UGA is a nonsense or termination (opal) codon throughout prokaryotes and eukaryotes. However, mitochondria use not only UGG but also UGA as a tryptophan codon. Here, we show that UGA also codes for tryptophan in Mycoplasma capricolum, a wall-less bacterium having a genome only 20-25% the size of the Escherichia coil genome. This conclusion is based on the following evidence. First, the nucleotide sequence of the S3 and L16 ribosomal protein genes from M. capricolum includes UGA codons in the reading frames; they appear at positions corresponding to tryptophan in E. coli S3 and L16. Second, a tRNA"rP gene and its product tRNA found in M. capricolum have the anticodon sequence 5' U-C-A 3', which can form a complementary base-pairing interaction with UGA.We recently have sequenced a part of the Mycoplasma capricolum ribosomal-protein gene cluster that codes for polypeptides highly homologous to the Escherichia coli ribosomal proteins S3 and L16. The sequence contains four UGA codons in the reading frames; three appear at the sites corresponding to tryptophan, and one, at a site corresponding to arginine in the E. coli proteins. No "universal" UGG codon for tryptophan has so far been found. We have also isolated a clone containing a pair of M. capricolum tRNA genes, the sequence of both of which resembles that of tRNATrp of E. coli. The anticodon sequence of one of these tRNA genes is 5'-T-C-A-3', which can base-pair with both opal codon UGA and universal tryptophan codon UGG. That of the other is 5'-C-C-A-3', which may base-pair exclusively with UGG. These two tRNA genes are expressed in the cell. All these findings suggest strongly that, in M. capricolum, UGA codes for tryptophan using the opal tRNAUCA but not tRNACCA.RESULTS AND DISCUSSION UGA Codons in M. capricolum S3 and L16 Genes. As reported in a previous paper (1), we isolated the recombinant plasmid pMCB1088 containing a 9-kilobase-pair fragment of M. capricolum DNA. The fragment contains the genes for at least nine ribosomal proteins-S3, S5, S8, S14, S17, L5, L6, L16, and L18-as deduced from its encoded protein sequences being highly homologous with the corresponding E. coli ribosomal protein sequences (refs. 1 and 2; unpublished results). Fig. 1 shows the complete nucleotide sequence of a 629-base-pair (bp) HindIII fragment which is a part of the insert of pMCB1088 (see refs. 1 and 2). The DNA corresponds to the 3' half of the S3 gene and about 90% of the L16 gene from the 5' terminus. When the M. capricolum sequences are aligned with the E. coli protein sequences (3, 4) ( Fig. 1), four UGA (opal) codons are found within the reading frames. The possibility that these UGA codons are termination signals can be excluded by their occurrence in the regions having extensive sequence homologies with the E. coli proteins. More importantly, three out of the four UGA codons appear at the positions corresponding to tryptophan in the E. coli proteins. This suggests that UGA is a sense codon, probably for tryptophan, in M. capricolum. No UGG codon for tryptop...

The DNA sequence of the part of the Mycoplasma capricolum genome that contains the genes for 20 ribosomal proteins and two other proteins has been determined. The organization of the gene cluster is essentially the same as that in the S10 and spc operons of Escherichia coli. The deduced amino acid sequence of each protein is also well conserved in the two bacteria. The G + C content of the M. capricolum genes is 29%, which is much lower than that of E. coli (51%). The codon usage pattern of M. capricolum is different from that of E. coli and extremely biased to use of A and U(T): about 91% of codons have A or U in the third position. UGA, which is a stop codon in the "universal" code, is used more abundantly than UGG to dictate tryptophan.

, may play a critical role in the process of gallbladder mucosal inflammation in multiple cholesterol stones, which in turn may produce biliary pronucleating proteins as well as mucin. On the other hand, ursodeoxycholate (UDC) decreases biliary levels of various pronucleating proteins, possibly because of its membraneprotective effects on the inflamed gallbladder mucosa. To elucidate that beneficial effect of UDC, the expression levels of low-molecular-weight PLA 2 s, group IIA PLA 2 (PLA 2 -IIA), and group V PLA 2 (PLA 2 -V), and mucin core polypeptide genes in the gallbladders were studied for UDC-treated patients and untreated patients with multiple cholesterol stones. Furthermore, the results were correlated with alterations in biliary composition. With long-term administration of UDC, the PLA 2 -IIA protein mass (2.7 ؎ 0.5 vs. 5.0 ؎ 0.4 ng/mg · protein [mean ؎ SEM]; P F .01) and steady-state mRNA level, as well as the PLA 2 -V mRNA level, were significantly decreased in the gallbladders, where the prostaglandin E 2 (PGE 2 ) level was concomitantly decreased (190.7 ؎ 27.9 vs. 393.6 ؎ 55.3 pg/mg · protein; P F .01). In the gallbladder bile, the immunoradiometrically determined PLA 2 -IIA levels were significantly decreased in the UDC-treated patients (43 ؎ 4 ng/dL; P F .01) in comparison with untreated patients (78 ؎ 6 ng/dL).Significant decreases were similarly found for total protein, mucin, and free arachidonate concentrations, as well as nucleation activity in the bile. The degree of the changes was found to be rather small in solitary stones. In contrast to the decreased mucin concentration, however, there were no significant changes in the expression levels of mucin core polypeptide genes (MUC1-MUC6) between the UDCtreated and untreated patients. Long-term UDC administration was observed to lower the increased PLA 2 -IIA protein mass and mRNA level, as well as the PLA 2 -V mRNA level, in the gallbladders of patients with multiple cholesterol stones, which in turn may be of therapeutic importance in improving the gallbladder mucosal inflammation. Effects of UDC on secretory low-molecular-weight PLA 2 s as inflammatory mediators may relate to the reported efficacy of UDC treatment in cholesterol gallstone disease. (HEPATOLOGY 1998;28:302-313.)

To investigate the effect of type II phospholipase A2 (PLA2-II) on neutrophil function, we assessed the Mac-1 (CD11b/CD18) expression on human neutrophils by flow cytometry after incubation of the cells with human PLA2-II. PLA2-II at a concentration of 10 microg/mL increased the Mac-1 expression by 150% compared with unstimulated cells at 30 min and after. Under these conditions PLA2-II increased the exocytosis from secretory vesicles but not from azurophilic, specific, or gelatinase granules. The results suggest that PLA2-II induces translocation of Mac-1 from the secretory vesicles to the plasma membrane. The Mac-1 induction mediated by PLA2-II was inhibited by an anti-PLA2-II antibody, which was able to inhibit the catalytic activity. However, the Mac-1 induction by PLA2-II was not inhibited by a 5-lipoxygenase, cyclooxygenase inhibitor, or a platelet-activating factor antagonist. Thus, we examined the effects of fatty acids and lysophospholipids on Mac-1 expression. Only arachidonic acid induced Mac-1 expression. These results imply that PLA2-II induces Mac-1 expression on neutrophils via production of arachidonic acid.

The nucleotide sequence of the 1.3 kilobase-pair DNA segment, which contains the genes for ribosomal proteins S8 and L6, and a part of L18 of Mycoplasma capricolum, has been determined and compared with the corresponding sequence in Escherichia coli (Cerretti et al., Nucl. Acids Res. 11, 2599, 1983). Identities of the predicted amino acid sequences of S8 and L6 between the two organisms are 54% and 42%, respectively. The A + T content of the M. capricolum genes is 71%, which is much higher than that of E. coli (49%). Comparisons of codon usage between the two organisms have revealed that M. capricolum preferentially uses A- and U-rich codons. More than 90% of the codon third positions and 57% of the first positions in M. capricolum is either A or U, whereas E. coli uses A or U for the third and the first positions at a frequency of 51% and 36%, respectively. The biased choice of the A- and U-rich codons in this organism has been also observed in the codon replacements for conservative amino acid substitutions between M. capricolum and E. coli. These facts suggest that the codon usage of M. capricolum is strongly influenced by the high A + T content of the genome.