Items where Greenwich Author is "Silva, Goncalo"
![]() | Up a level |
Badnavirus; Denaturing gradient gel electrophoresis (DGGE); Sequence diversity; Yam; Dioscorea spp.; Endogenous pararetrovirus (EPRV); Episomal badnavirus; Integration; Detection
Turaki, Aliyu A., Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Kumar, P. Lava and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2017)
PCR-DGGE analysis: Unravelling complex mixtures of badnavirus sequences present in yam germplasm.
Viruses, 9 (7).
p. 181.
ISSN 1999-4915 (Print), 1999-4915 (Online)
(doi:https://doi.org/10.3390/v9070181)
Biotransformation; Phosphogypsum; Phylogenetic characterization; Sulfate-reducing bacteria
Martins, Mónica, Assunção, Ana, Neto, André, Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Sghaier, Haïtham and Costa, Maria Clara
(2016)
Performance and bacterial community shifts during phosphogypsum biotransformation.
Water, Air, & Soil Pollution, 227 (12):437.
pp. 1-10.
ISSN 0049-6979 (Print), 1573-2932 (Online)
(doi:https://doi.org/10.1007/s11270-016-3129-z)
CTV, typing, CP phylogeny, stem-pitting, seedling yellows, quick decline, probe hybridisation
Nolasco, G., Santos, C., Silva, G.
ORCID: 0000-0001-5544-2947
and Fonseca, F.
(2008)
Development of an asymmetric PCR-ELISA typing method for citrus tristeza virus based on the coat protein gene.
Journal of Virological Methods, 155 (2).
pp. 97-108.
ISSN 0166-0934
(doi:https://doi.org/10.1016/j.jviromet.2008.09.030)
Citrus tristeza virus (CTV),
Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Marques, Natália and Nolasco, Gustavo
(2011)
The evolutionary rate of citrus tristeza virus ranks among the rates of the slowest RNA viruses.
Journal of General Virology, 93 (2).
pp. 419-429.
ISSN 0022-1317 (Print), 1465-2099 (Online)
(doi:https://doi.org/10.1099/vir.0.036574-0)
Detection, GFLV, Vitis vinifera
Silva, G.
ORCID: 0000-0001-5544-2947
, Lecourt, J., Clover, G.R.G. and Seal, S. E.
ORCID: 0000-0002-3952-1562
(2017)
First report of Grapevine fanleaf virus infecting grapevine in the United Kingdom.
New Disease Reports, 36 (9).
ISSN 2044-0588 (Online)
(doi:https://doi.org/10.5197/j.2044-0588.2017.036.009)
Grapevine Pinot gris virus (GPGV)
Silva, G.
ORCID: 0000-0001-5544-2947
, Lecourt, J., Clover, G.R.G. and Seal, S.E.
ORCID: 0000-0002-3952-1562
(2018)
First record of Grapevine Pinot gris virus infecting Vitis
vinifera in the United Kingdom.
New Disease Reports, 38 (7).
ISSN 2044-0588 (Online)
(doi:https://doi.org/10.5197/j.2044-0588.2018.038.007)
In vitro culture; RNA-Seq; Dioscorea spp.; Badnavirus; Yam mosaic virus
Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Rathnayake, Ajith I., Visendi, Paul, Sewe, Steven O., Sicat, Juan Paolo A., Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Kumar, P. Lava and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2018)
Tissue culture and next-generation sequencing: A combined approach for detecting yam (Dioscorea spp.) viruses.
Physiological and Molecular Plant Pathology, 105.
pp. 54-66.
ISSN 0885-5765 (Print), 1096-1178 (Online)
(doi:https://doi.org/10.1016/j.pmpp.2018.06.003)
MSV; Maize streak virus; diagnostics; LAMP; Food security; Capacity building
Tembo, Mathias, Adediji, Adedapo O., Bouvaine, Sophie
ORCID: 0000-0002-0788-3243
, Chikoti, Patrick C., Seal, Susan
ORCID: 0000-0002-3952-1562
and Silva, Gonҫalo
ORCID: 0000-0001-5544-2947
(2020)
A quick and sensitive diagnostic tool for detection of Maize streak virus.
Scientific Reports, 10:19633.
ISSN 2045-2322 (Online)
(doi:https://doi.org/10.1038/s41598-020-76612-2)
RNA silencing suppressor, VSR, GFP, p21-like, Closterovirus
Marques, Natália T., Costa, Ângela A., Lopes, Débora, Silva, Gonçalo
ORCID: 0000-0001-5544-2947
and Nolasco, Gustavo
(2012)
Comparing p20’s RNA silencing suppressing activity among five phylogenetic groups of Citrus Tristeza virus.
European Journal of Plant Pathology, 133 (1).
pp. 229-235.
ISSN 0929-1873 (Print), 1573-8469 (Online)
(doi:https://doi.org/10.1007/s10658-011-9877-0)
RNA-Seq; virus detection; Betaflexiviridae; next-generation sequencing; HTS
Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Rathnayake, Ajith I., Sewe, Steven O., Visendi, Paul, Oyekanmi, Joshua O., Quain, Marian D., Akomeah, Belinda, Kumar, P. Lava and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2019)
Molecular characterization of a new virus species identified in yam (Dioscorea spp.) by high-throughput sequencing.
Plants, 8 (6):167.
ISSN 2223-7747 (Print), 2223-7747 (Online)
(doi:https://doi.org/10.3390/plants8060167)
Yam, Dioscorea spp., Episomal badnavirus, Endogenous pararetrovirus, DNA extraction, Diagnostics, Rolling circle amplification, Badna-PCR
Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Turaki, Aliyu, Rathnayake, Ajith, Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Lava Kumar, P. and Seal, Susan
ORCID: 0000-0002-3952-1562
(2018)
Rolling circle amplification to screen yam germplasm for badnavirus infections and to amplify and characterise novel badnavirus genomes.
Bio-protocol, 8 (1).
ISSN 2331-8325 (Online)
(doi:https://doi.org/10.21769/BioProtoc.2672)
Yam; Dioscorea spp.; Dioscorea rotundata; Episomal badnavirus; Endogenous Dioscorea bacilliform virus; Complete genome; Recombination; Phylogeny; West Africa
Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Rathnayake, Ajith I., Visendi, Paul, Silva, Gonçalo
ORCID: 0000-0001-5544-2947
and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2017)
Complete genome sequence of a new member of the genus
Badnavirus, Dioscorea bacilliform RT virus 3, reveals the first evidence of recombination in yam badnaviruses.
Archives of Virology.
ISSN 0304-8608 (Print), 1432-8798 (Online)
(doi:https://doi.org/10.1007/s00705-017-3605-9)
Yam; Recombinase polymerase amplification; Potyvirus; Isothermal amplification; Rapid diagnostics
Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Oyekanmi, Joshua, Nkere, Chukwuemeka K., Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Kumar, Lava P. and Seal, Susan
ORCID: 0000-0002-3952-1562
(2018)
Rapid detection of potyviruses from crude plant extracts.
Analytical Biochemistry, 546.
pp. 17-22.
ISSN 0003-2697 (Print), 1096-0309 (Online)
(doi:https://doi.org/10.1016/j.ab.2018.01.019)
Yam; Dioscorea spp.; Virus; Ghana; Nigeria
Nkere, Chukwuemeka K., Otto, Emannuel, Atiri, Gabriel I., Onyeka, Joseph, Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Seal, Susan
ORCID: 0000-0002-3952-1562
and Kumar, Lava P.
(2020)
Assessment of Yam mild mosaic virus coat protein gene sequence diversity reveals the prevalence of cosmopolitan and African group of isolates in Ghana and Nigeria.
Current Plant Biology, 23:100156.
ISSN 2214-6628 (Online)
(doi:https://doi.org/10.1016/j.cpb.2020.100156)
Yam; virus; diversity; diagnostic; impact; epidemiology; control
Diouf, Mame Boucar, Festus, Ruth, Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Guyader, Sébastien, Umber, Marie, Seal, Susan
ORCID: 0000-0002-3952-1562
and Teycheney, Pierre Yves
(2022)
Viruses of yams (Dioscorea spp.): current gaps in knowledge and future research directions to improve disease management.
Viruses, 14 (9):1884.
pp. 1-23.
ISSN 1999-4915 (Online)
(doi:https://doi.org/10.3390/v14091884)
badnavirus; multiplex PCR; denaturing gradient gel electrophoresis (DGGE); endogenous badnaviral elements; yam; Dioscorea spp.; West Africa
Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Turaki, Aliyu A., Nkere, Chukwuemeka K., Kumar, P. Lava and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2022)
Homing in on endogenous badnaviral elements: development of multiplex PCR-DGGE for detection and rapid identification of badnavirus sequences in yam germplasm.
Frontiers in Plant Science, 13:846989.
ISSN 1664-462X (Online)
(doi:https://doi.org/10.3389/fpls.2022.846989)
biosecurity, diagnostics, phytopathology, surveillance
Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Tomlinson, Jenny, Onkokesung, Nawaporn, Sommer, Sarah, Mrisho, Latifa, Legg, James, Silva, Ian P., Gutierrez-Vazquez, Yaiza, Howard, Thomas P., Laverick, Alex, Hossain, Oindrila, Wei, Qingshan, M. Gold, Kaitlin and Boonham, Neil
(2021)
Plant pest surveillance: from satellites to molecules.
Emerging Topics in Life Sciences, 5 (2).
pp. 275-287.
ISSN 2397-8554 (Print), 2397-8562 (Online)
(doi:https://doi.org/10.1042/ETLS20200300)
cassava brown streak viruses; early virus detection; isothermal amplification; rapid diagnosis; Reverse transcriptase recombinase polymerase amplification (RT-RPA)
Munguti, Florence M., Kilalo, Dora C., Yegon, Hillary K., Macharia, Isaac, Seal, Susan
ORCID: 0000-0002-3952-1562
, Mwango’mbe, Agnes W., Nyaboga, Evans N. and Silva, Goncalo
ORCID: 0000-0001-5544-2947
(2024)
Real-time reverse transcription recombinase polymerase amplification (RT-RPA) assay for detection of cassava brown streak viruses.
Scientific Reports, 14:12438.
pp. 1-11.
ISSN 2045-2322 (Online)
(doi:https://doi.org/10.1038/s41598-024-62249-y)
closed‑tube reverse transcription loop‑mediated isothermal amplification (CT-RT-LAMP); YMV; Potyvirus; yam; Dioscorea; diagnostic assay
Nkere, Chukwuemeka K., Oyekanmi, Joshua O., Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Atiri, Gabriel I., Onyeka, Joseph, Maroya, Norbert G., Seal, Susan E. and Kumar, P. Lava
(2018)
Chromogenic detection of yam mosaic virus by closed-tube reverse transcription loop-mediated isothermal amplification (CT-RT-LAMP).
Archives of Virology, 163 (4).
pp. 1057-1061.
ISSN 0304-8608 (Print), 1432-8798 (Online)
(doi:https://doi.org/10.1007/s00705-018-3706-0)
genetic differentiation; leaf beetle; mitochondrial DNA; microsatellites; haplotype; gene flow; genetic variation
Kanyesigye, Dalton, Pius Alibu, Vincent, Tek Tay, Wee, Nalela, Polycarp, Paparu, Pamela, Olaboro, Samuel, Tamusange Nkalubo, Stanley, Siraj Kayondo, Ismail, Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Seal, Susan
ORCID: 0000-0002-3952-1562
and Hilary Otim, Michael
(2022)
Population genetic structure of the bean leaf beetle Ootheca mutabilis (Coleoptera: Chrysomelidae) in Uganda.
Insects, 13 (6):543.
ISSN 2075-4450 (Online)
(doi:https://doi.org/10.3390/insects13060543)
plant virus; high-throughput sequencing; bioinformatics; detection; discovery
Kutnjak, Denis, Tamisier, Lucie, Adams, Ian, Boonham, Neil, Candresse, Thierry, Chiumenti, Michela, De Jonghe, Kris, Kreuze, Jan F., Lefebvre, Marie, Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Malapi-Wight, Martha, Margaria, Paolo, Mavric Pleško, Irena, McGreig, Sam, Miozzi, Laura, Remenant, Benoit, Reynard, Jean-Sebastien, Rollin, Johan, Rott, Mike, Schumpp, Olivier, Massart, Sébastien and Haegeman, Annelies
(2021)
A primer on the analysis of high-throughput sequencing data
for detection of plant viruses.
Microorganisms, 9 (4):841.
ISSN 2076-2607 (Online)
(doi:https://doi.org/10.3390/microorganisms9040841)
quality control; Illumina adapters; transcriptome assembly; Trimmomatic; trinity; Busco; Fastqc; Quast
Sewe, Steven, Silva, Goncalo
ORCID: 0000-0001-5544-2947
, Sicat, Juan Paolo, Seal, Susan
ORCID: 0000-0002-3952-1562
and Muhindira, Paul Visendi
(2022)
Trimming and validation of Illumina short reads using Trimmomatic, trinity assembly, and assessment of RNA-Seq Data.
In: Edwards, David, (ed.)
Plant Bioinformatics. Methods in Molecular Biology.
Springer Protocols, 2443
.
Humana Press - Springer Nature, New York, United States, pp. 211-232.
ISBN 978-1071620663 ; 978-1071620670
(doi:https://doi.org/10.1007/978-1-0716-2067-0_11)
rice production, tabora, tanzania, village planning, rice cultivation, rice marketing, hydrology, water harnessing, water supply, draught animals, assessment mothodology
Silva, G.L.
ORCID: 0000-0001-5544-2947
(1989)
Potential for improving rice production in Tabora Region, Tanzania and implications for village planning (ODNRI Bulletin No. 29).
[Working Paper]
virology, medical microbiology, infectious diseases
Nolasco, G., Fonseca, F. and Silva, G.
ORCID: 0000-0001-5544-2947
(2007)
Occurrence of genetic bottlenecks during citrus tristeza virus acquisition by Toxoptera citricida under field conditions.
Archives of Virology, 153 (2).
pp. 259-271.
ISSN 0304-8608 (Print), 1432-8798 (Online)
(doi:https://doi.org/10.1007/s00705-007-1089-8)
yam, dioscorea spp., YMV, recombinase polymerase amplification, diagnosis
Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Nkere, Chukwuemeka, Kumar, P. Lava and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2015)
Rapid and specific detection of Yam mosaic virus by reverse-transcription recombinase polymerase amplification.
Journal of Virological Methods, 222.
pp. 138-144.
ISSN 0166-0934
(doi:https://doi.org/10.1016/j.jviromet.2015.06.011)
yam; Dioscorea spp.; badnavirus; endogenous pararetrovirus; episomal badnavirus; diagnostics; rolling circle amplification; Sub-Saharan Africa
Bömer, Moritz
ORCID: 0000-0003-1003-9622
, Turaki, Aliyu A., Silva, Gonçalo
ORCID: 0000-0001-5544-2947
, Kumar, P. Lava and Seal, Susan E.
ORCID: 0000-0002-3952-1562
(2016)
A sequence-independent strategy for amplification and characterisation of episomal badnavirus sequences reveals three previously uncharacterised yam badnaviruses.
Viruses, 8:188.
pp. 1-22.
ISSN 1999-4915 (Print), 1999-4915 (Online)
(doi:https://doi.org/10.3390/v8070188)
yam; seed systems; Yam mosaic virus; virus diagnostics; isothermal amplification; RT-LAMP; West Africa
Festus, Ruth, Seal, Susan
ORCID: 0000-0002-3952-1562
, Prempeh, Ruth, Quain, Marian D. and Silva, Goncalo
ORCID: 0000-0001-5544-2947
(2023)
Improved Reverse Transcription Loop-Mediated Isothermal Amplification (RT-LAMP) for the rapid and sensitive detection of Yam mosaic virus.
Viruses, 15 (7):1592.
pp. 1-17.
ISSN 1999-4915 (Online)
(doi:https://doi.org/10.3390/v15071592)