Abstract
Dioscorea mosaic associated virus (DMaV) is a member of the genus Sadwavirus, family Secoviridae, that is associated with mosaic symptoms in Dioscorea rotundata in Brazil. The genome of a DMaV isolate detected in D. trifida in Guadeloupe was sequenced by high-throughput sequencing. Using an RT-PCR-based detection assay, we found that DMaV infects D. alata, D. bulbifera, D. cayenensis-rotundata, D. esculenta, and D. trifida accessions conserved in Guadeloupe and Côte d’Ivoire and displays a very high level of molecular diversity in a relatively small region of the genome targeted by the assay. We also provide evidence that DMaV is also present in D. rotundata in Benin and in D. alata in Nigeria.
References
FAOSTAT. Available online: http://www.fao.org/faostat/. Accessed 8 Oct 2020
Korada RR, Naskar SK, Edison S (2010) Insect pests and their management in yam production and storage: a world review. Int J Pest Manag 56:337–349
Umber M, Filloux D, Gélabale S, Gomez RM, Marais A, Gallet S, Gamiette F, Pavis C, Teycheney P-Y (2020) Molecular viral diagnosis and sanitation of yam genetic resources: implications for safe yam germplasm exchange. Viruses 12:1101
Kenyon L, Shoyinka SA, Hughes Jd’A, Odu BO (2001) An overview of viruses infecting yams in Sub-Saharan Africa. In: 1st Symposium of Plant Virology for Sub-Saharan Africa (PVSSA), IITA, Ibadan Nigeria, 4–8 June 2001. http://iita.titaninternet.co.uk/cms/details/virology/pdf_files/432-439.pdf
Thomas-Sharma S, Andrade-Piedra J, Carvajal Yepes M, Hernandez Nopsa JF, Jeger MJ, Jones RAC, Kromann P, Legg JP, Yuen J, Forbes GA, Garrett KA (2017) A risk assessment framework for seed degeneration: informing an integrated seed health strategy for vegetatively propagated crops. Phytopathology 107:1123–1135
Hayashi EA, Blawid R, Lucas de Melo F, Souza Andrade M, Pio-Ribeiro G, Pereira de Andrade F, Nagat T (2017) Complete genome sequence of a putative new secovirus infecting yam (Dioscorea) plants. Arch Virol 162:317
Silva G, Bömer M, Rathnayake AI, Sewe SO, Visendi P, Oyekanmi JO et al (2019) Molecular characterization of a new virus species identified in yam (Dioscorea spp.) by high-throughput sequencing. Plants 8:167
Bakayoko Y, Kouakou AM, Kouassi AB, Gomez RM, Dibi KE, Essis BS, N’Zué B, Adebola P, N’Guetta ASP, Umber M (2021) Detection and diversity of viruses infecting African yam (Dioscorea rotundata) in a collection and F1 progenies in Côte d’Ivoire shed light to plant-to plant viral transmission. Plant Pathol. https://doi.org/10.1111/ppa.13393
Sarah G, Homa F, Pointet S, Contreras S, Sabot F, Nabholz B, Santoni S, Sauné L, Ardisson M, Chantret N, Sauvage C, Tregear J, Jourda C, Pot D, Vigouroux Y, Chaïr H, Scarcelli N, Billot C, Yahiaoui N, Bacilieri R, Khadari B, Boccara M, Barnaud A, Péros JP, Labouisse JP, Pham JL, David J, Glémin S, Ruiz M (2016) A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives. Mol Ecol Resour 17:565–580
Narina SS, Buyyarapu R, Kottapalli KR, Sartie AM, Ali MI, Robert A, Hodeba MJ, Sayre BL, Scheffler BE (2011) Generation and analysis of expressed sequence tags (ESTs) for marker development in yam (Dioscorea alata L.). BMC Genom 12:100
Simpson JT, Wong K, Jackman SD, Schein JE, Jones SJM, Birol I (2009) ABySS: a parallel assembler for short read sequence data. Genome Res 19:1117–1123
Huang X, Madan A (1999) CAP3: a DNA sequence assembly program. Genome Res 9:868–877
Youssef F, Marais A, Faure C, Gentit P, Candresse T (2011) Strategies to facilitate the development of uncloned or cloned infectious full-length viral cDNAs: Apple chlorotic leaf spot virus as a case study. Virol J 8:488
Thompson JR, Dasgupta I, Fuchs M, Iwanami T, Karasev AV, Petrzik K, Sanfaçon H, Tzanetakis I, van der Vlugt R, Wetzel T, Yoshikawa N (2017) ICTV virus taxonomy profile: Secoviridae. J Gen Virol 98:529–531
Kumar S, Stecher G, Li M, Knyaz C, Tamura K (2018) MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol 35:1547–1549
Shi BJ, Habili N, Gafny R, Symons RH (2004) Extensive variation of the sequence within isolates of Grapevine Virus B. Virus Genes 29:279–285
Teycheney PY, Laboureau N, Iskra-Caruana ML, Candresse T (2005) High genetic variability and evidence for plant-to-plant transfer of Banana mild mosaic virus. J Gen Virol 86:3179–3187
Simmonds P (2004) Genetic diversity and evolution of hepatitis C virus—15 years on. J Gen Virol 85:3173–3188
Acknowledgements
The authors wish to thank Yacouba Bakayoko and Amani Michel Kouakou for providing samples from the CNRA germplasm collection, Nadia Adjano-Lubin and Eric Bandou for technical help, and David Lange for assistance with sampling.
Funding
This work was funded by the Agence Nationale de la Recherche (ANR) and the Guadeloupe Region through the NetBiome program under project SafePGR (ANR-11-EBIM-0002-06) and by the European Commission and the Guadeloupe Region through the Malin project (2018-FED-1088) under the EU’s Seventh Framework Programme.
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Umber, M., Filloux, D., Svanella-Dumas, L. et al. Host range and molecular variability of the sadwavirus dioscorea mosaic associated virus. Arch Virol 167, 917–922 (2022). https://doi.org/10.1007/s00705-022-05379-w
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DOI: https://doi.org/10.1007/s00705-022-05379-w