Somewhat better correlated was the expression of histone H2B (microarray rank 3, SAGE

rank 37) and dynein light chain (microarray 4th, SAGE 26th). The overall lack of correlation between cyst datasets could have several reasons, including experimental differences between the two studies. The fact that the cysts used in our study were obtained from gerbils, whereas Birkeland and colleagues produced cysts in vitro [18], was considered as a possible cause of the poor correlation between cyst datasets. Small molecule library in vitro To investigate this possibility, we compared SAGE and microarray datasets from trophozoites (Figure 3). Because the culture conditions used in both studies were similar, one would expect to find a better overlap than

observed with cysts. As for the comparison of the cyst data, we considered genes contributing at least 0.1% of trophozoite SAGE tags (n = 115, 3.8% of detected genes) and 201 genes with the highest LY2606368 datasheet microarray fluorescence value. By including 201 genes from the microarray data, the ratio of SAGE/microarray genes is the same for the cyst and trophozoite comparison (1:1.75). Indeed, in the trophozoite data comparison 36% (41/115) of SAGE genes were present in the microarray gene list. To ensure that the use of assemblage B cysts and assemblage A trophozoites did not affect these results, the SAGE-microarray comparison was repeated with two replicate microarray datasets originating from GS (assemblage B) trophozoites. This analysis gave similar results with 31% (36/115) genes shared by the microarray and SAGE trophozoite datasets. Thus the percentage of matches among trophozoite datasets was about twice that found in the cyst comparison. This observation raises the possibility Protirelin that cysts produced in vitro and cysts originating from an infection express a different set of genes. Figure 3 Venn diagram of the number

of highly expressed selleck screening library transcripts in SAGE and microarray analyses. Genes representing ≥0.1% of SAGE tags were included. Areas in each diagram are proportional to the number of genes. Grey, SAGE [9]; white, microarray data from this study. Cyst microarray data originate from the analysis of cysts of isolate H3, whereas trophozoite microarray data are from WB isolate. Similar results were obtained with GS trophozoites (see text). Expression of histone and histone modifying enzymes The high level of histone mRNA in cysts raises indicates the importance of histone metabolism in cyst. To gain further insights into this function we compared the expression of core histones and histone modifying enzymes in trophozoites and cysts. Table 4 shows that core histones were expressed in both life cycle stages, whereas histone modifying enzymes were only expressed in trophozoites.