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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)

Seal, Susan ORCID: 0000-0002-3952-1562 , Harari, Ofer Aidlin, Santos-Garcia, Diego, Musseri, Mirit, Moshitzky, Pnina, Patel, Mitulkumar, Visendi, Paul, Sertchook, Rotem, Malka, Osnat and Morin, Shai (2020) Molecular evolution of the glutathione S-transferase family in the Bemisia tabaci species complex. Genome Biology and Evolution, 12 (2). pp. 3857-3872. ISSN 1759-6653 (Online) (doi:https://doi.org/10.1093/gbe/evaa002)

Malka, Osnat, Santos-Garcia, Diego, Feldmesser, Ester, Sharon, Elad, Krause-Sakate, Renate, Delatte, Hélène, van Brunschot, Sharon ORCID: 0000-0002-9634-9463 , Patel, Mitulkumar, Muhindira, Paul Visendi, Mugerwa, Habibu, Seal, Susan ORCID: 0000-0002-3952-1562 , Colvin, John and Morin, Shai (2018) Species-complex diversification and host-plant associations in Bemisia tabaci : a plant-defense, detoxification perspective revealed by RNAseq analyses. Molecular Ecology, 27 (21). pp. 4241-4256. ISSN 0962-1083 (Print), 1365-294X (Online) (doi:https://doi.org/10.1111/mec.14865)

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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)

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:https://doi.org/10.1016/j.nbt.2018.03.003)

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)

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:https://doi.org/10.1111/tpj.13515)

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:https://doi.org/10.1111/pbi.12513)

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:https://doi.org/10.1186/s13007-016-0107-9)

Gou, Lulu, Hattori, Jiro, Fedak, George, Balcerzak, Margaret, Sharpe, Andrew, Visendi, Paul, Edwards, David, Tinker, Nicholas, Wei, Yu-Ming, Chen, Guo-Yue and Ouellet, Thérèse (2015) Development and validation of –expressed molecular markers specific for the long arm of Chromosome 7E. Crop Science, 56 (1). pp. 354-363. ISSN 0011-183X (Print), 1435-0653 (Online) (doi:https://doi.org/10.2135/cropsci2015.03.0184)

Lai, Kaitao, Lorenc, Michał T., Lee, Hong Ching, Berkman, Paul J., Bayer, Philipp Emanuel, Visendi, Paul, Ruperao, Pradeep, Fitzgerald, Timothy L., Zander, Manuel, Chan, Chon-Kit Kenneth, Manoli, Sahana, Stiller, Jiri, Batley, Jacqueline and Edwards, David (2015) Identification and characterization of more than 4 million intervarietal SNPs across the group 7 chromosomes of bread wheat. Plant Biotechnology Journal, 13 (1). pp. 97-104. ISSN 1467-7644 (Print), 1467-7652 (Online) (doi:https://doi.org/10.1111/pbi.12240)

Bayer, Philipp E., Ruperao, Pradeep, Mason, Annaliese S., Stiller, Jiri, Chan, Chon-Kit Kenneth, Hayashi, Satomi, Long, Yan, Meng, Jinling, Sutton, Tim, Visendi, Paul, Varshney, Rajeev K., Batley, Jacqueline and Edwards, David (2015) High-resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus. Theoretical and Applied Genetics, 128 (6). pp. 1039-1047. ISSN 0040-5752 (Print), 1432-2242 (Online) (doi:https://doi.org/10.1007/s00122-015-2488-y)

Golicz, Agnieszka A., Martinez, Paula A., Zander, Manuel, Patel, Dhwani A., Van De Wouw, Angela P., Visendi, Paul, Fitzgerald, Timothy L., Edwards, David and Batley, Jacqueline (2014) Gene loss in the fungal canola pathogen Leptosphaeria maculans. Functional & Integrative Genomics, 15 (2). pp. 189-196. ISSN 1438-793X (Print), 1438-7948 (Online) (doi:https://doi.org/10.1007/s10142-014-0412-1)

Ruperao, Pradeep, Chan, Chon-Kit Kenneth, Azam, Sarwar, Karafiátová, Miroslava, Hayashi, Satomi, Čížková, Jana, Saxena, Rachit K., Šimková, Hana, Song, Chi, Vrána, Jan, Chitikineni, Annapurna, Visendi, Paul, Gaur, Pooran M., Millán, Teresa, Singh, Karam B., Taran, Bunyamin, Wang, Jun, Batley, Jacqueline, Doležel, Jaroslav, Varshney, Rajeev K. and Edwards, David (2014) A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies. Plant Biotechnology Journal, 12 (6). pp. 778-786. ISSN 1467-7644 (Print), 1467-7652 (Online) (doi:https://doi.org/10.1111/pbi.12182)

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:https://doi.org/10.3390/biology2041357)

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:https://doi.org/10.1007/978-94-007-7572-5_15)

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:https://doi.org/10.1111/pbi.12044)

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:https://doi.org/10.3390/biology1020370)

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:https://doi.org/10.1093/database/bar015)