Fung Lab Publications

Publications on Mechanisms and Regulation of Meiosis

Our research is focused on understanding the mechanisms of meiosis, using a combination of novel technological approaches that provide new insights into the molecular, genetic, and physical basis of meiotic recombination and its control.


Marshall, W.F. and Fung, J.C. 2016. Modeling meiotic chromosome pairing: nuclear envelope attachment, telomere-led active random motion, and anomalous diffusion.  Physical Biology   13:026003

Vincenten N., Kuhl L-M., Lam I., Oke A., Kerr A., Hochwagen A., Fung J.C., Keeney S., Vader G. and Marston A.L. 2015. The kinetochore controls crossover recombination during meiosis. Elife. 4:e10850

Anderson CM, Oke A, Yam P, Zhuge T, Fung JC. 2015. Reduced crossover interference and increased ZMM-independent recombination in the absence of Tel1/ATM. PLoS Genetics 11:e1005478.

Liu Y, Gaines W, Callender T, Oke A, Busygina V, Fung JC, Sung P, Hollingsworth NM. 2014. Down-regulation of Rad51 Activity During Meiosis in Yeast Prevents Competition with Dmc1 for Repair of Double-Strand Breaks PLoS Genetics 10:e1004005

Oke A, Anderson CM, Yam P, Fung JC. 2014. Controlling meiotic recombinational repair – specifying the roles of ZMMs, Sgs1 and Mus81/Mms4 in crossover formation. PLoS Genetics. 10: e1004690.

Rockmill BM, Lefrancois P, Voelkel-Meiman Oke A, Roeder GS, Fung JC. 2013. High Throughput Sequencing Reveals Alterations in the Recombination Signatures with Diminishing Spo11 Activity. PLoS Genetics 9: e1003932.

Arigovindan M, Fung JC, Elnatan D, Mennella V, Chan YH, Pollard M, Branlund E, Sedat JW, Agard DA. 2013. High-resolution restoration of 3D structures from widefield images with extreme low signal-to-noise ratio. Proc. Natl. Acad. Sci. U.S.A. 110: 17344-9.

Anderson CM, Chen SY, Dimon MT, Oke A, DeRisi JL, Fung JC. 2011. ReCombine: a suite of programs for detection and analysis of meiotic recombination in whole-genome datasets. PLoS One 6: e25509

Chen SY, Fung JC.  2011.  Mapping of crossover sites using DNA microarrays.   Methods Mol Biol.  745:117-34.

Costanzo V, Chaudhuri J, Fung JC, Moran JV. 2009.  Dealing with dangerous accidents:  DNA double-strand breaks take centre stage.  Syposium on gemomic instability and DNA repair.  EMBO Rep.  10(8):837-42.

Chen SC, Tsubouchi T, Rockmill B, Sandler JS, Richards D, Vader G, Hochwagen A, Roeder GS, and Fung JC. 2008. Global Analysis of the Meiotic Crossover Landscape. Dev. Cell. 15: 401-415.


Publications from Enabling Technologies

A major emphasis of the Fung lab is innovating new enabling technologies for analyzing meiosis, including genomic, bioinformatic, computational, and imaging methods.  We are actively engaged in a number of productive collaborations that take advantage of the novel technologies and approaches that we have developed.

Sousa Martins J.P., Liu X., Oke A., Arora R., Laird, D.J., Fung, J.C., Conti M. 2016. Synergistic interaction between Dazl and CPEB1 in the translation of maternal mRNA during mouse oocyte maturation. J. Cell Sci. 129: 1271-1282

Faire M, Skillern A, Arora R, Nguyen DH, Wang J, Chamberlain C, German MS, Fung JC, Laird DJ.  2015.  Follicle dynamics and global organization in the intact mouse ovary.  Dev. Biol.  403: 69-79.

Osman C, Noriega TR, Okreglak V, Fung JC, Walter P.  2015.  Integrity of the yeast mitochondrial genome, but not its distribution and inheritance, relies on mitochondrial fission and fusion.  Proc Natl Acad Sci U S A. 112(9):E947-56.

Rafelski SM, Viana MP, Chan YM, Thorn KS, Yam P, Fung JC, Li H, da Fontoura Costa L, and Marshall WF. 2012. Mitochondrial network size scaling in budding yeast is achieved in the bud at the expense of the mother. Science. 338: 822-4.


Publications from postdoctoral training, Yale University

Fung JC, Rockmill B, Odell M, and Roeder GS. 2004. Imposition of crossover interference through the nonrandom distribution of synapsis initiation complexes. Cell 166: 795-802.

Rockmill BM, Fung JC, Branda SS, and Roeder GS. 2003. The Sgs1 helicase regulates chromosome synapsis and meiotic crossing over. Curr. Biol. 13: 1954-1962


Publications from graduate school, UCSF

Fung JC, Marshall WF, Dernburg AF, Agard DA, and Sedat JW. 1998. Homologous chromosome pairing in Drosophila melanogaster proceeds through multiple independent interactions. J. Cell Biol. 141: 5-20.

Laurer JH, Hajduk DA, Fung JC, Sedat JW, Smith SD, Gruner SM, Agard DA, and Spontak RJ. 1998. Microstructural analysis of a cubic bicontinuous morphology in a neat SIS triblock copolymer. Macromolecules 30:3938-3941.

Marshall WF, Fung JC, Sedat JW.  1997.  Deconstructing the nucleus:  global architecture from local interactions.   Curr Opin Genet Dev. 7(2):259-63.

Laurer JH, Fung JC, Sedat JW, Smith SD, Samseth J, Mortensen K, Agard DA, Spontak RJ. 1997. From micelles to randomly connected, bilayered membranes in dilute block copolymer blends. Langmuir 13: 2177-2180.

Fung JC, Liu W, Deruijter WJ, Chen H, Abbey C, Sedat JW, and Agard DA. 1996. Towards fully automated high resolution electron tomography. J. Struct. Biol. 116: 181-189.

Spontak RJ; Fung JC; Braunfeld MB; Sedat JW; et al. 1996. Phase behavior of ordered diblock copolymer blends - effect of compositional heterogeneity. Macromolecules 29: 4494-4507.

Spontak RJ; Fung JC; Braunfeld MB; Sedat JW; et al. 1996. Architecture-induced phase immiscibility in a diblock/multiblock copolymer blend. Macromolecules 29,2850-2856.

Dernburg AF, Broman KW, Fung JC, Marshall WF, Phillips J, Agard DA, and Sedat JW. 1996. Perturbation of nuclear architecture by long-distance chromosome interactions. Cell   85: 745-59.

Moritz M, Braunfeld MB, Fung JC, Sedat JW, Alberts BM, and Agard DA. 1995. Three-dimensional structural characterization of centrosomes from early Drosophila embryos. J. Cell Biol. 130: 1149-1159.