Items where Faculty / School / Research Centre / Research Groups is "Molecular Virology and Entomology Research Group"

University Structure (18527)
- Faculty of Engineering & Science (7848)
  - Natural Resources Institute (3173)
    - Molecular Virology and Entomology Research Group (33)

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AB SOLiD accessory chromosome Aegilops tauschii agro-ecological regions Alternaria alternata Alternaria section Alternaria Alternariaarborescensspeciescomplex Alternariafruitspot Alternarialeafblotch Arabidopsis thaliana autoSNP BAC Badna-PCR Badnavirus Bayoud disease Bemisia tabaci Betaflexiviridae biofuels bioinformatics biosecurity biotroph BNG map Capacity building cassava brown streak viruses cell cycle cell suspension culture cell wall 25 proteins Centromere Cereals Chromsosomes closed‑tube reverse transcription loop‑mediated isothermal amplification (CT-RT-LAMP) COI1 Complete genome crown rot cryptic species CTG clade yeast database date palm denaturing gradient gel electrophoresis (DGGE) detection diagnostic assay Diagnostics Dioscorea Dioscorea rotundata Dioscorea spp. discovery diversity DNA extraction dose response early virus detection effector effectors endogenous badnaviral elements Endogenous Dioscorea bacilliform virus Endogenous pararetrovirus Endogenous pararetrovirus (EPRV) Episomal badnavirus Evolution Flow sorting Food security Fragaria Fusarium oxysporum gene flow genetic differentiation genetic variation genome genome diversity genome plasticity Genome sequencing genomic instability genomics genotyping by sequencing haplotype high-throughput sequencing horticulture host-plants HTS Illumina In vitro culture Integration Ion Torrent isothermal amplification jasmonate LAMP leaf beetle lineage specific linkage map Maize streak virus Markers microsatellites mitochondrial DNA mitogenome Molecular biology MSV multiplex PCR mycology next-generation sequencing Next-generation sequencing – SASSY – BAC – Assembly – 7DS – Triticum aestivum – Saccharum spp oomycete Optical mapping Oxford nanopore Pacific biosciences pandemic pangenome Pathogenic fungi Pathogenicity of plant pathogens Phoenix dactylifera phylogenomics Phylogeny Physical Map phytopathology Phytophthora plant pathogen Plant pathology plant virus plant-pathogen polygenic Polyploidy Potyvirus primary metabolism quantitative trait loci (QTLs) rapid diagnosis Recombination Reverse transcriptase recombinase polymerase amplification (RT-RPA) RNA-Seq Roche 454 Rolling circle amplification RT-LAMP Rubus seed systems Sequence diversity Sequencing single nucleotide polymorphism (SNP) single nucleotide polymorphisms Small-spored Alternaria Sphaerotheca macularis SSA3 stress–signalling Sub-Saharan Africa surveillance tebuconazole Thjileria Parva transposons Triticum aestivum Uganda vaccine development virus detection virus diagnostics West Africa wheat whitefly species Yam Yam mosaic virus YMV

Number of items at this level: 206.

AB SOLiD

Visendi, Paul, Batley, Jacqueline and Edwards, David (2013) Next generation sequencing and germplasm resources. Genomics of Plant Genetic Resources. Springer, Dordrecht, Holland, pp. 369-390. ISBN 978-9400775718 (doi:10.1007/978-94-007-7572-5_15)

accessory chromosome

Khayi, Slimane, Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, Gaboun, Fatima, Meftah-kadmiri, Issam, Lahlali, Rachid, Fokar, Mohamed and Mentag, Rachid (2023) Chromosome-scale assembly uncovers genomic compartmentation of Fusarium oxysporum f. sp. albedinis, the causal agent of Bayoud disease in date palm. Frontiers in Microbiology, 14:1268051. pp. 1-14. ISSN 1664-302X (Online) (doi:10.3389/fmicb.2023.1268051)

Aegilops tauschii

Tulpová, Zuzana, Luo, Ming-Cheng, Toegelová, Helena, Visendi, Paul, Hayashi, Satomi, Vojta, Petr, Paux, Etienne, Kilian, Andrzej, Abrouk, Michaël, Bartoš, Jan, Hajdúch, Marián, Batley, Jacqueline, Edwards, David, Doležel, Jaroslav and Šimková, Hana (2018) Integrated physical map of bread wheat chromosome arm 7DS to facilitate gene cloning and comparative studies. New Biotechnology, 48. pp. 12-19. ISSN 1871-6784 (Print), 1876-4347 (Online) (doi:10.1016/j.nbt.2018.03.003)

agro-ecological regions

Namuddu, Annet, Seal, Susan ORCID: https://orcid.org/0000-0002-3952-1562, van Brunschot, Sharon ORCID: https://orcid.org/0000-0002-9634-9463, Malka, Osnat, Kabaalu, Richard, Morin, Shai, Omongo, Christopher and Colvin, John (2023) Distribution of Bemisia tabaci in different agro-ecological regions in Uganda and the threat of vector-borne pandemics into new cassava growing areas. Frontiers in Sustainable Food Systems, 7:106810. pp. 1-15. ISSN 2571-581X (Online) (doi:10.3389/fsufs.2023.1068109)

Alternaria alternata

Fontaine, Kévin, Fourrier-Jeandel, Céline, Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, Boutigny, Anne-Laure, Crépet, Manuela, Caffier, Valérie, Gnide, Dossi Carine, Shiller, Jason, Le Cam, Bruno, Giraud, Michel, Ioos, Renaud and Aguayo, Jaime (2021) Identification and pathogenicity of Alternaria species associated with leaf blotch disease and premature defoliation in French apple orchards. PeerJ, 9:e12496. ISSN 2376-5992 (Print), 2167-8359 (Online) (doi:10.7717/peerj.12496)

Alternaria section Alternaria

Alternariaarborescensspeciescomplex

Alternariafruitspot

Alternarialeafblotch

Arabidopsis thaliana

Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, O’Brien, José A., Pérez-Salamó, Imma, Krasauskas, Jovaras, Finch, Paul, Briones, Andrea, Daudi, Arsalan, Souda, Puneet, Tsui, Tjir-Li, Whitelegge, Julian P., Bolwell, G. Paul and Devoto, Alessandra (2018) COI1-dependent jasmonate signalling affects growth, metabolites production and cell wall protein composition in Arabidopsis. Annals of Botany, 122 (7). pp. 1117-1129. ISSN 0305-7364 (Print), 1095-8290 (Online) (doi:10.1093/aob/mcy109)

autoSNP

Lorenc, Michał T., Hayashi, Satomi, Stiller, Jiri, Lee, Hong, Manoli, Sahana, Ruperao, Pradeep, Visendi, Paul, Berkman, Paul J., Lai, Kaitao, Batley, Jacqueline and Edwards, David (2012) Discovery of single nucleotide polymorphisms in complex genomes using SGSautoSNP. Biology, 1 (3). pp. 370-382. ISSN 2079-7737 (Print), 2079-7737 (Online) (doi:10.3390/biology1020370)

BAC

Badna-PCR

Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, Turaki, Aliyu, Rathnayake, Ajith, Silva, Goncalo ORCID: https://orcid.org/0000-0001-5544-2947, Lava Kumar, P. and Seal, Susan ORCID: https://orcid.org/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:10.21769/BioProtoc.2672)

Badnavirus

Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, Rathnayake, Ajith I., Visendi, Paul, Sewe, Steven O., Sicat, Juan Paolo A., Silva, Gonçalo ORCID: https://orcid.org/0000-0001-5544-2947, Kumar, P. Lava and Seal, Susan E. ORCID: https://orcid.org/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:10.1016/j.pmpp.2018.06.003)

Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, Turaki, Aliyu A., Silva, Gonçalo ORCID: https://orcid.org/0000-0001-5544-2947, Kumar, P. Lava and Seal, Susan E. ORCID: https://orcid.org/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:10.3390/v8070188)

Silva, Goncalo ORCID: https://orcid.org/0000-0001-5544-2947, Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, Turaki, Aliyu A., Nkere, Chukwuemeka K., Kumar, P. Lava and Seal, Susan E. ORCID: https://orcid.org/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:10.3389/fpls.2022.846989)

Turaki, Aliyu A., Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, Silva, Gonçalo ORCID: https://orcid.org/0000-0001-5544-2947, Kumar, P. Lava and Seal, Susan E. ORCID: https://orcid.org/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:10.3390/v9070181)

Bayoud disease

Khayi, Slimane ORCID: https://orcid.org/0000-0001-8033-2117, Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, El Guilli, Mohammed, Meftah Kadmiri, Issam ORCID: https://orcid.org/0000-0003-1067-1652, Lahlali, Rachid, Fokar, Mohamed and Mentag, Rachid ORCID: https://orcid.org/0000-0002-2040-637X (2021) Complete mitochondrial genome and phylogeny of the causal agent of Bayoud disease on date palm, Fusarium oxysporum f. sp. albedinis. Mitochondrial DNA Part B, 6 (10). pp. 3059-3061. ISSN 2380-2359 (Print), 2380-2359 (Online) (doi:10.1080/23802359.2021.1978894)

Bemisia tabaci

Betaflexiviridae

Silva, Gonçalo ORCID: https://orcid.org/0000-0001-5544-2947, Bömer, Moritz ORCID: https://orcid.org/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: https://orcid.org/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:10.3390/plants8060167)

biofuels

Vega-Estévez, Samuel, Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, Bates, Helen J., Harrison, Richard J. and Buscaino, Alessia ORCID: https://orcid.org/0000-0002-1704-3168 (2021) The genome of the CTG(Ser1) yeast Scheffersomyces stipitis is plastic. mBio, 12 (5). ISSN 2150-7511 (Print), 2150-7511 (Online) (doi:10.1128/mBio.01871-21)

bioinformatics

Kutnjak, Denis, Tamisier, Lucie, Adams, Ian, Boonham, Neil, Candresse, Thierry, Chiumenti, Michela, De Jonghe, Kris, Kreuze, Jan F., Lefebvre, Marie, Silva, Goncalo ORCID: https://orcid.org/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:10.3390/microorganisms9040841)

biosecurity

Silva, Goncalo ORCID: https://orcid.org/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:10.1042/ETLS20200300)

biotroph

Heaven, Thomas, Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, Xu, Xiangming, Goddard, Matthew and Cockerton, Helen (2023) Dose-dependent genetic resistance to Azole fungicides found in the apple scab pathogen. Journal of Fungi, 9 (12):1136. pp. 1-18. ISSN 2309-608X (Online) (doi:10.3390/jof9121136)

Heaven, Thomas, Cockerton, Helen M., Xu, Xiangming, Goddard, Mat and Armitage, Andrew D. ORCID: https://orcid.org/0000-0002-0610-763X (2023) A genomic resource for the strawberry powdery mildew pathogen Podosphaera aphanis. Phytopathology, 113 (2). pp. 355-359. ISSN 0031-949X (Print), 1943-7684 (Online) (doi:10.1094/PHYTO-03-22-0091-A)

BNG map

Capacity building

Tembo, Mathias, Adediji, Adedapo O., Bouvaine, Sophie ORCID: https://orcid.org/0000-0002-0788-3243, Chikoti, Patrick C., Seal, Susan ORCID: https://orcid.org/0000-0002-3952-1562 and Silva, Gonҫalo ORCID: https://orcid.org/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:10.1038/s41598-020-76612-2)

cassava brown streak viruses

Munguti, Florence M., Kilalo, Dora C., Yegon, Hillary K., Macharia, Isaac, Seal, Susan ORCID: https://orcid.org/0000-0002-3952-1562, Mwango’mbe, Agnes W., Nyaboga, Evans N. and Silva, Goncalo ORCID: https://orcid.org/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:10.1038/s41598-024-62249-y)

cell cycle

cell suspension culture

cell wall 25 proteins

Centromere

Cereals

Visendi, Paul, Batley, Jacqueline and Edwards, David (2013) Next generation characterisation of cereal genomes for marker discovery. Biology, 2 (4). pp. 1357-1377. ISSN 2079-7737 (Print), 2079-7737 (Online) (doi:10.3390/biology2041357)

Chromsosomes

Staňková, Helena, Hastie, Alex R., Chan, Saki, Vrána, Jan, Tulpová, Zuzana, Kubaláková, Marie, Visendi, Paul, Hayashi, Satomi, Luo, Mingcheng, Batley, Jacqueline, Edwards, David, Doležel, Jaroslav and Šimková, Hana (2016) BioNano genome mapping of individual chromosomes supports physical mapping and sequence assembly in complex plant genomes. Plant Biotechnology Journal, 14 (7). pp. 1523-1531. ISSN 1467-7644 (Print), 1467-7652 (Online) (doi:10.1111/pbi.12513)

closed‑tube reverse transcription loop‑mediated isothermal amplification (CT-RT-LAMP)

Nkere, Chukwuemeka K., Oyekanmi, Joshua O., Silva, Gonçalo ORCID: https://orcid.org/0000-0001-5544-2947, Bömer, Moritz ORCID: https://orcid.org/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:10.1007/s00705-018-3706-0)

COI1

Complete genome

Bömer, Moritz ORCID: https://orcid.org/0000-0003-1003-9622, Rathnayake, Ajith I., Visendi, Paul, Silva, Gonçalo ORCID: https://orcid.org/0000-0001-5544-2947 and Seal, Susan E. ORCID: https://orcid.org/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:10.1007/s00705-017-3605-9)

crown rot

Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, Nellist, Charlotte, Bates, Helen, Sobczyk, Maria, Luberti, Matteo, Lewis, Laura and Harrison, Richard (2021) Comparative analysis of host-associated variation in phytophthora cactorum. Frontiers in Microbiology, 12:679936. ISSN 1664-302X (Print), 1664-302X (Online) (doi:10.3389/fmicb.2021.679936)

cryptic species

CTG clade yeast

database

Montenegro, Juan D., Golicz, Agnieszka A., Bayer, Philipp E., Hurgobin, Bhavna, Lee, HueyTyng, Chan, Chon-Kit Kenneth, Muhindira, Paul, Lai, Kaitao, Doležel, Jaroslav, Batley, Jacqueline and Edwards, David (2017) The pangenome of hexaploid bread wheat. The Plant Journal, 90 (5). pp. 1007-1013. ISSN 0960-7412 (doi:10.1111/tpj.13515)

Visendi, Paul, Ng'ang'a, Wanjiku, Bulimo, Wallace, Bishop, Richard, Ochanda, James and de Villiers, Etienne P. (2011) TparvaDB: a database to support Theileria parva vaccine development. Database, 2011. bar015-bar015. ISSN 1758-0463 (Online) (doi:10.1093/database/bar015)

date palm

denaturing gradient gel electrophoresis (DGGE)

detection

diagnostic assay

Diagnostics

Dioscorea

Dioscorea rotundata

Dioscorea spp.

discovery

diversity

DNA extraction

dose response

early virus detection

effector

Kronmiller, Brent, Feau, Nicolas, Tabima, Javier, Ali, Shahin, Armitage, Andrew ORCID: https://orcid.org/0000-0002-0610-763X, Arrendondo, Felipe, Bailey, Bryan, Bollmann, Stephanie, Dale, Angela, Harrison, Richard, Hrywkiw, Kelly, Kasuga, Takao, McDougal, Rebecca, Nellist, Charlotte, Panda, Preeti, Tripathy, Sucheta, Williams, Nari, Ye, Wenwu, Wang, Yuanchao, Hamelin, Richard and Grunwald, Niklaus (2022) Comparative genomic analysis of 31 Phytophthora genomes reveal genome plasticity and horizontal gene transfer. Molecular Plant Microbe Interactions, 36 (1). pp. 26-46. ISSN 0894-0282 (Print), 1943-7706 (Online) (doi:10.1094/MPMI-06-22-0133-R)

effectors

endogenous badnaviral elements

Endogenous Dioscorea bacilliform virus

Endogenous pararetrovirus

Endogenous pararetrovirus (EPRV)

Episomal badnavirus

Evolution

Berkman, Paul J., Visendi, Paul, Lee, Hong C., Stiller, Jiri, Manoli, Sahana, Lorenc, Michał T., Lai, Kaitao, Batley, Jacqueline, Fleury, Delphine, Šimková, Hana, Kubaláková, Marie, Weining, Song, Doležel, Jaroslav and Edwards, David (2013) Dispersion and domestication shaped the genome of bread wheat. Plant Biotechnology Journal, 11 (5). pp. 564-571. ISSN 1467-7644 (Print), 1467-7652 (Online) (doi:10.1111/pbi.12044)

Flow sorting

Food security

Fragaria

Fusarium oxysporum

gene flow

Kanyesigye, Dalton, Pius Alibu, Vincent, Tek Tay, Wee, Nalela, Polycarp, Paparu, Pamela, Olaboro, Samuel, Tamusange Nkalubo, Stanley, Siraj Kayondo, Ismail, Silva, Goncalo ORCID: https://orcid.org/0000-0001-5544-2947, Seal, Susan ORCID: https://orcid.org/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:10.3390/insects13060543)

genetic differentiation

genetic variation

genome

genome diversity

genome plasticity

Genome sequencing

genomic instability

genomics

genotyping by sequencing

haplotype

high-throughput sequencing

horticulture

host-plants

HTS

Illumina

In vitro culture

Integration

Ion Torrent

isothermal amplification

Festus, Ruth, Seal, Susan ORCID: https://orcid.org/0000-0002-3952-1562, Prempeh, Ruth, Quain, Marian D. and Silva, Goncalo ORCID: https://orcid.org/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:10.3390/v15071592)

jasmonate

LAMP

leaf beetle

lineage specific

linkage map

Maize streak virus

Markers

microsatellites

mitochondrial DNA

mitogenome

Molecular biology

MSV

multiplex PCR

mycology

next-generation sequencing

Next-generation sequencing – SASSY – BAC – Assembly – 7DS – Triticum aestivum – Saccharum spp

Visendi, Paul, Berkman, Paul J., Hayashi, Satomi, Golicz, Agnieszka A., Bayer, Philipp E., Ruperao, Pradeep, Hurgobin, Bhavna, Montenegro, Juan, Chan, Chon-Kit Kenneth, Staňková, Helena, Batley, Jacqueline, Šimková, Hana, Doležel, Jaroslav and Edwards, David (2016) An efficient approach to BAC based assembly of complex genomes. Plant Methods, 12 (2). pp. 1-9. ISSN 1746-4811 (Print), 1746-4811 (Online) (doi:10.1186/s13007-016-0107-9)