high-density physical map of Sinorhizobium meliloti 1021 chromosome derived from bacterial artificial chromosome library
As part of the European Sinorhizobium meliloti (strain 1021) chromosome sequencing project, four genomic bacterial artificial chromosome (BAC) libraries have been constructed, one of which was mainly used for chromosome mapping. This library consists of 1,824 clones with an average insert size of 80...
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| Veröffentlicht in: | Proceedings of the National Academy of Sciences - PNAS 1999-08, Vol.96 (16), p.9357-9362 |
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| creator | Capela, D Barloy-Hubler, F Gatius, M.T Gouzy, J Galibert, F |
| description | As part of the European Sinorhizobium meliloti (strain 1021) chromosome sequencing project, four genomic bacterial artificial chromosome (BAC) libraries have been constructed, one of which was mainly used for chromosome mapping. This library consists of 1,824 clones with an average insert size of 80 kilobases and represents approximately 20-fold total genome coverage [6.8 megabases (Mbs)]. PCR screening of 384 BAC clones with 447 chromosomal markers (PCR primer pairs), consisting of 73 markers representing 118 genes (40 individual genes and 78 genes clustered in 23 operons), two markers from the rrn operon (three loci), four markers from insertion sequences (approximately equal to 16 loci) and 368 sequence-tagged sites allowed the identification of 252 chromosomal BAC clones and the construction of a high-density physical map of the whole 3.7-Mb chromosome of S. meliloti. An average of 5.5 overlapping and colinear BAC clones per marker, correlated with a low rate of deleted or rearranged clones (0.8%) indicate a solid BAC contigation and a correct mapping. Systematic BLASTX analysis of sequence-tagged site marker sequences allowed prediction of a biological function for a number of putative ORFs. Results are available at http://www-recomgen.univ-rennes1.fr/meliloti. This map, whose resolution averages one marker every 9 kilobases, should provide a valuable tool for further sequencing, functional analysis, and positional cloning. |
| doi_str_mv | 10.1073/pnas.96.16.9357 |
| format | Article |
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This library consists of 1,824 clones with an average insert size of 80 kilobases and represents approximately 20-fold total genome coverage [6.8 megabases (Mbs)]. PCR screening of 384 BAC clones with 447 chromosomal markers (PCR primer pairs), consisting of 73 markers representing 118 genes (40 individual genes and 78 genes clustered in 23 operons), two markers from the rrn operon (three loci), four markers from insertion sequences (approximately equal to 16 loci) and 368 sequence-tagged sites allowed the identification of 252 chromosomal BAC clones and the construction of a high-density physical map of the whole 3.7-Mb chromosome of S. meliloti. An average of 5.5 overlapping and colinear BAC clones per marker, correlated with a low rate of deleted or rearranged clones (0.8%) indicate a solid BAC contigation and a correct mapping. Systematic BLASTX analysis of sequence-tagged site marker sequences allowed prediction of a biological function for a number of putative ORFs. Results are available at http://www-recomgen.univ-rennes1.fr/meliloti. This map, whose resolution averages one marker every 9 kilobases, should provide a valuable tool for further sequencing, functional analysis, and positional cloning.</description><identifier>ISSN: 0027-8424</identifier><identifier>EISSN: 1091-6490</identifier><identifier>DOI: 10.1073/pnas.96.16.9357</identifier><identifier>PMID: 10430947</identifier><language>eng</language><publisher>United States: National Academy of Sciences of the United States of America</publisher><subject>Bacteria ; Biological Sciences ; Chromosome Mapping ; Chromosomes ; Chromosomes, Bacterial - genetics ; clones ; DNA ; DNA libraries ; DNA, Bacterial - genetics ; Gels ; Gene Library ; Genes ; Genes, Bacterial ; Genetic Markers ; Genetic Vectors ; Genetics ; Genome, Bacterial ; Genomes ; identification ; Libraries ; Microbiology ; open reading frames ; operon ; Operons ; Polymerase Chain Reaction ; repetitive sequences ; Rhizobiaceae ; sequence tagged sites ; Sequencing ; Sinorhizobium meliloti ; Sinorhizobium meliloti - genetics ; transposons</subject><ispartof>Proceedings of the National Academy of Sciences - PNAS, 1999-08, Vol.96 (16), p.9357-9362</ispartof><rights>Copyright 1993-1999 The National Academy of Sciences of the United States of America</rights><rights>Copyright National Academy of Sciences Aug 3, 1999</rights><rights>Copyright © 1999, The National Academy of Sciences 1999</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c543t-ae3f8a2ad65a86751927e336d1f9c5e5b52d9f8225eae69f626b5dca0fcc20303</citedby><cites>FETCH-LOGICAL-c543t-ae3f8a2ad65a86751927e336d1f9c5e5b52d9f8225eae69f626b5dca0fcc20303</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Uhttp://www.pnas.org/content/96/16.cover.gif</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/48325$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/48325$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>230,314,723,776,780,799,881,27901,27902,53766,53768,57992,58225</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/10430947$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Capela, D</creatorcontrib><creatorcontrib>Barloy-Hubler, F</creatorcontrib><creatorcontrib>Gatius, M.T</creatorcontrib><creatorcontrib>Gouzy, J</creatorcontrib><creatorcontrib>Galibert, F</creatorcontrib><title>high-density physical map of Sinorhizobium meliloti 1021 chromosome derived from bacterial artificial chromosome library</title><title>Proceedings of the National Academy of Sciences - PNAS</title><addtitle>Proc Natl Acad Sci U S A</addtitle><description>As part of the European Sinorhizobium meliloti (strain 1021) chromosome sequencing project, four genomic bacterial artificial chromosome (BAC) libraries have been constructed, one of which was mainly used for chromosome mapping. This library consists of 1,824 clones with an average insert size of 80 kilobases and represents approximately 20-fold total genome coverage [6.8 megabases (Mbs)]. PCR screening of 384 BAC clones with 447 chromosomal markers (PCR primer pairs), consisting of 73 markers representing 118 genes (40 individual genes and 78 genes clustered in 23 operons), two markers from the rrn operon (three loci), four markers from insertion sequences (approximately equal to 16 loci) and 368 sequence-tagged sites allowed the identification of 252 chromosomal BAC clones and the construction of a high-density physical map of the whole 3.7-Mb chromosome of S. meliloti. An average of 5.5 overlapping and colinear BAC clones per marker, correlated with a low rate of deleted or rearranged clones (0.8%) indicate a solid BAC contigation and a correct mapping. Systematic BLASTX analysis of sequence-tagged site marker sequences allowed prediction of a biological function for a number of putative ORFs. Results are available at http://www-recomgen.univ-rennes1.fr/meliloti. This map, whose resolution averages one marker every 9 kilobases, should provide a valuable tool for further sequencing, functional analysis, and positional cloning.</description><subject>Bacteria</subject><subject>Biological Sciences</subject><subject>Chromosome Mapping</subject><subject>Chromosomes</subject><subject>Chromosomes, Bacterial - genetics</subject><subject>clones</subject><subject>DNA</subject><subject>DNA libraries</subject><subject>DNA, Bacterial - genetics</subject><subject>Gels</subject><subject>Gene Library</subject><subject>Genes</subject><subject>Genes, Bacterial</subject><subject>Genetic Markers</subject><subject>Genetic Vectors</subject><subject>Genetics</subject><subject>Genome, Bacterial</subject><subject>Genomes</subject><subject>identification</subject><subject>Libraries</subject><subject>Microbiology</subject><subject>open reading frames</subject><subject>operon</subject><subject>Operons</subject><subject>Polymerase Chain Reaction</subject><subject>repetitive sequences</subject><subject>Rhizobiaceae</subject><subject>sequence tagged sites</subject><subject>Sequencing</subject><subject>Sinorhizobium meliloti</subject><subject>Sinorhizobium meliloti - genetics</subject><subject>transposons</subject><issn>0027-8424</issn><issn>1091-6490</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1999</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkktv1DAUhSMEotPCGokFRF3AKlM_4pfEBlW8pEosSteW49gTj5I42E7V4dfjKKWasoCVH-c7V_f6uCheQbCFgOGLaVRxK-gW0q3AhD0pNhAIWNFagKfFBgDEKl6j-qQ4jXEPABCEg-fFCQQ1BqJmm-Kuc7uuas0YXTqUU3eITqu-HNRUelteu9GHzv3yjZuHcjC9631yJQQIlroLfvDRD6ZsTXC3pi1tvikbpVM-5yIqJGedXrZHcO-aoMLhRfHMqj6al_frWXHz-dOPy6_V1fcv3y4_XlWa1DhVymDLFVItJYpTRqBAzGBMW2iFJoY0BLXCcoSIUYYKSxFtSKsVsFojgAE-Kz6sdae5GUyrzZiC6uUU3JC7kF45-VgZXSd3_lZCxjjL9nf39uB_ziYmObioTd-r0fg5SioERoTC_4KQYcgZ5xk8_wvc-zmM-Q0kArDOycCl64sV0sHHGIx9aBgCuSQvl-SloBJSuSSfHW-O5zzi16iPgMX5R35U4f0_AWnnvk_mLmXy9UruY_LhAa15foosvl1Fq7xUu-CivLnOk2GABM5_EeLfaKHXUA</recordid><startdate>19990803</startdate><enddate>19990803</enddate><creator>Capela, D</creator><creator>Barloy-Hubler, F</creator><creator>Gatius, M.T</creator><creator>Gouzy, J</creator><creator>Galibert, F</creator><general>National Academy of Sciences of the United States of America</general><general>National Acad Sciences</general><general>National Academy of Sciences</general><general>The National Academy of Sciences</general><scope>FBQ</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>7QG</scope><scope>7QL</scope><scope>7QP</scope><scope>7QR</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TK</scope><scope>7TM</scope><scope>7TO</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>19990803</creationdate><title>high-density physical map of Sinorhizobium meliloti 1021 chromosome derived from bacterial artificial chromosome library</title><author>Capela, D ; Barloy-Hubler, F ; Gatius, M.T ; Gouzy, J ; Galibert, F</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c543t-ae3f8a2ad65a86751927e336d1f9c5e5b52d9f8225eae69f626b5dca0fcc20303</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1999</creationdate><topic>Bacteria</topic><topic>Biological Sciences</topic><topic>Chromosome Mapping</topic><topic>Chromosomes</topic><topic>Chromosomes, Bacterial - genetics</topic><topic>clones</topic><topic>DNA</topic><topic>DNA libraries</topic><topic>DNA, Bacterial - genetics</topic><topic>Gels</topic><topic>Gene Library</topic><topic>Genes</topic><topic>Genes, Bacterial</topic><topic>Genetic Markers</topic><topic>Genetic Vectors</topic><topic>Genetics</topic><topic>Genome, Bacterial</topic><topic>Genomes</topic><topic>identification</topic><topic>Libraries</topic><topic>Microbiology</topic><topic>open reading frames</topic><topic>operon</topic><topic>Operons</topic><topic>Polymerase Chain Reaction</topic><topic>repetitive sequences</topic><topic>Rhizobiaceae</topic><topic>sequence tagged sites</topic><topic>Sequencing</topic><topic>Sinorhizobium meliloti</topic><topic>Sinorhizobium meliloti - genetics</topic><topic>transposons</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Capela, D</creatorcontrib><creatorcontrib>Barloy-Hubler, F</creatorcontrib><creatorcontrib>Gatius, M.T</creatorcontrib><creatorcontrib>Gouzy, J</creatorcontrib><creatorcontrib>Galibert, F</creatorcontrib><collection>AGRIS</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Animal Behavior Abstracts</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Immunology Abstracts</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Oncogenes and Growth Factors Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Proceedings of the National Academy of Sciences - PNAS</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Capela, D</au><au>Barloy-Hubler, F</au><au>Gatius, M.T</au><au>Gouzy, J</au><au>Galibert, F</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>high-density physical map of Sinorhizobium meliloti 1021 chromosome derived from bacterial artificial chromosome library</atitle><jtitle>Proceedings of the National Academy of Sciences - PNAS</jtitle><addtitle>Proc Natl Acad Sci U S A</addtitle><date>1999-08-03</date><risdate>1999</risdate><volume>96</volume><issue>16</issue><spage>9357</spage><epage>9362</epage><pages>9357-9362</pages><issn>0027-8424</issn><eissn>1091-6490</eissn><abstract>As part of the European Sinorhizobium meliloti (strain 1021) chromosome sequencing project, four genomic bacterial artificial chromosome (BAC) libraries have been constructed, one of which was mainly used for chromosome mapping. 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Results are available at http://www-recomgen.univ-rennes1.fr/meliloti. This map, whose resolution averages one marker every 9 kilobases, should provide a valuable tool for further sequencing, functional analysis, and positional cloning.</abstract><cop>United States</cop><pub>National Academy of Sciences of the United States of America</pub><pmid>10430947</pmid><doi>10.1073/pnas.96.16.9357</doi><tpages>6</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Bacteria Biological Sciences Chromosome Mapping Chromosomes Chromosomes, Bacterial - genetics clones DNA DNA libraries DNA, Bacterial - genetics Gels Gene Library Genes Genes, Bacterial Genetic Markers Genetic Vectors Genetics Genome, Bacterial Genomes identification Libraries Microbiology open reading frames operon Operons Polymerase Chain Reaction repetitive sequences Rhizobiaceae sequence tagged sites Sequencing Sinorhizobium meliloti Sinorhizobium meliloti - genetics transposons |
| title | high-density physical map of Sinorhizobium meliloti 1021 chromosome derived from bacterial artificial chromosome library |
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