The invention relates to a bacterial strain capable of producing phosphatidase C, and a screening method thereof. The bacterial strain is Pseudomonas fluorescens P.f-9103, and preservation number is CCTCC No.M2013298. The bacterial strain is obtained by screening and separation from soil near oil workshops. Morphological characteristics are that: the shape of a bacterial colony is round, the surface of the colony is salient, the color is white, and the bacterial colony is nontransparent and yellows with the increasing of age; the colony is smooth, is relatively viscous and dense, and is easy to be stirred up, and the edge is smooth; the colony has a flagellum, is capable of moving, and produces no blastema; the bacterial strain is gram negative, the optimum growth temperature is 25 to 30 DEG C, and pH value is 7.0 to 7.6. The screening method comprises following steps: primary screening is performed on LB medium containing yolk; then phosphatide is taken as a substrate, and enzymatic reaction is performed; and reaction products are analyzed by HPLC so as to realize secondary screening. According to the method, natural phosphatide is taken as the substrate, so that problems caused by inactivity of phosphatidase C on phosphatide substrate analogue NPPC are avoided. Sources of primary screening raw material are abundant, operation is convenient, secondary screening is accurate and rapid, and the screening method is suitable for high throughput screening of the bacterial strain capable of producing phosphatidase C.