Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene
<p>Abstract</p> <p>Background</p> <p>The stromal component of the thymic microenvironment is critical for T lymphocyte generation. Thymocyte differentiation involves a cascade of coordinated stromal genes controlling thymocyte survival, lineage commitment and selection....
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2004-07-01
|
| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/5/41 |
| _version_ | 1818149856391200768 |
|---|---|
| author | Mattei Marie-Geneviève Victorero Geneviève Saade Murielle Granjeaud Samuel Puthier Denis Irla Magali Nguyen Catherine |
| author_facet | Mattei Marie-Geneviève Victorero Geneviève Saade Murielle Granjeaud Samuel Puthier Denis Irla Magali Nguyen Catherine |
| author_sort | Mattei Marie-Geneviève |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The stromal component of the thymic microenvironment is critical for T lymphocyte generation. Thymocyte differentiation involves a cascade of coordinated stromal genes controlling thymocyte survival, lineage commitment and selection. The "Stromal Protein Associated with Thymii And Lymph-node" (<it>Spatial</it>) gene encodes a putative transcription factor which may be involved in T-cell development. In the testis, the <it>Spatial </it>gene is also expressed by round spermatids during spermatogenesis.</p> <p>Results</p> <p>The <it>Spatial </it>gene maps to the B3-B4 region of murine chromosome 10 corresponding to the human syntenic region 10q22.1. The mouse <it>Spatial </it>genomic DNA is organised into 10 exons and is alternatively spliced to generate two short isoforms (<it>Spatial</it>-α and -γ) and two other long isoforms (<it>Spatial</it>-δ and -ε) comprising 5 additional exons on the 3' site. Here, we report the cloning of a new short isoform, <it>Spatial</it>-β, which differs from other isoforms by an additional alternative exon of 69 bases. This new exon encodes an interesting proline-rich signature that could confer to the 34 kDa Spatial-β protein a particular function. By quantitative TaqMan RT-PCR, we have shown that the short isoforms are highly expressed in the thymus while the long isoforms are highly expressed in the testis. We further examined the inter-species conservation of <it>Spatial </it>between several mammals and identified that the protein which is rich in proline and positive amino acids, is highly conserved.</p> <p>Conclusions</p> <p>The <it>Spatial </it>gene generates at least five alternative spliced variants: three short isoforms (<it>Spatial</it>-α, -β and -γ) highly expressed in the thymus and two long isoforms (<it>Spatial</it>-δ and -ε) highly expressed in the testis. These alternative spliced variants could have a tissue specific function.</p> |
| first_indexed | 2024-12-11T13:13:41Z |
| format | Article |
| id | doaj.art-0f31000561244f918f6d29ff1460617a |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-11T13:13:41Z |
| publishDate | 2004-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-0f31000561244f918f6d29ff1460617a2022-12-22T01:06:06ZengBMCBMC Genomics1471-21642004-07-01514110.1186/1471-2164-5-41Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>geneMattei Marie-GenevièveVictorero GenevièveSaade MurielleGranjeaud SamuelPuthier DenisIrla MagaliNguyen Catherine<p>Abstract</p> <p>Background</p> <p>The stromal component of the thymic microenvironment is critical for T lymphocyte generation. Thymocyte differentiation involves a cascade of coordinated stromal genes controlling thymocyte survival, lineage commitment and selection. The "Stromal Protein Associated with Thymii And Lymph-node" (<it>Spatial</it>) gene encodes a putative transcription factor which may be involved in T-cell development. In the testis, the <it>Spatial </it>gene is also expressed by round spermatids during spermatogenesis.</p> <p>Results</p> <p>The <it>Spatial </it>gene maps to the B3-B4 region of murine chromosome 10 corresponding to the human syntenic region 10q22.1. The mouse <it>Spatial </it>genomic DNA is organised into 10 exons and is alternatively spliced to generate two short isoforms (<it>Spatial</it>-α and -γ) and two other long isoforms (<it>Spatial</it>-δ and -ε) comprising 5 additional exons on the 3' site. Here, we report the cloning of a new short isoform, <it>Spatial</it>-β, which differs from other isoforms by an additional alternative exon of 69 bases. This new exon encodes an interesting proline-rich signature that could confer to the 34 kDa Spatial-β protein a particular function. By quantitative TaqMan RT-PCR, we have shown that the short isoforms are highly expressed in the thymus while the long isoforms are highly expressed in the testis. We further examined the inter-species conservation of <it>Spatial </it>between several mammals and identified that the protein which is rich in proline and positive amino acids, is highly conserved.</p> <p>Conclusions</p> <p>The <it>Spatial </it>gene generates at least five alternative spliced variants: three short isoforms (<it>Spatial</it>-α, -β and -γ) highly expressed in the thymus and two long isoforms (<it>Spatial</it>-δ and -ε) highly expressed in the testis. These alternative spliced variants could have a tissue specific function.</p>http://www.biomedcentral.com/1471-2164/5/41 |
| spellingShingle | Mattei Marie-Geneviève Victorero Geneviève Saade Murielle Granjeaud Samuel Puthier Denis Irla Magali Nguyen Catherine Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene BMC Genomics |
| title | Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene |
| title_full | Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene |
| title_fullStr | Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene |
| title_full_unstemmed | Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene |
| title_short | Genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse <it>Spatial </it>gene |
| title_sort | genomic organization and the tissue distribution of alternatively spliced isoforms of the mouse it spatial it gene |
| url | http://www.biomedcentral.com/1471-2164/5/41 |
| work_keys_str_mv | AT matteimariegenevieve genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene AT victorerogenevieve genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene AT saademurielle genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene AT granjeaudsamuel genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene AT puthierdenis genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene AT irlamagali genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene AT nguyencatherine genomicorganizationandthetissuedistributionofalternativelysplicedisoformsofthemouseitspatialitgene |