Results 41 to 50 of about 2,069,635 (294)

B-assembler: a circular bacterial genome assembler

BMC Genomics, 2022
Background Accurate bacteria genome de novo assembly is fundamental to understand the evolution and pathogenesis of new bacteria species. The advent and popularity of Third-Generation Sequencing (TGS) enables assembly of bacteria genomes at an ...
Fengyuan Huang, Li Xiao, Min Gao, Ethan J. Vallely, Kevin Dybvig, T. Prescott Atkinson, Ken B. Waites, Zechen Chong   +7 more
doaj   +1 more source

CRISPR/FnCas12a-mediated efficient multiplex and iterative genome editing in bacterial plant pathogens without donor DNA templates.

PLoS Pathogens, 2023
CRISPR-based genome editing technology is revolutionizing prokaryotic research, but it has been rarely studied in bacterial plant pathogens. Here, we have developed a targeted genome editing method with no requirement of donor templates for convenient ...
Fang Yan, Jingwen Wang, Sujie Zhang, Zhenwan Lu, Shaofang Li, Zhiyuan Ji, Congfeng Song, Gongyou Chen, Jin Xu, Jie Feng, Xueping Zhou, Huanbin Zhou   +11 more
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Assembling the perfect bacterial genome using Oxford Nanopore and Illumina sequencing.

PLoS Computational Biology, 2023
A perfect bacterial genome assembly is one where the assembled sequence is an exact match for the organism's genome-each replicon sequence is complete and contains no errors. While this has been difficult to achieve in the past, improvements in long-read
Ryan R Wick, Louise M Judd, Kathryn E Holt   +2 more
doaj   +2 more sources

Extra-Chromosomal DNA Sequencing Reveals Episomal Prophages Capable of Impacting Virulence Factor Expression in Staphylococcus aureus

Frontiers in Microbiology, 2018
Staphylococcus aureus is a major human pathogen with well-characterized bacteriophage contributions to its virulence potential. Recently, we identified plasmidial and episomal prophages in S.
Douglas R. Deutsch, Bryan Utter, Kathleen J. Verratti, Heike Sichtig, Luke J. Tallon, Vincent A. Fischetti   +5 more
doaj   +1 more source

Defining bacterial species in the genomic era : insights from the genus Acinetobacter [PDF]

, 2012
Background: Microbial taxonomy remains a conservative discipline, relying on phenotypic information derived from growth in pure culture and techniques that are time-consuming and difficult to standardize, particularly when compared to the ease of modern
Loman, Nicholas J, Chan, Jacqueline, Nicholas J Loman, Chan, Jacqueline Z-m, Constantinidou, Chrystala, Loman Nicholas J, Halachev, Mihail R, Pallen, Mark J, Pallen, Mark J., Halachev Mihail R, Mihail R Halachev, Loman, Nicholas J., Pallen Mark J, Halachev, Mihail R., Jacqueline Z-M Chan, Chrystala Constantinidou, Chan Jacqueline Z-M, Constantinidou Chrystala, Mark J Pallen   +18 more
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The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081. [PDF]

, 2006
The human enteropathogen, Yersinia enterocolitica, is a significant link in the range of Yersinia pathologies extending from mild gastroenteritis to bubonic plague.
Maddison, Mark, Abdellah, Zahra, Quail, Michael A, Dougan, Gordon, Howard, Sarah, Wren, Brendan W, Parkhill, Julian, Mungall, Karen, Chillingworth, Tracey, Moule, Sharon, Holden, Matthew TG, Challis, Gregory L, Sanders, Mandy, Prentice, Michael B, Churcher, Carol, Thomson, Nicholas R, Whitehead, Sally, Brooks, Karen, Jagels, Kay, Feltwell, Theresa, Crossman, Lisa, Hauser, Heidi   +21 more
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Genome sequence of the pea aphid Acyrthosiphon pisum [PDF]

, 2010
Aphids are important agricultural pests and also biological models for studies of insect-plant interactions, symbiosis, virus vectoring, and the developmental causes of extreme phenotypic plasticity.
Fenton, Brian, Schneider, M., Nazareth, LV, Smagghe, G., Eisen, Jonathan A., Hilgarth, RS, Hlavina, W., Gordon, K., Christiaens, Olivier, Moen, C., Jiang, H., Williamson, Michael, Vellozo, A, Altincicek, B, Gilbert, Don, Cortes, T, Wright, Rita A., Bickel, Ryan D, Aguilar, J, Wilson, Alex CC, Dang, P.M., Davis, G.K., Brault, V, Hilgarth, Roland S., Lu, Hsiao-Ling, Patel, BM, Vilcinskas, A, Parker, Ben J., Gerardo, Nicole M, Chacko, Joseph, The International Aphid Genomics Consortium, Duncan, Elizabeth J, Evans, J, Davies, T. G. E., Chen, H.-C., Fitzroy, Carol I. J., Monsion, Baptiste, Seah, S., Butts, Thomas, Anselme, C, Hurwitz, B., Robertson, Hugh M, Wilson, Megan, Pechuan, X., Rahbe, Yvan, Dombrovsky, A., Cass, Bodil, Pérez-Brocal, V., Carolan, J.C., Miyagishima, S-Y, Ollivier, M., Leonardo, Teresa, Wilson, M, Jones, D.H., Futami, R, Kushlan, P.F., Zhang, Jingkun, Gabisi, R.A., Douglas, AE, Price, D.R.G., Lu, H.-L., Gatehouse, John A., Price, Daniel R.G., Hauser, F, Ortiz-Rivas, Benjamin, Richards, S, He, X-L, Collin, O., Chandrabose, Mimi N, Thibaud-Nissen, Françoise Françoise, Futami, R., Chen, H-C, Pechuan, X, et al., Joshi, V, Tamborindeguy, Cecilia, Kamins, A, Ollivier, Morgane, Smith, J., Kiryutin, B, Collin, Olivier, Atsushi, Nakabachi, Huerta-Cepas, Jaime, Dinh, HH, Schwartz, Julia, Kaloshian, I., Ishikawa, Asano, Sattelle, D., Smagghe, G, Vieira, Filipe G, Dang, Phat M., van der Zee, Maurijn, Gilbert, D, Veenstra, Jan A., Fowler, Gerald R, Ermolaeva, O., Lee, SL, Tamames, J., Walsh, T.K., de Vos, Martin, Evans, Jay, Legeai, F, Ashton, Peter D., Gabisi, RA, Hlavina, W, Moen, Charles, Hunnicutt, L., Jaubert-Possamai, S, Kamins, A., Barribeau, Seth M., Hedges, D, Heckel, David G., Lozado, Ryan J, Liu, Y-S, Diaz, J, Nikoh, N, Singh, K, Zhou, J-J, Hilgarth, R.S., Wilson, Alexandra, Souvorov, Alexandre, Hume, J, Tamarit, Daniel,, Stafflinger, E, Colella, S., Stanke, M, Huerta-Cepas, J., Consortium, The International Aphid Genomics, Davies, TG Emyr, Wilson, ACC, Huerta-Cepas, J, Williams Jr., R.L., Kosarev, P., Miyagishima, Shin-ya, Nakabachi, A., Christiaens, O, Rispe, C., Singh, Karam, Davies, TGE, Lewis, Lora R., Dinh, H.H., Camara, F, Schwartz, J., Barribeau, S.M., Ishikawa, A, Gauthier, Jean Pierre, Caillaud, Marina, Ren, Q., Rozas, Julio, Muzny, D, Cass, B, Monsion, B, Parker, BJ, Mariotti, M., Leonardo, T., Douglas, Angela, Muzny, Donna, Srinivasan, Dayalan, Gerardo, NM, Reeck, Gerald R, Sagot, MF, Campbell, Peter, Jaubert-Possamai, S., Hunnicutt, Laura, Hitchens, Matthew E, Kamphuis, Lars G., Miura, T, Wilson, Alex C. C., Davis, Gregory K., Gabaldon, Toni, Ermolaeva, O, Vattathil, Selina, Davies, T G Emyr, Joshi, V., Ju, Ho-Jong, Field, Linda M, Schneider, Martina, Carolan, James C, Price, Daniel RG, Cortes, Teresa, Reardon, Karen T., Brisson, J.A., Morioka, M., Velarde, R., Williamson, Martin S, Moya, A., Charles, Hubert, Moya, A, Kapustin, Yuri, Pruitt, K., Heckel, David G, Santibanez, Jireh, Field, Linda M., Fowler, GR, Lee, Sandra L., Chacko, J, Chandrabose, M.N., Huybrechts, Jurgen, Hansen, Karina K, Robertson, HM, Parker, Ben J, Fitzroy, Carol I.J., Zhou, Jing-Jiang, Jr, WRL, Vincent-Monegat, Carole, Miura, T., Câmara, F., Smith, James, Macdonald, S., Heckel, D.G., Muzny, D., Cree, A, Iga, M, Chacko, J., Hunter, W, Cree, Andy, Jiang, H, Wilkinson, T.L., Gauthier, Jean-Pierre, Pechuan, Ximo, Kudo, Toshiaki, Grimmelikhuijzen, C.J.P., Morioka, M, Robertson, H.M., Kamphuis, L.G., Morioka, Mizue, Thomas, G., Tagu, Denis, Hitchens, Matthew E., Degnan, P, Van Der Zee, M., Barribeau, Seth M, Kaloshian, Isgouhi, Atamian, H., Gatehouse, John A, Stafflinger, E., Schneider, M, Alioto, T, Tamborindeguy, C, Maglott, Donna, Hines, S., Vilcinskas, A., Williamson, M.S., Lewis, Lora R, Marcet-Houben, M, Solovyev, V., Duncan, EJ, Wolstenholme, A, Maglott, D, Guigó, R., Martinez-Torres, D, Rider, Stanley Dean, Duncan, E., Hansen, Karina K., Gerardo, Nicole M., Lozado, Ryan J., Morgan, Margaret B., Dale, RP, Price, Daniel R. G., Ermolaeva, Olga, Murphy, T, Hedges, Dale, Jiang, Huaiyang, Rispe, Claude, Chavez, D, Dale, R.P., Gauthier, J-P, Vieira, F.G., Heddi, Abdelaziz, Miyagishima, S.-Y., Martinez-Torres, David, Kaloshian, I, Nikoh, Naruo, Stanke, Mario, International Aphid Genomics Consortium, Vos, Martin, De, Kiryutin, B., Lozado, RJ, Davies, T. G. Emyr, Field, L.M., Ferrier, David, Dinh, Huyen H, Legeai, F., Jhangian, Shalini N., Wright, R.A., Fitzroy, CIJ, Hume, J., Ren, Q, de Vos, M, Wilkinson, TL, Ortiz-Rivas, B., Carolan, JC, Walsh, TK, McCutcheon, John P., Pruitt, K, Pruitt, Kim, Okwuonu, Geoffrey O, Caillaud, M, Heckel, D., Bickel, R.D., Thomas, G, Chen, Hsiu Chuan, Ghanim, M, Gabisi, Ramatu Ayiesha, Ashton, Peter D, Fenton, B, Robertson, Hugh M., Heckel, DG, Sagot, Marie France, Burke, G., Colella, S, Jones, A., Tamarit, D., Gordon, K, Atamian, H, Altincicek, B., Thibaud-Nissen, F., Koga, R., Duncan, Elizabeth, van Fleet, Eric, Anselme, Caroline, Williams, Rex L., Hansen, KK, Joshi, Vandita, Patel, B.M., Fitzroy, C.I.J., Brault, Veronique, Williamson, Martin S., Rizk, Guillaume, Kushlan, Philip F, Ramsey, J, Latorre, A., Pu, L.-L., Camara, Francisco, Butts, T., Liu, Y.-S., Williamson, MS, Cottret, Ludovic, Price, DRG, Smith, J, Burke, Gaelen, Zhou, Jing Jiang, Cazzamali, G., Reardon, Karen T, Hansen, K.K., Alioto, T., Cazzamali, Giuseppe, Abdel-latief, Mohatmed, Wilson, M., Permal, E., Williamson, M., Wilson, A.C.C., Janssen, R., Hines, Sandra, Stafflinger, Elisabeth, Hunter, W., Permal, E, Nazareth, L.V., McCutcheon, John P, Moran, Nancy A, Brault, V., Velarde, R, Chavez, D., Fenton, B., Lozado, R.J., Llorens, Carlos, Jones, DH, Dang, Phat M, Ashton, PD, Nazareth, Lynne V, McGregor, A, Jones, Andrew, Williamson, S, Dao, Marvin Diep, Gauthier, J.-P., Lavenier, D., Dearden, Peter, Price, Daniel R G, Pu, Ling-Ling, Nguyen, Ngoc Bich, Ashton, P., Nicolas, Jacques, Jones, A, Rizk, G., Williamson, M, Thomas, Gavin, Morgan, MB, Edwards, Owain R., Channels, Ion, Campbell, P., Huybrechts, J, Reeck, GR, Jhangian, SN, Vattathil, S, Kosarev, P, Williamson, S., Morgan, M.B., Perez-Brocal, Vicente, Christiaens, O., Huang, W., Hedges, D., Jhangian, S.N., Moen, C, Hurwitz, B, Reeck, G.R., Permal, Emmanuelle, Spragg, Chelsea J., Llorens, C., Kapustin, Y, Pu, L-L, Gabaldon, T, Davis, GK, Grimmelikhuijzen, Cornelis J. P., Vieira, Filipe G., Gerardo, N.M., Gordon, Karl, Brisson, Jennifer A., Williamson, Sally, Charles, H, Seah, S, Zhang, Lan, Fowler, Gerald R., Hitchens, ME, Zee, Maurijn, Van Der, Srinivasan, D., Chavez, Dean, Douglas, A, Ruiz, San Juana, Liu, R, Kapustin, Y., Santibanez, J, Jr, RSD, Walsh, Thomas K, Willson, Alex C.C., Dao, M.D., Huang, Wenting, Edwards, OR, Chang, C.-C., Lewis, L.R., van der Zee, M, Douglas, A.E., McCutcheon, JP, Wilkinson, Thomas L., Parker, B.J., Lu, H-L, Murphy, T., Stanke, M., Kitts, P, Jander, G., Zhang, L, Rider, Stanley Dean, Jr., Zhang, J, Mariotti, M, Bell, S.N., Marcet-Houben, Marina, Dearden, P, Duncan, E.J., Chen, Hsiu-Chuan, Macdonald, Sandy, Janssen, R, Fukatsu, Takema, Gibbs, Richard A, Worley, K.C., Reeck, Gerald R., Rispe, C, Dao, MD, Diaz, J., Stern, David, Moya, Andres, Febvay, Gerard, Shigenobu, S, Okwuonu, GO, Macdonald, S, Reardon, KT, van Fleet, E, Shigenobu, Shuji, Cortés, T., Legeai, Fabrice, Latorre, Amparo, Atamian, Hagop, Ramsey, John, Fukatsu, T, Steffen, David, Jones, Derek H., Bell, Stephanie N, Jones, Derek H, Spragg, Chelsea J, He, Xiao Li, Richards, S., Huang, W, Gabaldón, T., Velarde, Rodrigo, Sagot, Marie-France, Tagu, D., Quesneville, H, Veenstra, JA, Miura, Toru, Febvay, G., Janssen, Ralf, Nicolas, J, Johnson, A.J., Butts, T, Ferrier, D., Febvay, G, Jhangian, Shalini N, Nakabachi, A, Hauser, F., Kamphuis, Lars G, Vellozo, A., Cass, B., Bell, Stephanie N., Hunter, Wayne, Vilcinskas, Andreas, He, X.-L., Santibanez, J., Int Aphid Genomics Consortium, Rozas Liras, Julio A., McGregor, Alistair, Kitts, Paul, Calevro, F., Ju, H.-J., Chang, Chun Che, Latorre, A, Field, L. M., Smadja, C., Dearden, P., Moran, Nancy A., Grimmelikhuijzen, Cornelis J.P., Aguilar, J., Bickel, Ryan D., Lewis, LR, Kudo, T, Hurwitz, Bonnie, Wright, Rita A, Duncan, Elizabeth J., Zhou, J.-J., Alioto, Tyler, Smagghe, Guy, Collin, O, Kushlan, Philip F., Ortiz-Rivas, B, Anselme, C., Abdel-latief, M, Kiryutin, Boris, Rahbe, Y, Robichon, A., Colella, Stefano, Iga, M., Gibbs, R.A., Okwuonu, Geoffrey O., Huybrechts, J., Hines, S, Hitchens, M.E., Veenstra, J.A., Heddi, A., Nguyen, N.B., Ashton, P, Chang, C-C, , International Aphid Genomics Consortium, Okwuonu, G.O., Kovar, Christie, Barribeau, Seth, Wolstenholme, A., Kosarev, Peter, Davis, Clay, Tagu, D, Tamborindeguy, C., Liu, Yih-shin, Wilson, Alex C.C., Fleet, Eric, Van, Sapojnikov, V., Jaubert-Possamai, Stephanie, Zhou, J-J., Sattelle, David, Hunnicutt, L, Nakabachi, Atsushi, Dombrovsky, Aviv, Tamarit, Daniel, Ollivier, M, Monsion, B., Quesneville, Hadi, Nguyen, NB, Murphy, Terence, Koga, R, Dinh, Huyen H., Ren, Qinghu, Rahbé, Y., Reeck, Gerald, Cree, A., Diaz, Jason, Pignatelli, Miguel, Dang, PM, Gibbs, RA, Ferrier, D, Spragg, C.J., Edwards, O.R., Wilson, Alex C C, Ramsey, J., Degnan, Patrick, Sapojnikov, Victor, Jaubert, Stéphanie, Gibbs, Richard A., Nazareth, Lynne V., Hume, Jennifer, Srinivasan, D, Bickel, RD, Calevro, Federica, Guigo, Roderic, Richards, Stephen, Pu, Ling Ling, Smadja, C, Campbell, P, Chandrabose, Mimi N., Brisson, Jennifer A, Grimmelikhuijzen, Cornelis JP, Tamames, J, Lavenier, Dominique, Morgan, Margaret B, Rider Jr., Stanley Dean, Ashton, Peter, Davis, C, Chang, Chun-che, Smadja, Carole, Warren, J.T., Cottret, L., Gatehouse, JA, Guigo, R, Solovyev, Victor, Robichon, A, Jander, Georg, Robichon, Alain, Heddi, A, Calevro, F, Mariotti, Marco, Vincent-Monegat, C., Gerado, N., Aguilar, Jose, Consortium, IAG, Worley, Kim C., Williams, Rex L Jr, Janssen, Ralf,, Lee, S.L., Walsh, Thomas K., Ruiz, SJ, Kamphuis, LG, Kovar, C., Ishikawa, A., Iga, Masatoshi, Hlavina, Wratko, Kushlan, PF, Thibaud-Nissen, Francoise, Singh, K., Quesneville, H., Johnson, AJ, Spragg, CJ, He, X-L., De Vos, M., Duncan, E, Miyagishima, Shin Ya, Kudo, T., Lopez, J, Koga, Ryuichi, Warren, James T, Rozas, J., Liu, Renhu, Steffen, D, Souvorov, A, Nikoh, N., Rider, Stanley Dean Jr, Kovar, C, Liu, R., Vincent-Monegat, C, Field, LM, Vattathil, S., Wright, RA, Kamins, Alexandra, Fowler, G.R., Llorens, C, Evans, J., Lu, Hsiao Ling, Edwards, Owain R, Veenstra, Jan A, Ju, H-J, Ghanim, M., Worley, KC, Warren, James T., Wolstenholme, Adrian, Stern, D, Jander, G, Sapojnikov, V, Ruiz, S.J., Nicolas, J., Warren, JT, Williams, Rex L., Jr., Marcet-Houben, M., Williams, Rex L, Grimmelikhuijzen, CJP, Schwartz, J, Bell, SN, Caillaud, M., Sagot, M.F., Vellozo, Augusto, Burke, G, Fitzroy, Carol IJ, Abdel-Latief, M., Zhang, J., Rizk, G, Douglas, Angela E., Dale, Richard P., Fukatsu, T., Perez-Brocal, V, Van Fleet, E., Davies, T.G.E., Seah, Stuart, Gatehouse, J. A., Ferrier, David Ellard Keith, Grimmelikhuijzen, Cornelis J P, McCutcheon, J.P., The International Aphid Genomics Consortium, Iagc, Carolan, James C., Gerardo, Nichole M., Gibbs , R., Sattelle, D, Pignatelli, M., Solovyev, V, Lee, Sandra L, Kitts, P., Davis, C., Steffen, D., Zhang, L., Cazzamali, G, Tamarit, D, Ju, Ho Jong, Thibaud-Nissen, F, Liu, Yih Shin, Shigenobu, S., Reardon, K.T., Moran, Nancy, Moran, NA, Stern, D., Barribeau, SM, Souvorov, A., Rider Jr., S.D., Vieira, FG, Gatehouse, J.A., Cottret, L, McGregor, A., Chandrabose, MN, He, Xiao-Li, Hauser, Frank, Worley, Kim C, Hilgarth, Roland S, Maglott, D., Pignatelli, M, Moran, N, Gilbert, D., Brisson, JA, Wilkinson, Thomas L, Dombrovsky, A, Dale, Richard P, Futami, Ricardo, Ghanim, Murad, Tamames, Javier, Davis, Gregory K, Patel, Bella Mayurkumar, Fitzroy, Carol I J, Moran, N., Martínez-Torres, D., Lavenier, D, Williamson, M. S., Rozas, J, Lopez, J., Leonardo, T, Altincicek, Boran, Charles, H., Degnan, P., Lopez, John, Douglas, Angela E, Johnson, Angela Jolivet, Williams, RL, Rider, SD, Guigó Serra, Roderic, null null, Richards, Stephan   +783 more
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The complete genome sequence and comparative genome analysis of the high pathogenicity Yersinia enterocolitica strain 8081 [PDF]

, 2014
This work was supported by The Wellcome Trust.The human enteropathogen, Yersinia enterocolitica, is a significant link in the range of Yersinia pathologies extending from mild gastroenteritis to bubonic plague.
Maddison, Mark, Abdellah, Zahra, Dougan, Gordon, Howard, Sarah, Quail, Michael A., Parkhill, Julian, Prentice, Michael B., Challis, Gregory L., Mungall, Karen, Chillingworth, Tracey, Moule, Sharon, Sanders, Mandy, Churcher, Carol, Thomson, Nicholas R., Wren, Brendan W., Whitehead, Sally, Brooks, Karen, Jagels, Kay, Feltwell, Theresa, Holden, Matthew T. G., Crossman, Lisa, Hauser, Heidi   +21 more
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Complex Class 1 Integron in a Clinical Escherichia coli Strain From Vietnam Carrying Both mcr-1 and blaNDM–1

Frontiers in Microbiology, 2019
The co-production of MCR and carbapenemase in Enterobacteriaceae has been previously reported. Here, we describe a clinical strain of Escherichia coli from Vietnam carrying both mcr-1 and blaNDM–1.
Hong-Ngoc Le-Vo, Phuong Thi-Bich Tran, Lien Le, Yuki Matsumoto, Daisuke Motooka, Shota Nakamura, James W. Jones, Tetsuya Iida, Tetsuya Iida, Van Cao   +9 more
doaj   +1 more source

Whole-genome sequencing reveals clonal expansion of multiresistant Staphylococcus haemolyticus in European hospitals [PDF]

, 2014
Objectives Staphylococcus haemolyticus is an emerging cause of nosocomial infections, primarily affecting immunocompromised patients. A comparative genomic analysis was performed on clinical S.
Kahlke, Tim, Flægstad, Trond, Jorunn Pauline Cavanagh, Matthew T. G. Holden, Tim Kahlke, Johanna U. Ericson Sollid, Holden, Matthew T G, Hjerde, Erik, Parkhill, Julian, Klingenberg, Claus, Claus Klingenberg, Cavanagh, Jorunn Pauline, Stephen D. Bentley, Erik Hjerde, Parkhill, J, Trond Flægstad, Sollid, Johanna U Ericson, Bentley, Stephen D, Julian Parkhill, Holden, Matthew T.G.   +19 more
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