1. Scharenberg, A. M., Humphries, L. A. & Rawlings, D. J. Calcium signalling and cell-fate choice in B cells. Nat. Rev. Immunol. 7, 778–789 (2007).

2. De Silva, N. S. & Klein, U. Dynamics of B cells in germinal centres. Nat. Rev. Immunol. 15, 137–148 (2015).

3. Yuseff, M. I., Pierobon, P., Reversat, A. & Lennon-Duménil, A. M. How B cells capture, process and present antigens: a crucial role for cell polarity. Nat. Rev. Immunol. 13, 475–486 (2013).

4. Roche, P. A. & Furuta, K. The ins and outs of MHC class II-mediated antigen processing and presentation. Nat. Rev. Immunol. 15, 203–216 (2015).

5. Elgueta, R. et al. Molecular mechanism and function of CD40/CD40L engagement in the immune system. Immunol. Rev. 229, 152–172 (2009).

6. Ruprecht, C. R. & Lanzavecchia, A. Toll-like receptor stimulation as a third signal required for activation of human naive B cells. Eur. J. Immunol. 36, 810–816 (2006).

7. Chaturvedi, A. & Pierce, S. K. How location governs toll-like receptor signaling. Traffic 10, 621–628 (2009).

8. Rawlings, D. J., Schwartz, M. A., Jackson, S. W. & Meyer-Bahlburg, A. Integration of B cell responses through Toll-like receptors and antigen receptors. Nat. Rev. Immunol. 12, 282–294 (2012).

9. Akkaya, M. et al. B cells produce type 1 IFNs in response to the TLR9 agonist CpG-A conjugated to cationic lipids. J. Immunol. 199, 931–940 (2017).

10. Caro-Maldonado, A. et al. Metabolic reprogramming is required for antibody production that is suppressed in anergic but exaggerated in chronically BAFF-exposed B cells. J. Immunol. 192, 3626–3636 (2014).

11. Caro-Maldonado, A., Gerriets, V.A. & Rathmell, J.C. Matched and mismatched metabolic fuels in lymphocyte function. Semin. Immunol. 24, 405–413 (2012).

12. Lam, W. Y. et al. Mitochondrial pyruvate import promotes long-term survival of antibody-secreting plasma cells. Immunity 45, 60–73 (2016).

13. Doughty, C. A. et al. Antigen receptor-mediated changes in glucose metabolism in B lymphocytes: role of phosphatidylinositol 3-kinase signaling in the glycolytic control of growth. Blood 107, 4458–4465 (2006).

14. Xiao, G. et al. B-cell-specific diversion of glucose carbon utilization reveals a unique vulnerability in B cell malignancies. Cell 173, 470–484 (2018).

15. Traba, J., Miozzo, P., Akkaya, B., Pierce, S. K. & Akkaya, M. An optimized protocol to analyze glycolysis and mitochondrial respiration in lymphocytes. J. Vis. Exp. 117, e54918 (2016).

16. Akkaya, M. et al. Toll-like receptor 9 antagonizes antibody affinity maturation. Nat. Immunol. 19, 255–266 (2018).

17. Fleire, S. J. et al. B cell ligand discrimination through a spreading and contraction response. Science 312, 738–741 (2006).

18. Lemasters, J. J.., & Holmuhamedov, E.. Voltage-dependent anion channel (VDAC) as mitochondrial governator-thinking outside the box. Biochim. Biophys. Acta 1762, 181–190 (2006).

19. Li, Y., Park, J. S., Deng, J. H. & Bai, Y. Cytochrome c oxidase subunit IV is essential for assembly and respiratory function of the enzyme complex. J. Bioenerg. Biomembr. 38, 283–291 (2006).

20. Larsson, N. G. et al. Mitochondrial transcription factor A is necessary for mtDNA maintenance and embryogenesis in mice. Nat. Genet. 18, 231–236 (1998).

21. Onesto, E. et al. Gene-specific mitochondria dysfunctions in human TARDBP and C9ORF72 fibroblasts. Acta Neuropathol. Commun. 4, 47 (2016).

22. Graves, J. A. et al. Mitochondrial structure, function and dynamics are temporally controlled by c-Myc. PLoS One 7, e37699 (2012).

23. Sgarbi, G. et al. Mitochondria hyperfusion and elevated autophagic activity are key mechanisms for cellular bioenergetic preservation in centenarians. Aging 6, 296–310 (2014).

24. Mitra, K., Wunder, C., Roysam, B., Lin, G. & Lippincott-Schwartz, J. A hyperfused mitochondrial state achieved at G1-S regulates cyclin E buildup and entry into S phase. Proc. Natl Acad. Sci. USA 106, 11960–11965 (2009).

25. Agnello, M., Morici, G. & Rinaldi, A. M. A method for measuring mitochondrial mass and activity. Cytotechnology 56, 145–149 (2008).

26. Yu, J. et al. Inflammasome activation leads to Caspase-1-dependent mitochondrial damage and block of mitophagy. Proc. Natl Acad. Sci. USA 111, 15514–15519 (2014).

27. Keij, J. F., Bell-Prince, C. & Steinkamp, J. A. Staining of mitochondrial membranes with 10-nonyl acridine orange, MitoFluor Green, and MitoTracker Green is affected by mitochondrial membrane potential altering drugs. Cytometry 39, 203–210 (2000).

28. Contreras, L., Drago, I., Zampese, E. & Pozzan, T. Mitochondria: the calcium connection. Biochim. Biophys. Acta 1797, 607–618 (2010).

29. Celsi, F. et al. Mitochondria, calcium and cell death: a deadly triad in neurodegeneration. Biochim. Biophys. Acta 1787, 335–344 (2009).

30. Giorgi, C. et al. Mitochondrial Ca2+ and apoptosis. Cell Calcium 52, 36–43 (2012).

31. Görlach, A., Bertram, K., Hudecova, S. & Krizanova, O. Calcium and ROS: A mutual interplay. Redox Biol. 6, 260–271 (2015).

32. Mbaya, E. et al. Calcium signalling-dependent mitochondrial dysfunction and bioenergetics regulation in respiratory chain complex II deficiency. Cell Death Differ. 17, 1855–1866 (2010).

33. Choi, H., Yang, Z. & Weisshaar, J. C. Single-cell, real-time detection of oxidative stress induced in Escherichia coli by the antimicrobial peptide CM15. Proc. Natl Acad. Sci. USA 112, E303–E310 (2015).

34. Robinson, K. M. et al. Selective fluorescent imaging of superoxide in vivo using ethidium-based probes. Proc. Natl Acad. Sci. USA 103, 15038–15043 (2006).

35. Santo-Domingo, J. & Demaurex, N. Calcium uptake mechanisms of mitochondria. Biochim. Biophys. Acta 1797, 907–912 (2010).

36. Natkanski, E. et al. B cells use mechanical energy to discriminate antigen affinities. Science 340, 1587–1590 (2013).

37. Batista, F. D., Iber, D. & Neuberger, M. S. B cells acquire antigen from target cells after synapse formation. Nature 411, 489–494 (2001).

38. Tze, L. E., Baness, E. A., Hippen, K. L. & Behrens, T. W. Ig light chain receptor editing in anergic B cells. J. Immunol. 165, 6796–6802 (2000).

39. Batista, F. D. & Neuberger, M. S. B cells extract and present immobilized antigen: implications for affinity discrimination. EMBO J. 19, 513–520 (2000).

40. Aucher, A., Magdeleine, E., Joly, E. & Hudrisier, D. Capture of plasma membrane fragments from target cells by trogocytosis requires signaling in T cells but not in B cells. Blood 111, 5621–5628 (2008).

41. Traba, J. et al. Prolonged fasting suppresses mitochondrial NLRP3 inflammasome assembly and activation via SIRT3-mediated activation of superoxide dismutase 2. J. Biol. Chem. 292, 12153–12164 (2017).

42. Gees, M., Colsoul, B. & Nilius, B. The role of transient receptor potential cation channels in Ca2+ signaling. Cold Spring Harb. Perspect. Biol. 2, a003962 (2010).

43. Rae, M. G., Hilton, J. & Sharkey, J. Putative TRP channel antagonists, SKF 96365, flufenamic acid and 2-APB, are non-competitive antagonists at recombinant human α1β2γ2 GAB AA receptors. Neurochem. Int. 60, 543–554 (2012).

44. Ohga, K., Takezawa, R., Arakida, Y., Shimizu, Y. & Ishikawa, J. Characterization of YM-58483/BTP2, a novel store-operated Ca2+ entry blocker, on T cell-mediated immune responses in vivo. Int. Immunopharmacol. 8, 1787–1792 (2008).

45. Donjerković, D. & Scott, D. W. Activation-induced cell death in B lymphocytes. Cell Res. 10, 179–192 (2000).

46. Rathmell, J. C. et al. CD95 (Fas)-dependent elimination of self-reactive B cells upon interaction with CD4+ T cells. Nature 376, 181–184 (1995).

47. Rothstein, T. L. et al. Protection against Fas-dependent Th1-mediated apoptosis by antigen receptor engagement in B cells. Nature 374, 163–165 (1995).

48. Lagresle, C., Mondière, P., Bella, C., Krammer, P. H. & Defrance, T. Concurrent engagement of CD40 and the antigen receptor protects naive and memory human B cells from APO-1/Fas-mediated apoptosis. J. Exp. Med. 183, 1377–1388 (1996).

49. Akkaya, B. et al. Ex-vivo iTreg differentiation revisited: convenient alternatives to existing strategies. J. Immunol. Methods 441, 67–71 (2017).

50. Akkaya, B. et al. A simple, versatile antibody-based barcoding method for flow cytometry. J. Immunol. 197, 2027–2038 (2016).

51. Traba, J., Del Arco, A., Duchen, M. R., Szabadkai, G. & Satrústegui, J. SCaMC-1 promotes cancer cell survival by desensitizing mitochondrial permeability transition via ATP/ADP-mediated matrix Ca2+ buffering. Cell Death Differ. 19, 650–660 (2012).

52. Sohn, H. W., Tolar, P., Brzostowski, J. & Pierce, S. K. A method for analyzing protein-protein interactions in the plasma membrane of live B cells by fluorescence resonance energy transfer imaging as acquired by total internal reflection fluorescence microscopy. Methods Mol. Biol. 591, 159–183 (2010).

53. Liu, W., Meckel, T., Tolar, P., Sohn, H. W. & Pierce, S. K. Antigen affinity discrimination is an intrinsic function of the B cell receptor. J. Exp. Med. 207, 1095–1111 (2010).

54. Akkaya, M., Aknin, M. L., Akkaya, B. & Barclay, A. N. Dissection of agonistic and blocking effects of CD200 receptor antibodies. PLoS One 8, e63325 (2013).

55. Offerdahl, D. K., Dorward, D. W., Hansen, B. T. & Bloom, M. E. A three-dimensional comparison of tick-borne flavivirus infection in mammalian and tick cell lines. PLoS One 7, e47912 (2012).