Developmental Biology

Boxem Lab

Publications

  1. Sepers, J.J., Verstappen, N.H.M., Vo, A.A., Ragle, J.M., Ruijtenberg, S., Ward, J.D. and Boxem, M. (2022). The mIAA7 degron improves auxin-mediated degradation in C. elegans. G3 Bethesda Md jkac222.
  2. Castiglioni, V.G., Ramalho, J.J., Kroll, J.R., Stucchi, R., van Beuzekom, H., Schmidt, R., Altelaar, M. and Boxem, M. (2022). Identification and characterization of Crumbs polarity complex proteins in Caenorhabditis elegans. J. Biol. Chem. 298 (4): 101786.
  3. Sepers, J.J., Ramalho, J.J., Kroll, J.R., Schmidt, R. and Boxem, M. (2022) (a). ERM-1 Phosphorylation and NRFL-1 Redundantly Control Lumen Formation in the C. elegans Intestine. Front. Cell Dev. Biol. 10: 769862.
  4. Kroll, J.R., Remmelzwaal, S. and Boxem, M. (2021). CeLINC, a fluorescence-based protein-protein interaction assay in Caenorhabditiselegans. Genetics iyab163.
  5. Riga, A., Cravo, J., Schmidt, R., Pires, H.R., Castiglioni, V.G., van den Heuvel, S. and Boxem, M. (2021). Caenorhabditis elegans LET-413 Scribble is essential in the epidermis for growth, viability, and directional outgrowth of epithelial seam cells. PLoS Genet. 17 (10): e1009856.
  6. Remmelzwaal, S., Geisler, F., Stucchi, R., van der Horst, S., Pasolli, M., Kroll, J.R., Jarosinska, O.D., Akhmanova, A., Richardson, C.A., Altelaar, M., Leube, R.E., Ramalho, J.J. and Boxem, M. (2021). BBLN-1 is essential for intermediate filament organization and apical membrane morphology. Curr. Biol. CB
  7. Castiglioni, V.G., Pires, H.R., Rosas Bertolini, R., Riga, A., Kerver, J. and Boxem, M. (2020). Epidermal PAR-6 and PKC-3 are essential for larval development of C. elegans and organize non-centrosomal microtubules. eLife 9: e62067.
  8. Pelgrom, A.J.E., Meisrimler, C.-N., Elberse, J., Koorman, T., Boxem, M. and Van den Ackerveken, G. (2020). Host interactors of effector proteins of the lettuce downy mildew Bremia lactucae obtained by yeast two-hybrid screening. PloS One 15 (5): e0226540.
  9. Ramalho, J.J., Sepers, J.J., Nicolle, O., Schmidt, R., Cravo, J., Michaux, G. and Boxem, M. (2020). C-terminal phosphorylation modulates ERM-1 localization and dynamics to control cortical actin organization and support lumen formation during Caenorhabditis elegans development. Development 147 (14): dev188011.
  10. Riga, A., Castiglioni, V.G. and Boxem, M. (2020). New insights into apical-basal polarization in epithelia. Curr. Opin. Cell Biol. 62: 1–8.
  11. Yao, Z., Aboualizadeh, F., Kroll, J., Akula, I., Snider, J., Lyakisheva, A., Tang, P., Kotlyar, M., Jurisica, I., Boxem, M. and Stagljar, I. (2020). Split Intein-Mediated Protein Ligation for detecting protein-protein interactions and their inhibition. Nat. Commun. 11 (1): 2440.
  12. Boxem, M. and van den Heuvel, S. (2019). Cell Polarity: Getting the PARty Started. Curr. Biol. CB 29 (13): R637–R639.
  13. Malinow, R.A., Ying, P., Koorman, T., Boxem, M., Jin, Y. and Kim, K.W. (2019). Functional Dissection of C. elegans bZip-Protein CEBP-1 Reveals Novel Structural Motifs Required for Axon Regeneration and Nuclear Import. Front. Cell. Neurosci. 13: 348.
  14. Remmelzwaal, S. and Boxem, M. (2019). Protein interactome mapping in Caenorhabditis elegans. Curr. Opin. Syst. Biol. 13: 1–9.
  15. García-Rodríguez, F.J., Martínez-Fernández, C., Brena, D., Kukhtar, D., Serrat, X., Nadal, E., Boxem, M., Honnen, S., Miranda-Vizuete, A., Villanueva, A. and Cerón, J. (2018). Genetic and cellular sensitivity of Caenorhabditis elegans to the chemotherapeutic agent cisplatin. Dis. Model. Mech. 11 (6): dmm033506.
  16. Amendola, P.G., Zaghet, N., Ramalho, J.J., Vilstrup Johansen, J., Boxem, M. and Salcini, A.E. (2017). JMJD-5/KDM8 regulates H3K36me2 and is required for late steps of homologous recombination and genome integrity. PLoS Genet. 13 (2): e1006632.
  17. Pires, H.R. and Boxem, M. (2017). Mapping the Polarity Interactome. J. Mol. Biol. 430 (19): 3521–3544.
  18. Koorman, T., Klompstra, D., van der Voet, M., Lemmens, I., Ramalho, J.J., Nieuwenhuize, S., van den Heuvel, S., Tavernier, J., Nance, J. and Boxem, M. (2016). A combined binary interaction and phenotypic map of C. elegans cell polarity proteins. Nat. Cell Biol. 18 (3): 337–346.
  19. Portegijs, V., Fielmich, L.-E., Galli, M., Schmidt, R., Muñoz, J., van Mourik, T., Akhmanova, A., Heck, A.J.R., Boxem, M. and van den Heuvel, S. (2016). Multisite Phosphorylation of NuMA-Related LIN-5 Controls Mitotic Spindle Positioning in C. elegans. PLoS Genet. 12 (10): e1006291.
  20. Waaijers, S., Muñoz, J., Berends, C., Ramalho, J.J., Goerdayal, S.S., Low, T.Y., Zoumaro-Djayoon, A.D., Hoffmann, M., Koorman, T., Tas, R.P., Harterink, M., Seelk, S., Kerver, J., Hoogenraad, C.C., Bossinger, O., Tursun, B., Van Den Heuvel, S., Heck, A.J.R. and Boxem, M. (2016). A Tissue-Specific Protein Purification Approach in Caenorhabditis elegans identifies Novel Interaction Partners of DLG-1/Discs large. BMC Biol. 14: 66.
  21. Chen, L., Chuang, M., Koorman, T., Boxem, M., Jin, Y. and Chisholm, A.D. (2015). Axon injury triggers EFA-6 mediated destabilization of axonal microtubules via TACC and doublecortin like kinase. eLife 4: e08695.
  22. The, I., Ruijtenberg, S., Bouchet, B.P., Cristobal, A., Prinsen, M.B.W., van Mourik, T., Koreth, J., Xu, H., Heck, A.J.R., Akhmanova, A., Cuppen, E., Boxem, M., Muñoz, J. and van den Heuvel, S. (2015). Rb and FZR1/Cdh1 determine CDK4/6-cyclin D requirement in C. elegans and human cancer cells. Nat. Commun. 6: 5906.
  23. Waaijers, S., Ramalho, J.J., Koorman, T., Kruse, E. and Boxem, M. (2015). The C. elegans Crumbs family contains a CRB3 homolog and is not essential for viability. Biol. Open 4 (3): 276–284.
  24. de Albuquerque, B.F.M., Luteijn, M.J., Cordeiro Rodrigues, R.J., van Bergeijk, P., Waaijers, S., Kaaij, L.J.T., Klein, H., Boxem, M. and Ketting, R.F. (2014). PID-1 is a novel factor that operates during 21U-RNA biogenesis in Caenorhabditis elegans. Genes Dev. 28 (7): 683–688.
  25. Sapir, A., Tsur, A., Koorman, T., Ching, K., Mishra, P., Bardenheier, A., Podolsky, L., Bening-Abu-Shach, U., Boxem, M., Chou, T.-F., Broday, L. and Sternberg, P.W. (2014). Controlled sumoylation of the mevalonate pathway enzyme HMGS-1 regulates metabolism during aging. Proc. Natl. Acad. Sci. U. S. A. 111 (37): E3880-3889.
  26. Waaijers, S. and Boxem, M. (2014). Engineering the Caenorhabditis elegans genome with CRISPR/Cas9. Methods 68 (3): 381–388.
  27. Berends, C.W.H., Muñoz, J., Portegijs, V., Schmidt, R., Grigoriev, I., Boxem, M., Akhmanova, A., Heck, A.J.R. and van den Heuvel, S. (2013). F-actin asymmetry and the endoplasmic reticulum-associated TCC-1 protein contribute to stereotypic spindle movements in the Caenorhabditis elegans embryo. Mol. Biol. Cell 24 (14): 2201–2215.
  28. Waaijers, S., Koorman, T., Kerver, J. and Boxem, M. (2013). Identification of human protein interaction domains using an ORFeome-based yeast two-hybrid fragment library. J. Proteome Res. 12 (7): 3181–3192.
  29. Waaijers, S., Portegijs, V., Kerver, J., Lemmens, B.B.L.G., Tijsterman, M., van den Heuvel, S. and Boxem, M. (2013). CRISPR/Cas9-targeted mutagenesis in Caenorhabditis elegans. Genetics 195 (3): 1187–1191.
  30. Wang, Z., Hou, Y., Guo, X., van der Voet, M., Boxem, M., Dixon, J.E., Chisholm, A.D. and Jin, Y. (2013). The EBAX-type Cullin-RING E3 ligase and Hsp90 guard the protein quality of the SAX-3/Robo receptor in developing neurons. Neuron 79 (5): 903–916.
  31. Galli, M., Muñoz, J., Portegijs, V., Boxem, M., Grill, S.W., Heck, A.J.R. and van den Heuvel, S. (2011). aPKC phosphorylates NuMA-related LIN-5 to position the mitotic spindle during asymmetric division. Nat. Cell Biol. 13 (9): 1132–1138.
  32. Korzelius, J., The, I., Ruijtenberg, S., Prinsen, M.B.W., Portegijs, V., Middelkoop, T.C., Groot Koerkamp, M.J., Holstege, F.C.P., Boxem, M. and van den Heuvel, S. (2011). Caenorhabditis elegans cyclin D/CDK4 and cyclin E/CDK2 induce distinct cell cycle re-entry programs in differentiated muscle cells. PLoS Genet. 7 (11): e1002362.
  33. Mukhtar, M.S., Carvunis, A.-R., Dreze, M., Epple, P., Steinbrenner, J., Moore, J., Tasan, M., Galli, M., Hao, T., Nishimura, M.T., Pevzner, S.J., Donovan, S.E., Ghamsari, L., Santhanam, B., Romero, V., Poulin, M.M., Gebreab, F., Gutierrez, B.J., Tam, S., Monachello, D., Boxem, M., Harbort, C.J., McDonald, N., Gai, L., Chen, H., He, Y., Vandenhaute, J., Roth, F.P., Hill, D.E., Ecker, J.R., Vidal, M., Beynon, J., Braun, P. and Dangl, J.L. (2011). Independently evolved virulence effectors converge onto hubs in a plant immune system network. Science 333 (6042): 596–601.
  34. Dreze, M., Charloteaux, B., Milstein, S., Vidalain, P.-O., Yildirim, M.A., Zhong, Q., Svrzikapa, N., Romero, V., Laloux, G., Brasseur, R., Vandenhaute, J., Boxem, M., Cusick, M.E., Hill, D.E. and Vidal, M. (2009). “Edgetic” perturbation of a C. elegans BCL2 ortholog. Nat. Methods 6 (11): 843–849.
  35. Sillé, F.C.M., Boxem, M., Sprengers, D., Veerapen, N., Besra, G. and Boes, M. (2009). Distinct requirements for CD1d intracellular transport for development of V(alpha)14 iNKT cells. J. Immunol. Baltim. Md 1950 183 (3): 1780–1788.
  36. Simonis, N., Rual, J.-F., Carvunis, A.-R., Tasan, M., Lemmens, I., Hirozane-Kishikawa, T., Hao, T., Sahalie, J.M., Venkatesan, K., Gebreab, F., Cevik, S., Klitgord, N., Fan, C., Braun, P., Li, N., Ayivi-Guedehoussou, N., Dann, E., Bertin, N., Szeto, D., Dricot, A., Yildirim, M.A., Lin, C., de Smet, A.-S., Kao, H.-L., Simon, C., Smolyar, A., Ahn, J.S., Tewari, M., Boxem, M., Milstein, S., Yu, H., Dreze, M., Vandenhaute, J., Gunsalus, K.C., Cusick, M.E., Hill, D.E., Tavernier, J., Roth, F.P. and Vidal, M. (2009). Empirically controlled mapping of the Caenorhabditis elegans protein-protein interactome network. Nat. Methods 6 (1): 47–54.
  37. van der Voet, M., Berends, C.W.H., Perreault, A., Nguyen-Ngoc, T., Gönczy, P., Vidal, M., Boxem, M. and van den Heuvel, S. (2009). NuMA-related LIN-5, ASPM-1, calmodulin and dynein promote meiotic spindle rotation independently of cortical LIN-5/GPR/Galpha. Nat. Cell Biol. 11 (3): 269–277.
  38. Boxem, M., Maliga, Z., Klitgord, N., Li, N., Lemmens, I., Mana, M., de Lichtervelde, L., Mul, J.D., van de Peut, D., Devos, M., Simonis, N., Yildirim, M.A., Cokol, M., Kao, H.-L., de Smet, A.-S., Wang, H., Schlaitz, A.-L., Hao, T., Milstein, S., Fan, C., Tipsword, M., Drew, K., Galli, M., Rhrissorrakrai, K., Drechsel, D., Koller, D., Roth, F.P., Iakoucheva, L.M., Dunker, A.K., Bonneau, R., Gunsalus, K.C., Hill, D.E., Piano, F., Tavernier, J., van den Heuvel, S., Hyman, A.A. and Vidal, M. (2008). A protein domain-based interactome network for C. elegans early embryogenesis. Cell 134 (3): 534–545.
  39. Komatsu, H., Chao, M.Y., Larkins-Ford, J., Corkins, M.E., Somers, G.A., Tucey, T., Dionne, H.M., White, J.Q., Wani, K., Boxem, M. and Hart, A.C. (2008). OSM-11 facilitates LIN-12 Notch signaling during Caenorhabditis elegans vulval development. PLoS Biol. 6 (8): e196.
  40. Boxem, M. (2006). Cyclin-dependent kinases in C. elegans. Cell Div. 1: 6.
  41. Rual, J.-F., Venkatesan, K., Hao, T., Hirozane-Kishikawa, T., Dricot, A., Li, N., Berriz, G.F., Gibbons, F.D., Dreze, M., Ayivi-Guedehoussou, N., Klitgord, N., Simon, C., Boxem, M., Milstein, S., Rosenberg, J., Goldberg, D.S., Zhang, L.V., Wong, S.L., Franklin, G., Li, S., Albala, J.S., Lim, J., Fraughton, C., Llamosas, E., Cevik, S., Bex, C., Lamesch, P., Sikorski, R.S., Vandenhaute, J., Zoghbi, H.Y., Smolyar, A., Bosak, S., Sequerra, R., Doucette-Stamm, L., Cusick, M.E., Hill, D.E., Roth, F.P. and Vidal, M. (2005). Towards a proteome-scale map of the human protein-protein interaction network. Nature 437 (7062): 1173–1178.
  42. Boxem, M., Tsai, C.W., Zhang, Y., Saito, R.M. and Liu, J.O. (2004). The C. elegans methionine aminopeptidase 2 analog map-2 is required for germ cell proliferation. FEBS Lett. 576 (1–2): 245–250.
  43. Dupuy, D., Li, Q.-R., Deplancke, B., Boxem, M., Hao, T., Lamesch, P., Sequerra, R., Bosak, S., Doucette-Stamm, L., Hope, I.A., Hill, D.E., Walhout, A.J.M. and Vidal, M. (2004). A first version of the Caenorhabditis elegans Promoterome. Genome Res. 14 (10B): 2169–2175.
  44. Li, S., Armstrong, C.M., Bertin, N., Ge, H., Milstein, S., Boxem, M., Vidalain, P.-O., Han, J.-D.J., Chesneau, A., Hao, T., Goldberg, D.S., Li, N., Martinez, M., Rual, J.-F., Lamesch, P., Xu, L., Tewari, M., Wong, S.L., Zhang, L.V., Berriz, G.F., Jacotot, L., Vaglio, P., Reboul, J., Hirozane-Kishikawa, T., Li, Q., Gabel, H.W., Elewa, A., Baumgartner, B., Rose, D.J., Yu, H., Bosak, S., Sequerra, R., Fraser, A., Mango, S.E., Saxton, W.M., Strome, S., Van Den Heuvel, S., Piano, F., Vandenhaute, J., Sardet, C., Gerstein, M., Doucette-Stamm, L., Gunsalus, K.C., Harper, J.W., Cusick, M.E., Roth, F.P., Hill, D.E. and Vidal, M. (2004). A map of the interactome network of the metazoan C. elegans. Science 303 (5657): 540–543.
  45. Tewari, M., Hu, P.J., Ahn, J.S., Ayivi-Guedehoussou, N., Vidalain, P.-O., Li, S., Milstein, S., Armstrong, C.M., Boxem, M., Butler, M.D., Busiguina, S., Rual, J.-F., Ibarrola, N., Chaklos, S.T., Bertin, N., Vaglio, P., Edgley, M.L., King, K.V., Albert, P.S., Vandenhaute, J., Pandey, A., Riddle, D.L., Ruvkun, G. and Vidal, M. (2004). Systematic interactome mapping and genetic perturbation analysis of a C. elegans TGF-beta signaling network. Mol. Cell 13 (4): 469–482.
  46. Vidalain, P.-O., Boxem, M., Ge, H., Li, S. and Vidal, M. (2004). Increasing specificity in high-throughput yeast two-hybrid experiments. Methods 32 (4): 363–370.
  47. Boxem, M. and van den Heuvel, S. (2002). C. elegans class B synthetic multivulva genes act in G1 regulation. Curr. Biol. CB 12 (11): 906–911.
  48. Boxem, M. and van den Heuvel, S. (2001). lin-35 Rb and cki-1 Cip/Kip cooperate in developmental regulation of G1 progression in C. elegans. Development 128 (21): 4349–4359.
  49. Boxem, M., Srinivasan, D.G. and van den Heuvel, S. (1999). The Caenorhabditis elegans gene ncc-1 encodes a cdc2-related kinase required for M phase in meiotic and mitotic cell divisions, but not for S phase. Development 126 (10): 2227–2239.
  50. Willemsen, P.T., Vulto, I., Boxem, M. and de Graaff, J. (1997). Characterization of a periplasmic protein involved in iron utilization of Actinobacillus actinomycetemcomitans. J. Bacteriol. 179 (15): 4949–4952.