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25 results on '"Hemmink, Johanneke D."'

1. Continent-wide genomic analysis of the African buffalo (Syncerus caffer)

Author

Talenti, Andrea, Wilkinson, Toby, Cook, Elizabeth A., Hemmink, Johanneke D., Paxton, Edith, Mutinda, Matthew, Ngulu, Stephen D., Jayaraman, Siddharth, Bishop, Richard P., Obara, Isaiah, Hourlier, Thibaut, Garcia Giron, Carlos, Martin, Fergal J., Labuschagne, Michel, Atimnedi, Patrick, Nanteza, Anne, Keyyu, Julius D., Mramba, Furaha, Caron, Alexandre, Cornelis, Daniel, Chardonnet, Philippe, Fyumagwa, Robert, Lembo, Tiziana, Auty, Harriet K., Michaux, Johan, Smitz, Nathalie, Toye, Philip, Robert, Christelle, Prendergast, James G. D., and Morrison, Liam J.

Published
2024
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4. Continent-wide genomic analysis of the African buffalo (Syncerus caffer)

Author

Talenti, Andrea, primary, Wilkinson, Toby, additional, Cook, Elizabeth A., additional, Hemmink, Johanneke D., additional, Paxton, Edith, additional, Mutinda, Matthew, additional, Ngulu, Stephen D., additional, Jayaraman, Siddharth, additional, Bishop, Richard P., additional, Obara, Isaiah, additional, Hourlier, Thibaut, additional, Giron, Carlos Garcia, additional, Martin, Fergal J., additional, Labuschagne, Michel, additional, Atimnedi, Patrick, additional, Nanteza, Anne, additional, Keyyu, Julius D., additional, Mramba, Furaha, additional, Caron, Alexandre, additional, Cornelis, Daniel, additional, Chardonnet, Philippe, additional, Fyumagwa, Robert, additional, Lembo, Tiziana, additional, Auty, Harriet K., additional, Michaux, Johan, additional, Smitz, Nathalie, additional, Toye, Philip, additional, Robert, Christelle, additional, Prendergast, James G.D., additional, and Morrison, Liam J., additional

Published
2023
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5. Sensitive and Specific Exonuclease III-Assisted Recombinase-Aided Amplification Colorimetric Assay for Rapid Detection of Nucleic Acids

Author

Zhou, Yuan, primary, Zhang, Jinfu, additional, Sun, Haowen, additional, Tao, Dagang, additional, Xu, Bingrong, additional, Han, Xiaosong, additional, Ren, Ruimin, additional, Ruan, Jinxue, additional, Steinaa, Lucilla, additional, Hemmink, Johanneke D, additional, Han, Jianlin, additional, Li, Xinyun, additional, Xu, Jing, additional, Zhao, Shuhong, additional, Xie, Shengsong, additional, and Zhao, Changzhi, additional

Published
2023
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9. Co-Deletion of A238L and EP402R Genes from a Genotype IX African Swine Fever Virus Results in Partial Attenuation and Protection in Swine

Author

Abkallo, Hussein M., primary, Hemmink, Johanneke D., additional, Oduor, Bernard, additional, Khazalwa, Emmanuel M., additional, Svitek, Nicholas, additional, Assad-Garcia, Nacyra, additional, Khayumbi, Jeremiah, additional, Fuchs, Walter, additional, Vashee, Sanjay, additional, and Steinaa, Lucilla, additional

Published
2022
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10. Deletion of the CD2v Gene from the Genome of ASFV-Kenya-IX-1033 Partially Reduces Virulence and Induces Protection in Pigs

Author

Hemmink, Johanneke D., primary, Khazalwa, Emmanuel M., additional, Abkallo, Hussein M., additional, Oduor, Bernard, additional, Khayumbi, Jeremiah, additional, Svitek, Nicholas, additional, Henson, Sonal P., additional, Blome, Sandra, additional, Keil, Günther, additional, Bishop, Richard P., additional, and Steinaa, Lucilla, additional

Published
2022
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11. The African Swine Fever Isolate ASFV-Kenya-IX-1033 Is Highly Virulent and Stable after Propagation in the Wild Boar Cell Line WSL

Author

Hemmink, Johanneke D., primary, Abkallo, Hussein M., additional, Henson, Sonal P., additional, Khazalwa, Emmanuel M., additional, Oduor, Bernard, additional, Lacasta, Anna, additional, Okoth, Edward, additional, Riitho, Victor, additional, Fuchs, Walter, additional, Bishop, Richard P., additional, and Steinaa, Lucilla, additional

Published
2022
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12. A locus conferring tolerance to Theileria infection in African cattle

Author

Wragg, David, primary, Cook, Elizabeth A. J., additional, Latré de Laté, Perle, additional, Sitt, Tatjana, additional, Hemmink, Johanneke D., additional, Chepkwony, Maurine C., additional, Njeru, Regina, additional, Poole, E. Jane, additional, Powell, Jessica, additional, Paxton, Edith A., additional, Callaby, Rebecca, additional, Talenti, Andrea, additional, Miyunga, Antoinette A., additional, Ndambuki, Gideon, additional, Mwaura, Stephen, additional, Auty, Harriet, additional, Matika, Oswald, additional, Hassan, Musa, additional, Marshall, Karen, additional, Connelley, Timothy, additional, Morrison, Liam J., additional, Bronsvoort, B. Mark deC., additional, Morrison, W. Ivan, additional, Toye, Philip G., additional, and Prendergast, James G. D., additional

Published
2022
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13. Rapid Visual CRISPR Assay: A Naked-Eye Colorimetric Detection Method for Nucleic Acids Based on CRISPR/Cas12a and a Convolutional Neural Network

Author

Xie, Shengsong, primary, Tao, Dagang, additional, Fu, Yuhua, additional, Xu, Bingrong, additional, Tang, You, additional, Steinaa, Lucilla, additional, Hemmink, Johanneke D., additional, Pan, Wenya, additional, Huang, Xin, additional, Nie, Xiongwei, additional, Zhao, Changzhi, additional, Ruan, Jinxue, additional, Zhang, Yi, additional, Han, Jianlin, additional, Fu, Liangliang, additional, Ma, Yunlong, additional, Li, Xinyun, additional, Liu, Xiaolei, additional, and Zhao, Shuhong, additional

Published
2021
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15. Antigenic Diversity in Populations From Sympatric Cattle and African Buffalo Analyzed Using Long Read Sequencing

Author

Allan, Fiona K, Jayaraman, Siddharth, Paxton, Edith, Sindoya, Emmanuel, Kibona, Tito, Fyumagwa, Robert, Mramba, Furaha, Torr, Steve, Hemmink, Johanneke D, Toye, Philip, Lembo, Tiziana, Handel, Ian, Auty, Harriet K, Morrison, W Ivan, and Morrison, Liam J

Subjects
qw_573, animal diseases, parasitic diseases, qx_479, food and beverages, qu_450, wc_700, wc_950, geographic locations
Abstract

East Coast fever (ECF) in cattle is caused by the Apicomplexan protozoan parasite , transmitted by the three-host tick . The African buffalo () is the natural host for but does not suffer disease, whereas ECF is often fatal in cattle. The genetic relationship between populations circulating in cattle and buffalo is poorly understood, and has not been studied in sympatric buffalo and cattle. This study aimed to determine the genetic diversity of populations in cattle and buffalo, in an area where livestock co-exist with buffalo adjacent to the Serengeti National Park, Tanzania. Three antigens (Tp1, Tp4, and Tp16), known to be recognized by CD8 and CD4 T cells in immunized cattle, were used to characterize genetic diversity of in cattle ( = 126) and buffalo samples ( = 22). Long read (PacBio) sequencing was used to generate full or near-full length allelic sequences. Patterns of diversity were similar across all three antigens, with allelic diversity being significantly greater in buffalo-derived parasites compared to cattle-derived (e.g., for Tp1 median cattle allele count was 9, and 81.5 for buffalo), with very few alleles shared between species (8 of 651 alleles were shared for Tp1). Most alleles were unique to buffalo with a smaller proportion unique to cattle (412 buffalo unique vs. 231 cattle-unique for Tp1). There were indications of population substructuring, with one allelic cluster of Tp1 representing alleles found in both cattle and buffalo (including the TpM reference genome allele), and another containing predominantly only alleles deriving from buffalo. These data illustrate the complex interplay between populations in buffalo and cattle, revealing the significant genetic diversity in the buffalo population, the limited sharing of parasite genotypes between the host species, and highlight that a subpopulation of is maintained by transmission within cattle. The data indicate that fuller understanding of buffalo population dynamics is needed, as only a comprehensive appreciation of the population genetics of populations will enable assessment of buffalo-derived infection risk in cattle, and how this may impact upon control measures such as vaccination.

Published
2021

16. Rapid visual CRISPR assay: a naked-eye colorimetric detection method for nucleic acids based on CRISPR/Cas12a and convolutional neural network

Author

Xie, Shengsong, primary, Tao, Dagang, additional, Fu, Yuhua, additional, Xu, Bingrong, additional, Tang, You, additional, Steinaa, Lucilla, additional, Hemmink, Johanneke D, additional, Pan, Wenya, additional, Huang, Xin, additional, Nie, Xiongwei, additional, Zhao, Changzhi, additional, Ruan, Jinxue, additional, Zhang, Yi, additional, Han, Jianlin, additional, Fu, Liangliang, additional, Ma, Yunlong, additional, Li, Xinyun, additional, Liu, Xiaolei, additional, and Zhao, Shuhong, additional

Published
2021
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17. Antigenic Diversity in Theileria parva Populations From Sympatric Cattle and African Buffalo Analyzed Using Long Read Sequencing

Author

Allan, Fiona K., primary, Jayaraman, Siddharth, additional, Paxton, Edith, additional, Sindoya, Emmanuel, additional, Kibona, Tito, additional, Fyumagwa, Robert, additional, Mramba, Furaha, additional, Torr, Stephen J., additional, Hemmink, Johanneke D., additional, Toye, Philip, additional, Lembo, Tiziana, additional, Handel, Ian, additional, Auty, Harriet K., additional, Morrison, W. Ivan, additional, and Morrison, Liam J., additional

Published
2021
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19. Induction of influenza-specific local CD8 T-cells in the respiratory tract after aerosol delivery of vaccine antigen or virus in the Babraham inbred pig

Author

Tungatt, Katie, primary, Dolton, Garry, additional, Morgan, Sophie B., additional, Attaf, Meriem, additional, Fuller, Anna, additional, Whalley, Thomas, additional, Hemmink, Johanneke D., additional, Porter, Emily, additional, Szomolay, Barbara, additional, Montoya, Maria, additional, Hammond, John A., additional, Miles, John J., additional, Cole, David K., additional, Townsend, Alain, additional, Bailey, Mick, additional, Rizkallah, Pierre J., additional, Charleston, Bryan, additional, Tchilian, Elma, additional, and Sewell, Andrew K., additional

Published
2018
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20. Therapeutic Administration of Broadly Neutralizing FI6 Antibody Reveals Lack of Interaction Between Human IgG1 and Pig Fc Receptors

Author

Morgan, Sophie B., primary, Holzer, Barbara, additional, Hemmink, Johanneke D., additional, Salguero, Francisco J., additional, Schwartz, John C., additional, Agatic, Gloria, additional, Cameroni, Elisabetta, additional, Guarino, Barbara, additional, Porter, Emily, additional, Rijal, Pramila, additional, Townsend, Alain, additional, Charleston, Bryan, additional, Corti, Davide, additional, and Tchilian, Elma, additional

Published
2018
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21. Distinct immune responses and virus shedding in pigs following aerosol, intra-nasal and contact infection with pandemic swine influenza A virus, A(H1N1)09

Author

Hemmink, Johanneke D., primary, Morgan, Sophie B., additional, Aramouni, Mario, additional, Everett, Helen, additional, Salguero, Francisco J., additional, Canini, Laetitia, additional, Porter, Emily, additional, Chase-Topping, Margo, additional, Beck, Katy, additional, Loughlin, Ronan Mac, additional, Carr, B. Veronica, additional, Brown, Ian H., additional, Bailey, Mick, additional, Woolhouse, Mark, additional, Brookes, Sharon M., additional, Charleston, Bryan, additional, and Tchilian, Elma, additional

Published
2016
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22. Aerosol Delivery of a Candidate Universal Influenza Vaccine Reduces Viral Load in Pigs Challenged with Pandemic H1N1 Virus

Author

Morgan, Sophie B., primary, Hemmink, Johanneke D., additional, Porter, Emily, additional, Harley, Ross, additional, Shelton, Holly, additional, Aramouni, Mario, additional, Everett, Helen E., additional, Brookes, Sharon M., additional, Bailey, Michael, additional, Townsend, Alain M., additional, Charleston, Bryan, additional, and Tchilian, Elma, additional

Published
2016
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24. Rapid Visual CRISPR Assay: A Naked-Eye Colorimetric Detection Method for Nucleic Acids Based on CRISPR/Cas12a and a Convolutional Neural Network.

Author

Xie S, Tao D, Fu Y, Xu B, Tang Y, Steinaa L, Hemmink JD, Pan W, Huang X, Nie X, Zhao C, Ruan J, Zhang Y, Han J, Fu L, Ma Y, Li X, Liu X, and Zhao S

Subjects
Animals, Colorimetry, Humans, Swine, African Swine Fever diagnosis, African Swine Fever genetics, African Swine Fever Virus genetics, COVID-19 diagnosis, COVID-19 genetics, COVID-19 Nucleic Acid Testing, CRISPR-Cas Systems, SARS-CoV-2 genetics
Abstract

Rapid diagnosis based on naked-eye colorimetric detection remains challenging, but it could build new capacities for molecular point-of-care testing (POCT). In this study, we evaluated the performance of 16 types of single-stranded DNA-fluorophore-quencher (ssDNA-FQ) reporters for use with clusters of regularly spaced short palindrome repeats (CRISPR)/Cas12a-based visual colorimetric assays. Among them, nine ssDNA-FQ reporters were found to be suitable for direct visual colorimetric detection, with especially very strong performance using ROX-labeled reporters. We optimized the reaction concentrations of these ssDNA-FQ reporters for a naked-eye read-out of assay results (no transducing component required for visualization). In particular, we developed a convolutional neural network algorithm to standardize and automate the analytical colorimetric assessment of images and integrated this into the MagicEye mobile phone software. A field-deployable assay platform named RApid VIsual CRISPR (RAVI-CRISPR) based on a ROX-labeled reporter with isothermal amplification and CRISPR/Cas12a targeting was established. We deployed RAVI-CRISPR in a single tube toward an instrument-less colorimetric POCT format that required only a portable rechargeable hand warmer for incubation. The RAVI-CRISPR was successfully used for the high-sensitivity detection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and African swine fever virus (ASFV). Our study demonstrates this RAVI-CRISPR/MagicEye system to be suitable for distinguishing different pathogenic nucleic acid targets with high specificity and sensitivity as the simplest-to-date platform for rapid pen- or bed-side testing.

Published
2022
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25. Animal Models in Influenza Research.

Author

Hemmink JD, Whittaker CJ, and Shelton HA

Subjects
Aerosols, Animals, Chick Embryo, Ferrets, Guinea Pigs, Mice, Orthomyxoviridae isolation & purification, Orthomyxoviridae Infections diagnosis, Orthomyxoviridae Infections transmission, Swine, Disease Models, Animal, Orthomyxoviridae physiology, Orthomyxoviridae Infections virology, Research
Abstract

Animal model systems for human and animal influenza virus infection and transmission have been established to address research questions which cannot be addressed using in vitro models. Several animal models have been established, such as mice, guinea pig, ferret, pig, poultry, nonhuman primates, and others. Each animal model has its own strength and weaknesses, which should be taken into consideration to select the appropriate animal model to use. This chapter will describe standard protocols relevant for in vivo experiment, including procedures required prior to the start of the animal experiment and sample processing. The animal models described in this chapter are mice, guinea pigs, ferrets, pigs, and chickens.

Published
2018
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