A. Morphology of WT and ΔcheY3 B. burgdorferi was observed in vivo in ear skin tissue of mouse using intravital microscopy technique. 1×106 WT-eGFP or ΔcheY3-eGFP B. burgdorferi was injected intradermally into ear skin and images were collected between 2-6 hours post-injection. Both WT (i–ii) and ΔcheY3 (iii–iv) bacteria demonstrate similar characteristic flat-wave morphologies in vivo. Scale bar is 5μm. B–C. 1×106 WT-eGFP or ΔcheY3-eGFP B. burgdorferi (Bb) were injected as above and time-lapse images were collected at different times post-injection. B. Representative images of ΔcheY3 (left) and WT (right) motility path tracked at 6h post-injection using MetaMorph. Colored lines (except green) are the tracks of the bacteria. C. For both strains, the % bacteria performing run, back-and-forth (B/F) and no translational motility was calculated. The majority of WT bacteria at all times performed B/F, whereas most of the ΔcheY3 bacteria were non-translational. The translating ΔcheY3 performed mainly runs with occasional stops, rather than B/F. Results show average % motility ± SEM. ## p = 0.003 % run compared to ΔcheY3; $$ p = 0.0026, $$$ p ≤ 0.0003 % B/F compared to ΔcheY3; ** p = 0.0057, *** p ≤ 0.006 % no translational motility compared to ΔcheY3. Statistics were performed using the Mann Whitney test. n ≥ 3 mice. D. The velocity of WT and ΔcheY3 was measured at 6h post-injection using MetaMorph. Results show average ± SEM. ***p<0.0001 compared to the non-translational counterparts; Statistics were performed using the Mann Whitney test. n ≥ 30 bacteria under each bar.