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Select item 114236781.

An APEX2-based proximity-dependent biotinylation assay with temporal specificity to study protein interactions during autophagy in the yeast Saccharomyces cerevisiae

Yasmina Filali-Mouncef, Alexandre Leytens, Prado Vargas Duarte, Mattia Zampieri, Jörn Dengjel, Fulvio Reggiori

Autophagy. 2024; 20(10): 2323–2337. Published online 2024 Jul 3. doi: 10.1080/15548627.2024.2366749

PMCID:: PMC11423678

Abstract Article PDF–1.7M

Select item 113225352.

Sulfur starvation-induced autophagy in Saccharomyces cerevisiae involves SAM-dependent signaling and transcription activator Met4

Magali Prigent, Hélène Jean-Jacques, Delphine Naquin, Stéphane Chédin, Marie-Hélène Cuif, Renaud Legouis, Laurent Kuras

Nat Commun. 2024; 15: 6927. Published online 2024 Aug 13. doi: 10.1038/s41467-024-51309-6

PMCID:: PMC11322535

Abstract Article PDF–3.3M

Select item 112328913.

Ca²⁺-triggered Atg11–Bmh1/2–Snf1 complex assembly initiates autophagy upon glucose starvation

Weijing Yao, Yingcong Chen, Yi Zhang, Shu Zhong, Miaojuan Ye, Yuting Chen, Siyu Fan, Miao Ye, Huan Yang, Yixing Li, Choufei Wu, Mingzhu Fan, Shan Feng, Zhaoxiang He, Long Zhou, Liqin Zhang, Yigang Wang, Wei Liu, Jingjing Tong, Du Feng, Cong Yi

J Cell Biol. 2024 Sep 2; 223(9): e202310049. Published online 2024 Jul 9. doi: 10.1083/jcb.202310049

PMCID:: PMC11232891

Abstract Article PDF–7.9M

Select item 108973154.

Decoding the function of Atg13 phosphorylation reveals a role of Atg11 in bulk autophagy initiation

Anuradha Bhattacharya, Raffaela Torggler, Wolfgang Reiter, Natalie Romanov, Mariya Licheva, Akif Ciftci, Muriel Mari, Lena Kolb, Dominik Kaiser, Fulvio Reggiori, Gustav Ammerer, David M Hollenstein, Claudine Kraft

EMBO Rep. 2024 Feb; 25(2): 813–831. Published online 2024 Jan 17. doi: 10.1038/s44319-023-00055-9

PMCID:: PMC10897315

Abstract Article PDF–5.5M

Select item 108724775.

Protein interaction network revealed by quantitative proteomic analysis links TFIIB to multiple aspects of the transcription cycle

Michael J. O’Brien, Athar Ansari

Biochim Biophys Acta Proteins Proteom. Author manuscript; available in PMC 2024 Feb 16.

Published in final edited form as: Biochim Biophys Acta Proteins Proteom. 2024 Jan 1; 1872(1): 140968. Published online 2023 Oct 19. doi: 10.1016/j.bbapap.2023.140968

PMCID:: PMC10872477

Abstract Article PDF–1.7M

Select item 107001386.

The social and structural architecture of the yeast protein interactome

André C. Michaelis, Andreas-David Brunner, Maximilian Zwiebel, Florian Meier, Maximilian T. Strauss, Isabell Bludau, Matthias Mann

Nature. 2023; 624(7990): 192–200. Published online 2023 Nov 15. doi: 10.1038/s41586-023-06739-5

PMCID:: PMC10700138

Abstract Article PDF–20M

Select item 105918167.

Autophagy-mediated surveillance of Rim4-mRNA interaction safeguards programmed meiotic translation

Rudian Zhang, Wenzhi Feng, Suhong Qian, Fei Wang

Cell Rep. Author manuscript; available in PMC 2023 Oct 23.

Published in final edited form as: Cell Rep. 2023 Sep 26; 42(9): 113051. Published online 2023 Sep 1. doi: 10.1016/j.celrep.2023.113051

PMCID:: PMC10591816

Abstract Article PDF–1.3M

Select item 105481768.

TOR‐mediated Ypt1 phosphorylation regulates autophagy initiation complex assembly

Weijing Yao, Yuting Chen, Yingcong Chen, Pengwei Zhao, Jing Liu, Yi Zhang, Qiang Jiang, Choufei Wu, Yu Xie, Siyu Fan, Miao Ye, Yigang Wang, Yuyao Feng, Xue Bai, Mingzhu Fan, Shan Feng, Juan Wang, Yixian Cui, Hongguang Xia, Cheng Ma, Zhiping Xie, Liqin Zhang, Qiming Sun, Wei Liu, Cong Yi

EMBO J. 2023 Oct; 42(19): e112814. Published online 2023 Aug 28. doi: 10.15252/embj.2022112814

PMCID:: PMC10548176

Abstract Article PDF–19M

Select item 105295099.

Activation of autophagy depends on Atg1/Ulk1-mediated phosphorylation and inhibition of the Hsp90 chaperone machinery

Sarah J. Backe, Rebecca A. Sager, Jennifer A. Heritz, Laura A. Wengert, Katherine A. Meluni, Xavier Aran-Guiu, Barry Panaretou, Mark R. Woodford, Chrisostomos Prodromou, Dimitra Bourboulia, Mehdi Mollapour

Cell Rep. Author manuscript; available in PMC 2023 Sep 27.

Published in final edited form as: Cell Rep. 2023 Jul 25; 42(7): 112807. Published online 2023 Jul 14. doi: 10.1016/j.celrep.2023.112807

Correction in:: Cell Rep. 2024 Jan 23; 43(1): 113672.

PMCID:: PMC10529509

Abstract Article PDF–2.2M

Select item 1039275910.

Atg1-dependent phosphorylation of Vps34 is required for dynamic regulation of the phagophore assembly site and autophagy in Saccharomyces cerevisiae

Yongook Lee, Bongkeun Kim, Hae-Soo Jang, Won-Ki Huh

Autophagy. 2023; 19(9): 2428–2442. Published online 2023 Mar 2. doi: 10.1080/15548627.2023.2182478

PMCID:: PMC10392759

Abstract Article PDF–2.6M

Select item 1033760311.

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

Abstract Article PDF–3.5M

Select item 1023508612.

Rio1 downregulates centromeric RNA levels to promote the timely assembly of structurally fit kinetochores

Ksenia Smurova, Michela Damizia, Carmela Irene, Stefania Stancari, Giovanna Berto, Giulia Perticari, Maria Giuseppina Iacovella, Ilaria D’Ambrosio, Maria Giubettini, Réginald Philippe, Chiara Baggio, Elisabetta Callegaro, Andrea Casagranda, Alessandro Corsini, Vincenzo Gentile Polese, Anna Ricci, Erik Dassi, Peter De Wulf

Nat Commun. 2023; 14: 3172. Published online 2023 Jun 1. doi: 10.1038/s41467-023-38920-9

PMCID:: PMC10235086

Abstract Article PDF–2.6M

Select item 1023336813.

A systematic proximity ligation approach to studying protein‐substrate specificity identifies the substrate spectrum of the Ssh1 translocon

Nir Cohen, Naama Aviram, Maya Schuldiner

EMBO J. 2023 Jun; 42(11): e113385. Published online 2023 Apr 19. doi: 10.15252/embj.2022113385

PMCID:: PMC10233368

Abstract Article PDF–1.2M

Select item 991046014.

Mec1 regulates PAS recruitment of Atg13 via direct binding with Atg13 during glucose starvation-induced autophagy

Weijing Yao, Yixing Li, Yingcong Chen, Yuting Chen, Pengwei Zhao, Yi Zhang, Qiang Jiang, Yuyao Feng, Fan Yang, Choufei Wu, Huiming Zhong, Yiting Zhou, Qiming Sun, Liqin Zhang, Wei Liu, Cong Yi

Proc Natl Acad Sci U S A. 2023 Jan 3; 120(1): e2215126120. Published online 2022 Dec 27. doi: 10.1073/pnas.2215126120

PMCID:: PMC9910460

Abstract Article PDF–1.4M

Select item 988117615.

The S. cerevisiae m⁶A-reader Pho92 promotes timely meiotic recombination by controlling key methylated transcripts

Jérémy Scutenaire, Damien Plassard, Mélody Matelot, Tommaso Villa, Julie Zumsteg, Domenico Libri, Bertrand Séraphin

Nucleic Acids Res. 2023 Jan 25; 51(2): 517–535. Published online 2022 Aug 8. doi: 10.1093/nar/gkac640

PMCID:: PMC9881176

Abstract Article PDF–7.3M

Select item 983634816.

A synthetic genetic array screen for interactions with the RNA helicase DED1 during cell stress in budding yeast

Sara B Carey, Hannah M List, Ashwin Siby, Paolo Guerra, Timothy A Bolger

G3 (Bethesda) 2023 Jan; 13(1): jkac296. Published online 2022 Nov 21. doi: 10.1093/g3journal/jkac296

PMCID:: PMC9836348

Abstract Article PDF–857K

Select item 963887617.

The RNA polymerase II subunit Rpb9 activates ATG1 transcription and autophagy

Ting Huang, Gaoyue Jiang, Yabin Zhang, Yuqing Lei, Shiyan Liu, Huihui Li, Kefeng Lu

EMBO Rep. 2022 Nov; 23(11): e54993. Published online 2022 Sep 14. doi: 10.15252/embr.202254993

PMCID:: PMC9638876

Abstract Article PDF–2.8M

Select item 929845518.

Post-transcriptional regulation of ATG1 is a critical node that modulates autophagy during distinct nutrient stresses

Vikramjit Lahiri, Shree Padma Metur, Zehan Hu, Xinxin Song, Muriel Mari, Wayne D. Hawkins, Janakraj Bhattarai, Elizabeth Delorme-Axford, Fulvio Reggiori, Daolin Tang, Joern Dengjel, Daniel J. Klionsky

Autophagy. 2022; 18(7): 1694–1714. Published online 2021 Nov 26. doi: 10.1080/15548627.2021.1997305

PMCID:: PMC9298455

Abstract Article PDF–2.8M

Select item 928602319.

Mediator recruits the cohesin loader Scc2 to RNA Pol II-transcribed genes and promotes sister chromatid cohesion

Mark Mattingly, Chris Seidel, Sofía Muñoz, Yan Hao, Ying Zhang, Zhihui Wen, Laurence Florens, Frank Uhlmann, Jennifer L. Gerton

Curr Biol. 2022 Jul 11; 32(13): 2884–2896.e6. doi: 10.1016/j.cub.2022.05.019

PMCID:: PMC9286023

Abstract Article

Select item 920981120.

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

Abstract Article PDF–818K

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