Institut Hospitalo-Universitaire (IHU) - Mediterranee Infection 1 article published in JoVE Biology Single Cell Micro-aspiration as an Alternative Strategy to Fluorescence-activated Cell Sorting for Giant Virus Mixture Separation Dehia Sahmi-Bounsiar1, Paulo Victor de Miranda Boratto2, Graziele Pereira Oliveira2, Jacques Yaacoub Bou Khalil1, Bernard La Scola1,2, Julien Andreani2 1Institut Hospitalo-Universitaire (IHU) - Méditerranée Infection, 2Microbes, Evolution, Phylogeny and Infection (MEΦI), Aix-Marseille Université UM63, Institut de Recherche pour le Développement IRD 198, Assistance Publique - Hôpitaux de Marseille (AP-HM) Here, we describe a single cell micro-aspiration method for the separation of infected amoebae. In order to separate viral subpopulations in Vermamoeba vermiformis infected by Faustoviruses and unknown giant viruses, we developed the protocol detailed below and demonstrated its ability to separate two low-abundance novel giant viruses.