A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation.
Identifieur interne : 003C53 ( Main/Exploration ); précédent : 003C52; suivant : 003C54A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation.
Auteurs : Colin T. Kelleher [Canada] ; Readman Chiu ; Heesun Shin ; Ian E. Bosdet ; Martin I. Krzywinski ; Chris D. Fjell ; Jennifer Wilkin ; Tongming Yin ; Stephen P. Difazio ; Johar Ali ; Jennifer K. Asano ; Susanna Chan ; Alison Cloutier ; Noreen Girn ; Stephen Leach ; Darlene Lee ; Carrie A. Mathewson ; Teika Olson ; Katie O'Connor ; Anna-Liisa Prabhu ; Duane E. Smailus ; Jeffery M. Stott ; Miranda Tsai ; Natasja H. Wye ; George S. Yang ; Jun Zhuang ; Robert A. Holt ; Nicholas H. Putnam ; Julia Vrebalov ; James J. Giovannoni ; Jane Grimwood ; Jeremy Schmutz ; Daniel Rokhsar ; Steven J M. Jones ; Marco A. Marra ; Gerald A. Tuskan ; Jörg Bohlmann ; Brian E. Ellis ; Kermit Ritland ; Carl J. Douglas ; Jacqueline E. ScheinSource :
- The Plant journal : for cell and molecular biology [ 0960-7412 ] ; 2007.
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Abstract
As part of a larger project to sequence the Populus genome and generate genomic resources for this emerging model tree, we constructed a physical map of the Populus genome, representing one of the few such maps of an undomesticated, highly heterozygous plant species. The physical map, consisting of 2802 contigs, was constructed from fingerprinted bacterial artificial chromosome (BAC) clones. The map represents approximately 9.4-fold coverage of the Populus genome, which has been estimated from the genome sequence assembly to be 485 +/- 10 Mb in size. BAC ends were sequenced to assist long-range assembly of whole-genome shotgun sequence scaffolds and to anchor the physical map to the genome sequence. Simple sequence repeat-based markers were derived from the end sequences and used to initiate integration of the BAC and genetic maps. A total of 2411 physical map contigs, representing 97% of all clones assigned to contigs, were aligned to the sequence assembly (JGI Populus trichocarpa, version 1.0). These alignments represent a total coverage of 384 Mb (79%) of the entire poplar sequence assembly and 295 Mb (96%) of linkage group sequence assemblies. A striking result of the physical map contig alignments to the sequence assembly was the co-localization of multiple contigs across numerous regions of the 19 linkage groups. Targeted sequencing of BAC clones and genetic analysis in a small number of representative regions showed that these co-aligning contigs represent distinct haplotypes in the heterozygous individual sequenced, and revealed the nature of these haplotype sequence differences.
DOI: 10.1111/j.1365-313X.2007.03112.x
PubMed: 17488239
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Kelleher</name><affiliation wicri:level="4"><nlm:affiliation>Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3</wicri:regionArea><orgName type="university">Université de la Colombie-Britannique</orgName><placeName><settlement type="city">Vancouver</settlement><region type="state">Colombie-Britannique </region></placeName></affiliation></author><author><name sortKey="Chiu, Readman" sort="Chiu, Readman" uniqKey="Chiu R" first="Readman" last="Chiu">Readman Chiu</name></author><author><name sortKey="Shin, Heesun" sort="Shin, Heesun" uniqKey="Shin H" first="Heesun" last="Shin">Heesun Shin</name></author><author><name sortKey="Bosdet, Ian E" sort="Bosdet, Ian E" uniqKey="Bosdet I" first="Ian E" last="Bosdet">Ian E. Bosdet</name></author><author><name sortKey="Krzywinski, Martin I" sort="Krzywinski, Martin I" uniqKey="Krzywinski M" first="Martin I" last="Krzywinski">Martin I. Krzywinski</name></author><author><name sortKey="Fjell, Chris D" sort="Fjell, Chris D" uniqKey="Fjell C" first="Chris D" last="Fjell">Chris D. Fjell</name></author><author><name sortKey="Wilkin, Jennifer" sort="Wilkin, Jennifer" uniqKey="Wilkin J" first="Jennifer" last="Wilkin">Jennifer Wilkin</name></author><author><name sortKey="Yin, Tongming" sort="Yin, Tongming" uniqKey="Yin T" first="Tongming" last="Yin">Tongming Yin</name></author><author><name sortKey="Difazio, Stephen P" sort="Difazio, Stephen P" uniqKey="Difazio S" first="Stephen P" last="Difazio">Stephen P. 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Giovannoni</name></author><author><name sortKey="Grimwood, Jane" sort="Grimwood, Jane" uniqKey="Grimwood J" first="Jane" last="Grimwood">Jane Grimwood</name></author><author><name sortKey="Schmutz, Jeremy" sort="Schmutz, Jeremy" uniqKey="Schmutz J" first="Jeremy" last="Schmutz">Jeremy Schmutz</name></author><author><name sortKey="Rokhsar, Daniel" sort="Rokhsar, Daniel" uniqKey="Rokhsar D" first="Daniel" last="Rokhsar">Daniel Rokhsar</name></author><author><name sortKey="Jones, Steven J M" sort="Jones, Steven J M" uniqKey="Jones S" first="Steven J M" last="Jones">Steven J M. Jones</name></author><author><name sortKey="Marra, Marco A" sort="Marra, Marco A" uniqKey="Marra M" first="Marco A" last="Marra">Marco A. Marra</name></author><author><name sortKey="Tuskan, Gerald A" sort="Tuskan, Gerald A" uniqKey="Tuskan G" first="Gerald A" last="Tuskan">Gerald A. 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Schein</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2007">2007</date><idno type="RBID">pubmed:17488239</idno><idno type="pmid">17488239</idno><idno type="doi">10.1111/j.1365-313X.2007.03112.x</idno><idno type="wicri:Area/Main/Corpus">003B61</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">003B61</idno><idno type="wicri:Area/Main/Curation">003B61</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">003B61</idno><idno type="wicri:Area/Main/Exploration">003B61</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation.</title><author><name sortKey="Kelleher, Colin T" sort="Kelleher, Colin T" uniqKey="Kelleher C" first="Colin T" last="Kelleher">Colin T. Kelleher</name><affiliation wicri:level="4"><nlm:affiliation>Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3, Canada.</nlm:affiliation><country xml:lang="fr">Canada</country><wicri:regionArea>Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3</wicri:regionArea><orgName type="university">Université de la Colombie-Britannique</orgName><placeName><settlement type="city">Vancouver</settlement><region type="state">Colombie-Britannique </region></placeName></affiliation></author><author><name sortKey="Chiu, Readman" sort="Chiu, Readman" uniqKey="Chiu R" first="Readman" last="Chiu">Readman Chiu</name></author><author><name sortKey="Shin, Heesun" sort="Shin, Heesun" uniqKey="Shin H" first="Heesun" last="Shin">Heesun Shin</name></author><author><name sortKey="Bosdet, Ian E" sort="Bosdet, Ian E" uniqKey="Bosdet I" first="Ian E" last="Bosdet">Ian E. Bosdet</name></author><author><name sortKey="Krzywinski, Martin I" sort="Krzywinski, Martin I" uniqKey="Krzywinski M" first="Martin I" last="Krzywinski">Martin I. Krzywinski</name></author><author><name sortKey="Fjell, Chris D" sort="Fjell, Chris D" uniqKey="Fjell C" first="Chris D" last="Fjell">Chris D. Fjell</name></author><author><name sortKey="Wilkin, Jennifer" sort="Wilkin, Jennifer" uniqKey="Wilkin J" first="Jennifer" last="Wilkin">Jennifer Wilkin</name></author><author><name sortKey="Yin, Tongming" sort="Yin, Tongming" uniqKey="Yin T" first="Tongming" last="Yin">Tongming Yin</name></author><author><name sortKey="Difazio, Stephen P" sort="Difazio, Stephen P" uniqKey="Difazio S" first="Stephen P" last="Difazio">Stephen P. Difazio</name></author><author><name sortKey="Ali, Johar" sort="Ali, Johar" uniqKey="Ali J" first="Johar" last="Ali">Johar Ali</name></author><author><name sortKey="Asano, Jennifer K" sort="Asano, Jennifer K" uniqKey="Asano J" first="Jennifer K" last="Asano">Jennifer K. Asano</name></author><author><name sortKey="Chan, Susanna" sort="Chan, Susanna" uniqKey="Chan S" first="Susanna" last="Chan">Susanna Chan</name></author><author><name sortKey="Cloutier, Alison" sort="Cloutier, Alison" uniqKey="Cloutier A" first="Alison" last="Cloutier">Alison Cloutier</name></author><author><name sortKey="Girn, Noreen" sort="Girn, Noreen" uniqKey="Girn N" first="Noreen" last="Girn">Noreen Girn</name></author><author><name sortKey="Leach, Stephen" sort="Leach, Stephen" uniqKey="Leach S" first="Stephen" last="Leach">Stephen Leach</name></author><author><name sortKey="Lee, Darlene" sort="Lee, Darlene" uniqKey="Lee D" first="Darlene" last="Lee">Darlene Lee</name></author><author><name sortKey="Mathewson, Carrie A" sort="Mathewson, Carrie A" uniqKey="Mathewson C" first="Carrie A" last="Mathewson">Carrie A. Mathewson</name></author><author><name sortKey="Olson, Teika" sort="Olson, Teika" uniqKey="Olson T" first="Teika" last="Olson">Teika Olson</name></author><author><name sortKey="O Connor, Katie" sort="O Connor, Katie" uniqKey="O Connor K" first="Katie" last="O'Connor">Katie O'Connor</name></author><author><name sortKey="Prabhu, Anna Liisa" sort="Prabhu, Anna Liisa" uniqKey="Prabhu A" first="Anna-Liisa" last="Prabhu">Anna-Liisa Prabhu</name></author><author><name sortKey="Smailus, Duane E" sort="Smailus, Duane E" uniqKey="Smailus D" first="Duane E" last="Smailus">Duane E. Smailus</name></author><author><name sortKey="Stott, Jeffery M" sort="Stott, Jeffery M" uniqKey="Stott J" first="Jeffery M" last="Stott">Jeffery M. Stott</name></author><author><name sortKey="Tsai, Miranda" sort="Tsai, Miranda" uniqKey="Tsai M" first="Miranda" last="Tsai">Miranda Tsai</name></author><author><name sortKey="Wye, Natasja H" sort="Wye, Natasja H" uniqKey="Wye N" first="Natasja H" last="Wye">Natasja H. Wye</name></author><author><name sortKey="Yang, George S" sort="Yang, George S" uniqKey="Yang G" first="George S" last="Yang">George S. Yang</name></author><author><name sortKey="Zhuang, Jun" sort="Zhuang, Jun" uniqKey="Zhuang J" first="Jun" last="Zhuang">Jun Zhuang</name></author><author><name sortKey="Holt, Robert A" sort="Holt, Robert A" uniqKey="Holt R" first="Robert A" last="Holt">Robert A. Holt</name></author><author><name sortKey="Putnam, Nicholas H" sort="Putnam, Nicholas H" uniqKey="Putnam N" first="Nicholas H" last="Putnam">Nicholas H. Putnam</name></author><author><name sortKey="Vrebalov, Julia" sort="Vrebalov, Julia" uniqKey="Vrebalov J" first="Julia" last="Vrebalov">Julia Vrebalov</name></author><author><name sortKey="Giovannoni, James J" sort="Giovannoni, James J" uniqKey="Giovannoni J" first="James J" last="Giovannoni">James J. Giovannoni</name></author><author><name sortKey="Grimwood, Jane" sort="Grimwood, Jane" uniqKey="Grimwood J" first="Jane" last="Grimwood">Jane Grimwood</name></author><author><name sortKey="Schmutz, Jeremy" sort="Schmutz, Jeremy" uniqKey="Schmutz J" first="Jeremy" last="Schmutz">Jeremy Schmutz</name></author><author><name sortKey="Rokhsar, Daniel" sort="Rokhsar, Daniel" uniqKey="Rokhsar D" first="Daniel" last="Rokhsar">Daniel Rokhsar</name></author><author><name sortKey="Jones, Steven J M" sort="Jones, Steven J M" uniqKey="Jones S" first="Steven J M" last="Jones">Steven J M. Jones</name></author><author><name sortKey="Marra, Marco A" sort="Marra, Marco A" uniqKey="Marra M" first="Marco A" last="Marra">Marco A. Marra</name></author><author><name sortKey="Tuskan, Gerald A" sort="Tuskan, Gerald A" uniqKey="Tuskan G" first="Gerald A" last="Tuskan">Gerald A. Tuskan</name></author><author><name sortKey="Bohlmann, Jorg" sort="Bohlmann, Jorg" uniqKey="Bohlmann J" first="Jörg" last="Bohlmann">Jörg Bohlmann</name></author><author><name sortKey="Ellis, Brian E" sort="Ellis, Brian E" uniqKey="Ellis B" first="Brian E" last="Ellis">Brian E. Ellis</name></author><author><name sortKey="Ritland, Kermit" sort="Ritland, Kermit" uniqKey="Ritland K" first="Kermit" last="Ritland">Kermit Ritland</name></author><author><name sortKey="Douglas, Carl J" sort="Douglas, Carl J" uniqKey="Douglas C" first="Carl J" last="Douglas">Carl J. Douglas</name></author><author><name sortKey="Schein, Jacqueline E" sort="Schein, Jacqueline E" uniqKey="Schein J" first="Jacqueline E" last="Schein">Jacqueline E. Schein</name></author></analytic><series><title level="j">The Plant journal : for cell and molecular biology</title><idno type="ISSN">0960-7412</idno><imprint><date when="2007" type="published">2007</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Chromosomes, Artificial, Bacterial (MeSH)</term><term>Genome, Plant (MeSH)</term><term>Haplotypes (MeSH)</term><term>Minisatellite Repeats (MeSH)</term><term>Physical Chromosome Mapping (MeSH)</term><term>Polymorphism, Genetic (MeSH)</term><term>Populus (genetics)</term><term>Sequence Alignment (MeSH)</term><term>Sequence Analysis, DNA (MeSH)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Alignement de séquences (MeSH)</term><term>Analyse de séquence d'ADN (MeSH)</term><term>Cartographie physique de chromosome (MeSH)</term><term>Chromosomes artificiels de bactérie (MeSH)</term><term>Génome végétal (MeSH)</term><term>Haplotypes (MeSH)</term><term>Polymorphisme génétique (MeSH)</term><term>Populus (génétique)</term><term>Répétitions minisatellites (MeSH)</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Populus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Populus</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Chromosomes, Artificial, Bacterial</term><term>Genome, Plant</term><term>Haplotypes</term><term>Minisatellite Repeats</term><term>Physical Chromosome Mapping</term><term>Polymorphism, Genetic</term><term>Sequence Alignment</term><term>Sequence Analysis, DNA</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Alignement de séquences</term><term>Analyse de séquence d'ADN</term><term>Cartographie physique de chromosome</term><term>Chromosomes artificiels de bactérie</term><term>Génome végétal</term><term>Haplotypes</term><term>Polymorphisme génétique</term><term>Répétitions minisatellites</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">As part of a larger project to sequence the Populus genome and generate genomic resources for this emerging model tree, we constructed a physical map of the Populus genome, representing one of the few such maps of an undomesticated, highly heterozygous plant species. The physical map, consisting of 2802 contigs, was constructed from fingerprinted bacterial artificial chromosome (BAC) clones. The map represents approximately 9.4-fold coverage of the Populus genome, which has been estimated from the genome sequence assembly to be 485 +/- 10 Mb in size. BAC ends were sequenced to assist long-range assembly of whole-genome shotgun sequence scaffolds and to anchor the physical map to the genome sequence. Simple sequence repeat-based markers were derived from the end sequences and used to initiate integration of the BAC and genetic maps. A total of 2411 physical map contigs, representing 97% of all clones assigned to contigs, were aligned to the sequence assembly (JGI Populus trichocarpa, version 1.0). These alignments represent a total coverage of 384 Mb (79%) of the entire poplar sequence assembly and 295 Mb (96%) of linkage group sequence assemblies. A striking result of the physical map contig alignments to the sequence assembly was the co-localization of multiple contigs across numerous regions of the 19 linkage groups. Targeted sequencing of BAC clones and genetic analysis in a small number of representative regions showed that these co-aligning contigs represent distinct haplotypes in the heterozygous individual sequenced, and revealed the nature of these haplotype sequence differences.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">17488239</PMID><DateCompleted><Year>2007</Year><Month>09</Month><Day>05</Day></DateCompleted><DateRevised><Year>2007</Year><Month>06</Month><Day>13</Day></DateRevised><Article PubModel="Print-Electronic"><Journal><ISSN IssnType="Print">0960-7412</ISSN><JournalIssue CitedMedium="Print"><Volume>50</Volume><Issue>6</Issue><PubDate><Year>2007</Year><Month>Jun</Month></PubDate></JournalIssue><Title>The Plant journal : for cell and molecular biology</Title><ISOAbbreviation>Plant J</ISOAbbreviation></Journal><ArticleTitle>A physical map of the highly heterozygous Populus genome: integration with the genome sequence and genetic map and analysis of haplotype variation.</ArticleTitle><Pagination><MedlinePgn>1063-78</MedlinePgn></Pagination><Abstract><AbstractText>As part of a larger project to sequence the Populus genome and generate genomic resources for this emerging model tree, we constructed a physical map of the Populus genome, representing one of the few such maps of an undomesticated, highly heterozygous plant species. The physical map, consisting of 2802 contigs, was constructed from fingerprinted bacterial artificial chromosome (BAC) clones. The map represents approximately 9.4-fold coverage of the Populus genome, which has been estimated from the genome sequence assembly to be 485 +/- 10 Mb in size. BAC ends were sequenced to assist long-range assembly of whole-genome shotgun sequence scaffolds and to anchor the physical map to the genome sequence. Simple sequence repeat-based markers were derived from the end sequences and used to initiate integration of the BAC and genetic maps. A total of 2411 physical map contigs, representing 97% of all clones assigned to contigs, were aligned to the sequence assembly (JGI Populus trichocarpa, version 1.0). These alignments represent a total coverage of 384 Mb (79%) of the entire poplar sequence assembly and 295 Mb (96%) of linkage group sequence assemblies. A striking result of the physical map contig alignments to the sequence assembly was the co-localization of multiple contigs across numerous regions of the 19 linkage groups. Targeted sequencing of BAC clones and genetic analysis in a small number of representative regions showed that these co-aligning contigs represent distinct haplotypes in the heterozygous individual sequenced, and revealed the nature of these haplotype sequence differences.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Kelleher</LastName><ForeName>Colin T</ForeName><Initials>CT</Initials><AffiliationInfo><Affiliation>Michael Smith Laboratories, University of British Columbia, Vancouver, BC V6T 1Z3, Canada.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Chiu</LastName><ForeName>Readman</ForeName><Initials>R</Initials></Author><Author ValidYN="Y"><LastName>Shin</LastName><ForeName>Heesun</ForeName><Initials>H</Initials></Author><Author ValidYN="Y"><LastName>Bosdet</LastName><ForeName>Ian E</ForeName><Initials>IE</Initials></Author><Author ValidYN="Y"><LastName>Krzywinski</LastName><ForeName>Martin I</ForeName><Initials>MI</Initials></Author><Author ValidYN="Y"><LastName>Fjell</LastName><ForeName>Chris D</ForeName><Initials>CD</Initials></Author><Author ValidYN="Y"><LastName>Wilkin</LastName><ForeName>Jennifer</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Yin</LastName><ForeName>Tongming</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>DiFazio</LastName><ForeName>Stephen P</ForeName><Initials>SP</Initials></Author><Author ValidYN="Y"><LastName>Ali</LastName><ForeName>Johar</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Asano</LastName><ForeName>Jennifer K</ForeName><Initials>JK</Initials></Author><Author ValidYN="Y"><LastName>Chan</LastName><ForeName>Susanna</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Cloutier</LastName><ForeName>Alison</ForeName><Initials>A</Initials></Author><Author ValidYN="Y"><LastName>Girn</LastName><ForeName>Noreen</ForeName><Initials>N</Initials></Author><Author ValidYN="Y"><LastName>Leach</LastName><ForeName>Stephen</ForeName><Initials>S</Initials></Author><Author ValidYN="Y"><LastName>Lee</LastName><ForeName>Darlene</ForeName><Initials>D</Initials></Author><Author ValidYN="Y"><LastName>Mathewson</LastName><ForeName>Carrie A</ForeName><Initials>CA</Initials></Author><Author ValidYN="Y"><LastName>Olson</LastName><ForeName>Teika</ForeName><Initials>T</Initials></Author><Author ValidYN="Y"><LastName>O'connor</LastName><ForeName>Katie</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Prabhu</LastName><ForeName>Anna-Liisa</ForeName><Initials>AL</Initials></Author><Author ValidYN="Y"><LastName>Smailus</LastName><ForeName>Duane E</ForeName><Initials>DE</Initials></Author><Author ValidYN="Y"><LastName>Stott</LastName><ForeName>Jeffery M</ForeName><Initials>JM</Initials></Author><Author 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ValidYN="Y"><LastName>Schmutz</LastName><ForeName>Jeremy</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Rokhsar</LastName><ForeName>Daniel</ForeName><Initials>D</Initials></Author><Author ValidYN="Y"><LastName>Jones</LastName><ForeName>Steven J M</ForeName><Initials>SJ</Initials></Author><Author ValidYN="Y"><LastName>Marra</LastName><ForeName>Marco A</ForeName><Initials>MA</Initials></Author><Author ValidYN="Y"><LastName>Tuskan</LastName><ForeName>Gerald A</ForeName><Initials>GA</Initials></Author><Author ValidYN="Y"><LastName>Bohlmann</LastName><ForeName>Jörg</ForeName><Initials>J</Initials></Author><Author ValidYN="Y"><LastName>Ellis</LastName><ForeName>Brian E</ForeName><Initials>BE</Initials></Author><Author ValidYN="Y"><LastName>Ritland</LastName><ForeName>Kermit</ForeName><Initials>K</Initials></Author><Author ValidYN="Y"><LastName>Douglas</LastName><ForeName>Carl J</ForeName><Initials>CJ</Initials></Author><Author ValidYN="Y"><LastName>Schein</LastName><ForeName>Jacqueline E</ForeName><Initials>JE</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType><PublicationType UI="D013486">Research Support, U.S. Gov't, Non-P.H.S.</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2007</Year><Month>05</Month><Day>03</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Plant J</MedlineTA><NlmUniqueID>9207397</NlmUniqueID><ISSNLinking>0960-7412</ISSNLinking></MedlineJournalInfo><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D022202" MajorTopicYN="N">Chromosomes, Artificial, Bacterial</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018745" MajorTopicYN="Y">Genome, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006239" MajorTopicYN="N">Haplotypes</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018598" MajorTopicYN="N">Minisatellite Repeats</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D020161" MajorTopicYN="Y">Physical Chromosome Mapping</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D011110" MajorTopicYN="N">Polymorphism, Genetic</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D032107" MajorTopicYN="N">Populus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D016415" MajorTopicYN="N">Sequence Alignment</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D017422" MajorTopicYN="N">Sequence Analysis, DNA</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="pubmed"><Year>2007</Year><Month>5</Month><Day>10</Day><Hour>9</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate 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Ellis</name><name sortKey="Fjell, Chris D" sort="Fjell, Chris D" uniqKey="Fjell C" first="Chris D" last="Fjell">Chris D. Fjell</name><name sortKey="Giovannoni, James J" sort="Giovannoni, James J" uniqKey="Giovannoni J" first="James J" last="Giovannoni">James J. Giovannoni</name><name sortKey="Girn, Noreen" sort="Girn, Noreen" uniqKey="Girn N" first="Noreen" last="Girn">Noreen Girn</name><name sortKey="Grimwood, Jane" sort="Grimwood, Jane" uniqKey="Grimwood J" first="Jane" last="Grimwood">Jane Grimwood</name><name sortKey="Holt, Robert A" sort="Holt, Robert A" uniqKey="Holt R" first="Robert A" last="Holt">Robert A. Holt</name><name sortKey="Jones, Steven J M" sort="Jones, Steven J M" uniqKey="Jones S" first="Steven J M" last="Jones">Steven J M. Jones</name><name sortKey="Krzywinski, Martin I" sort="Krzywinski, Martin I" uniqKey="Krzywinski M" first="Martin I" last="Krzywinski">Martin I. 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