Rapid and accurate identification of pathogens is crucial for public healthcare and patient treatment. However, the commonly used analytic tools such as molecular diagnostics and mass spectrometry are either expensive or have long turnaround times for sample purification and amplification. Here, we introduce electrochemiluminescence (ECL) microscopy with a high spatiotemporal resolution and a unique chemical contrast to image and identify single bacteria. Direct bacterial counting and classification with an accuracy of up to 90.5% is demonstrated. We further report a novel tunable ECL imaging mode which can switch from the negative contrast ECL imaging without labeling to positive contrast ECL imaging with adsorption of tris(2,2'-bipyridyl) ruthenium(II) for bacterial imaging. With this contrast tuning effect, single-molecule ECL microscopy is employed for imaging the microscopic structures of single bacteria. This work shows that ECL microscopy can offer a powerful quantitative imaging methodology with chemical information for bacterial characterization.