Crestina L. Beites, Shimako Kawauchi, Rosaysela Santos, Kimberly K. Gokoffski, and Anne L. Calof (2017) Patterning, cell specification and feedback in the olfactory epithelium. In: Reference Module in Neuroscience and Biobehavioral Psychology, Elsevier, 2017, ISBN 978-0-12-809324-5, http://www.sciencedirect.com/science/article/pii/B9780128093245026213
Newkirk, D., Y.-Y. Chen, R. Chien, W. Zeng, J. Biesinger, E. Flowers, S. Kawauchi, R. Santos, A.L. Calof, A.D. Lander, X. Xie, K. Yokomori (2017) The effect of Nipped-B-like (Nipbl) haploinsufficiency on genome-wide cohesin binding and target gene expression: modeling Cornelia de Lange Syndrome. Clinical Epigenetics, 2017 Aug 25; 9:89. doi: 10.1186/s13148-017-0391-x. eCollection 2017
Santos R., S. Kawauchi, R.E. Jacobs, M.E. Lopez-Burks, H. Choi, J. Wikenheiser, B., Hallgrimsson, H.A. Jamniczky, S.E. Fraser, A.D. Lander, and A.L. Calof* (2016) Conditional creation and rescue of Nipbl-deficiency in mice reveals multiple determinants of risk for congenital heart defects. PLOS Biology, 14, e2000197. doi: 10.1371/journal.pbio.2000197. PMID: 27606604. * corresponding author ** Reviewed in: PLoS Biology Primer by B. Gelb (2016)“The Hole and the Whole: Lessons from Manipulation of Nipbl Deficiency” 2016 PLoS Biology, and Arney K (2016) “Squeezing the Heart” In: Biomedical Picture of the Day (BPoD),bpod.mrc.ac.uk/archive/2016/10/13
Lopez-Burks, M.E., R. Santos, S. Kawauchi, A.L. Calof and A.D. Lander (2016) Genetic enhancement of limb defects in a mouse model of Cornelia de Lange Syndrome. Am J Med Genet C Semin Med Genet. 2016 Jun;172(2):146-54. doi: 10.1002/ajmg.c.31491. PMID: 27120109.
Kawauchi, S., R. Santos, A. Muto, M.E. Lopez-Burks, T.F. Schilling, A.D. Lander and A.L. Calof (2016) Using Mouse and Zebrafish Models to Understand the Etiology of Developmental Defects in Cornelia de Lange Syndrome. Am J Med Genet C Semin Med Genet. 172(2):138-45. doi: 10.1002/ajmg.c.31484. PMID: 27120001.
Kunche, S., H. Yan, A.L. Calof*, J.S. Lowengrub and A.D. Lander (2016) Feedback, lineages and self-organizing morphogenesis. PLoS Computational Biol, 12, e1004814. doi:10.1371/journal.pcbi.1004814. * corresponding author ** Cited in PLoS Collections, Editor’s Picks in Stem Cell Research (http://collections.plos.org/stem-cell-research).
Chiang M, Hallman S, Cinquin A, de Mochel NR, Paz A, Kawauchi S, Calof AL, Cho KW, Fowlkes CC, Cinquin O. (2015) Analysis of in vivo single cell behavior by high throughput, human-in-the-loop segmentation of three-dimensional images. BMC Bioinformatics 16:397. https://doi.org/10.1186/s12859-015-0814-7 PMID: 26607933, PMCID: PMC4659165.
Muto, A., S. Ikeda, M.E. Lopez-Burks, Y Kikuchi, A.L. Calof*, A.D. Lander and T.F. Schilling (2014) Nipbl and Mediator Cooperatively Regulate Gene Expression to Control Limb Development. PLoS Genetics, 10(9):e1004671. doi: 10.1371/journal.pgen.1004671. PMID 25255084. PMCID: PMC4177752. * corresponding author
Visnes, T., F. Giordano, A. Kuznetsova, JA Suja, A.D. Lander, A.L. Calof and L. Strom (2013) Localization of the SMC-loading complex Nipbl/Mau2 during mammalian meiotic prophase I. Chromosoma, 123, 239-252. PMID: 24287868; PMCID: PMC4031387.
- Remeseiro, A. Cuadrado, S. Kawauchi, A.L. Calof, A.D. Lander and A. Losada (2013) Reduction of Nipbl impairs cohesin loading locally and affects transcription but not cohesion-dependent functions in a mouse model of Cornelia de Lange Syndrome. Biochim Biophys Acta 1832, 2097-102. doi: 10.1016/j.bbadis.2013.07.020. PMCID: PMC3825806.
Kawauchi S, Santos R, Kim J, Wu, HH, Gokoffski KK, Lander AD and Calof AL (2012) Genetic interactions of cell intrinsic factors and secreted signals regulate neurogenesis in olfactory epithelium. Journal for the Japanese Association for Study of Taste and Smell 19(1): 49-55. (in Japanese)
Lander AD, Kimble J, Clevers H, Fuchs E, Montarras D, Buckingham M, Calof AL, Trumpp A, and Oskarsson T (2012) What does the concept of the stem cell niche really mean today? BMC Biology, 10, 19: pp 1-15; doi: 10.1186/1741-7007-10-19.
Santos R, Wu H-H, Hamilton J, Pinter R, Hindges R & Calof, AL (2012) Restoration of retinal development in Vsx2 deficient mice by reduction of Gdf11 activity. Adv. Exp. Med. Biol. 723: 671-677. PMID 22183392
Muto A, Calof AL, Lander AD, and Schilling, T.F. (2011) Multifactoral origins of heart and gut defects in nipbl-deficient zebrafish, a model of Cornelia de Lange Syndrome. PLoS Biology Oct;9(10):e1001181. Epub 2011 Oct 25. (comment: PLoS Biol. 2011 Oct;9(10):e1001180) PMCID: PMC3201921. ** Reviewed in J. Weaver (2011) “Genetic Origins of Birth Defects Revealed by New Animal Model”, PLoS Biology, (http://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.1001180).
Gokoffski K, Wu H-H, Beites CL, Kim J, Kim E, Matzuk MM, Johnson JE, Lander AD & Calof AL (2011) Activin and GDF11 collaborate in feedback control of neuroepithelial stem cell proliferation and fate. Development, 138: pp. 4131-4142.
Chien R, Zeng W, Kawauchi S, Santos R, Gregson HC, Schmiesing JA, Newkirk D, Kong X, Ball AR J, Calof AL, Lander AD, Groudine M & Yokomori K (2011) Cohesin mediates chromatin interactions that regulate mammalian beta-globin expression. J. Biol. Chem. 286:DOI 10.1074.
Gokoffski, K.K., Kawauchi, S., H.-H. Wu, R. Santos, P.W.L. Hollenbeck, A.D. Lander and A.L. Calof (2010) “Feedback regulation of neurogenesis in the mammalian olfactory epithelium: New insights from genetics and systems biology.” In: Neurobiology of Olfaction, (A. Menini, Ed.) CRC Press, pp. 241-265. PMID:21882434.
Chou, C.-S., Lo, W.-C., Gokoffski, K.K., Zhang, Y.-T., Wan, F.Y.M., Lander, A.D., Calof, A.L., and Nie, Q. (2010) Spatial dynamics of multistage cell lineages in tissue stratification. Biophys. J. 99 (10): 3145-3154.
Beites, C.L., Kawauchi, S., & Calof, A.L. (2009) Olfactory neuron patterning and specification. In: Developmental Neurobiology (G. Lemke, Ed.) Elsevier, Oxford, pp. 226-237.
Beites, C.L., Kawauchi, S., & Calof, A.L. (2009) Olfactory neuron patterning and specification. In: The New Encyclopedia of Neuroscience, Vol. 7 (L. Zipusky, Ed.) Elsevier, Oxford, pp. 145-156.
Kawauchi, S, Santos, R, Kim, J, Hollenbeck, PLW, Murray, RC, and Calof, AL (2009) The role of Foxg1 in the development of neural stem cells of the olfactory epithelium. Ann. NY Acad. Sci., 1170: 21-27
Barlow, LA and Calof, AL (2009) Stem cells in sensory epithelium development and regeneration. Ann. NY Acad. Sci., 1170: 5-6.
Kawauchi, S, Calof, AL**, Santos, R., Lopez-Burks, ME, Young, CM, Hoang, MP, Chua, A., Lao, T., Lechner, MS, Daniel, JA, Nussenzweig, A., Kitzes, L., Yokomori, K., Hallgrimsson, B. and Lander, A.D. (2009) Multiple organ system defects and transcriptional dysregulation in a mouse model of Cornelia de Lange Syndrome. PLoS Genetics 5(9): e1000650. Doi:10.1371/journal.pgen.1000650. (** = Co-first author as well as corresponding author)
Beites, CL, Hollenbeck, PLW, Kim, J, Lovell-Badge, R, Lander, AD, and Calof, AL (2009) Follistatin modulates a BMP autoregulatory loop to control size and patterning of sensory domains in the developing tongue. Development, 136: 2187-2197.
Kawauchi, S., Kim, J., Santos, R., Wu, H. H., Lander, A. D. and Calof, A. L. (2009). Foxg1 promotes olfactory neurogenesis by antagonizing Gdf11. Development 136, 1453-64.
Lander, A.D., Gokoffski, K.K., Wan, F., Nie, Q., and Calof, A.L. (2009) Cell Lineages and the logic of proliferative control. PLoS Biology 7(1): e1000015. doi:10.1371/journal.pbio.1000015. ** Reviewed in G.T. Reeves & S.E. Fraser (2009) “Biological Systems from an Engineer’s Point of View”, PLoS Biology Primer, PLoS Biol 7(1): e1000021. https://doi.org/10.1371/journal.pbio.1000021
Lo, W-C, Chou, C-S, Gokoffski, KK, Wan, FYM, Lander, AD, Calof, AL, and Nie, Q (2009) Feedback regulation in multistage cell lineages. Mathematical Biosciences and Engineering, 6(1): 59-82.
Hamilton, JA, Beites, CL, Gokoffski, KK, Hollenbeck PLW, Kawauchi, S, Santos R, Bonnin A, Wu HH, Kim J, & Calof, A.L. (2008) Negative regulation of endogenous stem cells in sensory neuroepithelia: implications for neurotherapeutics. Stem Cell Research and Therapeutics, Y. Shi, D. Clegg (Eds.) Springer, pp. 45-68.
Ogata, S., Kawauchi, S. Calof, A., and Cho, K.W.Y. (2007) Plastic embedding and sectioning of Xenopus laevis embryos. Journal of Visualized Experiments, http://www.jove.com/index/Details.stp?ID=188.
Kawauchi S., Shou, J., Santos R., Hebert J., McConnell S.K., Mason, I., and Calof, A.L. (2005) Fgf8 expression defines a morphogenetic center required for olfactory neurogenesis and nasal cavity development in the mouse. Development, 132: 5211-5223. ** Reviewed in Development (J. Bradbury, “Fgf8 noses into olfactory development”; Development 2005 132: 2303).
Kim, J., Wu, H.-H., Lander, A.D., Lyons, K.M., Matzuk, M. M., and Calof, A.L. (2005). GDF11 controls the timing of progenitor cell competence in developing retina. Science 308: 1927-1930. ** Reported/reviewed in Science (This Week in Science, “Calling New Neurons” Vol. 308, p.1838); the Orange County Register (June 24, 2005); the Santa Barbara News-Press (June 25, 2005); Obesity, Fitness, and Wellness Week (July 16, 2005), and online at: http://today.uci.edu/news/release_detail.asp?key=1344); http://www.blindness.org/research.asp?id=253; Sci. STKE, Vol. 2005, Issue 290, pp. tw236, 28 June 2005 [DOI: 10.1126/stke.2902005tw236]
Beites, C., Kawauchi, S., Crocker, C.E., and Calof, A.L. (2005) Identification and molecular regulation of neural stem cells in the olfactory epithelium. Experimental Cell Research 306: 309-316.
Kawauchi, S., Beites, C., Crocker, C., Wu, H.-H., Bonnin, A., Murray, R., and Calof, A.L. (2004) Molecular regulation of neurogenesis in the olfactory receptor neuron lineage. Developmental Neuroscience 26: 166-180.
Krantz, I.D., McCallum, J., DeScipio, C., Kaur, M., Gillis, L., Yaeger, D., Jukofsky, L., Wasserman, N., Bottani, A., Morris, C.A., Nowaczyk, N., Toriello, H., Bamshad, M.J., Carey, J.C., Rappaport, E., Kawauchi, S., Lander, A.D., Calof, A.L., Ki, H.-H., Devoto, M., and Jackson, L.G. (2004) Cornelia de Lange Syndrome is caused by mutations in NIPBL, the human homolog of the Drosophila Nipped-B gene. Nature Genetics 36: 631-635. ** Reviewed in “ ‘Nipped’ gene holds key to birth defect”, www.excellence-earlychildhood.ca/documents/Page9Vol4No2Oct05ANG.pdf
Wu, H. -H., Ivkovic, S., Murray, R. C., Jaramillo, S., Lyons, K. M., Johnson, J. E., and Calof, A. L. (2003). Autoregulation of neurogenesis by GDF11. Neuron 37: 197-207. ** Reviewed in News & Views in Nature Medicine (N.B. Hastings and E. Gould, “Neurons Inhibit Neurogenesis”, 2003, vol. 9, pp. 264-266) and Developmental Cell (L.W. Garner, J. Nove, and V Rosen, “Return of the Chalones”, 2003, vol. 4, pp. 149-151).
Murray, R.C., Navi, D., Fesenko, J., Lander, A.D., and Calof, A.L. (2003) Widespread defects in the developing mammalian olfactory system caused by loss of Mash1 function. The Journal of Neuroscience 23: 1769-1780.
Calof, A.L., Bonnin, A., Crocker, C., Kawauchi, S., Murray, R., Shou, J., and Wu, H.-H. (2002) Progenitor cells of the olfactory receptor neuron lineage. Microsc. Res. Tech. 58: 176-188.
Calof, A.L. (2000) Long odds. Current Biology 10: R539.
Shou, J., Murray, R. C., Rim, P.C., Kim, Y.C., and Calof, A.L. (2000) Opposing effects of bone morphogenetic proteins on neuron production and survival in the olfactory receptor neuron lineage. Development 127: 5403-5413.
Murray, R.C., Tapscott, S.J., Petersen, J.M, Calof, A.L., and McCormick, M.B. (2000). A fragment of the neurogenin1 gene confers regulated expression of a reporter gene in vitro and in vivo. Developmental Dynamics 218: 189-194.
Calof, A.L. (1999) Grant-writing amnesia. Current Biology 9: R869.
Calof, A.L., Mumm, J.S., Rim, P. and Shou, J. (1999) In vitro analysis of neuronal progenitor cells from mouse olfactory epithelium. In: The Neuron in Tissue Culture (L. Haynes, Ed.) Wiley, Chichester,pp. 23-44.
Murray, R.C. and Calof, A.L. (1999) Neuronal regeneration: Lessons from the olfactory system. Seminars in Cell & Developmental Biology 10: 421-431.
Shou, J., Rim, P.C., and Calof, A.L. (1999) BMPs inhibit neurogenesis by a mechanism involving degradation of a transcription factor. Nature Neuroscience 2: 339-345. ** Reviewed in News and Views by G. Fishell, 1999, “BMPs: Time to Murder and Create”, Nature Neuroscience 2, 301 – 303 (1999) doi:10.1038/7208.
Calof, A.L. (1998) Overcommitment. Current Biology 8: R107.
Calof, A.L., Rim, P.C, Askins, K.J., Mumm, J.S., Gordon, M.K., Iannuzzelli, P., and Shou, J. (1998) Factors regulating neurogenesis and programmed cell death in mouse olfactory epithelium. In: Olfaction and Taste XII (C. Greer and C. Murphy, eds.) New York, Annals of the New York Academy of Sciences 855, pp. 226-229.
Calof, A.L., Mumm, J.S., Rim, P.C, and Shou. J. (1998) The neuronal stem cell of the olfactory epithelium. J. Neurobiol. 36: 190-205.
Calof, A.L., Holcomb, J.D., Mumm, J.S., Hagiwara, N., Tran, P., Smith, K.M., and Shelton, D.L. (1996) Factors affecting neuronal birth and death in mammalian olfactory epithelium. In: Growth Factors as Drugs for Neurological and Sensory Disorders (G.R. Bock and J.A. Goode, eds.) Wiley, Chichester (Ciba Foundation Symposium 196), pp. 188-210.
Mumm, J.S., Shou, J., and Calof, A.L. (1996) Colony-forming progenitors from mouse olfactory epithelium: Evidence for feedback regulation of neuron production. Proc. Natl. Acad. Sci. USA 93: 11167-11172.
Holcomb, J.D., Graham, S., and Calof, A.L. (1996) Neuronal homeostasis in mammalian olfactory epithelium: A review. Am. J. Rhinol. 10: 125-134.
Calof, A.L., Hagiwara, N., Holcomb, J.D., Mumm, J.S., and Shou, J. (1996) Neurogenesis and cell death in the olfactory epithelium. J. Neurobiol. 30: 67-81.
Calof, A.L., Guevara, J.G., and DeHamer, M.K. (1995) Mouse olfactory epithelium. In: Primary Neuronal Cell Culture: A Practical Approach. (J. Cohen and G. Wilken, eds.) Oxford, IRL Press, pp. 205-220.
Holcomb, J.D., Mumm, J.S. and Calof, A.L. (1995) Apoptosis in the neuronal lineage of the mammalian olfactory epithelium: Regulation in vivo and in vitro. Devel. Biol. 172: 307-323.
Gordon, M.K., Mumm, J.S., Davis, R.A., Holcomb, J.D. and Calof, A.L. (1995) Dynamics of MASH-1 expression in vitro and in vivo suggest a non-stem cell site of MASH-1 action in the olfactory receptor neuron lineage. Mol. Cell. Neurosci. 6: 363-379.
Calof, A.L. (1995) Intrinsic and extrinsic factors regulating vertebrate neurogenesis. Current Opinion in Neurobiology 5: 19-27.
Calof, A.L., Adusumalli, M., DeHamer, M., Guevara, J.L., Mumm, J.S., Whitehead, S., and Lander, A.D. (1994) Generation, differentiation, and maturation of olfactory receptor neurons in vitro. In: Olfaction and Taste XI (K. Kurihara, N. Suzuki, H. Ogawa, eds.) Tokyo, Springer-Verlag, pp. 36-40.
DeHamer, M., Guevara, J., Hannon, K., Olwin, B., and Calof, A.L. (1994) Genesis of olfactory receptor neurons: Regulation of progenitor cell divisions by fibroblast growth factors. Neuron 13: 1083-1097.
Calof, A.L., Campanero, M.R., Yurchenco, P.D., and Lander, A.D. (1994) Domain-specific activation of the neuronal migration and neurite outgrowth activities of laminin. Neuron, 13: 117-130.
Lander, A.D. and Calof, A.L. (1993) Extracellular matrix in the developing nervous system. In: Molecular Genetics of Nervous System Tumors. (A.J. Levine and H.H. Schmidek, Eds.) Wiley, New York, pp. 341-355.
Calof, A.L. and Guevara, J. L. (1993) Cell lines derived from retrovirus-mediated oncogene transduction into olfactory epithelium cultures. NeuroProtocols 3: 222-231.
Calof AL. (1993) Immortalizing neural cells — Overview. NeuroProtocols 3:175.
Trevino, C., Calof, A.L., and Muneoka, K. (1992) Position specific growth regulation of 3T3 cells in vivo. Dev. Biol. 150: 72-81.
Calof, A.L. (1992) Sex, nose and genotype. Current Biology 2: 103-105.
Calof, A.L., Lander, A.D., and Chikaraishi, D.M. (1991) Regulation of neurogenesis and neuronal differentiation in primary and immortalized cells from mouse olfactory epithelium. In: Regeneration of Vertebrate Sensory Receptor Cells. Wiley, Chichester (Ciba Foundation Symposium 160), pp. 249-276.
Calof, A.L. and Lander, A.D. (1991) Relationship between neuronal migration and cell-substratum adhesion: laminin and merosin promote olfactory neuronal migration but are anti-adhesive. J. Cell Biol. 115: 779-794.
Calof, A.L. (1991) Immortalized neurons derived from tumors in transgenic mice. Trends in Neurosciences 14: 1-3.
Calof, A.L. and Chikaraishi, D.M. (1989) Analysis of neurogenesis in a mammalian neuroepithelium: Proliferation and differentiation of an olfactory neuron precursor in vitro. Neuron 3: 115-127.
Calof, A.L. and Reichardt, L.F. (1985) Response of purified chick motoneurons to myotube conditioned medium: Laminin is essential for substratum-binding, neurite outgrowth-promoting activity. Neuroscience Letters 59: 183-189.
Calof, A.L. and Reichardt, L.F. (1984) Motoneurons purified by cell sorting respond to two distinct activities in myotube conditioned medium. Dev. Biol. 106: 194-210.
Lander, A.D. Tomaselli, K.J., Calof, A.L., and Reichardt, L.F. (1983) Studies on extracellular matrix components that promote neurite outgrowth. C.S.H. Symp. Quant. Biol. 48: 611-623.
Calof, A.L., Jones, R.B., and Roberts, W.J. (1981) Sympathetic modulation of mechanoreceptor sensitivity in frog skin. J. Physiol. 310: 481-499.