Several Mycobacterium-like organisms related to the Mycobacterium terrae complex have been isolated from clinical samples. In the clinical microbiology laboratory, partial 16S rRNA gene sequencing (approximately the first 500 bp) rather than full 16S rRNA gene sequencing is often used to identify Mycobacterium species. Partial 16S rRNA gene sequence analysis revealed 100 % similarity between 65 clinical isolates and Mycobacterium sp. MCRO 6 (GenBank accession no. X93032). Even after sequencing the nearly full-length 16S rRNA gene, closest similarity was only 99?6 % to Mycobacterium nonchromogenicum ATCC 19530 T . Sequencing of the nearly full-length 16S rRNA gene, the 16S-23S internal transcribed spacer region and the hsp65 gene did not reveal genotypic identity with the type strains of M. nonchromogenicum, M. terrae or Mycobacterium triviale. Although sequence analysis suggested that these clinical isolates represented a novel species, mycolic acid analysis by HPLC failed to distinguish them from M. nonchromogenicum. Therefore, phenotypic analysis including growth characterization, antibiotic susceptibility testing and biochemical testing was performed. These strains from clinical samples should be recognized as representing a novel species of the genus Mycobacterium, for which the name Mycobacterium arupense sp. nov. is proposed. The type strain is AR30097 T (=ATCC BAA-1242 T =DSM 44942 T ).At the time of writing, the genus Mycobacterium comprises 119 species with validly published names, at least 30 of which have been described within the last 5 years (http:// www.bacterio.cict.fr/m/mycobacterium.html). Despite this rapid increase in the number of newly recognized Mycobacterium species, many additional Mycobacterium species remain to be formally described (Pauls et al., 2003;Tortoli, 2003;Turenne et al., 2004). Many of these unnamed species have been isolated from clinical specimens and need to be correctly characterized for appropriate patient management.In the clinical microbiology laboratory, phenotypic and biochemical testing may not identify Mycobacterium species accurately, as the results of these tests may be identical between different species or may vary depending on the growth conditions employed. Sequencing the 16S rRNA gene of Mycobacterium species has improved the speed and accuracy of identification (Cloud et al., 2002;Turenne et al., 2001;Patel et al., 2000). Sequencing additional targets such as the hsp65 gene and the 16S-23S internal transcribed spacer region 1 (ITS1) has increased our ability to describe novel Mycobacterium species (Turenne et al., 2004;Tortoli, 2003;Ringuet et al., 1999; Mohamed et al., 2005).The purpose of this study was to describe a Mycobacteriumlike organism that appears to be a genotypic match to Abbreviations: FL-HPLC, fluorescence detection HPLC; ITS1, internal transcribed spacer region 1; NTM, non-tuberculous mycobacteria.