Ypt4 and lvs1 regulate vacuolar size and function in Schizosaccharomyces pombe

References

• Li SC, Kane PM. The yeast lysosome-like vacuole: endpoint and crossroads. Biochim Biophys Acta 2009; 1793(4):650-63; PMID:18786576; https://doi.org/10.1016/j.bbamcr.2008.08.003
   PubMed Web of Science ®Google Scholar
• Yanagida M, Ikai N, Shimanuki M, Sajiki K. Nutrient limitations alter cell division control and chromosome segregation through growth-related kinases and phosphatases. Philos Trans R Soc Lond B Biol Sci 2011; 366(1584):3508-20; PMID:22084378; https://doi.org/10.1098/rstb.2011.0124
   PubMed Web of Science ®Google Scholar
• Takegawa K, Iwaki T, Fujita Y, Morita T, Hosomi A, Tanaka N. Vesicle-mediated protein transport pathways to the vacuole in Schizosaccharomyces pombe. Cell Struct Funct 2003; 28(5):399-417; PMID:14745133; https://doi.org/10.1247/csf.28.399
   PubMed Web of Science ®Google Scholar
• Huizing M, Boissy RE, Gahl WA. Hermansky-Pudlak syndrome: vesicle formation from yeast to man. Pigment Cell Res 2002; 15(6):405-19; PMID:12453182; https://doi.org/10.1034/j.1600-0749.2002.02074.x
   PubMedGoogle Scholar
• Huizing M, Anikster Y, Gahl WA. Hermansky-Pudlak syndrome and related disorders of organelle formation. Traffic 2000; 1(11):823-35; PMID:11208073; https://doi.org/10.1034/j.1600-0854.2000.011103.x
   PubMed Web of Science ®Google Scholar
• Kaplan J, De Domenico I, Ward DM. Chediak-Higashi syndrome. Curr Opin Hematol 2008; 15(1):22-9; PMID:18043242; https://doi.org/10.1097/MOH.0b013e3282f2bcce
   PubMed Web of Science ®Google Scholar
• Introne W, Boissy RE, Gahl WA. Clinical, molecular, and cell biological aspects of Chediak-Higashi syndrome. Mol Genet Metab 1999; 68(2):283-303; PMID:10527680; https://doi.org/10.1006/mgme.1999.2927
   PubMed Web of Science ®Google Scholar
• Nagle DL, Karim MA, Woolf EA, Holmgren L, Bork P, Misumi DJ, McGrail SH, Dussault BJ Jr, Perou CM, Boissy RE, et al. Identification and mutation analysis of the complete gene for Chediak-Higashi syndrome. Nat Genet 1996; 14(3):307-11; PMID:8896560; https://doi.org/10.1038/ng1196-307
   PubMed Web of Science ®Google Scholar
• Durchfort N, Verhoef S, Vaughn MB, Shrestha R, Adam D, Kaplan J, Ward DM. The Enlarged Lysosomes in beige(j) Cells Result From Decreased Lysosome Fission and Not Increased Lysosome Fusion. Traffic 2012; 13(1):108-19; PMID:21985295; https://doi.org/10.1111/j.1600-0854.2011.01300.x
   PubMed Web of Science ®Google Scholar
• Kypri E, Falkenstein K, De Lozanne A. Antagonistic control of lysosomal fusion by Rab14 and the Lyst-related protein LvsB. Traffic 2013; 14(5):599-609; PMID:23387437; https://doi.org/10.1111/tra.12058
   PubMed Web of Science ®Google Scholar
• Charette SJ, Cosson P. A LYST/beige homolog is involved in biogenesis of Dictyostelium secretory lysosomes. J Cell Sci 2007; 120(Pt 14):2338-43; PMID:17606989; https://doi.org/10.1242/jcs.009001
   PubMed Web of Science ®Google Scholar
• Baetz K, Isaaz S, Griffiths GM. Loss of cytotoxic T lymphocyte function in Chediak-Higashi syndrome arises from a secretory defect that prevents lytic granule exocytosis. J Immunol 1995; 154(11):6122-31; PMID:7751653
   PubMed Web of Science ®Google Scholar
• Sepulveda FE, Burgess A, Heiligenstein X, Goudin N, Menager MM, Romao M, Côte M, Mahlaoui N, Fischer A, Raposo G, et al. LYST controls the biogenesis of the endosomal compartment required for secretory lysosome function. Traffic 2015; 16(2):191-203; PMID:25425525; https://doi.org/10.1111/tra.12244
   PubMed Web of Science ®Google Scholar
• Shiflett SL, Vaughn MB, Huynh D, Kaplan J, Ward DM. Bph1p, the Saccharomyces cerevisiae homologue of CHS1/beige, functions in cell wall formation and protein sorting. Traffic 2004; 5(9):700-10; PMID:15296494; https://doi.org/10.1111/j.1600-0854.2004.00213.x
   PubMed Web of Science ®Google Scholar
• Notredame C, Higgins DG, Heringa J. T-Coffee: A novel method for fast and accurate multiple sequence alignment. J Mol Bio 2000; 302(1):205-17; PMID:10964570; https://doi.org/10.1006/jmbi.2000.4042
   PubMed Web of Science ®Google Scholar
• Gaits F, Russell P. Vacuole fusion regulated by protein phosphatase 2C in fission yeast. Mol Biol Cell 1999; 10(8):2647-54; PMID:10436019; https://doi.org/10.1091/mbc.10.8.2647
   PubMed Web of Science ®Google Scholar
• Bone N, Millar JB, Toda T, Armstrong J. Regulated vacuole fusion and fission in Schizosaccharomyces pombe: an osmotic response dependent on MAP kinases. Curr Biol 1998; 8(3):135-44; PMID:9443913; https://doi.org/10.1016/S0960-9822(98)00060-8
   PubMed Web of Science ®Google Scholar
• Li SC, Diakov TT, Rizzo JM, Kane PM. Vacuolar H+-ATPase works in parallel with the HOG pathway to adapt Saccharomyces cerevisiae cells to osmotic stress. Eukaryotic Cell 2012; 11(3):282-91; PMID:22210831; https://doi.org/10.1128/EC.05198-11
   PubMed Web of Science ®Google Scholar
• Cabrera M, Ostrowicz CW, Mari M, LaGrassa TJ, Reggiori F, Ungermann C. Vps41 phosphorylation and the Rab Ypt7 control the targeting of the HOPS complex to endosome-vacuole fusion sites. Mol Biol Cell 2009; 20(7):1937-48; PMID:19193765; https://doi.org/10.1091/mbc.E08-09-0943
   PubMed Web of Science ®Google Scholar
• Kashiwazaki J, Iwaki T, Takegawa K, Shimoda C, Nakamura T. Two fission yeast rab7 homologs, ypt7 and ypt71, play antagonistic roles in the regulation of vacuolar morphology. Traffic 2009; 10(7):912-24; PMID:19453973; https://doi.org/10.1111/j.1600-0854.2009.00907.x
   PubMed Web of Science ®Google Scholar
• Fratti RA, Jun Y, Merz AJ, Margolis N, Wickner W. Interdependent assembly of specific regulatory lipids and membrane fusion proteins into the vertex ring domain of docked vacuoles. J Cell Biol 2004; 167(6):1087-98; PMID:15611334; https://doi.org/10.1083/jcb.200409068
   PubMed Web of Science ®Google Scholar
• Ikai N, Nakazawa N, Hayashi T, Yanagida M. The reverse, but coordinated, roles of Tor2 (TORC1) and Tor1 (TORC2) kinases for growth, cell cycle and separase-mediated mitosis in Schizosaccharomyces pombe. Open Biol 2011; 1(3):110007; PMID:22645648; https://doi.org/10.1098/rsob.110007
   PubMed Web of Science ®Google Scholar
• Vida TA, Emr SD. A new vital stain for visualizing vacuolar membrane dynamics and endocytosis in yeast. J Cell Biol 1995; 128(5):779-92; PMID:7533169; https://doi.org/10.1083/jcb.128.5.779
   PubMed Web of Science ®Google Scholar
• Farnsworth CC, Seabra MC, Ericsson LH, Gelb MH, Glomset JA. Rab geranylgeranyl transferase catalyzes the geranylgeranylation of adjacent cysteines in the small GTPases Rab1A, Rab3A, and Rab5A. Proc Natl Acad Sci U S A 1994; 91(25):11963-7; PMID:7991565; https://doi.org/10.1073/pnas.91.25.11963
   PubMed Web of Science ®Google Scholar
• Gomes AQ, Ali BR, Ramalho JS, Godfrey RF, Barral DC, Hume AN, Seabra MC. Membrane targeting of Rab GTPases is influenced by the prenylation motif. Mol Biol Cell 2003; 14(5):1882-99; PMID:12802062; https://doi.org/10.1091/mbc.E02-10-0639
   PubMed Web of Science ®Google Scholar
• Sonnichsen B, De Renzis S, Nielsen E, Rietdorf J, Zerial M. Distinct membrane domains on endosomes in the recycling pathway visualized by multicolor imaging of Rab4, Rab5, and Rab11. J Cell Biol 2000; 149(4):901-14; PMID:10811830; https://doi.org/10.1083/jcb.149.4.901
   PubMed Web of Science ®Google Scholar
• Eckler AM, Wilder C, Castanon A, Ferris VM, Lamere RA, Perrin BA, Pearlman R, White B, Byrd C, Ludvik N, et al. Haploinsufficiency of the sec 7 guanine nucleotide exchange factor gea1 impairs septation in fission yeast. PloS one 2013; 8(2):e56807; https://doi.org/10.1371/journal.pone.0056807
   Web of Science ®Google Scholar
• Kita A, Sugiura R, Shoji H, He Y, Deng L, Lu Y, Sio SO, Takegawa K, Sakaue M, Shuntoh H, et al. Loss of Apm1, the micro1 subunit of the clathrin-associated adaptor-protein-1 complex, causes distinct phenotypes and synthetic lethality with calcineurin deletion in fission yeast. Mol Biol Cell 2004; 15(6):2920-31; PMID:15047861; https://doi.org/10.1091/mbc.E03-09-0659
   PubMed Web of Science ®Google Scholar
• Turi TG, Webster P, Rose JK. Brefeldin A sensitivity and resistance in Schizosaccharomyces pombe. Isolation of multiple genes conferring resistance. J Biol Chem 1994; 269(39):24229-36; PMID:7929079
   PubMed Web of Science ®Google Scholar
• Iwaki T, Osawa F, Onishi M, Koga T, Fujita Y, Hosomi A, Tanaka N, Fukui Y, Takegawa K. Characterization of vps33+, a gene required for vacuolar biogenesis and protein sorting in Schizosaccharomyces pombe. Yeast 2003; 20(10):845-55; PMID:12868054; https://doi.org/10.1002/yea.1011
   PubMed Web of Science ®Google Scholar
• Iwaki T, Hosomi A, Tokudomi S, Kusunoki Y, Fujita Y, Giga-Hama Y, Tanaka N, Takegawa K. Vacuolar protein sorting receptor in Schizosaccharomyces pombe. Microbiology 2006; 152(Pt 5):1523-32; PMID:16622069; https://doi.org/10.1099/mic.0.28627-0
   PubMed Web of Science ®Google Scholar
• Barbosa MD, Nguyen QA, Tchernev VT, Ashley JA, Detter JC, Blaydes SM, Brandt SJ, Chotai D, Hodgman C, Solari RC, et al. Identification of the homologous beige and Chediak-Higashi syndrome genes. Nature 1996; 382(6588):262-5; PMID:8717042; https://doi.org/10.1038/382262a0
   PubMed Web of Science ®Google Scholar
• van der Sluijs P, Hull M, Webster P, Male P, Goud B, Mellman I. The small GTP-binding protein rab4 controls an early sorting event on the endocytic pathway. Cell 1992; 70(5):729-40; PMID:1516131; https://doi.org/10.1016/0092-8674(92)90307-X
   PubMed Web of Science ®Google Scholar
• Van Der Sluijs P, Hull M, Zahraoui A, Tavitian A, Goud B, Mellman I. The small GTP-binding protein rab4 is associated with early endosomes. Proc Natl Acad Sci U S A 1991; 88(14):6313-7; PMID:1906178; https://doi.org/10.1073/pnas.88.14.6313
   PubMed Web of Science ®Google Scholar
• Jacomin AC, Fauvarque MO, Taillebourg E. A functional endosomal pathway is necessary for lysosome biogenesis in Drosophila. BMC Cell Biol 2016; 17(1):36; PMID:27852225; https://doi.org/10.1186/s12860-016-0115-7
   PubMed Web of Science ®Google Scholar
• Ingrell CR, Miller ML, Jensen ON, Blom N. NetPhosYeast: prediction of protein phosphorylation sites in yeast. Bioinformatics 2007; 23(7):895-7; PMID:17282998; https://doi.org/10.1093/bioinformatics/btm020
   PubMed Web of Science ®Google Scholar
• Blom N, Sicheritz-Ponten T, Gupta R, Gammeltoft S, Brunak S. Prediction of post-translational glycosylation and phosphorylation of proteins from the amino acid sequence. Proteomics 2004; 4(6):1633-49; PMID:15174133; https://doi.org/10.1002/pmic.200300771
   PubMed Web of Science ®Google Scholar
• Wang F, Shang Y, Fan B, Yu JQ, Chen Z. Arabidopsis LIP5, a positive regulator of multivesicular body biogenesis, is a critical target of pathogen-responsive MAPK cascade in plant basal defense. PLoS Pathog 2014; 10(7):e1004243; PMID:25010425; https://doi.org/10.1371/journal.ppat.1004243
   PubMed Web of Science ®Google Scholar
• Mikhailov A, Shinohara M, Rieder CL. The p38-mediated stress-activated checkpoint. A rapid response system for delaying progression through antephase and entry into mitosis. Cell Cycle 2005; 4(1):57-62; PMID:15611649; https://doi.org/10.4161/cc.4.1.1357
   PubMed Web of Science ®Google Scholar
• Li Y, Xu M, Ding X, Yan C, Song Z, Chen L, Huang X, Wang X, Jian Y, Tang G, et al. Protein kinase C controls lysosome biogenesis independently of mTORC1. Nature Cell Biol 2016; 18(10):1065-77; PMID:27617930; https://doi.org/10.1038/ncb3407
   PubMed Web of Science ®Google Scholar
• Hirota Y, Yamashita S, Kurihara Y, Jin X, Aihara M, Saigusa T, Kang D, Kanki T. Mitophagy is primarily due to alternative autophagy and requires the MAPK1 and MAPK14 signaling pathways. Autophagy 2015; 11(2):332-43; PMID:25831013; https://doi.org/10.1080/15548627.2015.1023047
   PubMed Web of Science ®Google Scholar
• Hocker R, Walker A, Schmitz I. Inhibition of autophagy through MAPK14-mediated phosphorylation of ATG5. Autophagy 2013; 9(3):426-8; PMID:23235332; https://doi.org/10.4161/auto.22924
   PubMed Web of Science ®Google Scholar
• Pluskal T, Hayashi T, Saitoh S, Fujisawa A, Yanagida M. Specific biomarkers for stochastic division patterns and starvation-induced quiescence under limited glucose levels in fission yeast. FEBS J 2011; 278(8):1299-315; PMID:21306563; https://doi.org/10.1111/j.1742-4658.2011.08050.x
   PubMed Web of Science ®Google Scholar
• Hatano T, Morigasaki S, Tatebe H, Ikeda K, Shiozaki K. Fission yeast Ryh1 GTPase activates TOR Complex 2 in response to glucose. Cell Cycle 2015; 14(6):848-56; PMID:25590601; https://doi.org/10.1080/15384101.2014.1000215
   PubMed Web of Science ®Google Scholar
• Jin Y, Weisman LS. The vacuole/lysosome is required for cell-cycle progression. eLife 2015;4; PMID:26322385; https://doi.org/10.7554/eLife.08160
   PubMed Web of Science ®Google Scholar
• Chan YH, Marshall WF. Organelle size scaling of the budding yeast vacuole is tuned by membrane trafficking rates. Biophys J 2014; 106(9):1986-96; PMID:24806931; https://doi.org/10.1016/j.bpj.2014.03.014
   PubMed Web of Science ®Google Scholar
• van der Sluijs P, Hull M, Huber LA, Male P, Goud B, Mellman I. Reversible phosphorylation–dephosphorylation determines the localization of rab4 during the cell cycle. EMBO J 1992; 11(12):4379-89; PMID:1425574
   PubMed Web of Science ®Google Scholar
• Gwinn DM, Asara JM, Shaw RJ. Raptor is phosphorylated by cdc2 during mitosis. PloS One 2010; 5(2):e9197; PMID:20169205; https://doi.org/10.1371/journal.pone.0009197
   PubMed Web of Science ®Google Scholar
• Matsuyama A, Shirai A, Yashiroda Y, Kamata A, Horinouchi S, Yoshida M. pDUAL, a multipurpose, multicopy vector capable of chromosomal integration in fission yeast. Yeast 2004; 21(15):1289-305; PMID:15546162; https://doi.org/10.1002/yea.1181
   PubMed Web of Science ®Google Scholar
• Matsuyama A, Yoshida M. Systematic cloning of an ORFeome using the Gateway system. Methods Mol Biol 2009; 577:11-24; PMID:19718505; https://doi.org/10.1007/978-1-60761-232-2_2
   PubMedGoogle Scholar
• Matsuyama A, Arai R, Yashiroda Y, Shirai A, Kamata A, Sekido S, Kobayashi Y, Hashimoto A, Hamamoto M, Hiraoka Y, et al. ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe. Nat Biotechnol 2006;24(7):841-7; PMID:16823372; https://doi.org/10.1038/nbt1222
   PubMed Web of Science ®Google Scholar
• Bahler J, Wu JQ, Longtine MS, Shah NG, McKenzie A, 3rd, Steever AB, Wach A, Philippsen P, Pringle JR. Heterologous modules for efficient and versatile PCR-based gene targeting in Schizosaccharomyces pombe. Yeast 1998; 14(10):943-51; PMID:9717240; https://doi.org/10.1002/(SICI)1097-0061(199807)14:10<943::AID-YEA292>3.0.CO;2-Y
   PubMed Web of Science ®Google Scholar