The invention relates to a bio-control microorganism of a root-knot nematode and application thereof. The microorganism provided by the invention is a sphingobacteriumnematocida ZY-71-1 bacterial strain, is collected in the China General Microbiology Center of Committee for Culture Collection of Microorganisms on 14th January, 2011 and has the collection number of CGMCC No.4553. The 16SrRNA(ribosomal RNA) gene sequence of the ZY-71-1 bacterial strain is the main characteristic feature for identifying the bacterial strain and the sequence number of the sequence in the Gene Bank database is JF731241. The microorganism bacterial strain and metabolites thereof provided by the invention as well as conventional absorption carrier and auxiliary agent of the pesticide can be prepared into ZY-71-1wettable powdery bio-control microbial inoculum. The bacterial strain has better preventing and treating effects on tobacco root-knot nematode. The bio-control microbial inoculum provided by the invention has the advantages of low cost, high preventing effect, no residues and safety to people and livestock and is an efficient bio-pesticide for controlling root-knot nematode.