Occurrence of a novel mastrevirus in sugarcane germplasm collections in Florida, Guadeloupe and Reunion
Wardatou Boukari
(1, 2)
,
Ricardo I. Alcala-Briseno
(2)
,
Simona Kraberger
(3)
,
Emmanuel Fernandez
(4, 5)
,
Denis Filloux
(4, 5)
,
Jean-Heindrich Daugrois
(4, 6, 7)
,
Jack C. Comstock
(8)
,
Jean-Michel Lett
(9)
,
Darren P. Martin
(10)
,
Arvind Varsani
(3, 11)
,
Philippe Roumagnac
(4, 5)
,
Jane E. Polston
(1, 2)
,
Philippe C. Rott
(1)
1
IFAS, Everglades Research & Education Center
2 IFAS, Plant pathology Department
3 The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences
4 UMR BGPI - Biologie et Génétique des Interactions Plante-Parasite
5 Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement
6 INRA - Institut National de la Recherche Agronomique
7 Montpellier SupAgro - Institut national d’études supérieures agronomiques de Montpellier
8 Sugarcane Field Station
9 UMR PVBMT - Peuplements végétaux et bioagresseurs en milieu tropical
10 Computational Biology Group, Institute of Infectious Disease and Molecular Medicine, Faculty of Health Sciences, Observatory
11 Structural Biology Research Unit, Department of Clinical Laboratory Sciences
2 IFAS, Plant pathology Department
3 The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences
4 UMR BGPI - Biologie et Génétique des Interactions Plante-Parasite
5 Cirad - Centre de Coopération Internationale en Recherche Agronomique pour le Développement
6 INRA - Institut National de la Recherche Agronomique
7 Montpellier SupAgro - Institut national d’études supérieures agronomiques de Montpellier
8 Sugarcane Field Station
9 UMR PVBMT - Peuplements végétaux et bioagresseurs en milieu tropical
10 Computational Biology Group, Institute of Infectious Disease and Molecular Medicine, Faculty of Health Sciences, Observatory
11 Structural Biology Research Unit, Department of Clinical Laboratory Sciences
Simona Kraberger
- Fonction : Auteur
- PersonId : 780666
- ORCID : 0000-0002-7037-9242
Jean-Michel Lett
- Fonction : Auteur
- PersonId : 976504
Philippe Roumagnac
- Fonction : Auteur
- PersonId : 1137455
Philippe C. Rott
Connectez-vous pour contacter l'auteur
- Fonction : Auteur correspondant
- PersonId : 1019686
Connectez-vous pour contacter l'auteur
Résumé
Background: In Africa and Asia, sugarcane is the host of at least seven different virus species in the genus Mastrevirus of the family Geminiviridae. However, with the exception of Sugarcane white streak virus in Barbados, no other sugarcane-infecting mastrevirus has been reported in the New World. Conservation and exchange of sugarcane germplasm using stalk cuttings facilitates the spread of sugarcane-infecting viruses. Methods: A virion-associated nucleic acids (VANA)-based metagenomics approach was used to detect mastrevirus sequences in 717 sugarcane samples from Florida (USA), Guadeloupe (French West Indies), and Reunion (Mascarene Islands). Contig assembly was performed using CAP3 and sequence searches using BLASTn and BLASTx. Mastrevirus full genomes were enriched from total DNA by rolling circle amplification, cloned and sequenced. Nucleotide and amino acid sequence identities were determined using SDT v1.2. Phylogenetic analyses were conducted using MEGA6 and PHYML3. Results: We identified a new sugarcane-infecting mastrevirus in six plants sampled from germplasm collections in Florida and Guadeloupe. Full genome sequences were determined and analyzed for three virus isolates from Florida, and three from Guadeloupe. These six genomes share > 88% genome-wide pairwise identity with one another and between 89 and 97% identity with a recently identified mastrevirus (KR150789) from a sugarcane plant sampled in China. Sequences similar to these were also identified in sugarcane plants in Reunion. Conclusions: As these virus isolates share < 64% genome-wide identity with all other known mastreviruses, we propose classifying them within a new mastrevirus species named Sugarcane striate virus. This is the first report of sugarcane striate virus (SCStV) in the Western Hemisphere, a virus that most likely originated in Asia. The distribution, vector, and impact of SCStV on sugarcane production remains to be determined.
Format du dépôt | Fichier |
---|---|
Type de dépôt | Article dans une revue |
Titre |
en
Occurrence of a novel mastrevirus in sugarcane germplasm collections in Florida, Guadeloupe and Reunion
|
Résumé |
en
Background: In Africa and Asia, sugarcane is the host of at least seven different virus species in the genus Mastrevirus of the family Geminiviridae. However, with the exception of Sugarcane white streak virus in Barbados, no other sugarcane-infecting mastrevirus has been reported in the New World. Conservation and exchange of sugarcane germplasm using stalk cuttings facilitates the spread of sugarcane-infecting viruses. Methods: A virion-associated nucleic acids (VANA)-based metagenomics approach was used to detect mastrevirus sequences in 717 sugarcane samples from Florida (USA), Guadeloupe (French West Indies), and Reunion (Mascarene Islands). Contig assembly was performed using CAP3 and sequence searches using BLASTn and BLASTx. Mastrevirus full genomes were enriched from total DNA by rolling circle amplification, cloned and sequenced. Nucleotide and amino acid sequence identities were determined using SDT v1.2. Phylogenetic analyses were conducted using MEGA6 and PHYML3. Results: We identified a new sugarcane-infecting mastrevirus in six plants sampled from germplasm collections in Florida and Guadeloupe. Full genome sequences were determined and analyzed for three virus isolates from Florida, and three from Guadeloupe. These six genomes share > 88% genome-wide pairwise identity with one another and between 89 and 97% identity with a recently identified mastrevirus (KR150789) from a sugarcane plant sampled in China. Sequences similar to these were also identified in sugarcane plants in Reunion. Conclusions: As these virus isolates share < 64% genome-wide identity with all other known mastreviruses, we propose classifying them within a new mastrevirus species named Sugarcane striate virus. This is the first report of sugarcane striate virus (SCStV) in the Western Hemisphere, a virus that most likely originated in Asia. The distribution, vector, and impact of SCStV on sugarcane production remains to be determined.
|
Auteur(s) |
Wardatou Boukari
1, 2
, Ricardo I. Alcala-Briseno
2
, Simona Kraberger
3
, Emmanuel Fernandez
4, 5
, Denis Filloux
4, 5
, Jean-Heindrich Daugrois
4, 6, 7
, Jack C. Comstock
8
, Jean-Michel Lett
9
, Darren P. Martin
10
, Arvind Varsani
3, 11
, Philippe Roumagnac
4, 5
, Jane E. Polston
1, 2
, Philippe C. Rott
1
1
IFAS, Everglades Research & Education Center
( 517878 )
- États-Unis
2
IFAS, Plant pathology Department
( 517879 )
- États-Unis
3
The Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences
( 517880 )
- États-Unis
4
UMR BGPI -
Biologie et Génétique des Interactions Plante-Parasite
( 73810 )
- CIRAD
UMR-BGPI TA A-54/K - Campus International de Baillarguet - 34398 Montpellier Cedex 5
- France
5
Cirad -
Centre de Coopération Internationale en Recherche Agronomique pour le Développement
( 11574 )
- Siège 42, rue Scheffer 75116 Paris
- France
6
INRA -
Institut National de la Recherche Agronomique
( 92114 )
- France
7
Montpellier SupAgro -
Institut national d’études supérieures agronomiques de Montpellier
( 474617 )
- 2, place Viala
34060 Montpellier Cédex 2
- France
8
Sugarcane Field Station
( 517881 )
- États-Unis
9
UMR PVBMT -
Peuplements végétaux et bioagresseurs en milieu tropical
( 16786 )
- Faculté des Sciences et techniques - Université de La Réunion 15 avenue René Cassin CS92003 97744 Saint-Denis Cédex 9 pour le Cirad Station de Ligne-Paradis - 7 chemin de l'IRAT - 97410 Saint-Pierre
- La Réunion
10
Computational Biology Group, Institute of Infectious Disease and Molecular Medicine, Faculty of Health Sciences, Observatory
( 517883 )
- Afrique du Sud
11
Structural Biology Research Unit, Department of Clinical Laboratory Sciences
( 514224 )
- Afrique du Sud
|
Langue du document |
Anglais
|
Nom de la revue |
|
Vulgarisation |
Non
|
Comité de lecture |
Oui
|
Audience |
Non spécifiée
|
Date de publication |
2017
|
Volume |
14
|
Page/Identifiant |
1-8
|
Public visé |
Scientifique
|
Sous-type de document pour les Articles |
Research article
|
Numéro d'article |
|
Licence |
Paternité - Partage selon les Conditions Initiales
|
Domaine(s) |
|
Financement |
|
Indexation contrôlée |
|
Mots-clés |
en
Geminiviridae, Saccharum spp., Sugarcane striate virus, sugarcane
fr
virologie végétale, pathologie végétale, pays tropical, canne à sucre, mastrevirus
|
DOI | 10.1186/s12985-017-0810-9 |
ProdINRA | 407596 |
Pubmed Id | 28754134 |
UT key WOS | 000406579200002 |
Origine :
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