-Guillamón,et al.  Characterization of cucurbit yellow stunting disorder virus, a Bemisia tabaci-transmitted closterovirus , 1996 .

[57]  B. Tabashnik,et al.  Squash silverleaf symptoms induced by immature, but not adult, Bemisia tabaci , 1993 .

[58]  J. Duffus,et al.  A review of a yellowing and stunting disorder of Cucurbits in the United Arab Emirates , 1990 .

[59]  A. Jones,et al.  The use of terms for responses of plants to viruses: a reply to recent proposals. Reply , 1984 .