Zobrazeno 1 - 10
of 15
pro vyhledávání: '"John T. Sauls"'
Publikováno v:
mBio, Vol 10, Iss 6 (2019)
ABSTRACT Bacillus subtilis and Escherichia coli are evolutionarily divergent model organisms whose analysis has enabled elucidation of fundamental differences between Gram-positive and Gram-negative bacteria, respectively. Despite their differences i
Externí odkaz:
https://doaj.org/article/017149128f8447b3b69ea09929c355a8
Autor:
Ryan Thiermann, Michael Sandler, Gursharan Ahir, John T Sauls, Jeremy Schroeder, Steven Brown, Guillaume Le Treut, Fangwei Si, Dongyang Li, Jue D Wang, Suckjoon Jun
Publikováno v:
eLife, Vol 12 (2024)
Despite much progress, image processing remains a significant bottleneck for high-throughput analysis of microscopy data. One popular platform for single-cell time-lapse imaging is the mother machine, which enables long-term tracking of microbial cel
Externí odkaz:
https://doaj.org/article/2cd10faf989a49f4bef667485c4da46e
Synthesis and degradation of FtsZ quantitatively predict the first cell division in starved bacteria
Autor:
Karthik Sekar, Roberto Rusconi, John T Sauls, Tobias Fuhrer, Elad Noor, Jen Nguyen, Vicente I Fernandez, Marieke F Buffing, Michael Berney, Suckjoon Jun, Roman Stocker, Uwe Sauer
Publikováno v:
Molecular Systems Biology, Vol 14, Iss 11, Pp 1-14 (2018)
Abstract In natural environments, microbes are typically non‐dividing and gauge when nutrients permit division. Current models are phenomenological and specific to nutrient‐rich, exponentially growing cells, thus cannot predict the first division
Externí odkaz:
https://doaj.org/article/12cfbcdd67a24e8387cbbf577a075f3f
Autor:
Ryan Thiermann, Michael Sandler, Gursharan Ahir, John T. Sauls, Jeremy W. Schroeder, Steven D. Brown, Guillaume Le Treut, Fangwei Si, Dongyang Li, Jue D. Wang, Suckjoon Jun
Despite much progress, image processing remains a significant bottleneck for high-throughput analysis of microscopy data. One popular platform for single-cell time-lapse imaging is the mother machine, which enables long-term tracking of microbial cel
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::c14dff2105c12c00a42827dc2c62ff13
https://doi.org/10.1101/2023.03.27.534286
https://doi.org/10.1101/2023.03.27.534286
Autor:
Suckjoon Jun, Fangwei Si, Cindy Sou, Omid Azizi, Yonggun Jun, John T. Sauls, Michael Erickstad, Amy B Schwartz, Sarah Cox, Xintian Li, Dongyang Li
Publikováno v:
Current Biology. 27:1278-1287
SummaryIt is generally assumed that the allocation and synthesis of total cellular resources in microorganisms are uniquely determined by the growth conditions. Adaptation to a new physiological state leads to a change in cell size via reallocation o
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::0d8feeaf0badfb793b6739ae79305bc1
https://doi.org/10.1016/j.cub.2017.03.022
https://doi.org/10.1016/j.cub.2017.03.022
Autor:
Jue D. Wang, Dongyang Li, Fangwei Si, John T. Sauls, Guillaume Le Treut, Steven D. Brown, Suckjoon Jun, Jeremy W. Schroeder
The mother machine is a microfluidic device for high-throughput time-lapse imaging of microbes. Here, we present MM3, a complete and modular image analysis pipeline. MM3 turns raw mother machine images, both phase contrast and fluorescence, into a da
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ef215dbe0dc4d77d57d55f1af0c5b679
Bacillus subtilisandEscherichia coliare evolutionarily divergent model organisms that have elucidated fundamental differences between Gram-positive and Gram-negative bacteria, respectively. Despite their differences in cell cycle control at the molec
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8d6e95b8bb1816c30a7a0bb72e787206
https://doi.org/10.1101/726596
https://doi.org/10.1101/726596
Autor:
Santosh Vempala, Jennifer Modamio, Alejandro Maass, Costas D. Maranas, Sylvain Arreckx, Masoud Ahookhosh, Miguel A.P. Oliveira, Stefania Magnusdottir, Nathan E. Lewis, Chiam Yu Ng, Aarash Bordbar, Bernhard O. Palsson, Inna Kuperstein, Lemmer P. El Assal, Lin Wang, Benjamin Cousins, German Preciat, Sarah M. Keating, Egils Stalidzans, Iñigo Apaolaza, Nicolas Sompairac, William A. Bryant, Vanja Vlasov, Phan Tu Vuong, Siu Hung Joshua Chan, Andrejs Kostromins, Laurent Heirendt, Yuekai Sun, Sebastián N. Mendoza, Ronan M. T. Fleming, Francisco J. Aragón Artacho, Michael Hucka, Hulda S. Haraldsdóttir, Jacek Wachowiak, Susan Ghaderi, Marouen Ben Guebila, Almut Heinken, Ines Thiele, Hoai M. Le, Thomas Sauter, James T. Yurkovich, Alise Žagare, Diana C. El Assal, Maike K. Aurich, H. Scott Hinton, Alberto Noronha, Catherine M. Clancy, Thomas Pfau, Andrei Zinovyev, Michael A. Saunders, Luis Vitores Valcárcel, John T. Sauls, Anne Richelle, Ding Ma, Francisco J. Planes
Publikováno v:
Nature Protocols
Nature Protocols, Nature Publishing Group, 2019, 14 (3), pp.639-702. ⟨10.1038/s41596-018-0098-2⟩
Nature Protocols, 14(3), 639-702. Nature Publishing Group
RUA. Repositorio Institucional de la Universidad de Alicante
Universidad de Alicante (UA)
Nature protocols, vol 14, iss 3
Heirendt, L, Arreckx, S, Pfau, T, Mendoza, S N, Richelle, A, Heinken, A, Haraldsdóttir, H S, Wachowiak, J, Keating, S M, Vlasov, V, Magnusdóttir, S, Ng, C Y, Preciat, G, Žagare, A, Chan, S H J, Aurich, M K, Clancy, C M, Modamio, J, Sauls, J T, Noronha, A, Bordbar, A, Cousins, B, El Assal, D C, Valcarcel, L V, Apaolaza, I, Ghaderi, S, Ahookhosh, M, Ben Guebila, M, Kostromins, A, Sompairac, N, Le, H M, Ma, D, Sun, Y, Wang, L, Yurkovich, J T, Oliveira, M A P, Vuong, P T, El Assal, L P, Kuperstein, I, Zinovyev, A, Hinton, H S, Bryant, W A, Aragón Artacho, F J, Planes, F J, Stalidzans, E, Maass, A, Vempala, S, Hucka, M, Saunders, M A, Maranas, C D, Lewis, N E, Sauter, T, Palsson, B, Thiele, I & Fleming, R M T 2019, ' Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0 ', Nature Protocols, vol. 14, no. 3, pp. 639-702 . https://doi.org/10.1038/s41596-018-0098-2
Heirendt, L, Arreckx, S, Pfau, T, Mendoza, S N, Richelle, A, Heinken, A, Haraldsdottir, H S, Wachowiak, J, Keating, S M, Vlasov, V, Magnusdottir, S, Ng, C Y, Preciat, G, Zagare, A, Chan, S H J, Aurich, M K, Clancy, C M, Modamio, J, Sauls, J T, Noronha, A, Bordbar, A, Cousins, B, El Assal, D C, Valcarcel, L V, Apaolaza, I, Ghaderi, S, Ahookhosh, M, Ben Guebila, M, Kostromins, A, Sompairac, N, Le, H M, Ma, D, Sun, Y, Wang, L, Yurkovich, J T, Oliveira, M A P, Vuong, P T, El Assal, L P, Kuperstein, I, Zinovyev, A, Hinton, H S, Bryant, W A, Aragon Artacho, F J, Planes, F J, Stalidzans, E, Maass, A, Vempala, S, Hucka, M, Saunders, M A, Maranas, C D, Lewis, N E, Sauter, T, Palsson, B O, Thiele, I & Fleming, R M T 2019, ' Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0 ', Nature Protocols, vol. 14, no. 3, pp. 639-702 . https://doi.org/10.1038/s41596-018-0098-2
Nature Protocols, Nature Publishing Group, 2019, 14 (3), pp.639-702. ⟨10.1038/s41596-018-0098-2⟩
Nature Protocols, 14(3), 639-702. Nature Publishing Group
RUA. Repositorio Institucional de la Universidad de Alicante
Universidad de Alicante (UA)
Nature protocols, vol 14, iss 3
Heirendt, L, Arreckx, S, Pfau, T, Mendoza, S N, Richelle, A, Heinken, A, Haraldsdóttir, H S, Wachowiak, J, Keating, S M, Vlasov, V, Magnusdóttir, S, Ng, C Y, Preciat, G, Žagare, A, Chan, S H J, Aurich, M K, Clancy, C M, Modamio, J, Sauls, J T, Noronha, A, Bordbar, A, Cousins, B, El Assal, D C, Valcarcel, L V, Apaolaza, I, Ghaderi, S, Ahookhosh, M, Ben Guebila, M, Kostromins, A, Sompairac, N, Le, H M, Ma, D, Sun, Y, Wang, L, Yurkovich, J T, Oliveira, M A P, Vuong, P T, El Assal, L P, Kuperstein, I, Zinovyev, A, Hinton, H S, Bryant, W A, Aragón Artacho, F J, Planes, F J, Stalidzans, E, Maass, A, Vempala, S, Hucka, M, Saunders, M A, Maranas, C D, Lewis, N E, Sauter, T, Palsson, B, Thiele, I & Fleming, R M T 2019, ' Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0 ', Nature Protocols, vol. 14, no. 3, pp. 639-702 . https://doi.org/10.1038/s41596-018-0098-2
Heirendt, L, Arreckx, S, Pfau, T, Mendoza, S N, Richelle, A, Heinken, A, Haraldsdottir, H S, Wachowiak, J, Keating, S M, Vlasov, V, Magnusdottir, S, Ng, C Y, Preciat, G, Zagare, A, Chan, S H J, Aurich, M K, Clancy, C M, Modamio, J, Sauls, J T, Noronha, A, Bordbar, A, Cousins, B, El Assal, D C, Valcarcel, L V, Apaolaza, I, Ghaderi, S, Ahookhosh, M, Ben Guebila, M, Kostromins, A, Sompairac, N, Le, H M, Ma, D, Sun, Y, Wang, L, Yurkovich, J T, Oliveira, M A P, Vuong, P T, El Assal, L P, Kuperstein, I, Zinovyev, A, Hinton, H S, Bryant, W A, Aragon Artacho, F J, Planes, F J, Stalidzans, E, Maass, A, Vempala, S, Hucka, M, Saunders, M A, Maranas, C D, Lewis, N E, Sauter, T, Palsson, B O, Thiele, I & Fleming, R M T 2019, ' Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0 ', Nature Protocols, vol. 14, no. 3, pp. 639-702 . https://doi.org/10.1038/s41596-018-0098-2
Constraint-based reconstruction and analysis (COBRA) provides a molecular mechanistic framework for integrative analysis of experimental molecular systems biology data and quantitative prediction of physicochemically and biochemically feasible phenot
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::b74785501fe1d16bceba71588b87c863
https://hal.archives-ouvertes.fr/hal-03211136
https://hal.archives-ouvertes.fr/hal-03211136
Publikováno v:
Current Opinion in Cell Biology. 38:38-44
Cell size control and homeostasis is a long-standing subject in biology. Recent experimental work provides extensive evidence for a simple, quantitative size homeostasis principle coined adder (as opposed to sizer or timer). The adder principle provi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6ed678eed1d7fa0e684b12a66cf3a978
https://doi.org/10.1016/j.ceb.2016.02.004
https://doi.org/10.1016/j.ceb.2016.02.004
Autor:
John T. Sauls, Alex Groisman, Igor Segota, Markus Arnoldini, Zhongge Zhang, Chih-yu Yang, Edgar Gutierrez, Jonas Cremer, Terence Hwa
Publikováno v:
Proceedings of the National Academy of Science of the United States of America
Proceedings of the National Academy of Sciences of the United States of America, vol 113, iss 41
Proceedings of the National Academy of Sciences of the United States of America, vol 113, iss 41
The ecology of microbes in the gut has been shown to play important roles in the health of the host. To better understand microbial growth and population dynamics in the proximal colon, the primary region of bacterial growth in the gut, we built and
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::f1c2b648dbaa827cd84fa442df59000e