Root-knot nematodes are ubiquitous parasites with an amazing ability to interact with a wide variety of plant species. Meloidogyne species are recognized worldwide as a major cause of yield limitation in crops. In two Colombian crops, lulo and plantain, root-knot nematodes were identified using morphometric and molecular methods, with the latter using amplification and sequencing of mitochondrial DNA NADH dehydrogenase subunit 5 genes. For M. arenaria, two haplotypes were identified, one associated with plantain and the other with lulo. To select a smaller set of variables for discriminating crops, an algorithm was developed using Hotelling's T2 test in different scenarios generated by the matrix of variances and covariances of the statistic, as well as by the method of estimation. The most important result was associated with the ability to discriminate haplotypes of nematodes species using relationships between body length, tail length and body diameter at the anal opening, which can simplify the complexity of morphometric measurements to characterize banana and lulo crop nematodes.