Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts
Beans <i>(Phaseolus vulgaris</i> and <i>P. lunatus</i>) are the major hosts of bean golden mosaic begomovirus (BGMV). Robust taxonomic criteria were established for <i>Begomovirus</i> species demarcation. However, DNA–A identities among BGMV isolates display a con...
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MDPI AG
2025-07-01
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| author | Luciane de Nazaré Almeida dos Reis Josiane Goulart Batista Maria Luiza Fernandes de Oliveira Maria Esther de Noronha Fonseca Josias Corrêa de Faria Francisco José Lima Aragão Leonardo Silva Boiteux Rita de Cássia Pereira-Carvalho |
| author_facet | Luciane de Nazaré Almeida dos Reis Josiane Goulart Batista Maria Luiza Fernandes de Oliveira Maria Esther de Noronha Fonseca Josias Corrêa de Faria Francisco José Lima Aragão Leonardo Silva Boiteux Rita de Cássia Pereira-Carvalho |
| author_sort | Luciane de Nazaré Almeida dos Reis |
| collection | DOAJ |
| description | Beans <i>(Phaseolus vulgaris</i> and <i>P. lunatus</i>) are the major hosts of bean golden mosaic begomovirus (BGMV). Robust taxonomic criteria were established for <i>Begomovirus</i> species demarcation. However, DNA–A identities among BGMV isolates display a continuous variation (89–100%), which conflicts with the current concept of a single viral species. The diversity of 146 Brazilian isolates designated in the GenBank as BGMV was assessed by comparing their complete DNA–A sequences. The isolates were clustered into four groups, being discriminated mainly by their original Fabaceae hosts. Additional Sequence Demarcation Tool analyses indicated that BGMV-related viruses comprise two clear-cut groups: isolates reported infecting mainly <i>P. vulgaris</i> (identities of 96–97% to the reference NC_004042 isolate) and a group associated with <i>P. lunatus</i> (identities of 89–91%). Moreover, we recognized a distinct set of genomic features in the iterons and Rep-associated protein motifs across these two diversity groups. The host prevalence and genomic differences suggest that most <i>P. lunatus</i> isolates are currently misclassified as BGMV strains, being more likely samples of a closely related (but distinct) <i>Begomovirus</i> species. Hence, the implications of this BGMV diversity should be taken into consideration by classical and biotech breeding programs aiming for large-spectrum viral resistance in <i>Phaseolus</i> species. |
| format | Article |
| id | doaj-art-d9dd2384791a4606ac18ffe064b157ff |
| institution | Kabale University |
| issn | 2076-0817 |
| language | English |
| publishDate | 2025-07-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Pathogens |
| spelling | doaj-art-d9dd2384791a4606ac18ffe064b157ff2025-08-20T03:56:45ZengMDPI AGPathogens2076-08172025-07-0114769710.3390/pathogens14070697Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae HostsLuciane de Nazaré Almeida dos Reis0Josiane Goulart Batista1Maria Luiza Fernandes de Oliveira2Maria Esther de Noronha Fonseca3Josias Corrêa de Faria4Francisco José Lima Aragão5Leonardo Silva Boiteux6Rita de Cássia Pereira-Carvalho7Departamento de Fitopatologia, Universidade de Brasília (UnB), Brasília 70910-900, DF, BrazilDepartamento de Fitopatologia, Universidade de Brasília (UnB), Brasília 70910-900, DF, BrazilDepartamento de Fitopatologia, Universidade de Brasília (UnB), Brasília 70910-900, DF, BrazilEmbrapa Hortaliças, National Center for Vegetable Crops Research (CNPH), Brasília 70351-970, DF, BrazilEmbrapa Arroz e Feijão, Goiânia 75375-000, GO, BrazilEmbrapa Cenargen, Laboratório de Expressão de Genes, Brasília 70770-917, DF, BrazilDepartamento de Fitopatologia, Universidade de Brasília (UnB), Brasília 70910-900, DF, BrazilDepartamento de Fitopatologia, Universidade de Brasília (UnB), Brasília 70910-900, DF, BrazilBeans <i>(Phaseolus vulgaris</i> and <i>P. lunatus</i>) are the major hosts of bean golden mosaic begomovirus (BGMV). Robust taxonomic criteria were established for <i>Begomovirus</i> species demarcation. However, DNA–A identities among BGMV isolates display a continuous variation (89–100%), which conflicts with the current concept of a single viral species. The diversity of 146 Brazilian isolates designated in the GenBank as BGMV was assessed by comparing their complete DNA–A sequences. The isolates were clustered into four groups, being discriminated mainly by their original Fabaceae hosts. Additional Sequence Demarcation Tool analyses indicated that BGMV-related viruses comprise two clear-cut groups: isolates reported infecting mainly <i>P. vulgaris</i> (identities of 96–97% to the reference NC_004042 isolate) and a group associated with <i>P. lunatus</i> (identities of 89–91%). Moreover, we recognized a distinct set of genomic features in the iterons and Rep-associated protein motifs across these two diversity groups. The host prevalence and genomic differences suggest that most <i>P. lunatus</i> isolates are currently misclassified as BGMV strains, being more likely samples of a closely related (but distinct) <i>Begomovirus</i> species. Hence, the implications of this BGMV diversity should be taken into consideration by classical and biotech breeding programs aiming for large-spectrum viral resistance in <i>Phaseolus</i> species.https://www.mdpi.com/2076-0817/14/7/697<i>Begomovirus</i>common beanlima beansequence demarcation tool |
| spellingShingle | Luciane de Nazaré Almeida dos Reis Josiane Goulart Batista Maria Luiza Fernandes de Oliveira Maria Esther de Noronha Fonseca Josias Corrêa de Faria Francisco José Lima Aragão Leonardo Silva Boiteux Rita de Cássia Pereira-Carvalho Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts Pathogens <i>Begomovirus</i> common bean lima bean sequence demarcation tool |
| title | Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts |
| title_full | Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts |
| title_fullStr | Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts |
| title_full_unstemmed | Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts |
| title_short | Reexamining a Host-Associated Genomic Diversity of Bean Golden Mosaic Virus (BGMV) Isolates from <i>Phaseolus</i> Species and Other Fabaceae Hosts |
| title_sort | reexamining a host associated genomic diversity of bean golden mosaic virus bgmv isolates from i phaseolus i species and other fabaceae hosts |
| topic | <i>Begomovirus</i> common bean lima bean sequence demarcation tool |
| url | https://www.mdpi.com/2076-0817/14/7/697 |
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