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Identification and molecular characterization of a novel sugarcane streak mastrevirus and an isolate of the A-strain of maize streak virus from sugarcane in Nigeria

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Abstract

Sugarcane and maize plants showing symptoms typical of those described for the so-called “African streak viruses” (AfSVs) were encountered during field surveys conducted from February to July 2015 to document viruses infecting both crops across the northern Guinea savannah region of Nigeria. As part of this study, two categories of complete mastrevirus-like genome sequences were obtained from nine samples (maize = 2; sugarcane = 7). In pairwise comparisons, the full-length genomes of the first sequence category (2,687 nt each; maize = 2; sugarcane = 2) shared 96 to 99% identity with global isolates of the A-strain of maize streak virus (MSV-A), indicating that sugarcane may also serve as a reservoir host to MSV-A. Analysis of the complete genomes belonging to the second sequence category (2,757 nt each; sugarcane = 5) showed that they shared 42 to 67% identity with their closest AfSV relatives, thus indicating that they represent sequences of a novel mastrevirus. Both sequence categories shared 61-62% sequence identity with each other. Further analysis revealed that the novel sugarcane-infecting virus, tentatively named as sugarcane chlorotic streak virus (SCSV), arose from a putative interspecific recombination event involving two grass-infecting mastreviruses, eragrostis streak virus and urochloa streak virus, as putative parental sequences. The results of this study add to the repertoire of diverse AfSVs present in cereal and sugarcane mixed cropping landscapes in the northern Guinea savannah region of Nigeria, with implications for disease epidemiology.

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Acknowledgements

Adama Yahaya is a fellow of the Norman E. Borlaug Leadership Enhancement in Agriculture Program (Borlaug-LEAP) funded by the USAID. The authors are grateful to Mallam Ibrahim Bello (Ahmadu Bello University, Zaria, Kaduna State, Nigeria) and Ms. L. Gregg (Texas A&M AgriLife Research & Extension Center, Weslaco, TX, USA) for technical help. This study was funded through financial support from the Borlaug LEAP Program, Texas A&M AgriLife Research & Extension Center, Weslaco, the CGIAR Research Program on MAIZE, and the Amina Ado Foundation.

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Authors and Affiliations

  1. Department of Biological Sciences, Ahmadu Bello University, Zaria, Kaduna State, Nigeria

    Adama Yahaya & Danladi B. Dangora

  2. Department of Crop Protection, Ahmadu Bello University, Zaria, Kaduna State, Nigeria

    Matthew D. Alegbejo

  3. International Institute of Tropical Agriculture (IITA), PMB 5320, Ibadan, Nigeria

    P. Lava Kumar

  4. Department of Plant Pathology & Microbiology, Texas A&M AgriLife Research & Extension Center, Weslaco, TX, 78596, United States of America

    Olufemi J. Alabi

Authors
  1. Adama Yahaya
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  2. Danladi B. Dangora
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  3. Matthew D. Alegbejo
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  4. P. Lava Kumar
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  5. Olufemi J. Alabi
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Corresponding author

Correspondence to Olufemi J. Alabi.

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This article does not contain any studies with human participants or animals performed by any of the authors.

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705_2016_3148_MOESM1_ESM.pptx

Supplementary Figure 1 Unrooted neighbor-joining trees depicting the phylogenetic relationships among coat-protein (A) and replication-associated proteins (B) of strains of monocot-infecting mastreviruses. The analysis involved 84 mastrevirus sequences (19 from this study and 65 from GenBank). (PPTX 2435 kb)

705_2016_3148_MOESM2_ESM.pptx

Supplementary Figure 2. Color-coded pairwise identity matrix generated from 84 complete genome sequences of strains of monocot-infecting mastreviruses. The analysis involved 19 complete genome sequences generated in this study and 65 sequences obtained from GenBank. The color-coded matrix was determined using the program SDT v.1.2 [11] (http://web.cbio.uct.ac.za/). Each colored cell represents a percentage identity score for two sequences, and color keys indicating the correspondence between pairwise identities and the colors displayed in the matrix are shown. (PPTX 451 kb)

Supplementary material 3 (DOCX 35 kb)

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Yahaya, A., Dangora, D.B., Alegbejo, M.D. et al. Identification and molecular characterization of a novel sugarcane streak mastrevirus and an isolate of the A-strain of maize streak virus from sugarcane in Nigeria. Arch Virol 162, 597–602 (2017). https://doi.org/10.1007/s00705-016-3148-5

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  • DOI: https://doi.org/10.1007/s00705-016-3148-5

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