A Bacterial Artificial Chromosome-Based Genetic Linkage Map of the Nematode Pristionchus pacificus
To understand the evolution of developmental processes, nonmodel organisms in the nematodes, insects, and vertebrates are compared with established model systems. Often, these comparisons suffer from the inability to apply sophisticated technologies to these nonmodel species. In the nematode Pristio...
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| Veröffentlicht in: | Genetics (Austin) 2002-09, Vol.162 (1), p.129-134 |
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| creator | Srinivasan, Jagan Sinz, Waltraud Lanz, Christa Brand, Alexandra Nandakumar, Ramkumar Raddatz, Gunter Witte, Hanh Keller, Heike Kipping, Isabel Pires-daSilva, Andre Jesse, Taco Millare, Jun de Both, Michiel Schuster, Stephan C Sommer, Ralf J |
| description | To understand the evolution of developmental processes, nonmodel organisms in the nematodes, insects, and vertebrates are compared with established model systems. Often, these comparisons suffer from the inability to apply sophisticated technologies to these nonmodel species. In the nematode Pristionchus pacificus, cellular and genetic analyses are used to compare vulva development to that of Caenorhabditis elegans. However, substantial changes in gene function between P. pacificus and C. elegans limit the use of candidate gene approaches in studying P. pacificus mutations. To facilitate map-based cloning of mutations in P. pacificus, we constructed a BAC-based genetic linkage map. A BAC library of 13,440 clones was generated and completely end sequenced. By comparing BAC end and EST sequences between the "wild-type" strain P. pacificus var. California and the polymorphic strain P. pacificus var. Washington, 133 single-stranded conformational polymorphisms were identified. These markers were tested on a meiotic mapping panel of 46 randomly picked F(2) animals after a cross of the two strains, providing the first genetic linkage map of P. pacificus. A mapping strategy using two selected markers per chromosome was devised and the efficiency of this approach was illustrated by the mapping of the Ppa-unc-1/Twitchin gene. |
| doi_str_mv | 10.1093/genetics/162.1.129 |
| format | Article |
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Often, these comparisons suffer from the inability to apply sophisticated technologies to these nonmodel species. In the nematode Pristionchus pacificus, cellular and genetic analyses are used to compare vulva development to that of Caenorhabditis elegans. However, substantial changes in gene function between P. pacificus and C. elegans limit the use of candidate gene approaches in studying P. pacificus mutations. To facilitate map-based cloning of mutations in P. pacificus, we constructed a BAC-based genetic linkage map. A BAC library of 13,440 clones was generated and completely end sequenced. By comparing BAC end and EST sequences between the "wild-type" strain P. pacificus var. California and the polymorphic strain P. pacificus var. Washington, 133 single-stranded conformational polymorphisms were identified. These markers were tested on a meiotic mapping panel of 46 randomly picked F(2) animals after a cross of the two strains, providing the first genetic linkage map of P. pacificus. A mapping strategy using two selected markers per chromosome was devised and the efficiency of this approach was illustrated by the mapping of the Ppa-unc-1/Twitchin gene.</description><identifier>ISSN: 0016-6731</identifier><identifier>ISSN: 1943-2631</identifier><identifier>EISSN: 1943-2631</identifier><identifier>DOI: 10.1093/genetics/162.1.129</identifier><identifier>PMID: 12242228</identifier><identifier>CODEN: GENTAE</identifier><language>eng</language><publisher>United States: Genetics Soc America</publisher><subject>Animals ; Bacteria ; Chromosome Mapping ; Chromosomes, Artificial, Bacterial ; Expressed Sequence Tags ; Genes ; Genetic Linkage ; Genetics ; Nematoda - genetics ; Polymorphism, Single-Stranded Conformational ; Worms ; X Chromosome</subject><ispartof>Genetics (Austin), 2002-09, Vol.162 (1), p.129-134</ispartof><rights>Copyright Genetics Society of America Sep 2002</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c553t-9bc52bb380f64cb0b7926491469b2b01145ba20f1e344f214aac6438921077cf3</citedby><cites>FETCH-LOGICAL-c553t-9bc52bb380f64cb0b7926491469b2b01145ba20f1e344f214aac6438921077cf3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,780,784,885,27924,27925</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/12242228$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Srinivasan, Jagan</creatorcontrib><creatorcontrib>Sinz, Waltraud</creatorcontrib><creatorcontrib>Lanz, Christa</creatorcontrib><creatorcontrib>Brand, Alexandra</creatorcontrib><creatorcontrib>Nandakumar, Ramkumar</creatorcontrib><creatorcontrib>Raddatz, Gunter</creatorcontrib><creatorcontrib>Witte, Hanh</creatorcontrib><creatorcontrib>Keller, Heike</creatorcontrib><creatorcontrib>Kipping, Isabel</creatorcontrib><creatorcontrib>Pires-daSilva, Andre</creatorcontrib><creatorcontrib>Jesse, Taco</creatorcontrib><creatorcontrib>Millare, Jun</creatorcontrib><creatorcontrib>de Both, Michiel</creatorcontrib><creatorcontrib>Schuster, Stephan C</creatorcontrib><creatorcontrib>Sommer, Ralf J</creatorcontrib><title>A Bacterial Artificial Chromosome-Based Genetic Linkage Map of the Nematode Pristionchus pacificus</title><title>Genetics (Austin)</title><addtitle>Genetics</addtitle><description>To understand the evolution of developmental processes, nonmodel organisms in the nematodes, insects, and vertebrates are compared with established model systems. Often, these comparisons suffer from the inability to apply sophisticated technologies to these nonmodel species. In the nematode Pristionchus pacificus, cellular and genetic analyses are used to compare vulva development to that of Caenorhabditis elegans. However, substantial changes in gene function between P. pacificus and C. elegans limit the use of candidate gene approaches in studying P. pacificus mutations. To facilitate map-based cloning of mutations in P. pacificus, we constructed a BAC-based genetic linkage map. A BAC library of 13,440 clones was generated and completely end sequenced. By comparing BAC end and EST sequences between the "wild-type" strain P. pacificus var. California and the polymorphic strain P. pacificus var. Washington, 133 single-stranded conformational polymorphisms were identified. These markers were tested on a meiotic mapping panel of 46 randomly picked F(2) animals after a cross of the two strains, providing the first genetic linkage map of P. pacificus. A mapping strategy using two selected markers per chromosome was devised and the efficiency of this approach was illustrated by the mapping of the Ppa-unc-1/Twitchin gene.</description><subject>Animals</subject><subject>Bacteria</subject><subject>Chromosome Mapping</subject><subject>Chromosomes, Artificial, Bacterial</subject><subject>Expressed Sequence Tags</subject><subject>Genes</subject><subject>Genetic Linkage</subject><subject>Genetics</subject><subject>Nematoda - genetics</subject><subject>Polymorphism, Single-Stranded Conformational</subject><subject>Worms</subject><subject>X Chromosome</subject><issn>0016-6731</issn><issn>1943-2631</issn><issn>1943-2631</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2002</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU2P0zAQhi0EYsvCH-CALA57S9czdj58QepWsCCVjwOcLdt1Gi9JXOyEav_9JmqhwIWTLfmZd2b8EPIS2BKY5Nc717vB23QNBS5hCSgfkQVIwTMsODwmC8agyIqSwwV5ltIdY6yQefWUXACiQMRqQcyK3mg7uOh1S1dx8LW383XdxNCFFDqX3ejktvT22IxufP9d7xz9qPc01HRoHP3kOj2EraNfok-DD71txkT32s5hY3pOntS6Te7F6bwk3969_bp-n20-335YrzaZzXM-ZNLYHI3hFasLYQ0zpcRCSBCFNGgYgMiNRlaD40LUCEJrWwheSQRWlrbml-TNMXc_ms5treuHqFu1j77T8V4F7dXfL71v1C78VFMLRJ5PAVengBh-jC4NqvPJurbVvQtjUiUCAJflf0GoRCXycgZf_wPehTH20y-oaQFAKPMZwiNkY0gpuvr3yMDULFr9Eq0m0QrUJHoqevXnsueSk9nzjI3fNQcfnUqdbtsJB3U4HM5JD-OYs3Y</recordid><startdate>20020901</startdate><enddate>20020901</enddate><creator>Srinivasan, Jagan</creator><creator>Sinz, Waltraud</creator><creator>Lanz, Christa</creator><creator>Brand, Alexandra</creator><creator>Nandakumar, Ramkumar</creator><creator>Raddatz, Gunter</creator><creator>Witte, Hanh</creator><creator>Keller, Heike</creator><creator>Kipping, Isabel</creator><creator>Pires-daSilva, Andre</creator><creator>Jesse, Taco</creator><creator>Millare, Jun</creator><creator>de Both, Michiel</creator><creator>Schuster, Stephan C</creator><creator>Sommer, Ralf J</creator><general>Genetics Soc America</general><general>Genetics Society of America</general><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>4T-</scope><scope>4U-</scope><scope>7QP</scope><scope>7SS</scope><scope>7TK</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>K9.</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20020901</creationdate><title>A Bacterial Artificial Chromosome-Based Genetic Linkage Map of the Nematode Pristionchus pacificus</title><author>Srinivasan, Jagan ; 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| source | MEDLINE; Oxford Journals (Firm); EZB-FREE-00999 freely available EZB journals; Alma/SFX Local Collection |
| subjects | Animals Bacteria Chromosome Mapping Chromosomes, Artificial, Bacterial Expressed Sequence Tags Genes Genetic Linkage Genetics Nematoda - genetics Polymorphism, Single-Stranded Conformational Worms X Chromosome |
| title | A Bacterial Artificial Chromosome-Based Genetic Linkage Map of the Nematode Pristionchus pacificus |
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