Phylogenetic Distribution of CRISPR-Cas Systems in Antibiotic-Resistant Pseudomonas aeruginosa

Autor: Alex van Belkum, Leah B. Soriaga, Matthew C. LaFave, Srividya Akella, Jean-Baptiste Veyrieras, E. Magda Barbu, Dee Shortridge, Bernadette Blanc, Gregory Hannum, Gilles Zambardi, Kristofer Miller, Mark C. Enright, Nathalie Mugnier, Daniel Brami, Stéphane Schicklin, Martina Felderman, Ariel S. Schwartz, Toby H. Richardson, Todd C. Peterson, Bolyn Hubby, Kyle C. Cady

Publikováno v: mBio, Vol 6, Iss 6 (2015)

ABSTRACT Pseudomonas aeruginosa is an antibiotic-refractory pathogen with a large genome and extensive genotypic diversity. Historically, P. aeruginosa has been a major model system for understanding the molecular mechanisms underlying type I cluster

Externí odkaz: https://doaj.org/article/f38c9e5c88214fcc8f66550e1d9cd651

An improved pig reference genome sequence to enable pig genetics and genomics research

Autor: William Chow, Christopher K. Tuggle, Nancy Manchanda, David A. Hume, Bronwen Aken, Mick Watson, Gary A. Rohrer, Adam M. Phillippy, Laurie A. Rund, Dan J. Nonneman, Sergey Koren, Heather Finlayson, Elizabeth Tseng, Darren K. Griffin, Gregory Hannum, Rebecca E. O’Connor, Steven G. Schroeder, Amanda Warr, Lel Eory, Haibo Liu, Richard Hall, Thibaut Hourlier, Richard Talbot, Kristi Kim, Paul Flicek, Fergal J. Martin, Carole A. Sargent, Kerstin Howe, Alan Archibald, Timothy P L Smith, Nabeel A. Affara, Osagie G. Izuogu, Carlos García Girón, Ariel S. Schwartz, Benjamin M. Skinner, Benjamin D. Rosen, Konstantinos Billis, Derek M. Bickhart, Hamid Beiki, Lawrence B. Schook

Publikováno v: GigaScience
Warr, A, Affara, N, Aken, B, Beiki, H, Bickhart, D M, Billis, K, Chow, W, Eory, L, Finlayson, H A, Flicek, P, Girón, C G, Griffin, D K, Hall, R, Hannum, G, Hourlier, T, Howe, K, Hume, D A, Izuogu, O, Kim, K, Koren, S, Liu, H, Manchanda, N, Martin, F J, Nonneman, D J, O'Connor, R E, Phillippy, A M, Rohrer, G A, Rosen, B D, Rund, L A, Sargent, C A, Schook, L B, Schroeder, S G, Schwartz, A S, Skinner, B M, Talbot, R, Tseng, E, Tuggle, C K, Watson, M, Smith, T P L & Archibald, A L 2020, ' An improved pig reference genome sequence to enable pig genetics and genomics research ', GigaScience, vol. 9, no. 6, pp. 1-14 . https://doi.org/10.1093/gigascience/giaa051

Background The domestic pig (Sus scrofa) is important both as a food source and as a biomedical model given its similarity in size, anatomy, physiology, metabolism, pathology, and pharmacology to humans. The draft reference genome (Sscrofa10.2) of a

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2e1b529c26e78702b598b57fa44a4ad0
https://pubmed.ncbi.nlm.nih.gov/32543654

Unrestrained markerless trait stacking in

Autor: John, Verruto, Kristie, Francis, Yingjun, Wang, Melisa C, Low, Jessica, Greiner, Sarah, Tacke, Fedor, Kuzminov, William, Lambert, Jay, McCarren, Imad, Ajjawi, Nicholas, Bauman, Ryan, Kalb, Gregory, Hannum, Eric R, Moellering

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America

Significance Stacking traits in microalgae is limited by a lack of robust genome modification tools and selectable marker availability. This presents a key hurdle in developing strains for renewable products including biofuels. Here, we overcome thes

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=pmid________::8d46df55e1cb4416c884039349dad96e
https://pubmed.ncbi.nlm.nih.gov/29987047

Determination of fetal DNA fraction from the plasma of pregnant women using sequence read counts

Autor: Mathias Ehrich, John A. Tynan, Paul Oeth, Gregory Hannum, Jennifer Geis, Amin R. Mazloom, Taylor J. Jensen, Chen Zhao, Grant Hogg, Sung K. Kim, Cosmin Deciu, Dirk van den Boom

Publikováno v: Prenatal Diagnosis. 35:810-815

ObjectiveThis study introduces a novel method, referred to as SeqFF, for estimating the fetal DNA fraction in the plasma of pregnant women and to infer the underlying mechanism that allows for such statistical modeling.MethodsAutosomal regional read

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::a0a71494400cbd974a705e6d805b3c03
https://doi.org/10.1002/pd.4615

Seven new loci associated with age-related macular degeneration

Autor: Paul Mitchell, Lindsay A. Farrer, Ming Zhang, Mohammad Othman, Michiaki Kubo, André G. Uitterlinden, Anton Orlin, Kyu Hyung Park, Simon P. Harding, Yusuke Nakamura, Eric H Souied, William K. Scott, Gregory S. Hageman, Anita Agarwal, G. Rudolph, Henry Ferreyra, Yutaka Kiyohara, Humma Shahid, Yukinori Okada, Gregory Hannum, Hendrik P. N. Scholl, Christian Gieger, Clara Lee, H.-Erich Wichmann, Andrew R. Webster, Margaret A. Pericak-Vance, Brian L. Yaspan, Bernhard H. F. Weber, Gyungah Jun, Gabriëlle H.S. Buitendijk, Ching-Yu Cheng, Igor Kozak, Ana Maria Armbrecht, Gaetano R. Barile, Valentina Cipriani, Stephanie A. Hagstrom, Paul N. Baird, Margaret M. DeAngelis, Ronald Klein, Itay Chowers, Matthew Brooks, Mark J. Daly, Kimberly A Chin, Wei Chen, Thierry Léveillard, Cornelia M. van Duijn, Barbara E.K. Klein, Tien Yin Wong, Olivier Poch, Yi Yu, Peter Lichtner, Michael L. Klein, Lars G. Fritsche, Daniel E. Weeks, Radu Cojocaru, Gayle J.T. Pauer, Jaclyn L. Kovach, John R. Heckenlively, Jonathan L. Haines, Andrew J. Lotery, Nicholas Katsanis, Caroline C W Klaver, Stephan Ripke, Unnur Thorsteinsdottir, M. Carolina Ortube, Rando Allikmets, Nirubol Tosakulwong, Barbara Truitt, Robert P. Igo, Johanna M. Seddon, Kristine E. Lee, Emily Y. Chew, Kang Zhang, Debra A. Schaumberg, David Clayton, Frank G. Holz, Robyn Reynolds, Matthew Schu, Neal S. Peachey, Neel Gupta, Tatsuro Ishibashi, William Cade, Melinda Cain, Gwen M. Sturgill-Short, Jane C. Khan, Asbjorg Geirsdottir, Atsushi Takahashi, Thomas Meitinger, Belinda K. Cornes, Xueling Sim, Raymond Ripp, Evangelos Evangelou, Saddek Mohand-Said, Albert O. Edwards, Theru A. Sivakumaran, John P. A. Ioannidis, Kari Branham, Peronne Joseph, Jie Jin Wang, Chelsea E. Myers, Thomas W. Winkler, Johannes R. Vingerling, Robyn H. Guymer, Anthony T. Moore, Christos Haritoglou, Peter A. Campochiaro, Ronnie George, Chi-Chao Chan, Sudha K. Iyengar, Lucia Sobrin, Eranga N. Vithana, Haraldur Sigurdsson, James S. Friedman, Guy Hughes, Baljean Dhillon, Lingam Vijaya, Alan F. Wright, José-Alain Sahel, Rinki Ratna Priya, Tin Aung, R. Theodore Smith, Isabelle Audo, Satoshi Arakawa, Alexander J. Brucker, Gonçalo R. Abecasis, Evangelia E. Tsironi, Anand Swaroop, Mark Lathrop, Mustapha Benchaboune, Diana Zelenika, Joanna E. Merriam, Iris M. Heid, Denise J. Morgan, Michael B. Gorin, Donald J. Zack, Ling Zhao, Hreinn Stefansson, Andrea J. Richardson, Yvette P. Conley, Kari Stefansson, Giuliana Silvestri, Yoichiro Kamatani, Ivana K. Kim, Gudmar Thorleifsson, Stephen G. Schwartz, Alan C. Bird, Claudia N. Keilhauer, Euijung Ryu, Margaux A. Morrison, Chris Pappas, Dwight Stambolian, John R.W. Yates, Paul N. Bishop, Jesen Fagerness, Adam C. Naj, Peter J. Francis

Publikováno v: Nature genetics
Fritsche, L G, Chen, W, Schu, M, Yaspan, B L, Yu, Y, Thorleifsson, G, Zack, D J, Arakawa, S, Cipriani, V, Ripke, S, Igo, R P, Buitendijk, G H S, Sim, X, Weeks, D E, Guymer, R H, Merriam, J E, Francis, P J, Hannum, G, Agarwal, A, Armbrecht, A M, Audo, I, Aung, T, Barile, G R, Benchaboune, M, Bird, A C, Bishop, P N, Branham, K E, Brooks, M, Brucker, A J, Cade, W H, Cain, M S, Campochiaro, P A, Chan, C-C, Cheng, C-Y, Chew, E Y, Chin, K A, Chowers, I, Clayton, D G, Cojocaru, R, Conley, Y P, Cornes, B K, Daly, M J, Dhillon, B, Edwards, A O, Evangelou, E, Fagerness, J, Ferreyra, H A, Friedman, J S & Geirsdottir, A & Wright, A F 2013, ' Seven new loci associated with age-related macular degeneration ', Nature Genetics, vol. 45, no. 4, pp. 433-439 . https://doi.org/10.1038/ng.2578
Nature Genetics, 45(4), 433-439. Nature Publishing Group

Age-related macular degeneration (AMD) is a common cause of blindness in older individuals. To accelerate the understanding of AMD biology and help design new therapies, we executed a collaborative genome-wide association study, including >17,100 adv

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b4451372e2f5850d354684c0f44ffcc5
https://doi.org/10.1038/ng.2578