First Report of Southern Bean Mosaic Virus Infecting Common Bean in Zambia
2020; American Phytopathological Society; Volume: 104; Issue: 6 Linguagem: Inglês
10.1094/pdis-11-19-2390-pdn
ISSN1943-7692
AutoresRabson M. Mulenga, Douglas W. Miano, Evans Kaimoyo, Juliet Akello, Felister M. Nzuve, Maher Al Rwahnih, Patrick Chiza Chikoti, Martin Chiona, Edgar Simulundu, Olufemi J. Alabi,
Tópico(s)Legume Nitrogen Fixing Symbiosis
ResumoHomePlant DiseaseVol. 104, No. 6First Report of Southern Bean Mosaic Virus Infecting Common Bean in Zambia PreviousNext DISEASE NOTES OPENOpen Access licenseFirst Report of Southern Bean Mosaic Virus Infecting Common Bean in ZambiaRabson M. Mulenga, Douglas W. Miano, Evans Kaimoyo, Juliet Akello, Felister M. Nzuve, Maher Al Rwahnih, Patrick C. Chikoti, Martin Chiona, Edgar Simulundu, and Olufemi J. AlabiRabson M. Mulenga†Corresponding author: R. M. Mulenga; E-mail Address: [email protected]http://orcid.org/0000-0003-0670-0262Zambia Agriculture Research Institute, Chilanga, Lusaka, Zambia, Douglas W. MianoUniversity of Nairobi, College of Agriculture and Veterinary Sciences, Department of Plant Sciences and Crop Protection, Kangemi, Nairobi, Kenya, Evans KaimoyoUniversity of Zambia, School of Biological Sciences, Great Road Campus, Lusaka, Zambia, Juliet AkelloInternational Institute of Tropical Agriculture, Southern African Research Hub Zambia, Felister M. NzuveUniversity of Nairobi, College of Agriculture and Veterinary Sciences, Department of Plant Sciences and Crop Protection, Kangemi, Nairobi, Kenya, Maher Al Rwahnihhttp://orcid.org/0000-0003-1589-9234Department of Plant Pathology, University of California, Davis, CA 95616, U.S.A., Patrick C. ChikotiZambia Agriculture Research Institute, Chilanga, Lusaka, Zambia, Martin ChionaZambia Agriculture Research Institute, Chilanga, Lusaka, Zambia, Edgar SimulunduUniversity of Zambia, School of Veterinary Medicine, Great East Road Campus, Lusaka, Zambia, and Olufemi J. Alabihttp://orcid.org/0000-0002-2471-7052Texas A&M University, Department of Plant Pathology and Microbiology, Weslaco, TX 78596, U.S.A.AffiliationsAuthors and Affiliations Rabson M. Mulenga1 † Douglas W. Miano2 Evans Kaimoyo3 Juliet Akello4 Felister M. Nzuve2 Maher Al Rwahnih5 Patrick C. Chikoti1 Martin Chiona1 Edgar Simulundu6 Olufemi J. Alabi7 1Zambia Agriculture Research Institute, Chilanga, Lusaka, Zambia 2University of Nairobi, College of Agriculture and Veterinary Sciences, Department of Plant Sciences and Crop Protection, Kangemi, Nairobi, Kenya 3University of Zambia, School of Biological Sciences, Great Road Campus, Lusaka, Zambia 4International Institute of Tropical Agriculture, Southern African Research Hub Zambia 5Department of Plant Pathology, University of California, Davis, CA 95616, U.S.A. 6University of Zambia, School of Veterinary Medicine, Great East Road Campus, Lusaka, Zambia 7Texas A&M University, Department of Plant Pathology and Microbiology, Weslaco, TX 78596, U.S.A. Published Online:7 Apr 2020https://doi.org/10.1094/PDIS-11-19-2390-PDNAboutSectionsSupplemental ToolsAdd to favoritesDownload CitationsTrack Citations ShareShare onFacebookTwitterLinked InRedditEmailWechat Southern bean mosaic virus (SBMV, genus Sobemovirus) is one of the causative agents of mosaic and mottle diseases in common bean (Phaseolus vulgaris) (Tremaine and Hamilton 1983). The ∼4.2 kb (+)ssRNA genome of SBMV is encapsidated in isometric virions of about 30 nm in diameter (Tremaine and Hamilton 1983). During surveys conducted in the Eastern Province of Zambia in April 2018, several common bean plants were observed with virus-like symptoms such as vein clearing, leaf rolling, mosaic, and leaf narrowing. Incidence of symptomatic plants across 20 fields ranged from 23 to 100%, averaging 67.5%. A total of 121 symptomatic leaf samples were collected from 20 farmers' fields and preserved dry on silica gel. Sixteen samples were randomly selected and pooled into one sample (Mse-1) for total nucleic acid (TNA) extraction as described (Djami-Tchatchou and Straker 2012). The TNA was preserved in RNAStable (Biomatrica, Japan) and shipped to Inqaba Biotechnical Industries (Pretoria, South Africa) for high-throughput sequencing (HTS). HTS was achieved via cDNA synthesis and library construction with the Illumina TruSeq RNA Library Prep Kit (Illumina, San Diego, CA). The cDNA library was sequenced on the Illumina MiSeq platform, generating 4.1 million single raw reads of ∼300 nucleotides (nt) each. De novo assembly of 188,160 virus-aligned reads and their subsequent use to query GenBank with BLASTn resulted in the detection of SBMV, bean common mosaic necrosis virus, bean common mosaic virus, cowpea aphid-borne mosaic virus, and cucumber mosaic virus in the sample. To confirm SBMV occurrence and also validate the HTS results, a pair of virus-specific primers (SBMV-1F, 5′-AGCTGGATTTCCTACCTTTGTG; SBMV-1R, 5′-GGCGTCATCTCCGTTTATCTT) was designed to amplify a 873-bp fragment encompassing 32 bp of the 5′ untranslated region, a 492-bp movement protein (ORF1), and a 353-bp partial P2a gene (ORF2) of SBMV by reverse transcription PCR. Each of the 121 samples was screened for SBMV along with the other four viruses (Ha et al. 2008; Niimi et al. 2003). Twenty-five of the 121 samples (20.7%) tested positive only for SBMV, whereas the remaining 96 samples had different combinations of the other four viruses (data not shown). The SBMV-positive samples had mosaic and vein clearing symptoms. The purified PCR products from three samples (EP-88, Mse-13, and Mse-17) were directly Sanger sequenced and deposited in GenBank (MN653952 to MN653954). Pairwise distance analysis revealed that the three Sanger-derived sequences shared 81 to 100% nt identities with each other. The 4,100-bp-long near-complete genome of SBMV was independently Sanger sequenced from sample Mse-13 (MN326873) and determined to encode all the four predicted ORFs of the virus. In pairwise comparisons, the Mse-13 sequence shared the highest (97.2%) and lowest (89.3%) nt sequence identities with the resistance-breaking strain SBMV-B(ARK) (AF055887) from Arkansas and isolate TZ (MG344643) from Tanzania, respectively. SBMV has been previously reported in common bean in many countries across several continents (Verhoeven et al. 2003). However, to the best of our knowledge, this is the first report of SBMV infecting common bean in Zambia. The result adds to the repertoire of viruses circulating in farmers' fields in Zambia and further confirms the complexity of probable viruses contributing to suboptimal common bean yields in the country.The author(s) declare no conflict of interest.References:Djami-Tchatchou, A. T., and Straker, C. J. 2012. S. Afr. J. Bot. 78:44. https://doi.org/10.1016/j.sajb.2011.04.009 Crossref, ISI, Google ScholarHa, C., et al. 2008. Arch. Virol. 153:25. https://doi.org/10.1007/s00705-007-1053-7 Crossref, ISI, Google ScholarNiimi, Y., et al. 2003. Sci. Hortic. (Amsterdam) 97:57. https://doi.org/10.1016/S0304-4238(02)00125-5 Crossref, ISI, Google ScholarTremaine, J. G., and Hamilton, R. I. 1983. CMI/AAB Descriptions of Plant Viruses, No. 274. Association of Applied Biologists, Wellesbourne, U.K. http://www.dpvweb.net/dpv/showdpv.php?dpvno=274 Google ScholarVerhoeven, J. Th. J., et al. 2003. Eur. J. Plant Pathol. 109:935. https://doi.org/10.1023/B:EJPP.0000003673.10046.2f Crossref, ISI, Google ScholarThe author(s) declare no conflict of interest.DetailsFiguresLiterature CitedRelated Vol. 104, No. 6 June 2020SubscribeISSN:0191-2917e-ISSN:1943-7692 DownloadCaptionSymptoms of citrus yellow mottle-associated virus on a leaf of Washington navel orange (J. X. Wu et al.). Photo credit: M. J. Cao. Effect of pydiflumetofen + difenoconazole on the severity of Cercospora leaf spot caused by Cercospora beticola in a small plot (S. J. Pethybridge et al.). Photo credit: S. J. Pethybridge. Metrics Article History Issue Date: 8 Jun 2020Published: 7 Apr 2020First Look: 6 Feb 2020Accepted: 2 Feb 2020 Pages: 1880-1880 Information© 2020 The American Phytopathological SocietyKeywordscommon beanvirusesSouthern bean mosaic virusSobemovirusepidemiologyvirus diagnosishigh-throughput sequencingThe author(s) declare no conflict of interest.Cited byCucumber mosaic virus (cucumber mosaic)CABI Compendium, Vol. CABI CompendiumCowpea aphid-borne mosaic virusCABI Compendium, Vol. CABI CompendiumBean common mosaic virus (common mosaic of beans)CABI Compendium, Vol. CABI CompendiumSouthern bean mosaic virusCABI Compendium, Vol. CABI CompendiumBean common mosaic necrosis virusCABI Compendium, Vol. CABI CompendiumPost-COVID-19 Action: Guarding Africa's Crops against Viral Epidemics Requires Research Capacity Building That Unifies a Trio of Transdisciplinary Interventions9 November 2020 | Viruses, Vol. 12, No. 11High-Throughput Sequencing Application in the Diagnosis and Discovery of Plant-Infecting Viruses in Africa, A Decade Later16 October 2020 | Plants, Vol. 9, No. 10
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