It is not entirely clear what you mean when you talk about fermentation. Fermentation is an anaerobic process without the presence of oxygen (see definition below). The morphology of bacteria changes for many reasons and also depends on the physiological state of the cells. Therefore, it is also important whether you are referring to an aerobic or anaerobic process.
Fermentation is a metabolic process that produces chemical changes in organic substrates through the action of enzymes. In biochemistry, it is narrowly defined as the extraction of energy from carbohydrates in the absence of oxygen. In food production, (Wikipedia)
fermentation, chemical process by which molecules such as glucose are broken down anaerobically. (Britanica)
Rob van der Lans change in shape and color of the bacteria (Pseudomonas). It is small and yellow after 2 days in bioreactor it become smaller and white.
OK, you perform aerobic cultivation of the bacteria Pseudomonas. The morphological changes in cells and changes in color may have many reasons. For example deficiency in some growth factors, low concentration of substrate, etc. Are the conditions suitable for pigment production during aerobic cultivation?
The morphology of cells can be influenced by shear stress, too.
Regardless of the genetic transformations that may occur, in bacterial continuous cultures in bioreactor the chemostat shows an almost homogeneous population at the same stage of development, however, this stage of development can vary due to several factors both nutritional (carbon source and macro and micronutrient saturation/deficiency) and environmental (light, pH, temperature, aeration, agitation, etc.). Ultimately, considering my bioreactors running continuously for periods longer than 6 months, the morphological changes seem to be just reversible adaptations to present conditions.