Podospora anserina AS6 gene encodes the cytosolic ribosomal protein of the E. coli S12 family

The ribosomal proteins of the E. coli S4, S5 and S12 families that are part of the ribosome accuracy center control translation accuracy both in prokaryotes and eukaryotes. In Podospora anserina, genes coding for S4 and S5 have already been identified. Here, we identify the gene coding for the S12 protein homologue and show that it is identical to the genetically known AS6 gene. Creative Commons License This work is licensed under a Creative Commons Attribution-Share Alike 4.0 License. This regular paper is available in Fungal Genetics Reports: http://newprairiepress.org/fgr/vol53/iss1/8 26 Fungal Genetics Newsletter Podospora anserina AS6 gene encodes the cytosolic ribosomal protein of the E. coli S12 family Michelle Dequard-Chablat and Philippe Silar 1 1, 2 Institut de Génétique et Microbiologie, Bât. 400 Université de Paris 11, 91405 Orsay cedex, France. 1 UFR de Biochimie, Université de Paris 7 Denis Diderot, case 7006, 2 place Jussieu, 75005, Paris, France 2 To whom correspondence may be addressed: michelle.chablat@igmors.u-psud.fr or philippe.silar@igmors.u-psud.fr Fungal Genetics Newsletter 53: 26-29 The ribosomal proteins of the E. coli S4, S5 and S12 families that are part of the ribosome accuracy center control translation accuracy both in prokaryotes and eukaryotes. In Podospora anserina, genes coding for S4 and S5 have already been identified. Here, we identify the gene coding for the S12 protein homologue and show that it is identical to the genetically known AS6 gene. Podospora anserina has been used in intensive search of translation accuracy mutants (Coppin-Raynal et al. 1988). Several factors involved in the maintenance of accuracy have been identified in this organism including the tRNA suppressors su4-1 and su8-1 (Debuchy et al. 1985), as well as elongation factor eEF1A coded by AS4 (Silar et al. 1994), termination factors eRF1 and eRF3 coded by su1 and su2/AS2 respectively (Gagny et al. 1998), ribosomal proteins S12 coded by AS1 (Dequard-Chablat et al. 1994), S7 coded by su12 (Silar et al. 1997) and S1 coded by su3 (Silar et al. 2003). S12, S7 and S1 refer to the P. anserina numbering for ribosomal proteins (Dequard-Chablat et al. 1986) since the su12 and su3 genes code for the ribosomal proteins homologues of the E. coli S4 and S5, respectively. These two proteins are part of an accuracy center that has been conserved for more than two billion years in both prokaryotes and eukaryotes (Alksne et al. 1993). The center contains a third protein corresponding to the E. coli S12 protein, which remains to be identified in P. anserina. This protein is highly conserved and essential in all prokaryotes and eukaryotes investigated to date (Alksne et al. 1993). To identify the gene coding this protein in P. anserina, we took advantage of the availability of the complete genomic sequence of this fungus (available at http://podospora.igmors.u-psud.fr). We first located on the sequence map the gene encoding the P. anserina protein of the S12 family that would act in cytosolic translation. To do this, we searched the genome sequence by BLAST using the Saccharomyces cerevisiae S28 protein, which is a eukaryotic homolog of the E. coli S12 protein (Alksne et al. 1993). A single CDS, Pa_3_536, was obtained with a significant score (10 ; Figure 1). It has 89% identity and 94% similarity with the S. -72 cerevisiae S28 protein. At least one orthologue is present in the complete genomes of all organisms sequenced to date and the gene is highly conserved in fungi (figure 1). For example, the P. anserina and Neurospora crassa proteins are 99% identical . Pa_3_5360 is located on the right arm of chromosome 3 in a region that would segregate with a 70% second division frequency, strongly suggesting that it could correspond to the CDS of the previously known AS6 gene since (1) AS6 is located at this position on the genetic map (Picard-Bennoun et al. 1980), (2) AS6 controls translation accuracy (Picard-Bennoun 1981), (3) numerous mutations of this gene were recovered as suppressors of su12 mutations and thus (Dequard-Chablat 1986) and (4) AS6 encodes a ribosomal protein (named S19 in the P. anserina nomenclature; Dequard-Chablat et al. 1986). To confirm this, we first sequenced the three alleles of Pa_3_5360 present in the AS6-1, AS6-2 and AS6-5 mutants. DNA fragments were amplified using oligonucleotides 5'ttgcgagatcccatcaaag-3' and 5'-agcctcgcagactcctca-3' and the three mutant genomic DNAs as template. Complete sequence of the DNA fragments was then performed and compared with that of wild type. AS6-1 contained a C to G transversion that changes arginine 73 to glycine, AS6-2 a G to A transition that changes aspartate 90 to asparagine and AS6-5 a C to T transition that changes alanine 113 to valine (Figure 1). Finally, we co-transformed the AS6-1 mutant with plasmid pAS6 (plasmid GA0AA399BE01 from the P. anserina genome sequence project) containing a DNA fragment carrying the AS6 allele and the pBC-hygro vector carrying a hygromycin B resistance gene (Silar 1995). AS6-1 has a + strong sexual defect since it is unable to differentiate perithecia (Figure 2). No transformants with a restored wild-type phenotype was recovered among the 30 retrieved in the control experiment with the pBC-hygro vector alone, whereas, six transformants with a restored wild-type phenotype were recovered among 13 analyzed in the transformation with both pBC-hygro and pAS6 (Figure 2) further demonstrating that Pa_3_5360 is the CDS corresponding to AS6. Published by New Prairie Press, 2017


Podospora anserina AS6 gene encodes the cytosolic ribosomal protein of the E. coli S12 family
Michelle Dequard-Chablat and Philippe Silar To whom correspondence may be addressed: michelle.chablat@igmors.u-psud.fr or philippe.silar@igmors.u-psud.fr Fungal Genetics Newsletter 53: 26-29 The ribosomal proteins of the E. coli S4, S5 and S12 families that are part of the ribosome accuracy center control translation accuracy both in prokaryotes and eukaryotes. In Podospora anserina, genes coding for S4 and S5 have already been identified.
Here, we identify the gene coding for the S12 protein homologue and show that it is identical to the genetically known AS6 gene.
Podospora anserina has been used in intensive search of translation accuracy mutants (Coppin-Raynal et al. 1988). Several factors involved in the maintenance of accuracy have been identified in this organism including the tRNA suppressors su4-1 and su8-1 (Debuchy et al. 1985), as well as elongation factor eEF1A coded by AS4 (Silar et al. 1994), termination factors eRF1 and eRF3 coded by su1 and su2/AS2 respectively (Gagny et al. 1998), ribosomal proteins S12 coded by AS1 (Dequard-Chablat et al. 1994), S7 coded by su12 (Silar et al. 1997) and S1 coded by su3 (Silar et al. 2003). S12, S7 and S1 refer to the P. anserina numbering for ribosomal proteins ) since the su12 and su3 genes code for the ribosomal proteins homologues of the E. coli S4 and S5, respectively. These two proteins are part of an accuracy center that has been conserved for more than two billion years in both prokaryotes and eukaryotes (Alksne et al. 1993). The center contains a third protein corresponding to the E. coli S12 protein, which remains to be identified in P. anserina. This protein is highly conserved and essential in all prokaryotes and eukaryotes investigated to date (Alksne et al. 1993).
To identify the gene coding this protein in P. anserina, we took advantage of the availability of the complete genomic sequence of this fungus (available at http://podospora.igmors.u-psud.fr). We first located on the sequence map the gene encoding the P. anserina protein of the S12 family that would act in cytosolic translation. To do this, we searched the genome sequence by BLAST using the Saccharomyces cerevisiae S28 protein, which is a eukaryotic homolog of the E. coli S12 protein (Alksne et al. 1993). A single CDS, Pa_3_536, was obtained with a significant score (10 ; Figure 1). It has 89% identity and 94% similarity with the S.
-72 cerevisiae S28 protein. At least one orthologue is present in the complete genomes of all organisms sequenced to date and the gene is highly conserved in fungi (figure 1). For example, the P. anserina and Neurospora crassa proteins are 99% identical .
Pa_3_5360 is located on the right arm of chromosome 3 in a region that would segregate with a 70% second division frequency, strongly suggesting that it could correspond to the CDS of the previously known AS6 gene since (1) AS6 is located at this position on the genetic map (Picard-Bennoun et al. 1980), (2) AS6 controls translation accuracy (Picard-Bennoun 1981), (3) numerous mutations of this gene were recovered as suppressors of su12 mutations and thus (Dequard-Chablat 1986) and (4) AS6 encodes a ribosomal protein (named S19 in the P. anserina nomenclature; Dequard-Chablat et al. 1986).
To confirm this, we first sequenced the three alleles of Pa_3_5360 present in the AS6-1, AS6-2 and AS6-5 mutants. DNA fragments were amplified using oligonucleotides 5'-ttgcgagatcccatcaaag-3' and 5'-agcctcgcagactcctca-3' and the three mutant genomic DNAs as template. Complete sequence of the DNA fragments was then performed and compared with that of wild type. AS6-1 contained a C to G transversion that changes arginine 73 to glycine, AS6-2 a G to A transition that changes aspartate 90 to asparagine and AS6-5 a C to T transition that changes alanine 113 to valine (Figure 1). Finally, we co-transformed the AS6-1 mutant with plasmid pAS6 (plasmid GA0AA399BE01 from the P. anserina genome sequence project) containing a DNA fragment carrying the AS6 allele and the pBC-hygro vector carrying a hygromycin B resistance gene (Silar 1995). AS6-1 has a + strong sexual defect since it is unable to differentiate perithecia (Figure 2). No transformants with a restored wild-type phenotype was recovered among the 30 retrieved in the control experiment with the pBC-hygro vector alone, whereas, six transformants with a restored wild-type phenotype were recovered among 13 analyzed in the transformation with both pBC-hygro and pAS6 ( Figure  2) further demonstrating that Pa_3_5360 is the CDS corresponding to AS6.  In conclusion, the AS6 gene codes the ribosomal protein of the E. coli S12 family acting in cytosolic translation. In P. anserina, mutations of this gene lead to an increased in translation accuracy (Picard-Bennoun 1981;Dequard-Chablat 1986;Dequard-Chablat et al. 1986), which in turn has many physiological effects. Indeed, it was demonstrated that increase translation accuracy in the AS6-5 mutant triggers a specific suppressive effect on the accumulation of the circular senDNAá in the mitochondria during P. anserina senescence (Silar et al. 1997), entails a strong defect in sexual reproduction (Coppin-Raynal et al. 1988;Dequard et al. 1984) and permits the development of the epigenetic cell degeneration Crippled Growth (Haedens et al. 2005;Kicka et al. 2004;Silar et al. 1999). In all these cases, it was demonstrated that increase accuracy was responsible for the defects, indicating the translation errors are necessary for normal P. anserina physiology as postulated previously (Picard-Bennoun, 1982).