Detailed alignment of saccharum and sorghum chromosomes: comparative organization of closely related diploid and polyploid genomes
The complex polyploid genomes of three Saccharum species have been aligned with the compact diploid genome of Sorghum (2n = 2x = 20). A set of 428 DNA probes from different Poaceae (grasses) detected 2460 loci in F1 progeny of the crosses Saccharum officinarum Green German x S. spontaneum IND 81-146...
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Veröffentlicht in: | Genetics (Austin) 1998-12, Vol.150 (4), p.1663-1682 |
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creator | Ming, R. (Texas AandM University, College Station.) Liu, S.C Lin, Y.R Silva, J. da Wilson, W Braga, D Van Deynze, A Wenslaff, T.F Wu, K.K Moore, P.H |
description | The complex polyploid genomes of three Saccharum species have been aligned with the compact diploid genome of Sorghum (2n = 2x = 20). A set of 428 DNA probes from different Poaceae (grasses) detected 2460 loci in F1 progeny of the crosses Saccharum officinarum Green German x S. spontaneum IND 81-146, and S. spontaneum PIN 84-1 x S. officinarum Muntok Java. Thirty-one DNA probes detected 226 loci in S. officinarum LA Purple x S. robustum Molokai 5829. Genetic maps of the six Saccharum genotypes, including up to 72 linkage groups, were assembled into "homologous groups" based on parallel arrangements of duplicated loci. About 84% of the loci mapped by 242 common probes were homologous between Saccharum and Sorghum. Only one interchromosomal and two intrachromosomal rearrangements differentiated both S. officinarum and S. spontaneum from Sorghum, but 11 additional cases of chromosome structural polymorphism were found within Saccharum. Diploidization was advanced in S. robustum, incipient in S. officinarum, and absent in S. spontaneum, consistent with biogeographic data suggesting that S. robustum is the ancestor of S. officinarum, but raising new questions about the antiquity of S. spontaneum. The densely mapped Sorghum genome will be a valuable tool in ongoing molecular analysis of the complex Saccharum genome. |
doi_str_mv | 10.1093/genetics/150.4.1663 |
format | Article |
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(Texas AandM University, College Station.) ; Liu, S.C ; Lin, Y.R ; Silva, J. da ; Wilson, W ; Braga, D ; Van Deynze, A ; Wenslaff, T.F ; Wu, K.K ; Moore, P.H</creator><creatorcontrib>Ming, R. (Texas AandM University, College Station.) ; Liu, S.C ; Lin, Y.R ; Silva, J. da ; Wilson, W ; Braga, D ; Van Deynze, A ; Wenslaff, T.F ; Wu, K.K ; Moore, P.H</creatorcontrib><description>The complex polyploid genomes of three Saccharum species have been aligned with the compact diploid genome of Sorghum (2n = 2x = 20). A set of 428 DNA probes from different Poaceae (grasses) detected 2460 loci in F1 progeny of the crosses Saccharum officinarum Green German x S. spontaneum IND 81-146, and S. spontaneum PIN 84-1 x S. officinarum Muntok Java. Thirty-one DNA probes detected 226 loci in S. officinarum LA Purple x S. robustum Molokai 5829. Genetic maps of the six Saccharum genotypes, including up to 72 linkage groups, were assembled into "homologous groups" based on parallel arrangements of duplicated loci. About 84% of the loci mapped by 242 common probes were homologous between Saccharum and Sorghum. Only one interchromosomal and two intrachromosomal rearrangements differentiated both S. officinarum and S. spontaneum from Sorghum, but 11 additional cases of chromosome structural polymorphism were found within Saccharum. Diploidization was advanced in S. robustum, incipient in S. officinarum, and absent in S. spontaneum, consistent with biogeographic data suggesting that S. robustum is the ancestor of S. officinarum, but raising new questions about the antiquity of S. spontaneum. The densely mapped Sorghum genome will be a valuable tool in ongoing molecular analysis of the complex Saccharum genome.</description><identifier>ISSN: 0016-6731</identifier><identifier>ISSN: 1943-2631</identifier><identifier>EISSN: 1943-2631</identifier><identifier>DOI: 10.1093/genetics/150.4.1663</identifier><identifier>PMID: 9832541</identifier><identifier>CODEN: GENTAE</identifier><language>eng</language><publisher>United States: Genetics Soc America</publisher><subject>ADN ; ANALYTICAL METHODS ; APAREAMIENTO CROMOSOMICO ; APPARIEMENT CHROMOSOMIQUE ; BIOLOGICAL DIFFERENCES ; CARTE GENETIQUE ; CHROMOSOME ; CHROMOSOME ANALYSIS ; CHROMOSOME MAPS ; CHROMOSOME PAIRING ; CHROMOSOMES ; CROMOSOMAS ; Deoxyribonucleic acid ; DIFERENCIAS BIOLOGICAS ; DIFFERENCE BIOLOGIQUE ; DIPLOIDIA ; DIPLOIDIE ; DIPLOIDY ; DNA ; DNA, Plant ; Edible Grain - genetics ; Gene Duplication ; Gene Rearrangement ; GENETIC MAPPING ; GENETIC MAPS ; GENETIC MARKERS ; GENOME ANALYSIS ; Genome, Plant ; Genomics ; HIBRIDACION INTERESPECIFICA ; HIBRIDOS ; HYBRIDATION INTERSPECIFIQUE ; HYBRIDE ; HYBRIDS ; INTERSPECIFIC HYBRIDIZATION ; LINKAGE GROUPS ; LINKAGE MAPS ; MAPAS GENETICOS ; MARCADORES GENETICOS ; MARQUEUR GENETIQUE ; NUCLEIC PROBES ; Plants, Edible - genetics ; POLIMORFISMO ; POLIPLOIDIA ; POLYMORPHISM ; Polymorphism, Genetic ; POLYMORPHISME ; POLYPLOIDIE ; POLYPLOIDY ; RECOMBINACION ; RECOMBINAISON ; RECOMBINATION ; Recombination, Genetic ; RFLP ; SACCHARUM ; SACCHARUM OFFICINARUM ; SACCHARUM ROBUSTUM ; SACCHARUM SPONTANEUM ; SEGREGACION ; SEGREGATION ; SONDAS NUCLEICAS ; SONDE NUCLEIQUE ; SORGHUM BICOLOR ; SPECIES DIFFERENCES ; TECHNIQUE ANALYTIQUE ; TECNICAS ANALITICAS</subject><ispartof>Genetics (Austin), 1998-12, Vol.150 (4), p.1663-1682</ispartof><rights>Copyright Genetics Society of America Dec 1998</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c578t-4577bda6f03af822a2fe9ca950cac6650724f2a45eda614a9af5fd1fa7af34ff3</citedby><cites>FETCH-LOGICAL-c578t-4577bda6f03af822a2fe9ca950cac6650724f2a45eda614a9af5fd1fa7af34ff3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,776,780,881,27901,27902</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/9832541$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Ming, R. (Texas AandM University, College Station.)</creatorcontrib><creatorcontrib>Liu, S.C</creatorcontrib><creatorcontrib>Lin, Y.R</creatorcontrib><creatorcontrib>Silva, J. da</creatorcontrib><creatorcontrib>Wilson, W</creatorcontrib><creatorcontrib>Braga, D</creatorcontrib><creatorcontrib>Van Deynze, A</creatorcontrib><creatorcontrib>Wenslaff, T.F</creatorcontrib><creatorcontrib>Wu, K.K</creatorcontrib><creatorcontrib>Moore, P.H</creatorcontrib><title>Detailed alignment of saccharum and sorghum chromosomes: comparative organization of closely related diploid and polyploid genomes</title><title>Genetics (Austin)</title><addtitle>Genetics</addtitle><description>The complex polyploid genomes of three Saccharum species have been aligned with the compact diploid genome of Sorghum (2n = 2x = 20). A set of 428 DNA probes from different Poaceae (grasses) detected 2460 loci in F1 progeny of the crosses Saccharum officinarum Green German x S. spontaneum IND 81-146, and S. spontaneum PIN 84-1 x S. officinarum Muntok Java. Thirty-one DNA probes detected 226 loci in S. officinarum LA Purple x S. robustum Molokai 5829. Genetic maps of the six Saccharum genotypes, including up to 72 linkage groups, were assembled into "homologous groups" based on parallel arrangements of duplicated loci. About 84% of the loci mapped by 242 common probes were homologous between Saccharum and Sorghum. Only one interchromosomal and two intrachromosomal rearrangements differentiated both S. officinarum and S. spontaneum from Sorghum, but 11 additional cases of chromosome structural polymorphism were found within Saccharum. Diploidization was advanced in S. robustum, incipient in S. officinarum, and absent in S. spontaneum, consistent with biogeographic data suggesting that S. robustum is the ancestor of S. officinarum, but raising new questions about the antiquity of S. spontaneum. The densely mapped Sorghum genome will be a valuable tool in ongoing molecular analysis of the complex Saccharum genome.</description><subject>ADN</subject><subject>ANALYTICAL METHODS</subject><subject>APAREAMIENTO CROMOSOMICO</subject><subject>APPARIEMENT CHROMOSOMIQUE</subject><subject>BIOLOGICAL DIFFERENCES</subject><subject>CARTE GENETIQUE</subject><subject>CHROMOSOME</subject><subject>CHROMOSOME ANALYSIS</subject><subject>CHROMOSOME MAPS</subject><subject>CHROMOSOME PAIRING</subject><subject>CHROMOSOMES</subject><subject>CROMOSOMAS</subject><subject>Deoxyribonucleic acid</subject><subject>DIFERENCIAS BIOLOGICAS</subject><subject>DIFFERENCE BIOLOGIQUE</subject><subject>DIPLOIDIA</subject><subject>DIPLOIDIE</subject><subject>DIPLOIDY</subject><subject>DNA</subject><subject>DNA, Plant</subject><subject>Edible Grain - genetics</subject><subject>Gene Duplication</subject><subject>Gene Rearrangement</subject><subject>GENETIC MAPPING</subject><subject>GENETIC MAPS</subject><subject>GENETIC MARKERS</subject><subject>GENOME ANALYSIS</subject><subject>Genome, Plant</subject><subject>Genomics</subject><subject>HIBRIDACION INTERESPECIFICA</subject><subject>HIBRIDOS</subject><subject>HYBRIDATION INTERSPECIFIQUE</subject><subject>HYBRIDE</subject><subject>HYBRIDS</subject><subject>INTERSPECIFIC HYBRIDIZATION</subject><subject>LINKAGE GROUPS</subject><subject>LINKAGE MAPS</subject><subject>MAPAS GENETICOS</subject><subject>MARCADORES GENETICOS</subject><subject>MARQUEUR GENETIQUE</subject><subject>NUCLEIC PROBES</subject><subject>Plants, Edible - genetics</subject><subject>POLIMORFISMO</subject><subject>POLIPLOIDIA</subject><subject>POLYMORPHISM</subject><subject>Polymorphism, Genetic</subject><subject>POLYMORPHISME</subject><subject>POLYPLOIDIE</subject><subject>POLYPLOIDY</subject><subject>RECOMBINACION</subject><subject>RECOMBINAISON</subject><subject>RECOMBINATION</subject><subject>Recombination, Genetic</subject><subject>RFLP</subject><subject>SACCHARUM</subject><subject>SACCHARUM OFFICINARUM</subject><subject>SACCHARUM ROBUSTUM</subject><subject>SACCHARUM SPONTANEUM</subject><subject>SEGREGACION</subject><subject>SEGREGATION</subject><subject>SONDAS NUCLEICAS</subject><subject>SONDE NUCLEIQUE</subject><subject>SORGHUM BICOLOR</subject><subject>SPECIES DIFFERENCES</subject><subject>TECHNIQUE ANALYTIQUE</subject><subject>TECNICAS ANALITICAS</subject><issn>0016-6731</issn><issn>1943-2631</issn><issn>1943-2631</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1998</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNptkU9v1DAQxS0EKkvhEyCkiAOcsvXEjhNzQEIt_6RKHKBna-rYiSsnXuykq-XYT46XXSpAnOzRe_PTPD1CngNdA5XsrDeTmZ1OZ1DTNV-DEOwBWYHkrKwEg4dkRSmIUjQMHpMnKd1QSoWs2xNyIltW1RxW5O7CzOi86Qr0rp9GM81FsEVCrQeMy1jg1BUpxH7Ifz3EMIYURpPeFDqMG4w4u1tTZB0n9yMPYdqvax-S8bsiGo9zZndu44PrfsE2we8OU75_j3pKHln0yTw7vqfk6sP7b-efyssvHz-fv7ssdd20c8nrprnuUFjK0LZVhZU1UqOsqUYtRE2bitsKeW2yCThKtLXtwGKDlnFr2Sl5e-BuluvRdDpHjejVJroR404FdOpvZXKD6sOtAi4oZyIDXh0BMXxfTJrV6JI23uNkwpIUNMBEK5tsfPmP8SYsccrhVAUcKs6gzSZ2MOkYUorG3l8CVO37Vb_7VblfxdW-37z14s8Q9zvHQrP--qAPrh-2LhqVRvQ-u0Ftt9v_kSwGhX10SV19BSkbKnkrJfsJdGq_Fg</recordid><startdate>199812</startdate><enddate>199812</enddate><creator>Ming, R. (Texas AandM University, College Station.)</creator><creator>Liu, S.C</creator><creator>Lin, Y.R</creator><creator>Silva, J. da</creator><creator>Wilson, W</creator><creator>Braga, D</creator><creator>Van Deynze, A</creator><creator>Wenslaff, T.F</creator><creator>Wu, K.K</creator><creator>Moore, P.H</creator><general>Genetics Soc America</general><general>Genetics Society of America</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>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>5PM</scope></search><sort><creationdate>199812</creationdate><title>Detailed alignment of saccharum and sorghum chromosomes: comparative organization of closely related diploid and polyploid genomes</title><author>Ming, R. (Texas AandM University, College Station.) ; Liu, S.C ; Lin, Y.R ; Silva, J. da ; Wilson, W ; Braga, D ; Van Deynze, A ; Wenslaff, T.F ; Wu, K.K ; Moore, P.H</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c578t-4577bda6f03af822a2fe9ca950cac6650724f2a45eda614a9af5fd1fa7af34ff3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1998</creationdate><topic>ADN</topic><topic>ANALYTICAL METHODS</topic><topic>APAREAMIENTO CROMOSOMICO</topic><topic>APPARIEMENT CHROMOSOMIQUE</topic><topic>BIOLOGICAL DIFFERENCES</topic><topic>CARTE GENETIQUE</topic><topic>CHROMOSOME</topic><topic>CHROMOSOME ANALYSIS</topic><topic>CHROMOSOME MAPS</topic><topic>CHROMOSOME PAIRING</topic><topic>CHROMOSOMES</topic><topic>CROMOSOMAS</topic><topic>Deoxyribonucleic acid</topic><topic>DIFERENCIAS BIOLOGICAS</topic><topic>DIFFERENCE BIOLOGIQUE</topic><topic>DIPLOIDIA</topic><topic>DIPLOIDIE</topic><topic>DIPLOIDY</topic><topic>DNA</topic><topic>DNA, Plant</topic><topic>Edible Grain - genetics</topic><topic>Gene Duplication</topic><topic>Gene Rearrangement</topic><topic>GENETIC MAPPING</topic><topic>GENETIC MAPS</topic><topic>GENETIC MARKERS</topic><topic>GENOME ANALYSIS</topic><topic>Genome, Plant</topic><topic>Genomics</topic><topic>HIBRIDACION INTERESPECIFICA</topic><topic>HIBRIDOS</topic><topic>HYBRIDATION INTERSPECIFIQUE</topic><topic>HYBRIDE</topic><topic>HYBRIDS</topic><topic>INTERSPECIFIC HYBRIDIZATION</topic><topic>LINKAGE GROUPS</topic><topic>LINKAGE MAPS</topic><topic>MAPAS GENETICOS</topic><topic>MARCADORES GENETICOS</topic><topic>MARQUEUR GENETIQUE</topic><topic>NUCLEIC PROBES</topic><topic>Plants, Edible - genetics</topic><topic>POLIMORFISMO</topic><topic>POLIPLOIDIA</topic><topic>POLYMORPHISM</topic><topic>Polymorphism, Genetic</topic><topic>POLYMORPHISME</topic><topic>POLYPLOIDIE</topic><topic>POLYPLOIDY</topic><topic>RECOMBINACION</topic><topic>RECOMBINAISON</topic><topic>RECOMBINATION</topic><topic>Recombination, Genetic</topic><topic>RFLP</topic><topic>SACCHARUM</topic><topic>SACCHARUM OFFICINARUM</topic><topic>SACCHARUM ROBUSTUM</topic><topic>SACCHARUM SPONTANEUM</topic><topic>SEGREGACION</topic><topic>SEGREGATION</topic><topic>SONDAS NUCLEICAS</topic><topic>SONDE NUCLEIQUE</topic><topic>SORGHUM BICOLOR</topic><topic>SPECIES DIFFERENCES</topic><topic>TECHNIQUE ANALYTIQUE</topic><topic>TECNICAS ANALITICAS</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Ming, R. (Texas AandM University, College Station.)</creatorcontrib><creatorcontrib>Liu, S.C</creatorcontrib><creatorcontrib>Lin, Y.R</creatorcontrib><creatorcontrib>Silva, J. da</creatorcontrib><creatorcontrib>Wilson, W</creatorcontrib><creatorcontrib>Braga, D</creatorcontrib><creatorcontrib>Van Deynze, A</creatorcontrib><creatorcontrib>Wenslaff, T.F</creatorcontrib><creatorcontrib>Wu, K.K</creatorcontrib><creatorcontrib>Moore, P.H</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>Docstoc</collection><collection>University Readers</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Genetics (Austin)</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Ming, R. (Texas AandM University, College Station.)</au><au>Liu, S.C</au><au>Lin, Y.R</au><au>Silva, J. da</au><au>Wilson, W</au><au>Braga, D</au><au>Van Deynze, A</au><au>Wenslaff, T.F</au><au>Wu, K.K</au><au>Moore, P.H</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Detailed alignment of saccharum and sorghum chromosomes: comparative organization of closely related diploid and polyploid genomes</atitle><jtitle>Genetics (Austin)</jtitle><addtitle>Genetics</addtitle><date>1998-12</date><risdate>1998</risdate><volume>150</volume><issue>4</issue><spage>1663</spage><epage>1682</epage><pages>1663-1682</pages><issn>0016-6731</issn><issn>1943-2631</issn><eissn>1943-2631</eissn><coden>GENTAE</coden><abstract>The complex polyploid genomes of three Saccharum species have been aligned with the compact diploid genome of Sorghum (2n = 2x = 20). A set of 428 DNA probes from different Poaceae (grasses) detected 2460 loci in F1 progeny of the crosses Saccharum officinarum Green German x S. spontaneum IND 81-146, and S. spontaneum PIN 84-1 x S. officinarum Muntok Java. Thirty-one DNA probes detected 226 loci in S. officinarum LA Purple x S. robustum Molokai 5829. Genetic maps of the six Saccharum genotypes, including up to 72 linkage groups, were assembled into "homologous groups" based on parallel arrangements of duplicated loci. About 84% of the loci mapped by 242 common probes were homologous between Saccharum and Sorghum. Only one interchromosomal and two intrachromosomal rearrangements differentiated both S. officinarum and S. spontaneum from Sorghum, but 11 additional cases of chromosome structural polymorphism were found within Saccharum. Diploidization was advanced in S. robustum, incipient in S. officinarum, and absent in S. spontaneum, consistent with biogeographic data suggesting that S. robustum is the ancestor of S. officinarum, but raising new questions about the antiquity of S. spontaneum. The densely mapped Sorghum genome will be a valuable tool in ongoing molecular analysis of the complex Saccharum genome.</abstract><cop>United States</cop><pub>Genetics Soc America</pub><pmid>9832541</pmid><doi>10.1093/genetics/150.4.1663</doi><tpages>20</tpages><oa>free_for_read</oa></addata></record> |
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source | Oxford University Press Journals All Titles (1996-Current); MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Alma/SFX Local Collection |
subjects | ADN ANALYTICAL METHODS APAREAMIENTO CROMOSOMICO APPARIEMENT CHROMOSOMIQUE BIOLOGICAL DIFFERENCES CARTE GENETIQUE CHROMOSOME CHROMOSOME ANALYSIS CHROMOSOME MAPS CHROMOSOME PAIRING CHROMOSOMES CROMOSOMAS Deoxyribonucleic acid DIFERENCIAS BIOLOGICAS DIFFERENCE BIOLOGIQUE DIPLOIDIA DIPLOIDIE DIPLOIDY DNA DNA, Plant Edible Grain - genetics Gene Duplication Gene Rearrangement GENETIC MAPPING GENETIC MAPS GENETIC MARKERS GENOME ANALYSIS Genome, Plant Genomics HIBRIDACION INTERESPECIFICA HIBRIDOS HYBRIDATION INTERSPECIFIQUE HYBRIDE HYBRIDS INTERSPECIFIC HYBRIDIZATION LINKAGE GROUPS LINKAGE MAPS MAPAS GENETICOS MARCADORES GENETICOS MARQUEUR GENETIQUE NUCLEIC PROBES Plants, Edible - genetics POLIMORFISMO POLIPLOIDIA POLYMORPHISM Polymorphism, Genetic POLYMORPHISME POLYPLOIDIE POLYPLOIDY RECOMBINACION RECOMBINAISON RECOMBINATION Recombination, Genetic RFLP SACCHARUM SACCHARUM OFFICINARUM SACCHARUM ROBUSTUM SACCHARUM SPONTANEUM SEGREGACION SEGREGATION SONDAS NUCLEICAS SONDE NUCLEIQUE SORGHUM BICOLOR SPECIES DIFFERENCES TECHNIQUE ANALYTIQUE TECNICAS ANALITICAS |
title | Detailed alignment of saccharum and sorghum chromosomes: comparative organization of closely related diploid and polyploid genomes |
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