Gene order in a 10 275 bp fragment of Yarrowia lipolytica, including adjacent YlURA5 and YlSEC65 genes conserved in four yeast species

Abstract

We have determined the sequence of a 10275 bp DNA segment of Yarrowia lipolytica located on chromosome VI. The sequence contains six complete open reading frames (ORFs) longer than 100 amino acids and two more partial ORFs at both ends. Two of the ORFs encode for the well-characterized genes YlURA5 (orotate phosphoribosyltransferase) and YlSEC65 (encoding a subunit of the signal recognition particle). These two genes show an identical organization-located on opposite strands and in opposite orientations-in four yeast species: Saccharomyces cerevisiae, Kluyveromyces lactis, Candida albicans and Y. lipolytica. One ORF and the two partial ORFs code for putative proteins showing significant homology with proteins from other organisms. YlVI-108w (partial) and YlVI-103w show 39% and 54% identity, respectively, with YDR430c and YHR088w from S. cerevisiae. YlVI-102c (partial) shows significant homology with a matrix protein, lustrin A from Haliotis rufescens, and with the PGRS subfamily (Gly-rich proteins) of Mycobacterium tuberculosis. The three remaining ORFs show weak or nonsignificant homology with previously sequenced genes. The nucleotide sequence has been submitted to the EMBL database under Accession No. AI006754.

The protein secretory pathway of Candida albicans

“…Comparative genomics shows that the components of the secretory machinery are broadly conserved in fungi 21,22 and higher eukaryotes 23 and C. albicans is no exception 21,22 . In some instances, even the chromosomal arrangement of genes has been conserved 24,25 . An interesting distinction, however, is that filamentous fungi, in comparison with the yeast S. cerevisiae , have an expanded complement of Rab proteins that includes a homologue of mammalian Rab4 21,22 .…”

“…Interestingly, the SEC65 locus of C. albicans is arranged similarly to those of S. cerevisiae , Kluyveromyces lactis , and Y. lipolytica , it is adjacent to and inversely oriented to URA5. 25 …”

Cloning and disruption of the PpURA5 gene and construction of a set of integration vectors for the stable genetic modification of Pichia pastoris

“…The two genes URA5 and SEC65 are located adjacent to each other on opposite strands and in opposite orientations in the four yeast species S. cerevisiae, K. lactis, C. albicans and Y. lipolytica (Sánchez and Domínguez, 2001). Speculating that this might also be the case in P. pastoris , we aligned known protein sequences of both genes from several microorganisms (Figure 3) and designed degenerate primers using the CODEHOP strategy (Rose et al , 1998).…”

“…Our functional deletion of the PpURA5 gene indicates that P. pastoris does not have a homologue of the URA10 gene that is responsible for the leaky phenotype of the ura5 deletion in S. cerevisiae . The organization of the two genes URA5 and SEC65 is conserved in the four yeast species S. cerevisiae, K. lactis, Candida albicans and Y. lipolytica (Sánchez et al , 2001). Our data show that this organization is also conserved in P. pastoris , which is known to have significant gene synteny with S. cerevisiae (Lin Cereghino et al , 2001).…”