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Proteomic identification of phosphatidylinositol (3,4,5) triphosphate-binding proteins in Dictyostelium discoideum

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Zhang, Pingbo, Wang, Yu, Sesaki, Hiromi, Iijima, Miho·2010·Proceedings of the National Academy of Sciences

Abstract

Phosphatidylinositol (3,4,5)-triphosphate (PtdInsP 3 ) mediates intracellular signaling for directional sensing and pseudopod extension at the leading edge of migrating cells during chemotaxis. How this PtdInsP 3 signal is translated into remodeling of the actin cytoskeleton is poorly understood. Here, using a proteomics approach, we identified multiple PtdInsP 3 -binding proteins in Dictyostelium discoideum , including five pleckstrin homology (PH) domain-containing proteins. Two of these, the serine/threonine kinase Akt/protein kinase B and the PH domain-containing protein PhdA, were previously characterized as PtdInsP 3 -binding proteins. In addition, PhdB, PhdG, and PhdI were identified as previously undescribed PH domain-containing proteins. Specific PtdInsP 3 interactions with PhdB, PhdG, and PhdI were confirmed using an in vitro lipid-binding assay. In cells, PhdI associated with the plasma membrane in a manner dependent on both the PH domain and PtdInsP 3 . Consistent with this finding, PhdI located to the leading edge in migrating cells. In contrast, PhdG was found in the cytosol in WT cells. However, when PtdInsP 3 was overproduced in pten − cells, PhdG located to the plasma membrane, suggesting its weak affinity for PtdInsP 3 . PhdB was found to bind to the plasma membrane via both PtdInsP 3 -dependent and -independent mechanisms. The PtdInsP 3 -independent interaction was mediated by the middle domain, independent of the PH domain. In migrating cells, the majority of PhdB was found at the lagging edge. Finally, we deleted the genes encoding PhdB and PhdG and demonstrated that both proteins are required for efficient chemotaxis. Thus, this study advances our understanding of the PtdInsP 3 -mediated signaling mechanisms that control directed cell migration in chemotaxis.

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  • PI(3,4,5)P3 and its derivative PI(3,4)P2 interact with the lipid-binding PH domain in a range of protein effectors, resulting in their recruitment to membrane-signalling complexes and/or modulation of their activity.

    “PI(3,4,5)P3 and PI(3,4)P2 interact with the lipid-binding PH-domain in a range of protein effectors, resulting in their recruitment to membrane-signalling complexes and/or modulation of their activity [78–81].”

    From Phosphatidylinositol(4,5)bisphosphate: diverse functions at the plasma membrane (2020) · cites this paper as [79]

    The Discussion describes PH-domain proteins as a major group of PtdInsP3-binding proteins, and the Results show PtdInsP3-dependent recruitment of several proteins to the plasma membrane. The Results also say that PHcrac binds PtdIns(3,4)P2, but do not establish that this lipid recruits or modulates a range of effectors. Page numbers were not supplied. (LLM, conf=0.86)

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  1. [1]Iijima M, Huang YE, Devreotes P. Temporal and spatial regulation of chemotaxis. Dev Cell. 2002;3:469–478. doi: 10.1016/s1534-5807(02)00292-7. [DOI] [PubMed] [Google Scholar] · DOI
  2. [2]Van Haastert PJ, Devreotes PN. Chemotaxis: Signalling the way forward. Nat Rev Mol Cell Biol. 2004;5:626–634. doi: 10.1038/nrm1435. [DOI] [PubMed] [Google Scholar] · DOI
  3. [3]Fey P, Kowal AS, Gaudet P, Pilcher KE, Chisholm RL. Protocols for growth and development of Dictyostelium discoideum. Nat Protoc. 2007;2:1307–1316. doi: 10.1038/nprot.2007.178. [DOI] [PubMed] [Google Scholar] · DOI
  4. [4]Willard SS, Devreotes PN. Signaling pathways mediating chemotaxis in the social amoeba, Dictyostelium discoideum. Eur J Cell Biol. 2006;85:897–904. doi: 10.1016/j.ejcb.2006.06.003. [DOI] [PubMed] [Google Scholar] · DOI
  5. [5]Chung CY, Firtel RA. Signaling pathways at the leading edge of chemotaxing cells. J Muscle Res Cell Motil. 2002;23:773–779. doi: 10.1023/a:1024479728970. [DOI] [PubMed] [Google Scholar] · DOI
  6. [6]Weiner OD, et al. A PtdInsP(3)- and Rho GTPase-mediated positive feedback loop regulates neutrophil polarity. Nat Cell Biol. 2002;4:509–513. doi: 10.1038/ncb811. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  7. [7]Funamoto S, Meili R, Lee S, Parry L, Firtel RA. Spatial and temporal regulation of 3-phosphoinositides by PI 3-kinase and PTEN mediates chemotaxis. Cell. 2002;109:611–623. doi: 10.1016/s0092-8674(02)00755-9. [DOI] [PubMed] [Google Scholar] · DOI
  8. [8]Iijima M, Devreotes P. Tumor suppressor PTEN mediates sensing of chemoattractant gradients. Cell. 2002;109:599–610. doi: 10.1016/s0092-8674(02)00745-6. [DOI] [PubMed] [Google Scholar] · DOI
  9. [9]Iijima M, Huang YE, Luo HR, Vazquez F, Devreotes PN. Novel mechanism of PTEN regulation by its phosphatidylinositol 4,5-bisphosphate binding motif is critical for chemotaxis. J Biol Chem. 2004;279:16606–16613. doi: 10.1074/jbc.M312098200. [DOI] [PubMed] [Google Scholar] · DOI
  10. [10]Huang YE, et al. Receptor-mediated regulation of PI3Ks confines PI(3,4,5)P3 to the leading edge of chemotaxing cells. Mol Biol Cell. 2003;14:1913–1922. doi: 10.1091/mbc.E02-10-0703. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  11. [11]Chen L, et al. PLA2 and PI3K/PTEN pathways act in parallel to mediate chemotaxis. Dev Cell. 2007;12:603–614. doi: 10.1016/j.devcel.2007.03.005. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  12. [12]Wessels D, Lusche DF, Kuhl S, Heid P, Soll DR. PTEN plays a role in the suppression of lateral pseudopod formation during Dictyostelium motility and chemotaxis. J Cell Sci. 2007;120:2517–2531. doi: 10.1242/jcs.010876. [DOI] [PubMed] [Google Scholar] · DOI
  13. [14]Parent CA, Blacklock BJ, Froehlich WM, Murphy DB, Devreotes PN. G protein signaling events are activated at the leading edge of chemotactic cells. Cell. 1998;95:81–91. doi: 10.1016/s0092-8674(00)81784-5. [DOI] [PubMed] [Google Scholar] · DOI
  14. [15]Meili R, et al. Chemoattractant-mediated transient activation and membrane localization of Akt/PKB is required for efficient chemotaxis to cAMP in Dictyostelium. EMBO J. 1999;18:2092–2105. doi: 10.1093/emboj/18.8.2092. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  15. [16]Funamoto S, Milan K, Meili R, Firtel RA. Role of phosphatidylinositol 3′ kinase and a downstream pleckstrin homology domain-containing protein in controlling chemotaxis in dictyostelium. J Cell Biol. 2001;153:795–810. doi: 10.1083/jcb.153.4.795. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  16. [17]Kortholt A, van Haastert PJ. Highlighting the role of Ras and Rap during Dictyostelium chemotaxis. Cell Signal. 2008;20:1415–1422. doi: 10.1016/j.cellsig.2008.02.006. [DOI] [PubMed] [Google Scholar] · DOI
  17. [18]Jeon TJ, Lee S, Weeks G, Firtel RA. Regulation of Dictyostelium morphogenesis by RapGAP3. Dev Biol. 2009;328:210–220. doi: 10.1016/j.ydbio.2009.01.016. [DOI] [PubMed] [Google Scholar] · DOI
  18. [19]Narayan K, Lemmon MA. Determining selectivity of phosphoinositide-binding domains. Methods. 2006;39:122–133. doi: 10.1016/j.ymeth.2006.05.006. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  19. [20]Dormann D, Weijer G, Dowler S, Weijer CJ. In vivo analysis of 3-phosphoinositide dynamics during Dictyostelium phagocytosis and chemotaxis. J Cell Sci. 2004;117:6497–6509. doi: 10.1242/jcs.01579. [DOI] [PubMed] [Google Scholar] · DOI
  20. [21]Parent CA, Devreotes PN. A cell’s sense of direction. Science. 1999;284:765–770. doi: 10.1126/science.284.5415.765. [DOI] [PubMed] [Google Scholar] · DOI
  21. [22]Sasaki AT, Chun C, Takeda K, Firtel RA. Localized Ras signaling at the leading edge regulates PI3K, cell polarity, and directional cell movement. J Cell Biol. 2004;167:505–518. doi: 10.1083/jcb.200406177. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  22. [23]Lemmon MA. Pleckstrin homology domains: Not just for phosphoinositides. Biochem Soc Trans. 2004;32:707–711. doi: 10.1042/BST0320707. [DOI] [PubMed] [Google Scholar] · DOI
  23. [24]Czech MP. PIP2 and PIP3: Complex roles at the cell surface. Cell. 2000;100:603–606. doi: 10.1016/s0092-8674(00)80696-0. [DOI] [PubMed] [Google Scholar] · DOI
  24. [25]Barber MA, Welch HC. PI3K and RAC signalling in leukocyte and cancer cell migration. Bull Cancer. 2006;93:E44–E52. [PubMed] [Google Scholar]
  25. [26]Nishio M, et al. Control of cell polarity and motility by the PtdIns(3,4,5)P3 phosphatase SHIP1. Nat Cell Biol. 2007;9:36–44. doi: 10.1038/ncb1515. [DOI] [PubMed] [Google Scholar] · DOI
  26. [27]Kölsch V, Charest PG, Firtel RA. The regulation of cell motility and chemotaxis by phospholipid signaling. J Cell Sci. 2008;121:551–559. doi: 10.1242/jcs.023333. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  27. [28]Balla T, Várnai P. Visualizing cellular phosphoinositide pools with GFP-fused protein-modules. Sci STKE. 2002;2002:pl3. doi: 10.1126/stke.2002.125.pl3. [DOI] [PubMed] [Google Scholar] · DOI
  28. [29]Cozier GE, Carlton J, Bouyoucef D, Cullen PJ. Membrane targeting by pleckstrin homology domains. Curr Top Microbiol Immunol. 2004;282:49–88. doi: 10.1007/978-3-642-18805-3_3. [DOI] [PubMed] [Google Scholar] · DOI
  29. [30]DiNitto JP, Lambright DG. Membrane and juxtamembrane targeting by PH and PTB domains. Biochim Biophys Acta. 2006;1761:850–867. doi: 10.1016/j.bbalip.2006.04.008. [DOI] [PubMed] [Google Scholar] · DOI
  30. [31]Lemmon MA. Membrane recognition by phospholipid-binding domains. Nat Rev Mol Cell Biol. 2008;9:99–111. doi: 10.1038/nrm2328. [DOI] [PubMed] [Google Scholar] · DOI
  31. [32]Isakoff SJ, et al. Identification and analysis of PH domain-containing targets of phosphatidylinositol 3-kinase using a novel in vivo assay in yeast. EMBO J. 1998;17:5374–5387. doi: 10.1093/emboj/17.18.5374. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI · Paper page
  32. [33]Tanaka K, et al. Identification of protein kinase B (PKB) as a phosphatidylinositol 3,4,5-trisphosphate binding protein in Dictyostelium discoideum. Biosci Biotechnol Biochem. 1999;63:368–372. doi: 10.1271/bbb.63.368. [DOI] [PubMed] [Google Scholar] · DOI
  33. [34]Krugmann S, et al. Identification of ARAP3, a novel PI3K effector regulating both Arf and Rho GTPases, by selective capture on phosphoinositide affinity matrices. Mol Cell. 2002;9:95–108. doi: 10.1016/s1097-2765(02)00434-3. [DOI] [PubMed] [Google Scholar] · DOI
  34. [35]Jeon TJ, Lee DJ, Lee S, Weeks G, Firtel RA. Regulation of Rap1 activity by RapGAP1 controls cell adhesion at the front of chemotaxing cells. J Cell Biol. 2007;179:833–843. doi: 10.1083/jcb.200705068. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  35. [36]van Rossum DB, et al. Phospholipase Cgamma1 controls surface expression of TRPC3 through an intermolecular PH domain. Nature. 2005;434:99–104. doi: 10.1038/nature03340. [DOI] [PubMed] [Google Scholar] · DOI
  36. [37]Stephens L, Milne L, Hawkins P. Moving towards a better understanding of chemotaxis. Curr Biol. 2008;18:R485–R494. doi: 10.1016/j.cub.2008.04.048. [DOI] [PubMed] [Google Scholar] · DOI
  37. [38]Andrew N, Insall RH. Chemotaxis in shallow gradients is mediated independently of PtdIns 3-kinase by biased choices between random protrusions. Nat Cell Biol. 2007;9:193–200. doi: 10.1038/ncb1536. [DOI] [PubMed] [Google Scholar] · DOI
  38. [39]Hoeller O, Kay RR. Chemotaxis in the absence of PIP3 gradients. Curr Biol. 2007;17:813–817. doi: 10.1016/j.cub.2007.04.004. [DOI] [PubMed] [Google Scholar] · DOI
  39. [40]van Haastert PJ, Keizer-Gunnink I, Kortholt A. Essential role of PI3-kinase and phospholipase A2 in Dictyostelium discoideum chemotaxis. J Cell Biol. 2007;177:809–816. doi: 10.1083/jcb.200701134. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI
  40. [41]Higuchi R, Krummel B, Saiki RK. A general method of in vitro preparation and specific mutagenesis of DNA fragments: Study of protein and DNA interactions. Nucleic Acids Res. 1988;16:7351–7367. doi: 10.1093/nar/16.15.7351. [DOI] [PMC free article] [PubMed] [Google Scholar] · DOI

Cited by

Sorted by citations

Authors
Zhang, P., Wang, Y., Sesaki, H., & Iijima, M.
Affiliations
Johns Hopkins University (US)
Corresponding author
Iijima, Miho
Venue
Proceedings of the National Academy of Sciences
Published
2010-06-14
Volume
107
Issue
26
Pages
11829-11834
ISSN
  • 0027-8424 (ISSN-L)
  • 1091-6490
OpenAlex
W2128095861
Cited by
40
References
1
Citations by year
2025: 2 · 2024: 2 · 2022: 3 · 2021: 6 · 2020: 2 · 2019: 2 · 2017: 3 · 2016: 2 · 2015: 2 · 2014: 4 · 2013: 6 · 2012: 4
FWCI
1.56
Type
journal article
Language
en
Open access
Locations
  • Proceedings of the National Academy of Sciences (publishedVersion)
  • PubMed Central (publishedVersion)
  • PubMed (publishedVersion)
Funders
  • American Heart Association
  • Muscular Dystrophy Association
  • National Institutes of Health
  • National Institute of General Medical Sciences (GM-084015, R01GM084015)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Kinase Regulation and GTPase Signaling
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › PI3K/AKT/mTOR signaling in cancer
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Cell Biology › Cellular transport and secretion
Keywords
pleckstrin homology domain, Dictyostelium discoideum, chemotaxis, cell migration, actin cytoskeleton remodeling, Akt/protein kinase B, plasma membrane binding, PTEN
MeSH terms
Cyclic AMP, Amino Acid Sequence, Base Sequence, Carrier Proteins, Cell Membrane, Chemotaxis, Dictyostelium, Molecular Sequence Data, Movement, Signal Transduction, Protozoan Proteins, DNA, Protozoan, Protein Structure, Tertiary, Phosphatidylinositol Phosphates, Proteomics, Proto-Oncogene Proteins c-akt

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