We present microfluidic method to rapidly analyze the effect of temperature on the change of morphologies of Antarctic bacteria (Pseudoalteromonas sp., Shewanella vesiculosa, Shewanella sp., and Cellulophaga sp.). The microfluidic device is able to generate stable temperature gradient from 7 to$40^{circ}C$ and dramatically reduce the number of experiments, experimental cost and labor, and amount of sample. Based on this approach, we found that specific bacteria transforming morphology into filament or elongated body strongly depends on cultivation temperature. Interestingly, we found that the morphologies of Pseudoalteromonas sp., Shewanella vesiculosa, Shewanella sp., and Cellulophaga sp. are elongated at below $25^{circ}C$, above $20^{circ}C$, above $15^{circ}C$ and above $35^{circ}C$, respectively. We envision the microfluidic device is a useful approach to analyze biological events with a high throughput manner.