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Items: 1 to 20 of 57

1.
The Intrinsically Disordered N Terminus in Atg12 from Yeast Is Necessary for the Functional Structure of the Protein
Hana Popelka, Vikramjit Lahiri, Wayne D. Hawkins, Felipe da Veiga Leprevost, Alexey I. Nesvizhskii, Daniel J. Klionsky
Int J Mol Sci. 2023 Oct; 24(20): 15036. Published online 2023 Oct 10. doi: 10.3390/ijms242015036
PMCID:
PMC10606595
AbstractArticlePDF–3.6M
2.
The Atg1 complex, Atg9, and Vac8 recruit PI3K complex I to the pre-autophagosomal structure
Kanae Hitomi, Tetsuya Kotani, Nobuo N. Noda, Yayoi Kimura, Hitoshi Nakatogawa
J Cell Biol. 2023 Aug 7; 222(8): e202210017. Published online 2023 Jul 12. doi: 10.1083/jcb.202210017
PMCID:
PMC10337603
AbstractArticlePDF–3.5M
3.
Regulation of telomere silencing by the core histones–autophagy–Sir2 axis
Qianyun Mei, Qi Yu, Xin Li, Jianguo Chen, Xilan Yu
Life Sci Alliance. 2023 Mar; 6(3): e202201614. Published online 2022 Dec 30. doi: 10.26508/lsa.202201614
PMCID:
PMC9806677
AbstractArticlePDF–3.9M
4.
New data and collaborations at the Saccharomyces Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources
Stacia R Engel, Edith D Wong, Robert S Nash, Suzi Aleksander, Micheal Alexander, Eric Douglass, Kalpana Karra, Stuart R Miyasato, Matt Simison, Marek S Skrzypek, Shuai Weng, J Michael Cherry
Genetics. 2022 Apr; 220(4): iyab224. Published online 2021 Dec 13. doi: 10.1093/genetics/iyab224
PMCID:
PMC9209811
AbstractArticlePDF–818K
5.
Multilayered regulation of autophagy by the Atg1 kinase orchestrates spatial and temporal control of autophagosome formation
Anne Schreiber, Ben C. Collins, Colin Davis, Radoslav I. Enchev, Angie Sedra, Rocco D’Antuono, Ruedi Aebersold, Matthias Peter
Mol Cell. 2021 Dec 16; 81(24): 5066–5081.e10. doi: 10.1016/j.molcel.2021.10.024
PMCID:
PMC8693860
AbstractArticle
6.
Membrane binding and homodimerization of Atg16 via two distinct protein regions is essential for autophagy in yeast
Hana Popelka, Erin F. Reinhart, Shree Padma Metur, Kelsie A. Leary, Michael J. Ragusa, Daniel J. Klionsky
J Mol Biol. Author manuscript; available in PMC 2022 Mar 5.
Published in final edited form as: J Mol Biol. 2021 Mar 5; 433(5): 166809. Published online 2021 Jan 21. doi: 10.1016/j.jmb.2021.166809
PMCID:
PMC7924733
AbstractArticlePDF–3.2M
7.
Metabolic regulation of telomere silencing by SESAME complex-catalyzed H3T11 phosphorylation
Shihao Zhang, Xilan Yu, Yuan Zhang, Xiangyan Xue, Qi Yu, Zitong Zha, Madelaine Gogol, Jerry L. Workman, Shanshan Li
Nat Commun. 2021; 12: 594. Published online 2021 Jan 26. doi: 10.1038/s41467-020-20711-1
PMCID:
PMC7838282
AbstractArticlePDF–4.9M
8.
A Selective Autophagy Pathway for Phase-Separated Endocytic Protein Deposits
Florian Wilfling, Chia-Wei Lee, Philipp S. Erdmann, Yumei Zheng, Dawafuti Sherpa, Stefan Jentsch, Boris Pfander, Brenda A. Schulman, Wolfgang Baumeister
Mol Cell. 2020 Dec 3; 80(5): 764–778.e7. doi: 10.1016/j.molcel.2020.10.030
PMCID:
PMC7721475
AbstractArticle
9.
Comprehensive Synthetic Genetic Array Analysis of Alleles That Interact with Mutation of the Saccharomyces cerevisiae RecQ Helicases Hrq1 and Sgs1
Elsbeth Sanders, Phoebe A. Nguyen, Cody M. Rogers, Matthew L. Bochman
G3 (Bethesda) 2020 Dec; 10(12): 4359–4368. Published online 2020 Oct 28. doi: 10.1534/g3.120.401709
PMCID:
PMC7718751
AbstractArticlePDF–1.2M
10.
Reconstitution of autophagosome nucleation defines Atg9 vesicles as seeds for membrane formation
Justyna Sawa-Makarska, Verena Baumann, Nicolas Coudevylle, Sören von Bülow, Veronika Nogellova, Christine Abert, Martina Schuschnig, Martin Graef, Gerhard Hummer, Sascha Martens
Science. Author manuscript; available in PMC 2021 May 13.
Published in final edited form as: Science. 2020 Sep 4; 369(6508): eaaz7714. Published online 2020 Sep 4. doi: 10.1126/science.aaz7714
PMCID:
PMC7610778
AbstractArticlePDF–1.9M
11.
DeepPhagy: a deep learning framework for quantitatively measuring autophagy activity in Saccharomyces cerevisiae
Ying Zhang, Yubin Xie, Wenzhong Liu, Wankun Deng, Di Peng, Chenwei Wang, Haodong Xu, Chen Ruan, Yongjie Deng, Yaping Guo, Chenjun Lu, Cong Yi, Jian Ren, Yu Xue
Autophagy. 2020; 16(4): 626–640. Published online 2019 Jun 20. doi: 10.1080/15548627.2019.1632622
PMCID:
PMC7138222
AbstractArticlePDF–8.0M
12.
A switch element in the autophagy E2 Atg3 mediates allosteric regulation across the lipidation cascade
Yumei Zheng, Yu Qiu, Christy R. R. Grace, Xu Liu, Daniel J. Klionsky, Brenda A. Schulman
Nat Commun. 2019; 10: 3600. Published online 2019 Aug 9. doi: 10.1038/s41467-019-11435-y
PMCID:
PMC6689050
AbstractArticlePDF–3.9M
13.
Analysis of autophagy activated during changes in carbon source availability in yeast cells
Ryo Iwama, Yoshinori Ohsumi
J Biol Chem. 2019 Apr 5; 294(14): 5590–5603. Published online 2019 Feb 12. doi: 10.1074/jbc.RA118.005698
PMCID:
PMC6462502
AbstractArticlePDF–4.4M
14.
Two distinct mechanisms target the autophagy-related E3 complex to the pre-autophagosomal structure
Kumi Harada, Tetsuya Kotani, Hiromi Kirisako, Machiko Sakoh-Nakatogawa, Yu Oikawa, Yayoi Kimura, Hisashi Hirano, Hayashi Yamamoto, Yoshinori Ohsumi, Hitoshi Nakatogawa
eLife. 2019; 8: e43088. Published online 2019 Feb 27. doi: 10.7554/eLife.43088
PMCID:
PMC6405243
AbstractArticlePDF–2.8M
15.
Systematic Analysis of Complex Genetic Interactions
Elena Kuzmin, Benjamin VanderSluis, Wen Wang, Guihong Tan, Raamesh Deshpande, Yiqun Chen, Matej Usaj, Attila Balint, Mojca Mattiazzi Usaj, Jolanda van Leeuwen, Elizabeth N. Koch, Carles Pons, Andrius J. Dagilis, Michael Pryszlak, Jason Zi Yang Wang, Julia Hanchard, Margot Riggi, Kaicong Xu, Hamed Heydari, Bryan-Joseph San Luis, Ermira Shuteriqi, Hongwei Zhu, Nydia Van Dyk, Sara Sharifpoor, Michael Costanzo, Robbie Loewith, Amy Caudy, Daniel Bolnick, Grant W. Brown, Brenda J. Andrews, Charles Boone, Chad L. Myers
Science. Author manuscript; available in PMC 2018 Nov 4.
Published in final edited form as: Science. 2018 Apr 20; 360(6386): eaao1729. doi: 10.1126/science.aao1729
PMCID:
PMC6215713
AbstractArticlePDF–1.9M
16.
The exoribonuclease Xrn1 is a post-transcriptional negative regulator of autophagy
Elizabeth Delorme-Axford, Emma Abernathy, Nicholas J. Lennemann, Amélie Bernard, Aileen Ariosa, Carolyn B. Coyne, Karla Kirkegaard, Daniel J. Klionsky
Autophagy. 2018; 14(5): 898–912. Published online 2018 Mar 21. doi: 10.1080/15548627.2018.1441648
PMCID:
PMC6070002
AbstractArticlePDF–1.2M
17.
Genome-Wide Mapping of Decay Factor–mRNA Interactions in Yeast Identifies Nutrient-Responsive Transcripts as Targets of the Deadenylase Ccr4
Jason E. Miller, Liye Zhang, Haoyang Jiang, Yunfei Li, B. Franklin Pugh, Joseph C. Reese
G3 (Bethesda) 2018 Jan; 8(1): 315–330. Published online 2017 Nov 20. doi: 10.1534/g3.117.300415
PMCID:
PMC5765359
AbstractArticlePDF–2.2M
18.
Protein Moonlighting Revealed by Noncatalytic Phenotypes of Yeast Enzymes
Adriana Espinosa-Cantú, Diana Ascencio, Selene Herrera-Basurto, Jiewei Xu, Assen Roguev, Nevan J. Krogan, Alexander DeLuna
Genetics. 2018 Jan; 208(1): 419–431. Published online 2017 Nov 10. doi: 10.1534/genetics.117.300377
PMCID:
PMC5753873
AbstractArticlePDF–1.5M
19.
A global interaction network maps a wiring diagram of cellular function
Michael Costanzo, Benjamin VanderSluis, Elizabeth N. Koch, Anastasia Baryshnikova, Carles Pons, Guihong Tan, Wen Wang, Matej Usaj, Julia Hanchard, Susan D. Lee, Vicent Pelechano, Erin B. Styles, Maximilian Billmann, Jolanda van Leeuwen, Nydia van Dyk, Zhen-Yuan Lin, Elena Kuzmin, Justin Nelson, Jeff S. Piotrowski, Tharan Srikumar, Sondra Bahr, Yiqun Chen, Raamesh Deshpande, Christoph F. Kurat, Sheena C. Li, Zhijian Li, Mojca Mattiazzi Usaj, Hiroki Okada, Natasha Pascoe, Bryan-Joseph San Luis, Sara Sharifpoor, Emira Shuteriqi, Scott W. Simpkins, Jamie Snider, Harsha Garadi Suresh, Yizhao Tan, Hongwei Zhu, Noel Malod-Dognin, Vuk Janjic, Natasa Przulj, Olga G. Troyanskaya, Igor Stagljar, Tian Xia, Yoshikazu Ohya, Anne-Claude Gingras, Brian Raught, Michael Boutros, Lars M. Steinmetz, Claire L. Moore, Adam P. Rosebrock, Amy A. Caudy, Chad L. Myers, Brenda Andrews, Charles Boone
Science. Author manuscript; available in PMC 2017 Oct 30.
Published in final edited form as: Science. 2016 Sep 23; 353(6306): aaf1420. doi: 10.1126/science.aaf1420
PMCID:
PMC5661885
AbstractArticlePDF–2.6M
20.
The Genetic Landscape of a Cell
Michael Costanzo, Anastasia Baryshnikova, Jeremy Bellay, Yungil Kim, Eric D. Spear, Carolyn S. Sevier, Huiming Ding, Judice L.Y. Koh, Kiana Toufighi, Sara Mostafavi, Jeany Prinz, Robert P. St. Onge, Benjamin VanderSluis, Taras Makhnevych, Franco J. Vizeacoumar, Solmaz Alizadeh, Sondra Bahr, Renee L. Brost, Yiqun Chen, Murat Cokol, Raamesh Deshpande, Zhijian Li, Zhen-Yuan Lin, Wendy Liang, Michaela Marback, Jadine Paw, Bryan-Joseph San Luis, Ermira Shuteriqi, Amy Hin Yan Tong, Nydia van Dyk, Iain M. Wallace, Joseph A. Whitney, Matthew T. Weirauch, Guoqing Zhong, Hongwei Zhu, Walid A. Houry, Michael Brudno, Sasan Ragibizadeh, Balázs Papp, Csaba Pál, Frederick P. Roth, Guri Giaever, Corey Nislow, Olga G. Troyanskaya, Howard Bussey, Gary D. Bader, Anne-Claude Gingras, Quaid D. Morris, Philip M. Kim, Chris A. Kaiser, Chad L. Myers, Brenda J. Andrews, Charles Boone
Science. Author manuscript; available in PMC 2017 Sep 15.
Published in final edited form as: Science. 2010 Jan 22; 327(5964): 425–431. doi: 10.1126/science.1180823
PMCID:
PMC5600254
AbstractArticlePDF–2.4M

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