Sequence analysis of closely related retrotransposon families from fission yeast
Two families of retrotransposons, Tf1 and Tf2, have been isolated from the fission yeast, Schizosaccharomyces pombe. We report here the nucleotide (nt) sequence of a Tf2 element, the only retrotransposon family known from the commonly used laboratory strains, 972 and 975, and their derivatives. The...
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| Veröffentlicht in: | Gene 1993-09, Vol.131 (1), p.135-139 |
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| creator | Weaver, Daniel C Shpakovski, George V Caputo, Emerita Levin, Henry L Bocke, J.D |
| description | Two families of retrotransposons, Tf1 and Tf2, have been isolated from the fission yeast,
Schizosaccharomyces pombe. We report here the nucleotide (nt) sequence of a Tf2 element, the only retrotransposon family known from the commonly used laboratory strains, 972 and 975, and their derivatives. The total nt sequence of Tf2 was derived from the complete sequence of the coding region and 3′ long terminal repeat (LTR) of randomly cloned element Tf2-1, and from a full 5′ LTR and approximately one-third of the open reading frame (ORF) of Tf2-43, a Tf2 element found in the head-to-head orientation adjacent to the
Sz. pombe rpb6 gene. The two Tf2 sequences are nearly identical and both of them contain a single ORF encoding a protein with regions of sequence similar to protease, reverse transcriptase, RNase H (RH) and integrase from other retrotransposons and retroviruses. Sequence comparisons between Tf1 and Tf 2 indicate an extreme divergence of the putative capsid protein-encoding regions of these two elements, as well as divergence of a segment of the LTR, but otherwise virtually identical sequence. |
| doi_str_mv | 10.1016/0378-1119(93)90682-S |
| format | Article |
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Schizosaccharomyces pombe. We report here the nucleotide (nt) sequence of a Tf2 element, the only retrotransposon family known from the commonly used laboratory strains, 972 and 975, and their derivatives. The total nt sequence of Tf2 was derived from the complete sequence of the coding region and 3′ long terminal repeat (LTR) of randomly cloned element Tf2-1, and from a full 5′ LTR and approximately one-third of the open reading frame (ORF) of Tf2-43, a Tf2 element found in the head-to-head orientation adjacent to the
Sz. pombe rpb6 gene. The two Tf2 sequences are nearly identical and both of them contain a single ORF encoding a protein with regions of sequence similar to protease, reverse transcriptase, RNase H (RH) and integrase from other retrotransposons and retroviruses. Sequence comparisons between Tf1 and Tf 2 indicate an extreme divergence of the putative capsid protein-encoding regions of these two elements, as well as divergence of a segment of the LTR, but otherwise virtually identical sequence.</description><identifier>ISSN: 0378-1119</identifier><identifier>EISSN: 1879-0038</identifier><identifier>DOI: 10.1016/0378-1119(93)90682-S</identifier><identifier>PMID: 8396547</identifier><identifier>CODEN: GENED6</identifier><language>eng</language><publisher>Lausanne: Elsevier B.V</publisher><subject>Amino Acid Sequence ; amino acid sequences ; Base Sequence ; Biological and medical sciences ; Capsid ; complete nucleotide sequence ; DNA Transposable Elements - genetics ; DNA, Fungal - analysis ; DNA, Fungal - genetics ; DNA-Binding Proteins - chemistry ; DNA-Binding Proteins - genetics ; evolution ; Fundamental and applied biological sciences. Psychology ; Fungal Proteins - chemistry ; Fungal Proteins - genetics ; genbank/l10324 ; Genes. Genome ; long terminal repeat ; Mitochondrial Proteins ; Molecular and cellular biology ; Molecular genetics ; Molecular Sequence Data ; Nuclear Proteins ; nucleotide sequences ; Open Reading Frames ; proteinases ; repetitive sequences ; Repetitive Sequences, Nucleic Acid ; retrotransposons ; ribonucleases ; RNA, Fungal - analysis ; RNA-directed DNA polymerase ; rpb6 gene ; Saccharomycetales ; Schizosaccharomyces - genetics ; Schizosaccharomyces pombe ; Schizosaccharomyces pombe Proteins ; Sequence Analysis, DNA ; Tf2 element ; Transcription Factors - chemistry ; Transcription Factors - genetics ; transposable elements</subject><ispartof>Gene, 1993-09, Vol.131 (1), p.135-139</ispartof><rights>1993</rights><rights>1993 INIST-CNRS</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c492t-45afefd200e7cfb22a5c6ecf09fdafcc0b644c849369b3cef4235ca1aaf3c8723</citedby><cites>FETCH-LOGICAL-c492t-45afefd200e7cfb22a5c6ecf09fdafcc0b644c849369b3cef4235ca1aaf3c8723</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/037811199390682S$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3537,27901,27902,65534</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=4887625$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/8396547$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Weaver, Daniel C</creatorcontrib><creatorcontrib>Shpakovski, George V</creatorcontrib><creatorcontrib>Caputo, Emerita</creatorcontrib><creatorcontrib>Levin, Henry L</creatorcontrib><creatorcontrib>Bocke, J.D</creatorcontrib><title>Sequence analysis of closely related retrotransposon families from fission yeast</title><title>Gene</title><addtitle>Gene</addtitle><description>Two families of retrotransposons, Tf1 and Tf2, have been isolated from the fission yeast,
Schizosaccharomyces pombe. We report here the nucleotide (nt) sequence of a Tf2 element, the only retrotransposon family known from the commonly used laboratory strains, 972 and 975, and their derivatives. The total nt sequence of Tf2 was derived from the complete sequence of the coding region and 3′ long terminal repeat (LTR) of randomly cloned element Tf2-1, and from a full 5′ LTR and approximately one-third of the open reading frame (ORF) of Tf2-43, a Tf2 element found in the head-to-head orientation adjacent to the
Sz. pombe rpb6 gene. The two Tf2 sequences are nearly identical and both of them contain a single ORF encoding a protein with regions of sequence similar to protease, reverse transcriptase, RNase H (RH) and integrase from other retrotransposons and retroviruses. Sequence comparisons between Tf1 and Tf 2 indicate an extreme divergence of the putative capsid protein-encoding regions of these two elements, as well as divergence of a segment of the LTR, but otherwise virtually identical sequence.</description><subject>Amino Acid Sequence</subject><subject>amino acid sequences</subject><subject>Base Sequence</subject><subject>Biological and medical sciences</subject><subject>Capsid</subject><subject>complete nucleotide sequence</subject><subject>DNA Transposable Elements - genetics</subject><subject>DNA, Fungal - analysis</subject><subject>DNA, Fungal - genetics</subject><subject>DNA-Binding Proteins - chemistry</subject><subject>DNA-Binding Proteins - genetics</subject><subject>evolution</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Fungal Proteins - chemistry</subject><subject>Fungal Proteins - genetics</subject><subject>genbank/l10324</subject><subject>Genes. Genome</subject><subject>long terminal repeat</subject><subject>Mitochondrial Proteins</subject><subject>Molecular and cellular biology</subject><subject>Molecular genetics</subject><subject>Molecular Sequence Data</subject><subject>Nuclear Proteins</subject><subject>nucleotide sequences</subject><subject>Open Reading Frames</subject><subject>proteinases</subject><subject>repetitive sequences</subject><subject>Repetitive Sequences, Nucleic Acid</subject><subject>retrotransposons</subject><subject>ribonucleases</subject><subject>RNA, Fungal - analysis</subject><subject>RNA-directed DNA polymerase</subject><subject>rpb6 gene</subject><subject>Saccharomycetales</subject><subject>Schizosaccharomyces - genetics</subject><subject>Schizosaccharomyces pombe</subject><subject>Schizosaccharomyces pombe Proteins</subject><subject>Sequence Analysis, DNA</subject><subject>Tf2 element</subject><subject>Transcription Factors - chemistry</subject><subject>Transcription Factors - genetics</subject><subject>transposable elements</subject><issn>0378-1119</issn><issn>1879-0038</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1993</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU2LFDEQhoMo67j6DxT7IKKH1nx2JxdBFt1dWFAY9xxq0hWJdHfGVM_C_HszzjBHzaUg9bxF5QljLwX_ILjoPnLV21YI4d459d7xzsp2_YithO1dy7myj9nqjDxlz4h-8XqMkRfswirXGd2v2Pc1_t7hHLCBGcY9JWpybMKYCcd9U3CEBYdal5KXAjNtM-W5iTClMSE1seSpiYko1ds9Ai3P2ZMII-GLU71k91-__Li6ae--Xd9efb5rg3ZyabWBiHGQnGMf4kZKMKHDELmLA8QQ-KbTOljtVOc2KmDUUpkAAiCqYHupLtnb49xtyfUFtPgpUcBxhBnzjnxvXA1L_l9QdNb1vbAV1EcwlExUMPptSROUvRfcH4z7g05_0Omd8n-N-3WNvTrN320mHM6hk-Laf3PqAwUYY7UYEp0xbW3fSVOx10csQvbws1Tkfi25UFxoy41wlfh0JLBqfUhYPIV0-LohFQyLH3L696Z_AC6pqBc</recordid><startdate>19930906</startdate><enddate>19930906</enddate><creator>Weaver, Daniel C</creator><creator>Shpakovski, George V</creator><creator>Caputo, Emerita</creator><creator>Levin, Henry L</creator><creator>Bocke, J.D</creator><general>Elsevier B.V</general><general>Elsevier</general><scope>FBQ</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>8FD</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>19930906</creationdate><title>Sequence analysis of closely related retrotransposon families from fission yeast</title><author>Weaver, Daniel C ; Shpakovski, George V ; Caputo, Emerita ; Levin, Henry L ; Bocke, J.D</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c492t-45afefd200e7cfb22a5c6ecf09fdafcc0b644c849369b3cef4235ca1aaf3c8723</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1993</creationdate><topic>Amino Acid Sequence</topic><topic>amino acid sequences</topic><topic>Base Sequence</topic><topic>Biological and medical sciences</topic><topic>Capsid</topic><topic>complete nucleotide sequence</topic><topic>DNA Transposable Elements - genetics</topic><topic>DNA, Fungal - analysis</topic><topic>DNA, Fungal - genetics</topic><topic>DNA-Binding Proteins - chemistry</topic><topic>DNA-Binding Proteins - genetics</topic><topic>evolution</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Fungal Proteins - chemistry</topic><topic>Fungal Proteins - genetics</topic><topic>genbank/l10324</topic><topic>Genes. Genome</topic><topic>long terminal repeat</topic><topic>Mitochondrial Proteins</topic><topic>Molecular and cellular biology</topic><topic>Molecular genetics</topic><topic>Molecular Sequence Data</topic><topic>Nuclear Proteins</topic><topic>nucleotide sequences</topic><topic>Open Reading Frames</topic><topic>proteinases</topic><topic>repetitive sequences</topic><topic>Repetitive Sequences, Nucleic Acid</topic><topic>retrotransposons</topic><topic>ribonucleases</topic><topic>RNA, Fungal - analysis</topic><topic>RNA-directed DNA polymerase</topic><topic>rpb6 gene</topic><topic>Saccharomycetales</topic><topic>Schizosaccharomyces - genetics</topic><topic>Schizosaccharomyces pombe</topic><topic>Schizosaccharomyces pombe Proteins</topic><topic>Sequence Analysis, DNA</topic><topic>Tf2 element</topic><topic>Transcription Factors - chemistry</topic><topic>Transcription Factors - genetics</topic><topic>transposable elements</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Weaver, Daniel C</creatorcontrib><creatorcontrib>Shpakovski, George V</creatorcontrib><creatorcontrib>Caputo, Emerita</creatorcontrib><creatorcontrib>Levin, Henry L</creatorcontrib><creatorcontrib>Bocke, J.D</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Gene</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Weaver, Daniel C</au><au>Shpakovski, George V</au><au>Caputo, Emerita</au><au>Levin, Henry L</au><au>Bocke, J.D</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Sequence analysis of closely related retrotransposon families from fission yeast</atitle><jtitle>Gene</jtitle><addtitle>Gene</addtitle><date>1993-09-06</date><risdate>1993</risdate><volume>131</volume><issue>1</issue><spage>135</spage><epage>139</epage><pages>135-139</pages><issn>0378-1119</issn><eissn>1879-0038</eissn><coden>GENED6</coden><abstract>Two families of retrotransposons, Tf1 and Tf2, have been isolated from the fission yeast,
Schizosaccharomyces pombe. We report here the nucleotide (nt) sequence of a Tf2 element, the only retrotransposon family known from the commonly used laboratory strains, 972 and 975, and their derivatives. The total nt sequence of Tf2 was derived from the complete sequence of the coding region and 3′ long terminal repeat (LTR) of randomly cloned element Tf2-1, and from a full 5′ LTR and approximately one-third of the open reading frame (ORF) of Tf2-43, a Tf2 element found in the head-to-head orientation adjacent to the
Sz. pombe rpb6 gene. The two Tf2 sequences are nearly identical and both of them contain a single ORF encoding a protein with regions of sequence similar to protease, reverse transcriptase, RNase H (RH) and integrase from other retrotransposons and retroviruses. Sequence comparisons between Tf1 and Tf 2 indicate an extreme divergence of the putative capsid protein-encoding regions of these two elements, as well as divergence of a segment of the LTR, but otherwise virtually identical sequence.</abstract><cop>Lausanne</cop><cop>Amsterdam</cop><cop>New York, NY</cop><pub>Elsevier B.V</pub><pmid>8396547</pmid><doi>10.1016/0378-1119(93)90682-S</doi><tpages>5</tpages></addata></record> |
| fulltext | fulltext |
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| ispartof | Gene, 1993-09, Vol.131 (1), p.135-139 |
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| language | eng |
| recordid | cdi_proquest_miscellaneous_75949320 |
| source | MEDLINE; ScienceDirect Journals (5 years ago - present) |
| subjects | Amino Acid Sequence amino acid sequences Base Sequence Biological and medical sciences Capsid complete nucleotide sequence DNA Transposable Elements - genetics DNA, Fungal - analysis DNA, Fungal - genetics DNA-Binding Proteins - chemistry DNA-Binding Proteins - genetics evolution Fundamental and applied biological sciences. Psychology Fungal Proteins - chemistry Fungal Proteins - genetics genbank/l10324 Genes. Genome long terminal repeat Mitochondrial Proteins Molecular and cellular biology Molecular genetics Molecular Sequence Data Nuclear Proteins nucleotide sequences Open Reading Frames proteinases repetitive sequences Repetitive Sequences, Nucleic Acid retrotransposons ribonucleases RNA, Fungal - analysis RNA-directed DNA polymerase rpb6 gene Saccharomycetales Schizosaccharomyces - genetics Schizosaccharomyces pombe Schizosaccharomyces pombe Proteins Sequence Analysis, DNA Tf2 element Transcription Factors - chemistry Transcription Factors - genetics transposable elements |
| title | Sequence analysis of closely related retrotransposon families from fission yeast |
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