Author: "Coote D" - Searchworks@Jio Institute Digital Library Search Results

Your search keyword '"Coote D"' showing total 94 results

Start Over Author "Coote D"

94 results on '"Coote D"'

1. IJC 165: Frank, R., et al. Stream Flow Quality: Pesticides In Eleven Agricultural Watersheds In Southern Ontario, Canada, 1974-1977. Submitted to PLUARG Task Group C (Canadian Section), Activity 1. (PLUARG 78-052) (Windsor, Ontario): 1978.

Author: Coote, D. R., author, Onn, Dennis, author, Ripley, Brian D., author, Holdrinet, Micheline van Hove, author, Sirons, G. J., author, Braun, Heinz E., author, Frank, Richard, author, and Coote, D. R., author

2. Genomic investigations of unexplained acute hepatitis in children

Author: Morfopoulou, S. Buddle, S. Torres Montaguth, O.E. Atkinson, L. Guerra-Assunção, J.A. Moradi Marjaneh, M. Zennezini Chiozzi, R. Storey, N. Campos, L. Hutchinson, J.C. Counsell, J.R. Pollara, G. Roy, S. Venturini, C. Antinao Diaz, J.F. Siam, A. Tappouni, L.J. Asgarian, Z. Ng, J. Hanlon, K.S. Lennon, A. McArdle, A. Czap, A. Rosenheim, J. Andrade, C. Anderson, G. Lee, J.C.D. Williams, R. Williams, C.A. Tutill, H. Bayzid, N. Martin Bernal, L.M. Macpherson, H. Montgomery, K.-A. Moore, C. Templeton, K. Neill, C. Holden, M. Gunson, R. Shepherd, S.J. Shah, P. Cooray, S. Voice, M. Steele, M. Fink, C. Whittaker, T.E. Santilli, G. Gissen, P. Kaufer, B.B. Reich, J. Andreani, J. Simmonds, P. Alrabiah, D.K. Castellano, S. Chikowore, P. Odam, M. Rampling, T. Houlihan, C. Hoschler, K. Talts, T. Celma, C. Gonzalez, S. Gallagher, E. Simmons, R. Watson, C. Mandal, S. Zambon, M. Chand, M. Hatcher, J. De, S. Baillie, K. Semple, M.G. Bellos, E. Broderick, C. Channon-Wells, S. De, T. D’Souza, G. Elorrieta, L.E. Estrada-Rivadeneyra, D. Galassini, R. Habgood-Coote, D. Hamilton, S. Jackson, H. Kavanagh, J. Marjaneh, M.M. Menikou, S. Nichols, S. Nijman, R. Patel, H. Pennisi, I. Powell, O. Reid, R. Vito, O. Whittaker, E. Wilson, C. Womersley, R. Abdulla, A. Darnell, S. Mustafa, S. Georgiou, P. Manzano, J.-R. Moser, N. Carter, M. Tibby, S. Cohen, J. Davis, F. Kenny, J. Wellman, P. White, M. Fish, M. Jennings, A. Shankar-Hari Fidler, K. Agranoff, D. Richmond, V. Seal, M. Faust, S. Owen, D. Ensom, R. McKay, S. Mondo, D. Shaji, M. Schranz, R. Rughnani, P. Anpananthar, A. Liebeschuetz, S. Riddell, A. Khalid, N. Malcolm, I.L. Simagan, T. Peters, M. Bamford, A. Pathan, N. Daubney, E. White, D. Heightman, M. Eisen, S. Segal, T. Wellings, L. Drysdale, S.B. Branch, N. Hamzah, L. Jarman, H. Nyirenda, M. Capozzi, L. Gardiner, E. Moots, R. Nasher, M. Hanson, A. Linforth, M. O’Riordan, S. Ellis, D. Deep, A. Caro, I. Shackley, F. Bellini, A. Gormley, S. Neshat, S. Scholefield, B.J. Robbins, C. Winmill, H. Pau and Morfopoulou, S. Buddle, S. Torres Montaguth, O.E. Atkinson, L. Guerra-Assunção, J.A. Moradi Marjaneh, M. Zennezini Chiozzi, R. Storey, N. Campos, L. Hutchinson, J.C. Counsell, J.R. Pollara, G. Roy, S. Venturini, C. Antinao Diaz, J.F. Siam, A. Tappouni, L.J. Asgarian, Z. Ng, J. Hanlon, K.S. Lennon, A. McArdle, A. Czap, A. Rosenheim, J. Andrade, C. Anderson, G. Lee, J.C.D. Williams, R. Williams, C.A. Tutill, H. Bayzid, N. Martin Bernal, L.M. Macpherson, H. Montgomery, K.-A. Moore, C. Templeton, K. Neill, C. Holden, M. Gunson, R. Shepherd, S.J. Shah, P. Cooray, S. Voice, M. Steele, M. Fink, C. Whittaker, T.E. Santilli, G. Gissen, P. Kaufer, B.B. Reich, J. Andreani, J. Simmonds, P. Alrabiah, D.K. Castellano, S. Chikowore, P. Odam, M. Rampling, T. Houlihan, C. Hoschler, K. Talts, T. Celma, C. Gonzalez, S. Gallagher, E. Simmons, R. Watson, C. Mandal, S. Zambon, M. Chand, M. Hatcher, J. De, S. Baillie, K. Semple, M.G. Bellos, E. Broderick, C. Channon-Wells, S. De, T. D’Souza, G. Elorrieta, L.E. Estrada-Rivadeneyra, D. Galassini, R. Habgood-Coote, D. Hamilton, S. Jackson, H. Kavanagh, J. Marjaneh, M.M. Menikou, S. Nichols, S. Nijman, R. Patel, H. Pennisi, I. Powell, O. Reid, R. Vito, O. Whittaker, E. Wilson, C. Womersley, R. Abdulla, A. Darnell, S. Mustafa, S. Georgiou, P. Manzano, J.-R. Moser, N. Carter, M. Tibby, S. Cohen, J. Davis, F. Kenny, J. Wellman, P. White, M. Fish, M. Jennings, A. Shankar-Hari Fidler, K. Agranoff, D. Richmond, V. Seal, M. Faust, S. Owen, D. Ensom, R. McKay, S. Mondo, D. Shaji, M. Schranz, R. Rughnani, P. Anpananthar, A. Liebeschuetz, S. Riddell, A. Khalid, N. Malcolm, I.L. Simagan, T. Peters, M. Bamford, A. Pathan, N. Daubney, E. White, D. Heightman, M. Eisen, S. Segal, T. Wellings, L. Drysdale, S.B. Branch, N. Hamzah, L. Jarman, H. Nyirenda, M. Capozzi, L. Gardiner, E. Moots, R. Nasher, M. Hanson, A. Linforth, M. O’Riordan, S. Ellis, D. Deep, A. Caro, I. Shackley, F. Bellini, A. Gormley, S. Neshat, S. Scholefield, B.J. Robbins, C. Winmill, H. Pau
Abstract: Since its first identification in Scotland, over 1,000 cases of unexplained paediatric hepatitis in children have been reported worldwide, including 278 cases in the UK1. Here we report an investigation of 38 cases, 66 age-matched immunocompetent controls and 21 immunocompromised comparator participants, using a combination of genomic, transcriptomic, proteomic and immunohistochemical methods. We detected high levels of adeno-associated virus 2 (AAV2) DNA in the liver, blood, plasma or stool from 27 of 28 cases. We found low levels of adenovirus (HAdV) and human herpesvirus 6B (HHV-6B) in 23 of 31 and 16 of 23, respectively, of the cases tested. By contrast, AAV2 was infrequently detected and at low titre in the blood or the liver from control children with HAdV, even when profoundly immunosuppressed. AAV2, HAdV and HHV-6 phylogeny excluded the emergence of novel strains in cases. Histological analyses of explanted livers showed enrichment for T cells and B lineage cells. Proteomic comparison of liver tissue from cases and healthy controls identified increased expression of HLA class 2, immunoglobulin variable regions and complement proteins. HAdV and AAV2 proteins were not detected in the livers. Instead, we identified AAV2 DNA complexes reflecting both HAdV-mediated and HHV-6B-mediated replication. We hypothesize that high levels of abnormal AAV2 replication products aided by HAdV and, in severe cases, HHV-6B may have triggered immune-mediated hepatic disease in genetically and immunologically predisposed children. © 2023, The Author(s).
Published: 2023

3. Adeno-associated virus 2 infection in children with non-A–E hepatitis

Author: Ho, A. Orton, R. Tayler, R. Asamaphan, P. Herder, V. Davis, C. Tong, L. Smollett, K. Manali, M. Allan, J. Rawlik, K. McDonald, S.E. Vink, E. Pollock, L. Gannon, L. Evans, C. McMenamin, J. Roy, K. Marsh, K. Divala, T. Holden, M.T.G. Lockhart, M. Yirrell, D. Currie, S. O’Leary, M. Henderson, D. Shepherd, S.J. Jackson, C. Gunson, R. MacLean, A. McInnes, N. Bradley-Stewart, A. Battle, R. Hollenbach, J.A. Henderson, P. Odam, M. Chikowore, P. Oosthuyzen, W. Chand, M. Hamilton, M.S. Estrada-Rivadeneyra, D. Levin, M. Avramidis, N. Pairo-Castineira, E. Vitart, V. Wilkie, C. Cunnington, A. Herberg, J. Kaforou, M. Wright, V. Bellos, E. Broderick, C. Channon-Wells, S. Cooray, S. De, T. D’Souza, G. Elorrieta, L.E. Galassini, R. Habgood-Coote, D. Hamilton, S. Jackson, H. Kavanagh, J. Marjaneh, M.M. Menikou, S. Nichols, S. Nijman, R. Patel, H. Pennisi, I. Powell, O. Reid, R. Shah, P. Vito, O. Whittaker, E. Wilson, C. Womersley, R. Abdulla, A. Darnell, S. Mustafa, S. Georgiou, P. Manzano, J.-R. Moser, N. Pennisi, I. Carter, M. Tibby, S. Cohen, J. Davis, F. Kenny, J. Wellman, P. White, M. Fish, M. Jennings, A. Shankar-Hari, M. Fidler, K. Agranoff, D. Richmond, V. Seal, M. Faust, S. Owen, D. Ensom, R. McKay, S. Mondo, D. Shaji, M. Schranz, R. Rughnani, P. Anpananthar, A. Liebeschuetz, S. Riddell, A. Khalid, N. Malcolm, I.L. Simagan, T. Peters, M. Bamford, A. O’Neill, L. Pathan, N. Daubney, E. White, D. Heightman, M. Eisen, S. Segal, T. Wellings, L. Drysdale, S.B. Branch, N. Hamzah, L. Jarman, H. Nyirenda, M. Capozzi, L. Gardiner, E. Moots, R. Nasher, M. Hanson, A. Linforth, M. O’Riordan, S. Ellis, D. Deep, A. Caro, I. Shackley, F. Bellini, A. Gormley, S. Neshat, S. Scholefield, B.J. Robbins, C. Winmill, H. Paulus, S.C. Pollard, A.J. Anthony, M. Hopton, S. Miller, D. Oliver, Z. Beer, S. Ward, B. Shrestha, S. Pollard, A.J. Gurung, M. Amatya, P. Pokhrel, B. Bijukchhe, S.M. Lubinda, T. Kelly, S. O’Reilly, P. Martinón-Torres, F. Salas, A. González, F.Á. Bello, X. Ben García, M. Carnota, S and Ho, A. Orton, R. Tayler, R. Asamaphan, P. Herder, V. Davis, C. Tong, L. Smollett, K. Manali, M. Allan, J. Rawlik, K. McDonald, S.E. Vink, E. Pollock, L. Gannon, L. Evans, C. McMenamin, J. Roy, K. Marsh, K. Divala, T. Holden, M.T.G. Lockhart, M. Yirrell, D. Currie, S. O’Leary, M. Henderson, D. Shepherd, S.J. Jackson, C. Gunson, R. MacLean, A. McInnes, N. Bradley-Stewart, A. Battle, R. Hollenbach, J.A. Henderson, P. Odam, M. Chikowore, P. Oosthuyzen, W. Chand, M. Hamilton, M.S. Estrada-Rivadeneyra, D. Levin, M. Avramidis, N. Pairo-Castineira, E. Vitart, V. Wilkie, C. Cunnington, A. Herberg, J. Kaforou, M. Wright, V. Bellos, E. Broderick, C. Channon-Wells, S. Cooray, S. De, T. D’Souza, G. Elorrieta, L.E. Galassini, R. Habgood-Coote, D. Hamilton, S. Jackson, H. Kavanagh, J. Marjaneh, M.M. Menikou, S. Nichols, S. Nijman, R. Patel, H. Pennisi, I. Powell, O. Reid, R. Shah, P. Vito, O. Whittaker, E. Wilson, C. Womersley, R. Abdulla, A. Darnell, S. Mustafa, S. Georgiou, P. Manzano, J.-R. Moser, N. Pennisi, I. Carter, M. Tibby, S. Cohen, J. Davis, F. Kenny, J. Wellman, P. White, M. Fish, M. Jennings, A. Shankar-Hari, M. Fidler, K. Agranoff, D. Richmond, V. Seal, M. Faust, S. Owen, D. Ensom, R. McKay, S. Mondo, D. Shaji, M. Schranz, R. Rughnani, P. Anpananthar, A. Liebeschuetz, S. Riddell, A. Khalid, N. Malcolm, I.L. Simagan, T. Peters, M. Bamford, A. O’Neill, L. Pathan, N. Daubney, E. White, D. Heightman, M. Eisen, S. Segal, T. Wellings, L. Drysdale, S.B. Branch, N. Hamzah, L. Jarman, H. Nyirenda, M. Capozzi, L. Gardiner, E. Moots, R. Nasher, M. Hanson, A. Linforth, M. O’Riordan, S. Ellis, D. Deep, A. Caro, I. Shackley, F. Bellini, A. Gormley, S. Neshat, S. Scholefield, B.J. Robbins, C. Winmill, H. Paulus, S.C. Pollard, A.J. Anthony, M. Hopton, S. Miller, D. Oliver, Z. Beer, S. Ward, B. Shrestha, S. Pollard, A.J. Gurung, M. Amatya, P. Pokhrel, B. Bijukchhe, S.M. Lubinda, T. Kelly, S. O’Reilly, P. Martinón-Torres, F. Salas, A. González, F.Á. Bello, X. Ben García, M. Carnota, S
Abstract: An outbreak of acute hepatitis of unknown aetiology in children was reported in Scotland1 in April 2022 and has now been identified in 35 countries2. Several recent studies have suggested an association with human adenovirus with this outbreak, a virus not commonly associated with hepatitis. Here we report a detailed case–control investigation and find an association between adeno-associated virus 2 (AAV2) infection and host genetics in disease susceptibility. Using next-generation sequencing, PCR with reverse transcription, serology and in situ hybridization, we detected recent infection with AAV2 in plasma and liver samples in 26 out of 32 (81%) cases of hepatitis compared with 5 out of 74 (7%) of samples from unaffected individuals. Furthermore, AAV2 was detected within ballooned hepatocytes alongside a prominent T cell infiltrate in liver biopsy samples. In keeping with a CD4+ T-cell-mediated immune pathology, the human leukocyte antigen (HLA) class II HLA-DRB1*04:01 allele was identified in 25 out of 27 cases (93%) compared with a background frequency of 10 out of 64 (16%; P = 5.49 × 10−12). In summary, we report an outbreak of acute paediatric hepatitis associated with AAV2 infection (most likely acquired as a co-infection with human adenovirus that is usually required as a ‘helper virus’ to support AAV2 replication) and disease susceptibility related to HLA class II status. © 2023, The Author(s), under exclusive licence to Springer Nature Limited.
Published: 2023

4. Correction to: Febrile illness in high-risk children: a prospective, international observational study (European Journal of Pediatrics, (2022), 182, 2, (543-554), 10.1007/s00431-022-04642-1)

Author: van der Velden, F.J.S. de Vries, G. Martin, A. Lim, E. von Both, U. Kolberg, L. Carrol, E.D. Khanijau, A. Herberg, J.A. De, T. Galassini, R. Kuijpers, T.W. Martinón-Torres, F. Rivero-Calle, I. Vermont, C.L. Hagedoorn, N.N. Pokorn, M. Pollard, A.J. Schlapbach, L.J. Tsolia, M. Elefhteriou, I. Yeung, S. Zavadska, D. Fink, C. Voice, M. Zenz, W. Kohlmaier, B. Agyeman, P.K.A. Usuf, E. Secka, F. de Groot, R. Levin, M. van der Flier, M. Emonts, M. Cunnington, A. Herberg, J. Kaforou, M. Wright, V. Baumard, L. Bellos, E. D’Souza, G. Habgood-Coote, D. Hamilton, S. Hoggart, C. Hourmat, S. Jackson, H. Maconochie, I. Menikou, S. Lin, N. Nichols, S. Nijman, R. Powell, O. Pena Paz, I. Shah, P. Shen, C.-F. Vito, O. Wilson, C. Abdulla, A. Ali, L. Darnell, S. Jorgensen, R. Mustafa, S. Persand, S. Stevens, M.M. Kim, N. Kim, E. Fidler, K. Dudley, J. Richmond, V. Tavliavini, E. Shen, C.-F. Liu, C.-C. Wang, S.-M. Salas, A. González, F.Á. Farto, C.B. Barral-Arca, R. Castro, M.´B. Bello, X. García, M.B. Carnota, S. Cebey-López, M. Curras-Tuala, M.J. Suárez, C.D. Vicente, L.G. Gómez-Carballa, A. Rial, J.G. Iglesias, P.L. Martinón-Torres, N. Sánchez, J.M.M. Pérez, B.M. Pardo-Seco, J. Rodríguez, L.P. Pischedda, S. Vázquez, S.R. Calle, I.R. Rodríguez-Tenreiro, C. Redondo-Collazo, L. Ora, M.S. Salas, A. Fernández, S.S. Trasorras, C.S. Iglesias, M.V. Balode, A. Barzdina, A. Deksne, D. Gardovska, D. Gravele, D. Grope, I. Meiere, A. Nokalna, I. Pavare, J. Pucuka, Z. Selecka, K. Rudzate, A. Svile, D. Urbane, U.N. Bojang, K. Zaman, S.M.A. Anderson, S. Sarr, A.R.I. Saidykhan, M. Darboe, S. Ceesay, S. D’alessandro, U. Moll, H.A. Vermont, C.L. Borensztajn, D.M. Tan, C. Zachariasse, J. Dik, W. Agyeman, P.K. Berger, C. Giannoni, E. Stocker, M. Posfay-Barbe, K.M. Heininger, U. Bernhard-Stirnemann, S. Niederer-Loher, A. Kahlert, C.R. Natalucci, G. Relly, C. Riedel, T. Aebi, C. Schlapbach, L.J. Carrol, E.D. Cocklin, E. Jennings, R. Johnston, J. Leigh, S. Lewis-Burke, N. Newall, K. Romaine, S. Eleftheriou, I. and van der Velden, F.J.S. de Vries, G. Martin, A. Lim, E. von Both, U. Kolberg, L. Carrol, E.D. Khanijau, A. Herberg, J.A. De, T. Galassini, R. Kuijpers, T.W. Martinón-Torres, F. Rivero-Calle, I. Vermont, C.L. Hagedoorn, N.N. Pokorn, M. Pollard, A.J. Schlapbach, L.J. Tsolia, M. Elefhteriou, I. Yeung, S. Zavadska, D. Fink, C. Voice, M. Zenz, W. Kohlmaier, B. Agyeman, P.K.A. Usuf, E. Secka, F. de Groot, R. Levin, M. van der Flier, M. Emonts, M. Cunnington, A. Herberg, J. Kaforou, M. Wright, V. Baumard, L. Bellos, E. D’Souza, G. Habgood-Coote, D. Hamilton, S. Hoggart, C. Hourmat, S. Jackson, H. Maconochie, I. Menikou, S. Lin, N. Nichols, S. Nijman, R. Powell, O. Pena Paz, I. Shah, P. Shen, C.-F. Vito, O. Wilson, C. Abdulla, A. Ali, L. Darnell, S. Jorgensen, R. Mustafa, S. Persand, S. Stevens, M.M. Kim, N. Kim, E. Fidler, K. Dudley, J. Richmond, V. Tavliavini, E. Shen, C.-F. Liu, C.-C. Wang, S.-M. Salas, A. González, F.Á. Farto, C.B. Barral-Arca, R. Castro, M.´B. Bello, X. García, M.B. Carnota, S. Cebey-López, M. Curras-Tuala, M.J. Suárez, C.D. Vicente, L.G. Gómez-Carballa, A. Rial, J.G. Iglesias, P.L. Martinón-Torres, N. Sánchez, J.M.M. Pérez, B.M. Pardo-Seco, J. Rodríguez, L.P. Pischedda, S. Vázquez, S.R. Calle, I.R. Rodríguez-Tenreiro, C. Redondo-Collazo, L. Ora, M.S. Salas, A. Fernández, S.S. Trasorras, C.S. Iglesias, M.V. Balode, A. Barzdina, A. Deksne, D. Gardovska, D. Gravele, D. Grope, I. Meiere, A. Nokalna, I. Pavare, J. Pucuka, Z. Selecka, K. Rudzate, A. Svile, D. Urbane, U.N. Bojang, K. Zaman, S.M.A. Anderson, S. Sarr, A.R.I. Saidykhan, M. Darboe, S. Ceesay, S. D’alessandro, U. Moll, H.A. Vermont, C.L. Borensztajn, D.M. Tan, C. Zachariasse, J. Dik, W. Agyeman, P.K. Berger, C. Giannoni, E. Stocker, M. Posfay-Barbe, K.M. Heininger, U. Bernhard-Stirnemann, S. Niederer-Loher, A. Kahlert, C.R. Natalucci, G. Relly, C. Riedel, T. Aebi, C. Schlapbach, L.J. Carrol, E.D. Cocklin, E. Jennings, R. Johnston, J. Leigh, S. Lewis-Burke, N. Newall, K. Romaine, S. Eleftheriou, I.
Abstract: In the original published version of the above article, the names of members of the PERFORM consortium were not introduced in the authorship section. The names are now properly displayed. The complete consortium list has been added as Supplementary material to the original article. The original article has been corrected. © 2023, The Author(s).
Published: 2023

5. Diagnosis of childhood febrile illness using a multi-class blood RNA molecular signature.

Author: Habgood-Coote, D., Wilson, C., Shimizu, C., Barendregt, A.M., Philipsen, R., Galassini, R., Calle, I.R., Workman, L., Agyeman, P.K.A., Ferwerda, G., Anderson, S.T., Berg, J.M. van den, Emonts, M., Carrol, E.D., Fink, C.G., Groot, R. de, Hibberd, M.L., Kanegaye, J., Nicol, M.P., Paulus, S., Pollard, A.J., Salas, A., Secka, F., Schlapbach, L.J., Tremoulet, A.H., Walther, M., Zenz, W., Flier, M. van der, Zar, H.J., Kuijpers, T., Burns, J.C., Martinón-Torres, F., Wright, V.J., Coin, L.J.M., Cunnington, A.J., Herberg, Jethro A., Levin, M., Kaforou, M., Habgood-Coote, D., Wilson, C., Shimizu, C., Barendregt, A.M., Philipsen, R., Galassini, R., Calle, I.R., Workman, L., Agyeman, P.K.A., Ferwerda, G., Anderson, S.T., Berg, J.M. van den, Emonts, M., Carrol, E.D., Fink, C.G., Groot, R. de, Hibberd, M.L., Kanegaye, J., Nicol, M.P., Paulus, S., Pollard, A.J., Salas, A., Secka, F., Schlapbach, L.J., Tremoulet, A.H., Walther, M., Zenz, W., Flier, M. van der, Zar, H.J., Kuijpers, T., Burns, J.C., Martinón-Torres, F., Wright, V.J., Coin, L.J.M., Cunnington, A.J., Herberg, Jethro A., Levin, M., and Kaforou, M.
Abstract: Contains fulltext : 296516.pdf (Publisher’s version ) (Open Access), BACKGROUND: Appropriate treatment and management of children presenting with fever depend on accurate and timely diagnosis, but current diagnostic tests lack sensitivity and specificity and are frequently too slow to inform initial treatment. As an alternative to pathogen detection, host gene expression signatures in blood have shown promise in discriminating several infectious and inflammatory diseases in a dichotomous manner. However, differential diagnosis requires simultaneous consideration of multiple diseases. Here, we show that diverse infectious and inflammatory diseases can be discriminated by the expression levels of a single panel of genes in blood. METHODS: A multi-class supervised machine-learning approach, incorporating clinical consequence of misdiagnosis as a "cost" weighting, was applied to a whole-blood transcriptomic microarray dataset, incorporating 12 publicly available datasets, including 1,212 children with 18 infectious or inflammatory diseases. The transcriptional panel identified was further validated in a new RNA sequencing dataset comprising 411 febrile children. FINDINGS: We identified 161 transcripts that classified patients into 18 disease categories, reflecting individual causative pathogen and specific disease, as well as reliable prediction of broad classes comprising bacterial infection, viral infection, malaria, tuberculosis, or inflammatory disease. The transcriptional panel was validated in an independent cohort and benchmarked against existing dichotomous RNA signatures. CONCLUSIONS: Our data suggest that classification of febrile illness can be achieved with a single blood sample and opens the way for a new approach for clinical diagnosis. FUNDING: European Union's Seventh Framework no. 279185; Horizon2020 no. 668303 PERFORM; Wellcome Trust (206508/Z/17/Z); Medical Research Foundation (MRF-160-0008-ELP-KAFO-C0801); NIHR Imperial BRC.
Published: 2023

6. Diagnosis of Multisystem Inflammatory Syndrome in Children by a Whole-Blood Transcriptional Signature.

Author: Jackson, H.R., Miglietta, L., Habgood-Coote, D., D'Souza, G., Shah, P., Nichols, S., Vito, O., Powell, O., Davidson, M.S., Shimizu, C., Agyeman, P.K.A., Beudeker, C.R., Brengel-Pesce, K., Carrol, E.D., Carter, M.J., De, T., Eleftheriou, I., Emonts, M., Epalza, C., Georgiou, P., Groot, R. de, Fidler, K., Fink, C., Keulen, D. van, Kuijpers, T., Moll, H., Papatheodorou, I., Paulus, S., Pokorn, M., Pollard, A.J., Rivero-Calle, I., Rojo, P., Secka, F., Schlapbach, L.J., Tremoulet, A.H., Tsolia, M., Usuf, E., Flier, M. van der, Both, U. von, Vermont, C., Yeung, S., Zavadska, D., Zenz, W., Coin, L.J.M., Cunnington, A., Burns, J.C., Wright, V., Martinon-Torres, F., Herberg, Jethro A., Rodriguez-Manzano, J., Kaforou, M., Levin, M., Jackson, H.R., Miglietta, L., Habgood-Coote, D., D'Souza, G., Shah, P., Nichols, S., Vito, O., Powell, O., Davidson, M.S., Shimizu, C., Agyeman, P.K.A., Beudeker, C.R., Brengel-Pesce, K., Carrol, E.D., Carter, M.J., De, T., Eleftheriou, I., Emonts, M., Epalza, C., Georgiou, P., Groot, R. de, Fidler, K., Fink, C., Keulen, D. van, Kuijpers, T., Moll, H., Papatheodorou, I., Paulus, S., Pokorn, M., Pollard, A.J., Rivero-Calle, I., Rojo, P., Secka, F., Schlapbach, L.J., Tremoulet, A.H., Tsolia, M., Usuf, E., Flier, M. van der, Both, U. von, Vermont, C., Yeung, S., Zavadska, D., Zenz, W., Coin, L.J.M., Cunnington, A., Burns, J.C., Wright, V., Martinon-Torres, F., Herberg, Jethro A., Rodriguez-Manzano, J., Kaforou, M., and Levin, M.
Abstract: Contains fulltext : 294537.pdf (Publisher’s version ) (Open Access), BACKGROUND: To identify a diagnostic blood transcriptomic signature that distinguishes multisystem inflammatory syndrome in children (MIS-C) from Kawasaki disease (KD), bacterial infections, and viral infections. METHODS: Children presenting with MIS-C to participating hospitals in the United Kingdom and the European Union between April 2020 and April 2021 were prospectively recruited. Whole-blood RNA Sequencing was performed, contrasting the transcriptomes of children with MIS-C (n = 38) to those from children with KD (n = 136), definite bacterial (DB; n = 188) and viral infections (DV; n = 138). Genes significantly differentially expressed (SDE) between MIS-C and comparator groups were identified. Feature selection was used to identify genes that optimally distinguish MIS-C from other diseases, which were subsequently translated into RT-qPCR assays and evaluated in an independent validation set comprising MIS-C (n = 37), KD (n = 19), DB (n = 56), DV (n = 43), and COVID-19 (n = 39). RESULTS: In the discovery set, 5696 genes were SDE between MIS-C and combined comparator disease groups. Five genes were identified as potential MIS-C diagnostic biomarkers (HSPBAP1, VPS37C, TGFB1, MX2, and TRBV11-2), achieving an AUC of 96.8% (95% CI: 94.6%-98.9%) in the discovery set, and were translated into RT-qPCR assays. The RT-qPCR 5-gene signature achieved an AUC of 93.2% (95% CI: 88.3%-97.7%) in the independent validation set when distinguishing MIS-C from KD, DB, and DV. CONCLUSIONS: MIS-C can be distinguished from KD, DB, and DV groups using a 5-gene blood RNA expression signature. The small number of genes in the signature and good performance in both discovery and validation sets should enable the development of a diagnostic test for MIS-C.
Published: 2023

7. Discrimination of bacterial and viral infection using host-RNA signatures integrated in a lab-on-a-chip technology

Author: Pennisi, I, Moniri, A, Miscourides, N, Miglietta, L, Moser, N, Habgood-Coote, D, Herberg, J, Levin, M, Kaforou, M, Rodriguez-Manzano, J, and Georgiou, P
Abstract: The unmet clinical need for accurate point-of-care (POC) diagnostic tests able to discriminate bacterial from viral infection demands a solution that can be used both within healthcare settings and in the field and that can also stem the tide of antimicrobial resistance. Our approach to solve this problem is to combine the use of Host-gene signatures with our Lab-on-a-chip (LoC) technology enabling low-cost LoC expression analysis to detect Infectious Disease.Host-gene expression signatures have been extensively study as a potential tool to be implemented in the diagnosis of infectious disease. On the other hand LoC technologies using Ion-sensitive field-effect transistor (ISFET) arrays, in conjunction with isothermal chemistries, are offering a promising alternative to conventional lab-based nucleic acid amplification instruments, owing to their portable and affordable nature. Currently, the data analysis of ISFET arrays are restricted to established methods by averaging the output of every sensor to give a single time-series. This simple approach makes unrealistic assumptions, leading to insufficient performance for applications that require accurate quantification such as RNA host transcriptomics. In order to reliably quantify host-gene expression on our LoC platform enabling the classification of bacterial and viral infection on chip, we propose a novel data-driven algorithm for extracting time-to-positive values from ISFET arrays. The algorithm proposed is based on modelling sensor drift with adaptive signal processing and clustering sensors based on their behaviour with unsupervised learning methods. Results show that the approach correctly outputs a time-to-positive for all the reactions, with a high correlation to RT-qLAMP (0.85, R2 = 0.98, p < 0.01), resulting in a classification accuracy of 100 % (CI, 95 - 100). By leveraging more advanced data processing methods for ISFET arrays, this work aims to bridge the gap between translating assays from microarray analysis (expensive lab-based discovery method) to ISFET arrays (cheap point-of-care diagnostics) providing benefits on tackling infectious disease outbreak and diagnostic testing in hard-to-reach areas of the world.
Published: 2022

8. Guideline adherence in febrile children below 3 months visiting European Emergency Departments: an observational multicenter study

Author: Tan, C.D. van der Walle, E.E.P.L. Vermont, C.L. von Both, U. Carrol, E.D. Eleftheriou, I. Emonts, M. van der Flier, M. de Groot, R. Herberg, J. Kohlmaier, B. Levin, M. Lim, E. Maconochie, I.K. Martinon-Torres, F. Nijman, R.G. Pokorn, M. Rivero-Calle, I. Tsolia, M. Yeung, S. Zenz, W. Zavadska, D. Moll, H.A. Levin, M. Cunnington, A. De, T. Herberg, J. Kaforou, M. Wright, V. Baumard, L. Bellos, E. D’Souza, G. Galassini, R. Habgood-Coote, D. Hamilton, S. Hoggart, C. Hourmat, S. Jackson, H. Maconochie, I. Menikou, S. Lin, N. Nichols, S. Nijman, R. Pena Paz, I. Shah, P. Shen, C.-F. Vito, O. Wilson, C. Abdulla, A. Ali, L. Darnell, S. Jorgensen, R. Mustafa, S. Persand, S. Stevens, M. Kim, E. Pierce, B. Fidler, K. Dudley, J. Richmond, V. Tavliavini, E. Liu, C.-C. Wang, S.-M. Martinón-Torres, F. Salas, A. Álvez González, F. Balo Farto, C. Barral-Arca, R. Barreiro Castro, M. Bello, X. García, M.B. Carnota, S. Cebey-López, M. Curras-Tuala, M.J. Durán Suárez, C. García Vicente, L. Gómez-Carballa, A. Gómez Rial, J. Leboráns Iglesias, P. Martinón-Torres, F. Martinón-Torres, N. Martinón Sánchez, J.M. Mosquera Pérez, B. Pardo-Seco, J. Piñeiro Rodríguez, L. Pischedda, S. Vázquez, S.R. Rivero Calle, I. Rodríguez-Tenreiro, C. Redondo-Collazo, L. Sadiki Ora, M. Salas, A. Serén Fernández, S. Serén Trasorras, C. Vilas Iglesias, M. Zavadska, D. Balode, A. Bārzdiņa, A. Deksne, D. Gardovska, D. Grāvele, D. Grope, I. Meiere, A. Nokalna, I. Pavāre, J. Pučuka, Z. Selecka, K. Sidorova, A. Svile, D. Urbāne, U.N. Usuf, E. Bojang, K. Zaman, S.M.A. Secka, F. Anderson, S. Roca, A. Sarr, I. Saidykhan, M. Darboe, S. Ceesay, S. D’alessandro, U. Moll, H.A. Borensztajn, D.M. Hagedoorn, N.N. Tan, C. Vermont, C.L. Zachariasse, J. Dik, W. Agyeman, P. Schlapbach, L.J. Aebi, C. Wyss, V. Usman, M. Agyeman, P. Schlapbach, L.J. Giannoni, E. Stocker, M. Posfay-Barbe, K.M. Heininger, U. Bernhard-Stirnemann, S. Niederer-Loher, A. Kahlert, C. Natalucci, G. Relly, C. Riedel, T. Aebi, C. Berger, C. Carrol, E.D. Paulus and Tan, C.D. van der Walle, E.E.P.L. Vermont, C.L. von Both, U. Carrol, E.D. Eleftheriou, I. Emonts, M. van der Flier, M. de Groot, R. Herberg, J. Kohlmaier, B. Levin, M. Lim, E. Maconochie, I.K. Martinon-Torres, F. Nijman, R.G. Pokorn, M. Rivero-Calle, I. Tsolia, M. Yeung, S. Zenz, W. Zavadska, D. Moll, H.A. Levin, M. Cunnington, A. De, T. Herberg, J. Kaforou, M. Wright, V. Baumard, L. Bellos, E. D’Souza, G. Galassini, R. Habgood-Coote, D. Hamilton, S. Hoggart, C. Hourmat, S. Jackson, H. Maconochie, I. Menikou, S. Lin, N. Nichols, S. Nijman, R. Pena Paz, I. Shah, P. Shen, C.-F. Vito, O. Wilson, C. Abdulla, A. Ali, L. Darnell, S. Jorgensen, R. Mustafa, S. Persand, S. Stevens, M. Kim, E. Pierce, B. Fidler, K. Dudley, J. Richmond, V. Tavliavini, E. Liu, C.-C. Wang, S.-M. Martinón-Torres, F. Salas, A. Álvez González, F. Balo Farto, C. Barral-Arca, R. Barreiro Castro, M. Bello, X. García, M.B. Carnota, S. Cebey-López, M. Curras-Tuala, M.J. Durán Suárez, C. García Vicente, L. Gómez-Carballa, A. Gómez Rial, J. Leboráns Iglesias, P. Martinón-Torres, F. Martinón-Torres, N. Martinón Sánchez, J.M. Mosquera Pérez, B. Pardo-Seco, J. Piñeiro Rodríguez, L. Pischedda, S. Vázquez, S.R. Rivero Calle, I. Rodríguez-Tenreiro, C. Redondo-Collazo, L. Sadiki Ora, M. Salas, A. Serén Fernández, S. Serén Trasorras, C. Vilas Iglesias, M. Zavadska, D. Balode, A. Bārzdiņa, A. Deksne, D. Gardovska, D. Grāvele, D. Grope, I. Meiere, A. Nokalna, I. Pavāre, J. Pučuka, Z. Selecka, K. Sidorova, A. Svile, D. Urbāne, U.N. Usuf, E. Bojang, K. Zaman, S.M.A. Secka, F. Anderson, S. Roca, A. Sarr, I. Saidykhan, M. Darboe, S. Ceesay, S. D’alessandro, U. Moll, H.A. Borensztajn, D.M. Hagedoorn, N.N. Tan, C. Vermont, C.L. Zachariasse, J. Dik, W. Agyeman, P. Schlapbach, L.J. Aebi, C. Wyss, V. Usman, M. Agyeman, P. Schlapbach, L.J. Giannoni, E. Stocker, M. Posfay-Barbe, K.M. Heininger, U. Bernhard-Stirnemann, S. Niederer-Loher, A. Kahlert, C. Natalucci, G. Relly, C. Riedel, T. Aebi, C. Berger, C. Carrol, E.D. Paulus
Abstract: Febrile children below 3 months have a higher risk of serious bacterial infections, which often leads to extensive diagnostics and treatment. There is practice variation in management due to differences in guidelines and their usage and adherence. We aimed to assess whether management in febrile children below 3 months attending European Emergency Departments (EDs) was according to the guidelines for fever. This study is part of the MOFICHE study, which is an observational multicenter study including routine data of febrile children (0–18 years) attending twelve EDs in eight European countries. In febrile children below 3 months (excluding bronchiolitis), we analyzed actual management compared to the guidelines for fever. Ten EDs applied the (adapted) NICE guideline, and two EDs applied local guidelines. Management included diagnostic tests, antibiotic treatment, and admission. We included 913 children with a median age of 1.7 months (IQR 1.0–2.3). Management per ED varied as follows: use of diagnostic tests 14–83%, antibiotic treatment 23–54%, admission 34–86%. Adherence to the guideline was 43% (374/868) for blood cultures, 29% (144/491) for lumbar punctures, 55% (270/492) for antibiotic prescriptions, and 67% (573/859) for admission. Full adherence to these four management components occurred in 15% (132/868, range 0–38%), partial adherence occurred in 56% (484/868, range 35–77%). Conclusion: There is large practice variation in management. The guideline adherence was limited, but highest for admission which implies a cautious approach. Future studies should focus on guideline revision including new biomarkers in order to optimize management in young febrile children.What is Known:• Febrile children below 3 months have a higher risk of serious bacterial infections, which often leads to extensive diagnostics and treatment.• There is practice variation in management of young febrile children due to differences in guidelines and their usage and adherence.What is New
Published: 2022

9. Agricultural Land Use Concerns in Canada

Author: Dumanski, J., primary, Coote, D. R., additional, and Mac Donald, K. B., additional
Published: 2015
Full Text: View/download PDF

10. Discovery and validation of a 3-gene signature to distinguish COVID-19 and other viral infections in emergency infectious disease presentations; a case-control then observational cohort study

Author: Li, HK, Kaforou, M, Rodriguez-Manzano, J, Channon-Wells, S, Monir, A, Habgood-Coote, D, Gupta, RK, Mills, EA, Lin, J, Chiu, Y-H, Pennisi, I, Miglietta, L, Mehta, R, Obaray, N, Herberg, JA, Wright, VJ, Georgiou, P, Shallcross, LJ, Mentzer, AJ, Levin, M, Cooke, GS, Noursadeghi, M, Sriskandan, S, Imperial College Healthcare NHS Trust- BRC Funding, Medical Research Council (MRC), National Institute for Health Research, UK Research and Innovation, and European Commission
Abstract: Background: Emergency admissions for infection often lack initial diagnostic certainty. COVID-19 has highlighted a need for novel diagnostic approaches to indicate likelihood of viral infection in a pandemic setting. We sought to derive and validate a blood transcriptional signature to detect viral infections including COVID-19 among adults with suspected infection presenting to the Emergency Department (ED). Methods: Blood RNA sequencing was performed on a discovery cohort of adults attending the ED with suspected infection who had subsequently-confirmed viral, bacterial, or no infection diagnoses. Differentially expressed host genes were subjected to feature selection to derive the most parsimonious discriminating signature. RT-qPCR validation of the signature was then performed in a prospective cohort of ED patients presenting with undifferentiated fever, and a second case-control cohort of ED patients with COVID-19 or bacterial infection. Signature performance was assessed by calculating area under receiver-operating characteristic curves (AUC-ROCs), sensitivities, and specificities. Findings: A 3-gene transcript signature was derived from the discovery cohort of 56 bacterial and 27 viral infection cases. In the validation cohort of 200 cases, the signature differentiated bacterial from viral infections with an AUC-ROC of 0.976 (95% CI: 0.919-1.000), sensitivity 97.3% and specificity of 100%. The AUC-ROC for C-reactive protein (CRP) and leucocyte count (WCC) was 0.833 (95% CI: 0.694-0.944) and 0.938 (95% CI: 0.840-0.986) respectively. The signature achieved higher net benefit in decision curve analysis than either CRP or WCC for discriminating viral infections from all other cases. In the second validation analysis the signature discriminated 35 bacterial infections from 34 SARS-CoV-2 positive COVID-19 infections with AUC-ROC of 0.953 (95% CI: 0.893-0.992), sensitivity 88.6% and specificity of 94.1%. Interpretation: This novel 3-gene signature discriminates viral infections including COVID-19 from other emergency infection presentations in adults, outperforming both WCC and CRP, thus potentially providing significant clinical utility in managing acute presentations with infection.
Published: 2021

11. Identification of Reduced Host Transcriptomic Signatures for Tuberculosis Disease and Digital PCR-Based Validation and Quantification

Author: Gliddon, HD, Kaforou, M, Alikian, M, Habgood-Coote, D, Zhou, C, Oni, T, Anderson, ST, Brent, AJ, Crampin, AC, Eley, B, Heyderman, R, Kern, F, Langford, PR, Ottenhoff, THM, Hibberd, ML, French, N, Wright, VJ, Dockrell, HM, Coin, LJ, Wilkinson, RJ, Levin, M, Gliddon, HD, Kaforou, M, Alikian, M, Habgood-Coote, D, Zhou, C, Oni, T, Anderson, ST, Brent, AJ, Crampin, AC, Eley, B, Heyderman, R, Kern, F, Langford, PR, Ottenhoff, THM, Hibberd, ML, French, N, Wright, VJ, Dockrell, HM, Coin, LJ, Wilkinson, RJ, and Levin, M
Abstract: Recently, host whole blood gene expression signatures have been identified for diagnosis of tuberculosis (TB). Absolute quantification of the concentrations of signature transcripts in blood have not been reported, but would facilitate diagnostic test development. To identify minimal transcript signatures, we applied a transcript selection procedure to microarray data from African adults comprising 536 patients with TB, other diseases (OD) and latent TB (LTBI), divided into training and test sets. Signatures were further investigated using reverse transcriptase (RT)-digital PCR (dPCR). A four-transcript signature (GBP6, TMCC1, PRDM1, and ARG1) measured using RT-dPCR distinguished TB patients from those with OD (area under the curve (AUC) 93.8% (CI95% 82.2-100%). A three-transcript signature (FCGR1A, ZNF296, and C1QB) differentiated TB from LTBI (AUC 97.3%, CI95%: 93.3-100%), regardless of HIV. These signatures have been validated across platforms and across samples offering strong, quantitative support for their use as diagnostic biomarkers for TB.
Published: 2021

12. Run8: The 1000 Bull Genomes Project

Author: Daetwyler, H.D., Capitan, A., Pausch, H., Stothard, P., van Binsbergen, R., Brondum, R.F., Liao, X., Djari, A., Rodriguez, S.C., Grohs, C., Esquerré, D., Bouchez, O., Rossignol, M.N., Klopp, C., Rocha, D., Fritz, S., Eggen, A., Bowman, P.J., Coote, D., Chamberlain, A.J., Anderson, C.L., Tassel, C.P., Hulsegge, B., Goddard, M.E., Guldbrandsten, B., Lund, M.S., Veerkamp, R.F., Boichard, D.A., Fries, R., Hayes, B.J., Daetwyler, H.D., Capitan, A., Pausch, H., Stothard, P., van Binsbergen, R., Brondum, R.F., Liao, X., Djari, A., Rodriguez, S.C., Grohs, C., Esquerré, D., Bouchez, O., Rossignol, M.N., Klopp, C., Rocha, D., Fritz, S., Eggen, A., Bowman, P.J., Coote, D., Chamberlain, A.J., Anderson, C.L., Tassel, C.P., Hulsegge, B., Goddard, M.E., Guldbrandsten, B., Lund, M.S., Veerkamp, R.F., Boichard, D.A., Fries, R., and Hayes, B.J.
Abstract: The 1000 Bull Genomes Project aims to provide, for the bovine research community, a large database for imputation of genetic variants for genomic prediction and genome wide association studies in all cattle breeds. The project aims to develop a resource to allow project partners to impute full genome sequence in bulls and cows that have been genotyped with SNP arrays. This could be used, for example, for improving the accuracy of genomic prediction, as well as in genome wide association studies interested in the identification of causal mutations., The 1000 Bull Genomes Project aims to provide, for the bovine research community, a large database for imputation of genetic variants for genomic prediction and genome wide association studies in all cattle breeds. The project aims to develop a resource to allow project partners to impute full genome sequence in bulls and cows that have been genotyped with SNP arrays. This could be used, for example, for improving the accuracy of genomic prediction, as well as in genome wide association studies interested in the identification of causal mutations.
Published: 2021

13. The Significance of acid rain to agriculture in Eastern Canada /

Author: Coote, D. R., Canada. Agriculture Canada, Agriculture and Agri-Food Canada (archive.org), Coote, D. R., and Canada. Agriculture Canada
Subjects: Acid rain, Agricultural pollution, canada (est), Canada, Eastern, Plants, Effect of acid precipitation on, pollution agricole
Published: 1981

14. Development of Modeling Approaches for Nuclear Thermal Propulsion Test Facilities

Author: Jones, D, Allgood, D, Nguyen, K, and Coote, D
Subjects: Spacecraft Propulsion And Power
Published: 2014

15. CONGENITAL MYOPATHIES 1 – NEMALINE

Author: Clayton, J., primary, McNamara, E., additional, Goullee, H., additional, Conijn, S., additional, Muthsam, K., additional, Musk, G., additional, Coote, D., additional, Kijas, J., additional, Testa, A., additional, Taylor, R., additional, O'Hara, M., additional, Groth, D., additional, Ottenheijm, C., additional, Ravenscroft, G., additional, Laing, N., additional, and Nowak, K., additional
Published: 2020
Full Text: View/download PDF

16. Interferon-Induced Protein 44 and Interferon-Induced Protein 44-Like Restrict Replication of Respiratory Syncytial Virus

Author: Busse, D. C., primary, Habgood-Coote, D., additional, Clare, S., additional, Brandt, C., additional, Bassano, I., additional, Kaforou, M., additional, Herberg, J., additional, Levin, M., additional, Eléouët, J.-F., additional, Kellam, P., additional, and Tregoning, J. S., additional
Published: 2020
Full Text: View/download PDF

17. Congenital myopathies 1 – Nemaline

Author: Clayton, J., McNamara, E., Goullee, H., Conijn, S., Muthsam, K., Musk, G., Coote, D., Kijas, J., Testa, A., Taylor, R., O'Hara, M., Groth, D., Ottenheijm, C., Ravenscroft, G., Laing, N., Nowak, K., Clayton, J., McNamara, E., Goullee, H., Conijn, S., Muthsam, K., Musk, G., Coote, D., Kijas, J., Testa, A., Taylor, R., O'Hara, M., Groth, D., Ottenheijm, C., Ravenscroft, G., Laing, N., and Nowak, K.
Abstract: Ovine congenital progressive muscular dystrophy (OCPMD) was first described in Merino sheep flocks in Queensland and Western Australia (WA) in the 1960s and 70s. The most prominent feature of the disease is a distinctive gait with stiffness of the hind limbs that can be seen as early as three weeks after birth. The disease is progressive. Histopathological examination had revealed dystrophic changes specifically in slow myofibres, while electron microscopy had demonstrated abundant nemaline bodies. Therefore, it was never certain whether the disease was a dystrophy or a nemaline myopathy with dystrophic features. In this study, we performed whole genome sequencing of WA OCPMD sheep and identified a single base deletion at the splice donor site (+1) of intron 13 of the slow myofibre-specific TNNT1 gene (KT218690 c.614+1delG). All affected sheep were homozygous for this variant. Examination of TNNT1 splicing by RT-PCR showed intron retention and premature termination, which disrupts the highly conserved 14 amino acid C-terminus. The variant did not reduce TNNT1 protein levels or affect its localization but impaired its ability to modulate muscle contraction in response to Ca2+ levels. Identification of the causative variant in TNNT1 finally clarifies that the WA OCPMD sheep is in fact a large animal model of nemaline myopathy with dystrophic features. This model could now be used for testing molecular or gene therapies.
Published: 2020

18. Ovine congenital progressive muscular dystrophy (OCPMD) is a model of TNNT1 congenital myopathy

Author: Clayton, J.S., McNamara, E.L., Goullee, H., Conijn, S., Muthsam, K., Musk, G.C., Coote, D., Kijas, J., Testa, A.C., Taylor, R.L., O’Hara, A.J., Groth, D., Ottenheijm, C., Ravenscroft, G., Laing, N.G., Nowak, K.J., Clayton, J.S., McNamara, E.L., Goullee, H., Conijn, S., Muthsam, K., Musk, G.C., Coote, D., Kijas, J., Testa, A.C., Taylor, R.L., O’Hara, A.J., Groth, D., Ottenheijm, C., Ravenscroft, G., Laing, N.G., and Nowak, K.J.
Abstract: Ovine congenital progressive muscular dystrophy (OCPMD) was first described in Merino sheep flocks in Queensland and Western Australia in the 1960s and 1970s. The most prominent feature of the disease is a distinctive gait with stiffness of the hind limbs that can be seen as early as 3 weeks after birth. The disease is progressive. Histopathological examination had revealed dystrophic changes specifically in type I (slow) myofibres, while electron microscopy had demonstrated abundant nemaline bodies. Therefore, it was never certain whether the disease was a dystrophy or a congenital myopathy with dystrophic features. In this study, we performed whole genome sequencing of OCPMD sheep and identified a single base deletion at the splice donor site (+ 1) of intron 13 in the type I myofibre-specific TNNT1 gene (KT218690 c.614 + 1delG). All affected sheep were homozygous for this variant. Examination of TNNT1 splicing by RT-PCR showed intron retention and premature termination, which disrupts the highly conserved 14 amino acid C-terminus. The variant did not reduce TNNT1 protein levels or affect its localization but impaired its ability to modulate muscle contraction in response to Ca2+ levels. Identification of the causative variant in TNNT1 finally clarifies that the OCPMD sheep is in fact a large animal model of TNNT1 congenital myopathy. This model could now be used for testing molecular or gene therapies.
Published: 2020

19. Clinical Utility Gene Card for: Becker muscular dystrophy

Author: Coote, D., Davis, M.R., Cabrera, M., Needham, M., Laing, N.G., Nowak, K.J., Coote, D., Davis, M.R., Cabrera, M., Needham, M., Laing, N.G., and Nowak, K.J.
Abstract: No abstract available
Published: 2018

20. Abstracts

Author: Frankenfeld John W., Schulz Wolfgang, McMurty George J., Petersen Gary W., May G. A., Hering F. S., Schwartz J. I., Heywood J. B., Chigier N. A., Grohse E. W., Walker J. D., Colwell R. R., Petrakis L., Pergament H. S., Thorpe R. D., Schoepf Richard W., Krzyczkowski Roman, Henneman Suzanne S., Hudson Charles L., Putnam Evelyn S., Thiesen Donna J., Parks G. A., McCarty Perry L., Leckie J. O., Schrumpf Barry J., Simonson G. H., Paine D. P., Lawrence R. D., Pyott W. T., Leh M., Elders W., Combs J., Caplen T., Harrison F. L., Wong K. M., Heft. R. E., Charnell Robert L., Lehmann Edward J., Mallon Lawrence G., Hatfield Cecile, Adams Gerald H., Johanning James, Talvitie Antti, Noll Kenneth E., Miller Terry, Smiarowski Joseph F., Willis Cleve E., Foster John H., Schlesinger Benjamin, Daetz Douglas, Lear Donald U., Smith Mona F., Hundemann Audrey S., Crockett Pernell W., Werner Kirk G., Carroll Thomas E., Maase David L., Genco Joseph E., Ifeadi Christopher N., Lowman F. G., Christensen S. W., Van Winkle W., Mattice J. S., Harrison Elizabeth A., Barker James C., Chesness Jerry L., Smith Ralph E., Shaheeen Donald G., Raney R. Keith, Borton T., Wezernak C. T., Raney R. K., Sherwani Jabbor K., Moreau David H., Eisenberg Norman A., Lynch Cornelius J., Breeding Roger J., Johnson J. D., Foster K. E., Mouat D. A., Clark R., Hyden John William, Owen, Wilfred, Bayfield, Neil G., Barrow, Graham C., Stolz, Stephanie B., Wienckowski, Louis A., Brown, Betram S., Keyfitz, Nathan, Wilson, W. L., Newman, Peter W. G., Bammi, Deepak, Bammi, Dalip, Goddard, James E., Chisholm, Tony, Walsh, Cliff, Brennan, Geoffrey, Thompson, K. S., Richardson, R., Jensen, Clayton E., Brown, Dail W., Mirabito, John A., Cowing, Thomas G., Binghamton, Suny, Siehl, George H., Albrecht, O. W., Alexander, Ariel, Barde, Jean -Philippe, Darby, William P., McMichael, Francis Clay, Dunlap, Robert W., Muckleston, Keith W., Frankenhoff, Charles A., Giulini, Lorenzo T., Wyatt, T., Black, Peter E., Keating, William Thomas, Leonard, M. E., Fisher, E. L., Brunelle, M. F., Dickinson, J. E., Pethig, Rudiger, Clapham, Jr., W. B., Boserup, Ester, James, Jr., Franklin J., Parenteau, Patrick A., Catz, Robert S., Seneca, Joseph J., Davis, Robert K., Sievering, H., Sinopoli, J., Gamble, Hays B., Bevins, Malcolm I., Cole, Gerald L., Donald, Donn Derr, Tobey, M., Domokos, Mikklos, Weber, Jean, Duckstein, Lucien, Knudson, Douglas M., Barron, J. C., Dickinson, T. E., Schwartz, S. I., Hansen, D. E., Myrup, L. O., Rogers, D. L., Bodege, R., Braatz, U., Heger, H., McConnell, K. E., Duff, Virginia A., Adede, A. O., Zeckhauser, Richard, Kolbye, A. C., Schussel, George, Pisano, Mark A., Bartolotta, R. J., Budnitz, Robert J., Holdren, John P., Wills, Richard H., Sen, P. K., Ghoshal, S. N., Wonders, William C., Bartolotta, Robert J., Leich, Harold H., Gwvnne, P., Miller, S. S., Picardi, Anthony C., Seifer, William W., Bowbrick, P., Hunt, S. E., Keays, J. L., Fisher, Anthony C., Peterson, Frederick M., Cesario, F. J., Knetsch, J. L., Wood, C., Lee, N., Puechl, Karl H., Robert, J., Hansen, David E., Foin, T. C., Wolpert, Julian, Moskow, Michael H., Phillips, Joseph A., Hicks, Jesse L., Nobbs, Christopher L., Pearce, David W., Schoenbau, Thomas J., Rosenberg, Ronald H., Ravenholt, R. T., Kim, K. D., Groves, David L., McCart, Gerald D., Ewald, Jr., W. R., Dando, W. A., Gebelein, C. A., Martin, W. H., Mason, S., Ostrovskii, A. A., Currie, David P., Payne, P. R., Rosentraub, Mark S., Warren, Robert, Irland, Lloyd C., Booth, A., Kolb, Kenneth H., Caldwell, Lynton K., Johnson, W. H., Brewer, Max C., Bowden, Gerald, Haney, Paul D., Logue, D. E., Sweeney, R. J., Egbuniwe, Nnamdi, Heron, N., Franssen, H. T., Wranglen, G., Fairfax, Sally K., Pinhey, Thoma K., Paterson, Karen W., Sitterlev, John H., Connaughton, Charles A., De Viedman, M. G., Leon, F., Coronado, R., Myers, John G., Nakamura, Leonard I., Madrid, Norman R., Bar-Shalom, Y., Cohen, A. J., Seldman, Neil N., Hardy, Jr., William E., Grissom, Curtis L., Quarles, Jr., John R., Gee, Edwin A., Chaudhri, D. P., Infanger, Craig L., Bordeauz, Jr., A. Frank, Dougal, Merwin D., Ganotis, C. G., Hopper, R. E., Boyd, J., Woodard, Kim, Haedrich, R. L., Thompson, R. G., Lievano, R. J., Stoneburner, D. L., Smock, L. A., Eichhorn, H. C., Montalvo, J. G., Lee, C. G., von Jeszensky, T., Dunn, I. J., Wilson, M. J., Swindle, Jr., D. W., Runove, T. G., Pearson, T. H., Rosenberg, R., Sharp, Jr., John M., Greist, David A., Kinard, J. T., Tisdale, J., Alexander, E., Stone, Ralph, Willis, Robert, Anderson, Donald R., Dracup, John A., Rogers, C. J., Hunter, John M., Cassola, Fabio, Lovari, Sandro, Tew, R. W., Egdorf, S. S., Deacon, J. E., Sly, George R., Brandvold, D. K., Popp, C. J., Brierley, J. A., Zeidler, Ryszard B., Gonzalez, R. H., Lapage, S. P., Cornish, Edward S., Ryerson, Foresman, D. K., Walejko, R. N., Paulson, W. H., Pendleton, J. W., Fowler, Bruce A., Minckler, Leon S., Wallis, I. G., Nebel, C., Gottschling, R. D., Unangst, P. C., O'Neill, H. J., Zintel, G. V., Reid, F., Ricci, L. J., Odum, Eugene P., Johnson, J. H., Sturino, E. E., Bourne, S., Richerson, Jim V., Cameron, E. Alan, Brown, Elizabeth A., Stopford, W., Goldwater, L. J., Gray, John, Jorgensen, S. E., Santhirasegaram, K., Chapman, J. D., Skelton, Thomas E., Stahl, D., Herzog, Jr., Henry W., Matsunaka, S., Kuwatsuka, S., Tatsukawa, R., Wakimoto, T., Moyle, Peter B., Kornilov, B. A., Timoshkina, V. A., Johnstone, Peter A., McMinn, James W., Hewlett, John D., Cunha, T. J., Cameron, Guy N., Blais, J. R., Macgregor, Alan, Martin, G. D., Mulholland, R. J., Thornton, K. W., Spano, L. A., Medeiros, J., Ostarhild, H., Minnick, D. R., Hayden, Bruce P., Dolan, Robert, Rendel, J., Lee, J. A., Leistra, M., Frye, R. D., Ramse, David, Safferman, R. S., Morris, Mary -Ellen, Lisella, Frank S., Johnson, Wilma, Lewis, Claudia, Kutt, E. C., Martin, D. F., Prakash, A., Kunkle, S. H., Mrak, E. M., Bruce, R. R., Harper, L. A., Leonard, R. A., Snyder, W. M., Thomas, A. W., Eckholm, Erik P., Snelling, John C., Veblen, Thomas T., Buckhouse, J. C., Gifford, G. F., Fosberg, F. R., Naveh, Z., Kelcey, J. G., Scanlon, John W., Lijinsky, W., Elias, Thomas S., Philip, M. S., Kverno, Nelson B., Mitchell, G. Clay, Gysin, H., Morita, M., Mimura, S., Ohi, G., Yagyu, H., Nishizawa, T., Worcester, B. K., Brun, L. J., Doering, E. J., Hiatt, V., Huff, J. E., Pfeffer, J. T., Liebman, J. C., Ray, William, Ramamurthy, V. C., Black, A. H., Coty, A., Kassler, H., Dixon, R. L., Trout, Thomas J., Smith, James L., McWhorter, David B., Rowe, M. C., Quinlan, A. V., Paynter, H. M., Born, D., Roth, D., Wall, G., Schindler, D. W., Frost, P. G. H., Siegfried, W. R., Cooper, J., MacDonald, S., Mason, C. F., Bar, F., Moore, G., Coldrick, John, Selman, P. H., Dempster, J. P., King, M. L., Lakhani, K. H., Evans, G. Clifford, Coote, D. R., Haith, D. A., Zwerman, P. J., Herricks, Edwin E., Shanholtz, Vernon O., Smith, V. K., Johnson, D. Gale, Mitsch, W. J., Fried, Maurice, Tanji, Kenneth K., Van De Pol, Ronald M., Dawson, Allan, Smith, Malcolm, McLaren, Neil, Cooley, James L., Moran, J. W., Witter, L. D., Tomlinson, E. J., Cheremisinoff, Paul N., Holcomb, William F., Hall, J. M., Kerut, E. G., Irico, J., Bower, L. C., Duggan, J. B., Cleasby, J. L., Klein, David H., Andren, Anders W., Bolton, Newell E., Joshi, Ramesh C., Duncan, Donald M., McMaster, Howard M., Russell, George A., Hochstein, Anatoly B., Elgohary, F. A., Brooks, D. J., Brainard, F. S., Ott, W. R., Thorn, G. C., Panicker, N. N., Middleton, A. C., Lawrence, A. W., Hannigan, John T., Post, R. F., Hall, D. G., White, K. E., Shaw, E. M., Sidwick, J. M., Preston, J. R., Nichol, Janet E., Maxwell, Bruce, Watson, M. B., Kammer, W. A., Langley, N. P., Selzer, L. A., Beck, R. L., Munn, Harold C., Peirano, Lawrence E., Cooper, Charles F., Kruger, Paul, Zebroski, E., Levenson, M., Mason, B. J., Rehberger, Glenn W., Field, A. A., Jones, John F., Penner, S. S., Black, Francis M., High, Larry E., Sigsby, John E., Janssens, M., Darns, R., Giebel, J., Dilaj, Michael, Lenard, John F., Beran, D. W., Linden, H. R., Bodle, W. W., Lee, B. S., Vyas, K. C., Golueke, Clarence G., McCurdy, P. H., Hines, W. G., Rickert, D. A., McKenzie, S. W., Bennett, J. P., Goldstein, Elliot, Ragaini, Richard C., Pearl, Richard Howard, Turner, Norma, Miller, Terry L., Noll, Kenneth E., Etzel, James E., Bell, John M., Lindermann, Eckhart G., Lancelot, Charles J., Lane, Dennis D., Stukel, James J., Lee, G. F., Morse, Frederick H., Simmons, Melvin K., Alpert, S. B., Lundberg, R. M., Schmidt, Richard A., Hill, George R., Anspaugh, Lynn R., Harem, F. E., Bielman, K. O., Worth, J. E., Kuester, J. L., Lutes, L., Henten, M. Patricia, Tazieff, Haroun, Patrick, P. K., Baker, Ralph N., Kalhammer, Fritz R., Schneider, Thomas R., Landwehr, J. Maciunas, Deininger, R. A., Rattien, Stephen, Eaton, David, Dezeeuw, R. E., Haney, E. B., Wong, R. B., De Planque Burke, Gail, Siegrist, Robert, Witt, Michael, Boyle, William C., Rickert, David A., Hines, Walter G., McKenzie, Stuart W., Brutsaert, W., Gross, G. W., McGehee, R. M., Hyzer, William G., Mohr, Adolph W., Wildman, S. V., Goldsmith, T. J., Sargent, Frederick O., Brande, Justin H., Work, Jr., Edgar A., Gilmer, David S., Hord, B. Michael, Brooner, William, Baraby, Frank, Snodgrass, W. J., O'Melia, C. R., Rollier, M. A., Kunz, R. G., Giannelli, J. F., Stensel, H. D., Moyer, W. W., Osman, F. P., Campbell, W. J., Wilson, E. M., Freeman, H. M., Hogan, B. J., Dick, R. I., Tangborn, Wendell V., Rasmussen, Lowell A., Ruff, James F., Skinner, Morris M., Winkley, Brian R., Simons, Daryl B., Dorratcague, Dennis E., Lanterman, B. A., Staudenmire, J. H., Fritz, Norman L., Williams, Richard D., Wood, Richard, Huillet, F. D., Muzyka, Ann, Fantasia, John F., Goodman, Joseph M., Anderl, Bernhard, Attmanspacher, Walter, Singh, Vijay P., Peleg, H., Scavia, D., Park, R. A., Niemann, Jr., Bernard J., Bonilla, Xavier A., Bruno, S. Richards, Rose, Richard A., Meyer, Charles F., Tempo, G E, Klumb, D., Maddock, Jr., Thomas, Chermisinoff, Paul N., Bethea, Robert M., Hellman, Thomas M., Laren, Oscar Bud, Leenheer, J. A., Malcolm, R. L., White, W. R., McNamara, John R., Windheim, L. S., Wodder, R. R., Smith, D. D., Mallan, G. M., Titlow, E. I., Peleg, M., Greco, I. R., Gregory, D. P., Pangborn, J. B., Somers, Edward V., Berg, Daniel, Fickett, Arnold P., Larsen, R. I., Heck, W. W., Cochran, Neal P., Ulaby, Fawwaz T., Bush, Thomas F., Cunningham, Ernest R., Nakada, M., Wyndham, H. B., Schulte, Harry F., Serpa, Douglas P., Young, R. L., Spell, J. E., Slu, H. M., Philip, R. H., Jones, E. R., Sprowl, James A., Kohout, Ladislav J., Gaines, Brian R., McCoy, K., Mejer, H., Reutlinger, Shlomo, Lieberman, M. A., LaNier, R., Crampton, C. B., Sabadell, J. Eleonora, Axtmann, Robert C., Josephson, J., Gutierrez, A. P., Regev, U., Summers, C. G., Daniels, A., Bach, W., Mairs, John W., Bengtsson, L., Oleckno, William A., Wildman, W. E., Neja, R. A., Clark, J. K., Larson, Don, Wagner, Frederick W., Durabb, Edwin J., Barnes, H. M., Homolya, J. B., Jacoby, Neil H., Kispert, R. G., Sadek, S. E., Wise, D. L., Nihoul, J. C. J., Foyster, A. M., Gessaman, Paul H., Sisler, Daniel G., Pinkham, C. F. A., Pearson, J. G., MacAdam, W. K., Gribbin, John, Schwartz, Seymour I., Green, F. H. W., Viscomi, B. V., Gray, S. L., McKean, J. R., Usher, M. B., Svestka, Milan, Eckholm, E. P., Johnston, H., Mausel, Paul W., Leivo, Carl Eric, Lewellen, Michael T., Nilles, Jack M., Gray, Paul, Campbell, Thomas C., Wogman, N. A., Bockris, John M., Jenne, E. A., Avotins, Peter, Nelson, D. W., Sommers, L. E., Scott, Frank M., Benz, L. C., Sandoval, F. M., Willis, W. O., Chapman, Peter F., MacDougall, E. B., Peakall, David B., Office of Technology Assessment, and Office of Science and Technology
Published: 1977
Full Text: View/download PDF

21. Toward genomic prediction from genome sequence data and the 1000 bull genomes project

Author: Hayes, B., Anderson, C.L., Daetwyler, H.D., Fries, R., Guldbrandtsen, B., Lund, M., Boichard, D.A., Stothard, P., Veerkamp, R.F., Hulsegge, B., Rocha, D., Tassell, C., Coote, D., Goddard, M.E., and The 1000 Bull Genomes Consortium
Subjects: Research, WIAS, Life Science, Fokkerij en Genomica, Animal Breeding and Genomics, Fokkerij & Genomica, Animal Breeding & Genomics, Onderzoek
Published: 2012

22. Twenty-five years of changes in soil cover on Canadian Chernozemic (Mollisol) soils, and the impact on the risk of soil degradation

Author: Huffman, T., primary, Coote, D. R., additional, and Green, M., additional
Published: 2012
Full Text: View/download PDF

23. The status of land management practices on agricultural land in Canada: Compiled from the 1991 Canada Census of Agriculture

Author: Dumanski, J., Gregorich, L. J., Kirkwood, V., Cann, M. A., Culley, J. L. B., Coote, D. R., and Centre for Land and Biological Resources Research, Agriculture and Agri-Food Canada
Subjects: weed control, land management practices, herbicides, soil erosion, nutrients, tillage practices, manure, fertilizer, insecticides, irrigation, soil
Abstract: In recent years agricultural research has developed field practices that promote soil conservation, but how widely are such practices used in Canada? This question has been difficult to answer because no comprehensive inventory of these practices was available. To remedy this, Agriculture and Agri-Food Canada's Centre for Land and Biological Resources Research and the Prairie Farm Rehabilitation Administration (PFRA) worked with the Agricultural Division of Statistics Canada to design a new land management module for the Canada Census of Agriculture. This module was first introduced in the 1991 Census, and results are presented in this report. The objectives of this report are: to record how agricultural land is used and managed in Canada, to produce a study that will serve as a baseline for all subsequent monitoring of land management practices through the census, and to provide information useful for environmental studies of soil and water quality.
Published: 1994

24. Using 137Cs to investigate net soil erosion at two soil benchmark sites in Quebec

Author: Cao, Y. Z., primary, Coote, D. R., additional, Wang, C., additional, and Nolin, M. C., additional
Published: 1993
Full Text: View/download PDF

25. Short-range variability of fallout 137Cs in an uneroded forest soil

Author: Nolin, M. C., primary, Cao, Y. Z., additional, Coote, D. R., additional, and Wang, C., additional
Published: 1993
Full Text: View/download PDF

26. Unchaining Prometheus: does a caste allocation hypothesis begin to explain the pervasive effects of diagnostic labelling and stigma on service users?

Author: Coote D
Published: 2009

27. Evaluation of a capsulated hydrophilic carrier polymer (the ImmunoCAP) for measurement of specific IgE antibodies

Author: Ewan, P. W., primary and Coote, D., additional
Published: 1990
Full Text: View/download PDF

28. Agriculture and Water Quality in the Canadian Great Lakes Basin: III. Phosphorus

Author: Miller, M. H., Robinson, J. B., Coote, D. R., Spires, A. C., and Draper, D. W.
Abstract: A major objective of the International Joint Commission Pollution from Land Use Activities Reference Group (PLUARG) was to determine the P contribution to the Great Lakes from the various agricultural activities in the basin. In Canada, two approaches were used. The total agricultural contribution was estimated by relating measured P loads at the outlets of 10 representative agricultural watersheds to land characteristics and agricultural activities in the watersheds. In the second approach the P contribution from four sources—runoff from cropland, livestock operations and unimproved land, and erosion of farm streambanks—was estimated from detailed studies of each source. Percent clay in the surface soil and proportion of the area in rowcrop accounted for 85% of the variability in total P unit‐area loads from the agricultural watersheds. Dissolved reactive P unit‐area loads were related to clay content of surface soil and the P added to soils in the watershed (R2= 0.90). The total P load to the Great Lakes from the more than 300 subbasins of the agricultural portion of the Canadian Great Lakes Basin was estimated to be 3,000 t year−1. The source studies indicated that about 70% of this load was attributable to cropland runoff, 20% to livestock operations, and 10% to a combination of runoff from unimproved land and streambank erosion.
Published: 1982
Full Text: View/download PDF

29. Agriculture and Water Quality in the Canadian Great Lakes Basin: I. Representative Agricultural Watersheds

Author: Coote, D. R., Mac Donald, E. M., Dickinson, W. T., Ostry, R. C., and Frank, R.
Abstract: The 1972 U.S.‐Canada Great Lakes Water Quality Agreement established the Pollution from Land Use Activities Reference Group (PLUARG). To meet the objectives of the Pilot Watershed Studies of PLUARG, an approach was developed tbat would allow the quantification of the agricultural component of Great Lakes drainage basin pollution loads. A primary separation of agricultural regions was based on an index of the soil's potential to transfer pollutants to surface and ground water. Agricultural watersheds representative of major soils‐crops‐livestock combinations were monitored and studied. Selection and preliminary monitoring processes led to 11 sites being monitored for 2 years. The areas of the 11 study watersheds ranged from 20 to 79 km2, of which 22–89% was cultivated, and 0–99% tile‐drained. Row‐cropped laud, which occupied 10–66% of the watershed areas, was strongly correlated with tile‐drained area and fertilizer use. Mean surface‐soil clay contents ranged from 7 to 36%. Livestock densities were negligible in some watersheds, but were up to 0.77 animal units ha−1in others. Mean precipitation and stream discharge during the study period were approximately 9 and 26% higher, respectively, than expected from long‐term means. The proportion of annual precipitation occurring in the January–April period averaged 32%, while approximately 65% of the stream discharge was measured during these 4 months. Intensive flow‐related stream sampling and chemical analyses revealed that the watersheds yielded a wide range of nutrient, sediment, and pesticide loadings to Great Lakes tributaries. The subsequent papers in this series discuss these results and their significance to water quality in the Great Lakes Basin.
Published: 1982
Full Text: View/download PDF

30. A PROPOSED METHODOLOGY FOR ASSESSING THE RELATIVE IMPACT OF ACID RAIN AND NITROGEN FERTILIZERS ON ACIDITY OF AGRICULTURAL SOILS IN CANADA

Author: COOTE, D. R., SINGH, S. SHAH, and WANG, C.
Abstract: Acid rain and N fertilizers both contribute to soil acidity, but no method has been available to compare their relative impacts. A simple model (SOLACID) is presented to assess quantitatively the acidifying effects of precipitation and N fertilizers on agricultural soils. Acid rain has been treated as a dilute solution of NH4NO3, (NH4)2SO4and associated acids. Soil and plant pathways are considered for , and by way of leaching, gaseous losses from microbial reduction, plant uptake and removal, and organic immobilization and mineralization. Leaching of was the factor to which the model was most sensitive. A relationship between base saturation and base cation leaching is described. Field data reported from 21 treatments at six experimental sites were used to test the model, which provided reliable estimates of final pH (r2 = 0.92**) and of changes in base saturation (r2 = 0.86**). Compared with previously published methods, the model provided the best estimates of lime requirements as computed from field measurements (r2 = 0.87**). Key words: Ammonia, sulfate, leaching, nitrification
Published: 1989
Full Text: View/download PDF

31. SEASONAL VARIATION OF ERODIBILITY INDICES BASED ON SHEAR STRENGTH AND AGGREGATE STABILITY IN SOME ONTARIO SOILS

Author: COOTE, D. R., MALCOLM-McGOVERN, C. A., WALL, G. J., DICKINSON, W. T., and RUDRA, R. P.
Abstract: Soil-erodibility indices were investigated in two regions of Ontario to evaluate their seasonal variation and differences between soil types. Shear strength and water-stable aggregates >0.5 mm were strongly negatively correlated with gravimetric soil water content for a Guelph sandy loam soil in southwestern Ontario. Similar variation of shear strength was estimated in three other southwestern Ontario surface soils as a result of seasonal changes in moisture content. Shear strength and aggregate stability increased as four eastern Ontario soils, ranging in texture from loamy sand to clay, dried and warmed following spring thaw. Laboratory incubation at constant temperature and water content showed that shear strength increased in two fine-textured soils with increasing degree days but changed very little in two coarse-textured soils. At the point-of-thaw in the field, all of the eastern Ontario soils exhibited very high values of the indices 1/shear strength and 1/aggregate stability, averaging approximately 15 times those of early July. During spring fallow and seed-bed to 10% canopy periods, the mean values of these indices were 3.7 and 1.4 times, respectively, those in early July. For winter-thaw conditions in the three southwestern Ontario soils, the index 1/shear strength averaged 17 times greater than in the summer. Spring values of this index averaged approximately twice those of summer. Results suggest that Ontario soils are much more susceptible to erosion under thaw and spring conditions than later during the growing season. Soil water content and soil warming may affect the re-establishment of resistance to erosion in soils rendered erodible by freezing, thawing, and saturation. Key words: Erodibility, shear strength, aggregate stability
Published: 1988
Full Text: View/download PDF

32. SEASONAL SOIL ERODIBILITY VARIATION IN SOUTHWESTERN ONTARIO

Author: WALL, G. J., DICKINSON, W. T., RUDRA, R. P., and COOTE, D. R.
Abstract: A study was conducted to evaluate the potential seasonal variation in soil erodibility (K) for selected soils of southwestern Ontario. Field-plot data, laboratory flume/rainfall-simulator studies, and a K-factor prediction equation were used to assess the potential magnitude of the seasonal variation of soil erodibility. Field-plot studies for a Guelph loam soil revealed that values were highest in the winter-spring thaw period (March) with a ratio of Kseasonal to Kannual (Kc) of 10. Laboratory flume and rainfall simulations with Fox sand, Haldimand silty clay, and Colwood silt loam soils were conducted with soil moisture and internal drainage varied to simulate seasonal conditions. The results corresponded with those observed in the field study, with highest Kvalues occurring under simulated winter-spring thaw conditions (values of Kc =.4 – 4.0) and lowest values under simulated summer conditions (Kc < 1). Seasonal Kvalues were computed with a prediction equation for 17 soil textural classes. Soil structure and permeability parameters of the prediction equation were modified to reflect seasonal variability in these properties. The predicted Kcvalues were highest for the winter-spring thaw period and approximately equal for the spring and summer periods. Results indicate that soil erodibility varies significantly with seasonal soil conditions and the magnitude of seasonal differences changes with soil textures. Key words: Soil erodibility, field-plot erosion data, rainfall simulation, runoff flume
Published: 1988
Full Text: View/download PDF

33. An assessment of the degradation of agricultural lands in Canada

Author: Coote, D. R., Dumanski, J., Ramsey, J. F., and Land Resource Research Institute
Subjects: soil compaction, landslides, soil erosion, soil organic matter, soil salinization, water, wind, drainage systems, soil acidification, soil mixing, soil contamination
Abstract: This monograph presents a general qualitative assessment of the kind, location and extent of land degradation in the agricultural regions of Canada. In so doing it establishes an information base from which to consider research needs and priorities related to the quantitative assessment of soil deterioration across the country and the development of land management techniques for combatting it. "Land degradation" is considered to be the process or processes of deterioration of soil edaphic qualities relative to their natural or most productive previous state.
Published: 1981

34. Final report - Project 1B, Agricultural Watershed Studies

Author: Coote, D. R., DeHaan, R., Land Resource Research Institute, and Engineering and Statistical Research Service, Agriculture Canada
Subjects: watershed characteristics, water quality, watershed, agriculture
Abstract: The subject of this report is the "overview" analysis of the monitoring data collected during the 1975-1977 intensive study phase of the Agricultural Watershed Studies. The report outlines the methodology and rational for the selection of suitable monitoring sites, the methods used for water quality and quantity data acquisition, the estimation of watershed characteristics, and the statistical analyses of the variance within the data sets. Finally, some conclusions are drawn which are applied to an extrapolation model which attempts to determine areas of the lower Canadian Great Lakes Basin which fall into selected ranges of pollutant contribution rates to streams. Research Branch, Agriculture Canada Ontario Ministry of Agriculture and Food Ontario Ministry of the Environment
Published: 1978

35. Agricultural Watershed Studies Project 21 - Final report

Author: Coote, D. R., Hore, F. R., Land Resource Research Institute, Agriculture Canada, and Engineering and Statistical Research Service, Agriculture Canada
Subjects: remedial measures, contamination, groundwater, pollution, runoff, water quality, watershed, agriculture, feedlot
Abstract: This report covers the period from the fall of 1973 to the summer of 1977 during which time a variety of research and monitoring activities were taking place under the auspices of the I.J.C. Pollution from Land Use Activities Reference Group (PLUARG), Task C, Agricultural Watershed Studies. Two distinct studies were undertaken on the topic of the environmental impact of feedlots and manure storages. They were carried out consecutively, the first was concerned with surface water, the second with groundwater. The reports of these two studies are presented in this volume as two separate sections. Only the discussion of implications for remedial measures and the list of references are common to the two studies, and these appear at the end of the document.
Published: 1978

36. Agricultural Watersheds Overview: Data Analysis and Extrapolation: Final Report, Project 1B, Agricultural Watershed Studies, Task Group C, Canadian Section, Activity 1

Author: International Reference Group on Great Lakes Pollution from Land Use Activities, Canada. Department of Agriculture, Coote, D. R., and DeHaan, R.
Published: 1978

37. Pollution Potential of Cattle Feedlots and Manure Storages in the Canadian Great Lakes Basin: Agricultural Watershed Studies, Project 21: Final Report

Author: International Reference Group on Great Lakes Pollution from Land Use Activities, Canada. Department of Agriculture, Coote, D. R., and Hore, F. R.
Published: 1978

38. Pilot watershed studies - Summary report

Author: Chesters, Gordon, Robinson, John, Stiefel, Robert, Ostry, Robert, Bahr, Thomas, Coote, D. Richard, Whitt, Darnell M., University of Wisconsin, University of Guelph, Ohio State University, Ontario Ministry of the Environment, Michigan State University, Agriculture Canada, and Great Lakes Regional Office, International Joint Commission
Subjects: loading, transport, remediation, land use, pollutant, water quality, watershed
Abstract: Pilot watershed studies were undertaken in six major drainage basins in the Great Lakes basin, in eleven smaller agricultural watersheds in southern Ontario, in one forested watershed area in northern Ontario, west of the Lake Superior basin, and at a few other locations where specific sources of contaminants were evaluated. The pilot watersheds were selected to represent major land use activities, geology, and climatic conditions. Studies were undertaken to determine contaminants being produced from urban, agricultural, and forested land uses and special land-use activities such as orchards, private waste disposal systems, and spray irrigation of municipal sewage effluents. In addition, investigations into the effects of streambank erosion on water quality were conducted in each country. The results of studies of particular land uses and management practices, and pollutant generation, transport and reaction processes are contained in detailed reports by individual investigators or groups of investigators. They are published in either the PLUARG technical report series or as reports of the funding agencies. Combined, they provide a wealth of information on diffuse sources of pollutants and the processes affecting them. To strengthen co-ordination and provide a means for reviewing the major results from the watershed studies, Task C established a Synthesis and Extrapolation Work Group (SEWG) in 1976. The members of the Synthesis and Extrapolation Work Group, supported by the efforts of several investigators who accepted the task of integrating results on agricultural sources of pollutants, prepared this Task C Summary Report. It highlights the findings, shows the range of effects and causes of variations in pollutant loadings, and provides maps showing the results of extrapolation of loading information for suspended sediment, total phosphorus, and total nitrogen contributed by agricultural and urban land uses. In the report, they describe other contaminants such as organic toxicants, metals, and micro-organisms and go on to present principles, factors and practices needed in considering and implementing remedial and preventative measures to reduce diffuse sources of pollutants. Unit area loadings derived for the major land uses and an evaluation of the factors which influence these loads were used in developing the priority management concept discussed in the PLUARG Final Report.
Published: 1978

39. Agricultural practices and environmental conservation

Author: Switzer-Howse, K. D., Coote, D. R., and Land Resource Research Institute
Subjects: water pollution, soil degradation, soil pollution, air pollution, conservation, agriculture
Abstract: Land used for agriculture makes up one of the largest environmental units managed in Canada today. New technology and genetic improvements to plants and animals have increased farm productivity dramatically over the past three decades. Land management is the main factor that often determines whether the environmental effects of agriculture are positive or negative. Little attention has been paid to the possible environmental consequences of many newly developed, intensified farming activities. Land deterioration and the resulting environmental problems may be difficult to recognize on individual farms because the processes involved are so widely distributed and insidious. When problems are recognized, many people are unaware that anything can be done to rectify them. The agricultural community should take precautions to protect the environment from any degradation arising from its activities. Farmers should act on their own behalf and develop an understanding of the impact that various farming practices can have on the environment. This publication is intended as an introduction to the subject, and readers are encouraged to seek more detailed information related to their own situations from regional specialists. Some agricultural practices can cause water and air pollution and the deterioration of the land. Of these three problems, by far the most well documented is how agriculture can affect water quality. Water pollution is therefore dealt with here in more detail than are the other two topics.
Published: 1984

40. A preliminary economic assessment of agricultural land degradation in Atlantic and Central Canada and Southern British Columbia

Author: Fox, M. G., Coote, D. R., Dumanski, J., Hamilton, D., Huffman, E., Lok, C., Shields, J. A., Switzer-Howse, K. D., van Vliet, L. J. P., The Development Consulting House, Land Resource Research Institute, Research Branch, Agriculture Canada, Central Experiment Farm, and Regional Development Branch Agriculture Canada
Subjects: economic impact, soil compaction, soil degradation, acidification, structural deterioration, farm, farm level impacts
Abstract: The purpose of this study was to make preliminary estimates of the on-farm and off-farm costs of agricultural land degradation in Atlantic and Central Canada, and British Columbia excluding the Peace Region. The types of degradation examined are water erosion, wind erosion, acidity and soil compaction. The main costs which are estimated are the values of crop yield reductions, added inputs (fertilizers, pesticides, etc.) required to offset physical losses, and reduced crop quality. An attempt is also made to quantify the off- farm damage from agricultural land degradation in the study area. The study was carried out in two parts. The first consisted of a procedure to estimate the location, area and severity of erosion, acidification and compaction within 16 subregions of the study area. Newfoundland, Nova Scotia and Prince Edward Island were each treated as separate subregions. Two subregions were created for New Brunswick , three each for Quebec and British Columbia, and five for Ontario. A large electronic data base of physical soil characteristics and land use in the study area was compiled to which standard 'models' of the degradation processes, expected to be operative in the study area, were applied. This exercise yielded the likely extent, location and severity of degradation in the subregions. The second part consisted of estimating crop yield reductions and other economic costs of soil degradation under each type and class of degradation in each subregion. These estimates were obtained by analysing the opinions of a select group of experts in the provinces covered by the study. Questionnaires, group consensus meetings and telephone follow-ups were employed.
Published: 1986

41. INFLUENCE OF HERBICIDE USE AND INTER-ROW TILLAGE ON CORN YIELDS AND SOIL CONDITIONS

Author: COOTE, D. R., primary and SAIDAK, W. J., additional
Published: 1984
Full Text: View/download PDF

42. QUANTIFICATION OF THE EFFECTS OF OVER 35 YEARS OF INTENSIVE CULTIVATION ON FOUR SOILS

Author: COOTE, D. R., primary and RAMSEY, J. F., additional
Published: 1983
Full Text: View/download PDF

43. Pollution from land runoff

Author: Sonzogni, William C., primary, Chesters, G., additional, Coote, D. R., additional, Jeffs, D. N., additional, Konrad, J. C., additional, Ostry, R. C., additional, and Robinson, J. B., additional
Published: 1980
Full Text: View/download PDF

44. CONTAMINATION OF SHALLOW GROUNDWATER BY AN UNPAVED FEEDLOT

Author: COOTE, D. R., primary and HORE, F. R., additional
Published: 1979
Full Text: View/download PDF

45. A Conveniently Constructed Divisor for Splitting Low Water Flows

Author: Coote, D. R., primary and Zwerman, P. J., additional
Published: 1972
Full Text: View/download PDF

46. Agriculture and Water Quality in the Canadian Great Lakes Basin: I. Representative Agricultural Watersheds

Author: Frank, R., Dickinson, W. T., Coote, D. R., MacDonald, E. M., and Ostry, R. C.
Subjects: AGRICULTURE, WATERSHEDS, WATER quality
Published: 1982
Full Text: View/download PDF

47. IJC 196: Coote, D. R. et al. Agricultural Land Uses. Livestock And Soils Of The Canadian Great Lakes Basin (South Of Latitude 45 Degrees N): A Report Of The Activities Of The Engineering Research Service And The Soil Research Institute As Part Of Agriculture Canada's Contribution To The Implementation Of The Great Lakes Water Quality Agreement. 1973-1974. Prepared in part for PLUARG, Task Group C (Canadian Section). (PLUARG 74-086) June 1974.

Author: MacDonald, E. M., author, Coote, D. R., author, Wall, G. J., author, and MacDonald, E. M., author

48. IJC 185: Coote, D. R. and F. R. Hore. Pollution Potential Of Cattle Feedlots And Manure Storages In The Canadian Great Lakes Basin: Part I--Runoff Characteristics And Pollution Potential; Part II--Groundwater Contamination From An Unpaved Feedlot Submitted to PLUARG Task Group C (Canadian Section), Project 21. (PLUARG 78-072) (Windsor, Ontario): August 1978.

Author: Hore, F. R., author, Coote, D. R., author, and Hore, F. R., author

49. IJC 219: Coote, D. R., et al. Detailed Plan For The Study Of Agricultural Watersheds In The Great Lakes Drainage Basin: Canada. 1974-1975. Prepared by PLUARG Task Group C (Canadian Section) Technical Committee, Agricultural Subcommittee. (PLUARG 74-118) February 1974.

Author: (1943), M. Wrubleski, author, MacDonald, E. M., author, Frank, R., author, Dickinson, W. T., author, Coote, D. R., author, and (1943), M. Wrubleski, author

50. IJC 186: Coote, D. R. and R. DeHaan. Agricultural Watersheds Overview: Data Analysis And Extrapolation. Submitted to PLUARG Task Group C (Canadian Section), Activity I, Project IB. (PLUARG 78-073) (Windsor, Ontario?): December 1978.

Author: (1930), Robert L. DeHaan, author, Coote, D. R., author, and (1930), Robert L. DeHaan, author

Catalog

Books, media, physical & digital resources

See catalog results

Searchworks

Select search scope, currently: Articles Catalog books, media & more in Jio Institute collections Articles journal articles & other e-resources

Search

Search Constraints

Refine your results

Search Limiters

Topic

Publication Year Range

Language

Publication Type

Journal

Region

Database

Publisher

94 results on '"Coote D"'

Search Results

Catalog

Select search scope, currently: Articles

Catalog

books, media & more in Jio Institute collections

Articles

journal articles & other e-resources