Potential coexistence of both bacterial and eukaryotic small RNA biogenesis and functional related protein homologs in Archaea
RNA silencing plays crucial roles in both bacteria and eukaryotes, yet its machinery appears to differ in these two kingdoms. A couple of Argonaute protein homologs have been reported in some archaeal species in recent years. As Argonaute protein is the key component of eukaryotic RNA silencing path...
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| Veröffentlicht in: | Journal of genetics and genomics 2010-08, Vol.37 (8), p.493-503 |
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| creator | Li, Yan Liu, Xiuying Huang, Li Guo, Huishan Wang, Xiu-Jie |
| description | RNA silencing plays crucial roles in both bacteria and eukaryotes, yet its machinery appears to differ in these two kingdoms. A couple of Argonaute protein homologs have been reported in some archaeal species in recent years. As Argonaute protein is the key component of eukaryotic RNA silencing pathways, such findings suggested the possibility of existence of eukaryotic RNA silencing like pathways in Archaea, which present the life forms between prokaryotes and eukaryotes. To further explore such hypothesis, we systematically screened 71 fully sequenced archaeal genomes, and identified some proteins containing homologous regions to the functional domains of eukaryotic RNA silencing pathway key proteins. The phylogenetic relationships of these proteins were analyzed. The conserved functional amino acids between archaeal and eukaryotic Piwi domains suggested their fimctional similarity. Our results provide new clues to the evolution of RNA silencing pathways. |
| doi_str_mv | 10.1016/S1673-8527(09)60069-2 |
| format | Article |
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A couple of Argonaute protein homologs have been reported in some archaeal species in recent years. As Argonaute protein is the key component of eukaryotic RNA silencing pathways, such findings suggested the possibility of existence of eukaryotic RNA silencing like pathways in Archaea, which present the life forms between prokaryotes and eukaryotes. To further explore such hypothesis, we systematically screened 71 fully sequenced archaeal genomes, and identified some proteins containing homologous regions to the functional domains of eukaryotic RNA silencing pathway key proteins. The phylogenetic relationships of these proteins were analyzed. The conserved functional amino acids between archaeal and eukaryotic Piwi domains suggested their fimctional similarity. Our results provide new clues to the evolution of RNA silencing pathways.</description><identifier>ISSN: 1673-8527</identifier><identifier>DOI: 10.1016/S1673-8527(09)60069-2</identifier><identifier>PMID: 20816382</identifier><language>eng</language><publisher>China: Elsevier Ltd</publisher><subject>Amino acids ; Archaea ; Archaeal Proteins - chemistry ; Archaeal Proteins - genetics ; Archaeal Proteins - metabolism ; Conserved Sequence ; Eukaryota - metabolism ; Evolution, Molecular ; Genomics ; Phylogeny ; Piwi ; Protein Structure, Tertiary ; Ribonuclease H - chemistry ; Ribonuclease H - genetics ; Ribonuclease H - metabolism ; Ribonuclease III - chemistry ; Ribonuclease III - genetics ; Ribonuclease III - metabolism ; RNA Helicases - chemistry ; RNA Helicases - genetics ; RNA Helicases - metabolism ; RNA Interference ; RNA silencing ; RNA, Bacterial - biosynthesis ; RNA, Bacterial - genetics ; RNA, Untranslated - biosynthesis ; RNA, Untranslated - genetics ; RNase III ; RNA沉默 ; Sequence Homology, Amino Acid ; small RNA ; Species Specificity ; 共存 ; 古细菌 ; 同源 ; 小分子RNA ; 生物合成 ; 真核生物 ; 蛋白质</subject><ispartof>Journal of genetics and genomics, 2010-08, Vol.37 (8), p.493-503</ispartof><rights>2010 Institute of Genetics and Developmental Biology and the Genetics Society of China</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c475t-1232d8a4562943bca5a171e32021f460f7904e78aaf82f349b3c47d86eebaeb03</citedby><cites>FETCH-LOGICAL-c475t-1232d8a4562943bca5a171e32021f460f7904e78aaf82f349b3c47d86eebaeb03</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Uhttp://image.cqvip.com/vip1000/qk/95085X/95085X.jpg</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/S1673-8527(09)60069-2$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,780,784,3550,27924,27925,45995</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/20816382$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Li, Yan</creatorcontrib><creatorcontrib>Liu, Xiuying</creatorcontrib><creatorcontrib>Huang, Li</creatorcontrib><creatorcontrib>Guo, Huishan</creatorcontrib><creatorcontrib>Wang, Xiu-Jie</creatorcontrib><title>Potential coexistence of both bacterial and eukaryotic small RNA biogenesis and functional related protein homologs in Archaea</title><title>Journal of genetics and genomics</title><addtitle>Journal of Genetics and Genomics</addtitle><description>RNA silencing plays crucial roles in both bacteria and eukaryotes, yet its machinery appears to differ in these two kingdoms. A couple of Argonaute protein homologs have been reported in some archaeal species in recent years. As Argonaute protein is the key component of eukaryotic RNA silencing pathways, such findings suggested the possibility of existence of eukaryotic RNA silencing like pathways in Archaea, which present the life forms between prokaryotes and eukaryotes. To further explore such hypothesis, we systematically screened 71 fully sequenced archaeal genomes, and identified some proteins containing homologous regions to the functional domains of eukaryotic RNA silencing pathway key proteins. The phylogenetic relationships of these proteins were analyzed. The conserved functional amino acids between archaeal and eukaryotic Piwi domains suggested their fimctional similarity. Our results provide new clues to the evolution of RNA silencing pathways.</description><subject>Amino acids</subject><subject>Archaea</subject><subject>Archaeal Proteins - chemistry</subject><subject>Archaeal Proteins - genetics</subject><subject>Archaeal Proteins - metabolism</subject><subject>Conserved Sequence</subject><subject>Eukaryota - metabolism</subject><subject>Evolution, Molecular</subject><subject>Genomics</subject><subject>Phylogeny</subject><subject>Piwi</subject><subject>Protein Structure, Tertiary</subject><subject>Ribonuclease H - chemistry</subject><subject>Ribonuclease H - genetics</subject><subject>Ribonuclease H - metabolism</subject><subject>Ribonuclease III - chemistry</subject><subject>Ribonuclease III - genetics</subject><subject>Ribonuclease III - metabolism</subject><subject>RNA Helicases - chemistry</subject><subject>RNA Helicases - genetics</subject><subject>RNA Helicases - metabolism</subject><subject>RNA Interference</subject><subject>RNA silencing</subject><subject>RNA, Bacterial - biosynthesis</subject><subject>RNA, Bacterial - genetics</subject><subject>RNA, Untranslated - biosynthesis</subject><subject>RNA, Untranslated - genetics</subject><subject>RNase III</subject><subject>RNA沉默</subject><subject>Sequence Homology, Amino Acid</subject><subject>small RNA</subject><subject>Species Specificity</subject><subject>共存</subject><subject>古细菌</subject><subject>同源</subject><subject>小分子RNA</subject><subject>生物合成</subject><subject>真核生物</subject><subject>蛋白质</subject><issn>1673-8527</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2010</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkUtv1DAUhbMA0ar0J4AsNsAi4EfixwqNqlKQKkA81pbjXM9YTezWdirY8NtxZoZuu_LrHJ-r8zXNC4LfEUz4-x-EC9bKnoo3WL3lGHPV0ifN6cP1SXOesx8wppgpIcSz5oRiSTiT9LT5-y0WCMWbCdkIv32uJwsoOjTEskODsQXS-mrCiGC5MelPLN6iPJtpQt-_bNDg4xYCZJ_3GrcEW3wM1ZJgMgVGdJtqhg9oF-c4xW1Gdb9JdmfAPG-eOjNlOD-uZ82vj5c_Lz6111-vPl9srlvbib60hDI6StP1nKqODdb0hggCjGJKXMexEwp3IKQxTlLHOjWwahwlBxgMDJidNa8P_9ZZ7hbIRc8-W5gmEyAuWUumal1U0UeVomdK8Y53VdkflDbFnBM4fZv8XAvSBOsVjd6j0SsDjZXeo9FrwstjwjLMMD64_kOpgg8HAdRG7j0kna1fsYw-gS16jP7RiFfH0XYxbO982OpK8sb5CXRth1HCJPsHM6OszA</recordid><startdate>20100801</startdate><enddate>20100801</enddate><creator>Li, Yan</creator><creator>Liu, Xiuying</creator><creator>Huang, Li</creator><creator>Guo, Huishan</creator><creator>Wang, Xiu-Jie</creator><general>Elsevier Ltd</general><scope>2RA</scope><scope>92L</scope><scope>CQIGP</scope><scope>W94</scope><scope>WU4</scope><scope>~WA</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>7X8</scope><scope>7QL</scope><scope>7TM</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope></search><sort><creationdate>20100801</creationdate><title>Potential coexistence of both bacterial and eukaryotic small RNA biogenesis and functional related protein homologs in Archaea</title><author>Li, Yan ; Liu, Xiuying ; Huang, Li ; Guo, Huishan ; Wang, Xiu-Jie</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c475t-1232d8a4562943bca5a171e32021f460f7904e78aaf82f349b3c47d86eebaeb03</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2010</creationdate><topic>Amino acids</topic><topic>Archaea</topic><topic>Archaeal Proteins - chemistry</topic><topic>Archaeal Proteins - genetics</topic><topic>Archaeal Proteins - metabolism</topic><topic>Conserved Sequence</topic><topic>Eukaryota - metabolism</topic><topic>Evolution, Molecular</topic><topic>Genomics</topic><topic>Phylogeny</topic><topic>Piwi</topic><topic>Protein Structure, Tertiary</topic><topic>Ribonuclease H - chemistry</topic><topic>Ribonuclease H - genetics</topic><topic>Ribonuclease H - metabolism</topic><topic>Ribonuclease III - chemistry</topic><topic>Ribonuclease III - genetics</topic><topic>Ribonuclease III - metabolism</topic><topic>RNA Helicases - chemistry</topic><topic>RNA Helicases - genetics</topic><topic>RNA Helicases - metabolism</topic><topic>RNA Interference</topic><topic>RNA silencing</topic><topic>RNA, Bacterial - biosynthesis</topic><topic>RNA, Bacterial - genetics</topic><topic>RNA, Untranslated - biosynthesis</topic><topic>RNA, Untranslated - genetics</topic><topic>RNase III</topic><topic>RNA沉默</topic><topic>Sequence Homology, Amino Acid</topic><topic>small RNA</topic><topic>Species Specificity</topic><topic>共存</topic><topic>古细菌</topic><topic>同源</topic><topic>小分子RNA</topic><topic>生物合成</topic><topic>真核生物</topic><topic>蛋白质</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Li, Yan</creatorcontrib><creatorcontrib>Liu, Xiuying</creatorcontrib><creatorcontrib>Huang, Li</creatorcontrib><creatorcontrib>Guo, Huishan</creatorcontrib><creatorcontrib>Wang, Xiu-Jie</creatorcontrib><collection>中文科技期刊数据库</collection><collection>中文科技期刊数据库-CALIS站点</collection><collection>中文科技期刊数据库-7.0平台</collection><collection>中文科技期刊数据库-自然科学</collection><collection>中文科技期刊数据库-自然科学-生物科学</collection><collection>中文科技期刊数据库- 镜像站点</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><jtitle>Journal of genetics and genomics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Yan</au><au>Liu, Xiuying</au><au>Huang, Li</au><au>Guo, Huishan</au><au>Wang, Xiu-Jie</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Potential coexistence of both bacterial and eukaryotic small RNA biogenesis and functional related protein homologs in Archaea</atitle><jtitle>Journal of genetics and genomics</jtitle><addtitle>Journal of Genetics and Genomics</addtitle><date>2010-08-01</date><risdate>2010</risdate><volume>37</volume><issue>8</issue><spage>493</spage><epage>503</epage><pages>493-503</pages><issn>1673-8527</issn><abstract>RNA silencing plays crucial roles in both bacteria and eukaryotes, yet its machinery appears to differ in these two kingdoms. A couple of Argonaute protein homologs have been reported in some archaeal species in recent years. As Argonaute protein is the key component of eukaryotic RNA silencing pathways, such findings suggested the possibility of existence of eukaryotic RNA silencing like pathways in Archaea, which present the life forms between prokaryotes and eukaryotes. To further explore such hypothesis, we systematically screened 71 fully sequenced archaeal genomes, and identified some proteins containing homologous regions to the functional domains of eukaryotic RNA silencing pathway key proteins. The phylogenetic relationships of these proteins were analyzed. The conserved functional amino acids between archaeal and eukaryotic Piwi domains suggested their fimctional similarity. Our results provide new clues to the evolution of RNA silencing pathways.</abstract><cop>China</cop><pub>Elsevier Ltd</pub><pmid>20816382</pmid><doi>10.1016/S1673-8527(09)60069-2</doi><tpages>11</tpages></addata></record> |
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| subjects | Amino acids Archaea Archaeal Proteins - chemistry Archaeal Proteins - genetics Archaeal Proteins - metabolism Conserved Sequence Eukaryota - metabolism Evolution, Molecular Genomics Phylogeny Piwi Protein Structure, Tertiary Ribonuclease H - chemistry Ribonuclease H - genetics Ribonuclease H - metabolism Ribonuclease III - chemistry Ribonuclease III - genetics Ribonuclease III - metabolism RNA Helicases - chemistry RNA Helicases - genetics RNA Helicases - metabolism RNA Interference RNA silencing RNA, Bacterial - biosynthesis RNA, Bacterial - genetics RNA, Untranslated - biosynthesis RNA, Untranslated - genetics RNase III RNA沉默 Sequence Homology, Amino Acid small RNA Species Specificity 共存 古细菌 同源 小分子RNA 生物合成 真核生物 蛋白质 |
| title | Potential coexistence of both bacterial and eukaryotic small RNA biogenesis and functional related protein homologs in Archaea |
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