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Transcription variants of SLA-7, a swine non classical MHC class I gene.

Hu R, Lemonnier G, Bourneuf E, Vincent-Naulleau S, Rogel-Gaillard C - BMC Proc (2011)

Bottom Line: Surprisingly, a cryptic non canonical GA-AG splicing site is used to generate this transcript variant.An additional SLA-7 variant was also identified in the 3UTR with a splicing site occurring 31 nucleotides downstream to the stop codon.In conclusion, the pig SLA-7 MHC class Ib gene presents a complex transcription pattern with two transcripts encoding various molecules and transcripts that do not alter the CDS and may be subject to post-transcriptional regulation.

View Article: PubMed Central - HTML - PubMed

Affiliation: INRA, UMR de Génétique Animale et Biologie Intégrative, Jouy-en-Josas, France. claire.rogel-gaillard@jouy.inra.fr.

ABSTRACT
In pig, very little information is available on the non classical class I (Ib) genes of the Major Histocompatibility Complex (MHC) i.e. SLA-6, -7 and -8. Our aim was to focus on the transcription pattern of the SLA-7 gene. RT-PCR experiments were carried out with SLA-7 specific primers targeting either the full coding sequence (CDS) from exon 1 to the 3 prime untranslated region (3UTR) or a partial CDS from exon 4 to the 3UTR. We show that the SLA-7 gene expresses a full length transcript not yet identified that refines annotation of the gene with eight exons instead of seven as initially described from the existing RefSeq RNA. These two RNAs encode molecules that differ in cytoplasmic tail length. In this study, another SLA-7 transcript variant was characterized, which encodes a protein with a shorter alpha 3 domain, as a consequence of a splicing site within exon 4. Surprisingly, a cryptic non canonical GA-AG splicing site is used to generate this transcript variant. An additional SLA-7 variant was also identified in the 3UTR with a splicing site occurring 31 nucleotides downstream to the stop codon. In conclusion, the pig SLA-7 MHC class Ib gene presents a complex transcription pattern with two transcripts encoding various molecules and transcripts that do not alter the CDS and may be subject to post-transcriptional regulation.

No MeSH data available.


Tissue expression patterns in MeLiM and Large White pigs. Detection of the SLA-7 transcript variants in adult tissues from MeLiM (A) and Large White (B) pigs by RT-PCR using the primers SLA-7-e4-F and SLA-7-3UTR-R. The RPL32 gene was used as a control for expression levels as shown for four tissues of MeLiM pig (C).
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Figure 3: Tissue expression patterns in MeLiM and Large White pigs. Detection of the SLA-7 transcript variants in adult tissues from MeLiM (A) and Large White (B) pigs by RT-PCR using the primers SLA-7-e4-F and SLA-7-3UTR-R. The RPL32 gene was used as a control for expression levels as shown for four tissues of MeLiM pig (C).

Mentions: The expression patterns of these two 3UTR variants were studied in four different tissues including spleen, thymus, tonsil, and liver from MeLiM and Large White pigs. Surprisingly, the SLA-7-650 band was detected in all tissues of both breeds but the SLA-7-464 band was detected only in MeLiM pigs (Figure 3). We cannot rule out a very weak expression of the short variant in Large White pigs but our results strongly suggest a co-expression of both variants in MeLiM pigs and a predominant expression of the SLA-7-650 variant in the Large White pigs included in our study.


Transcription variants of SLA-7, a swine non classical MHC class I gene.

Hu R, Lemonnier G, Bourneuf E, Vincent-Naulleau S, Rogel-Gaillard C - BMC Proc (2011)

Tissue expression patterns in MeLiM and Large White pigs. Detection of the SLA-7 transcript variants in adult tissues from MeLiM (A) and Large White (B) pigs by RT-PCR using the primers SLA-7-e4-F and SLA-7-3UTR-R. The RPL32 gene was used as a control for expression levels as shown for four tissues of MeLiM pig (C).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3108204&req=5

Figure 3: Tissue expression patterns in MeLiM and Large White pigs. Detection of the SLA-7 transcript variants in adult tissues from MeLiM (A) and Large White (B) pigs by RT-PCR using the primers SLA-7-e4-F and SLA-7-3UTR-R. The RPL32 gene was used as a control for expression levels as shown for four tissues of MeLiM pig (C).
Mentions: The expression patterns of these two 3UTR variants were studied in four different tissues including spleen, thymus, tonsil, and liver from MeLiM and Large White pigs. Surprisingly, the SLA-7-650 band was detected in all tissues of both breeds but the SLA-7-464 band was detected only in MeLiM pigs (Figure 3). We cannot rule out a very weak expression of the short variant in Large White pigs but our results strongly suggest a co-expression of both variants in MeLiM pigs and a predominant expression of the SLA-7-650 variant in the Large White pigs included in our study.

Bottom Line: Surprisingly, a cryptic non canonical GA-AG splicing site is used to generate this transcript variant.An additional SLA-7 variant was also identified in the 3UTR with a splicing site occurring 31 nucleotides downstream to the stop codon.In conclusion, the pig SLA-7 MHC class Ib gene presents a complex transcription pattern with two transcripts encoding various molecules and transcripts that do not alter the CDS and may be subject to post-transcriptional regulation.

View Article: PubMed Central - HTML - PubMed

Affiliation: INRA, UMR de Génétique Animale et Biologie Intégrative, Jouy-en-Josas, France. claire.rogel-gaillard@jouy.inra.fr.

ABSTRACT
In pig, very little information is available on the non classical class I (Ib) genes of the Major Histocompatibility Complex (MHC) i.e. SLA-6, -7 and -8. Our aim was to focus on the transcription pattern of the SLA-7 gene. RT-PCR experiments were carried out with SLA-7 specific primers targeting either the full coding sequence (CDS) from exon 1 to the 3 prime untranslated region (3UTR) or a partial CDS from exon 4 to the 3UTR. We show that the SLA-7 gene expresses a full length transcript not yet identified that refines annotation of the gene with eight exons instead of seven as initially described from the existing RefSeq RNA. These two RNAs encode molecules that differ in cytoplasmic tail length. In this study, another SLA-7 transcript variant was characterized, which encodes a protein with a shorter alpha 3 domain, as a consequence of a splicing site within exon 4. Surprisingly, a cryptic non canonical GA-AG splicing site is used to generate this transcript variant. An additional SLA-7 variant was also identified in the 3UTR with a splicing site occurring 31 nucleotides downstream to the stop codon. In conclusion, the pig SLA-7 MHC class Ib gene presents a complex transcription pattern with two transcripts encoding various molecules and transcripts that do not alter the CDS and may be subject to post-transcriptional regulation.

No MeSH data available.