||Morphological and genome variation between 32 nematode isolates identified originally as Pratylenchus coffeae, P. gutierrezi, P. loosi, and P. pseudocoffeae were characterized to estimate phylogenetic relationships among them. All isolates had numerous males, and two lip annuli. Viewed en face with scanning electron microscopy, the first lip annulus is divided into lateral and median sectors in several isolates from coffee (Central America and Indonesia), and in one from aster (Florida). The first lip annulus is smooth in all other isolates, including 6 from coffee (Brazil and Indonesia). Principal component analysis (PCA) of one morphological (smooth face vs divided face) and three weakly-allometric morphometric variables (V, a, length of stylet) revealed seven assemblages of isolates. The PCA-derived assemblages conform closely to phylogenetic relationships inferred from analysis of 28S rDNA sequences. Nevertheless, identity within the D2/D3 expansion segment was not absolute for all isolates within the morphological assemblages, indicating the possibility that several assemblages are species complexes. Based on face morphology, five isolates (smooth faces) from coffee near the type locality for P. coffeae in eastern Java, Indonesia are different species than preserved museum specimens (divided faces) collected in the same area. Moreover, the D2/D3 sequence of a Java isolate suggests that it may be conspecific with isolates of P. coffeae sensu lato (all with identical sequences and smooth faces) from citrus, banana, yam, aglaonema and cocoyam, but not with isolates from citrus in Oman, nor banana in Ghana. Morphology and D2/D3 sequence of a P. gutierrezi topotype isolate revealed the likelihood that it is not conspecific with two other isolates with divided faces from coffee in Central America. Morphology and genetic sequence data for isolates from coffee and citrus in Sao Paulo State in Brazil, indicate that they are one or more undescribed species. When compared to the morphology and D2/D3 sequence of P. loosi from tea in Sri Lanka, isolates recently described as P. loosi from Paspalum notatum and Panicum hemitomon in Florida are apparently two undescribed species.