Introgression of the chromosomal region with the Pi-cd locus from Oryza meridionalis into O. sativa L. during rice domestication
Key message The genotype of the Pi - cd locus found in blast-resistant rice variety Kitakurin , which is a cultivated rice from Japan belonging to Oryza sativa japonica , is identical to that of its wild relative O. meridionalis. Crop domestication from wild relatives to cultivated species has encom...
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| Veröffentlicht in: | Theoretical and applied genetics 2019-07, Vol.132 (7), p.1981-1990 |
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| container_end_page | 1990 |
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| container_issue | 7 |
| container_start_page | 1981 |
| container_title | Theoretical and applied genetics |
| container_volume | 132 |
| creator | Fujino, Kenji Hirayama, Yuji Obara, Mari Ikegaya, Tomohito |
| description | Key message
The genotype of the
Pi
-
cd
locus found in blast-resistant rice variety
Kitakurin
, which is a cultivated rice from Japan belonging to
Oryza sativa japonica
, is identical to that of its wild relative
O. meridionalis.
Crop domestication from wild relatives to cultivated species has encompassed significant phenotypic changes. However, little is known about the genetic changes involved in domestication. Here, we surveyed the origin of the
Pi
-
cd
locus across
Oryza
species with AA genomes by comparison with the genome sequences of Hoshinoyume (HS), which does not carry the
Pi
-
cd
blast resistance gene, and Kitakurin (KK), which carries the
Pi
-
cd
blast resistance gene. We found that variety-specific transposons were enriched at the
Pi
-
cd
locus. The genotype of the
Pi
-
cd
locus characterized by transposons in HS and KK was specific to each
Oryza
species with the AA genome. The Kitaake (KT) genotype at the
Pi
-
cd
locus found in KK was identical only to that of
O. meridionalis
and distributed only in subgroups of
japonica
in the World Rice Collection and
tropical japonica
in the Japanese Rice Collection, whereas it was not present in
O. rufipogon
accessions. The distinct distributions of genotypes of the
Pi
-
cd
locus clearly demonstrated that the
Pi
-
cd
locus was introgressed from
O. meridionalis
into
O. sativa
, specific to
tropical japonica
. |
| doi_str_mv | 10.1007/s00122-019-03332-1 |
| format | Article |
| fullrecord | <record><control><sourceid>gale_proqu</sourceid><recordid>TN_cdi_proquest_miscellaneous_2197891108</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><galeid>A590162844</galeid><sourcerecordid>A590162844</sourcerecordid><originalsourceid>FETCH-LOGICAL-c476t-c146cb5a3caa10b92f9db10e4dc62f0a67d310973b296e0737a989b6c2acf2f83</originalsourceid><addsrcrecordid>eNp9kl2P1CAUhonRuOPqH_DCkHijFx0P0JbhcrPxY5JJxvhxTSiFDpu2jEDV9cqfLt2ubsYYwwWE87zvyYEXoacE1gSAv4oAhNICiCiAMUYLcg-tSJkPlJb0PloBlFBUvKJn6FGMVwBAK2AP0RkDQQjnYoV-bscUfBdMjM6P2FucDgbrQ_CDj35QPQ6mmyvfXDrc1N67Qre493qK2GYM78P1D4UHE1ybQdW7iN2YPN6vcVTJfVV4t8btFNzY4eC0wa0fTExO56IfH6MHVvXRPLndz9HnN68_Xb4rdvu328uLXaFLXqdCk7LWTaWYVopAI6gVbUPAlK2uqQVV85YREJw1VNQGOONKbERTa6q0pXbDztGLxfcY_Jcp95eDi9r0vRqNn6KkRPBNfhWY0ed_oVd-CnmyhQK2ASHuqE71RrrR-hSUnk3lRSWA1HRTlpla_4PKqzWD03401uX7E8HLE0FmkvmeOjXFKLcfP5yydGF18DEGY-UxuEGFa0lAzhGRS0Rkjoi8iYgkWfTsdrqpGUz7R_I7ExlgCxCP85-ZcDf-f2x_AQ3AxMs</addsrcrecordid><sourcetype>Aggregation Database</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2197038099</pqid></control><display><type>article</type><title>Introgression of the chromosomal region with the Pi-cd locus from Oryza meridionalis into O. sativa L. during rice domestication</title><source>MEDLINE</source><source>SpringerLink Journals - AutoHoldings</source><creator>Fujino, Kenji ; Hirayama, Yuji ; Obara, Mari ; Ikegaya, Tomohito</creator><creatorcontrib>Fujino, Kenji ; Hirayama, Yuji ; Obara, Mari ; Ikegaya, Tomohito</creatorcontrib><description>Key message
The genotype of the
Pi
-
cd
locus found in blast-resistant rice variety
Kitakurin
, which is a cultivated rice from Japan belonging to
Oryza sativa japonica
, is identical to that of its wild relative
O. meridionalis.
Crop domestication from wild relatives to cultivated species has encompassed significant phenotypic changes. However, little is known about the genetic changes involved in domestication. Here, we surveyed the origin of the
Pi
-
cd
locus across
Oryza
species with AA genomes by comparison with the genome sequences of Hoshinoyume (HS), which does not carry the
Pi
-
cd
blast resistance gene, and Kitakurin (KK), which carries the
Pi
-
cd
blast resistance gene. We found that variety-specific transposons were enriched at the
Pi
-
cd
locus. The genotype of the
Pi
-
cd
locus characterized by transposons in HS and KK was specific to each
Oryza
species with the AA genome. The Kitaake (KT) genotype at the
Pi
-
cd
locus found in KK was identical only to that of
O. meridionalis
and distributed only in subgroups of
japonica
in the World Rice Collection and
tropical japonica
in the Japanese Rice Collection, whereas it was not present in
O. rufipogon
accessions. The distinct distributions of genotypes of the
Pi
-
cd
locus clearly demonstrated that the
Pi
-
cd
locus was introgressed from
O. meridionalis
into
O. sativa
, specific to
tropical japonica
.</description><identifier>ISSN: 0040-5752</identifier><identifier>EISSN: 1432-2242</identifier><identifier>DOI: 10.1007/s00122-019-03332-1</identifier><identifier>PMID: 30911779</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Agriculture ; Analysis ; Biochemistry ; Biomedical and Life Sciences ; Biotechnology ; Crops, Agricultural - genetics ; Disease Resistance - genetics ; DNA Transposable Elements ; Domestication ; Evolution, Molecular ; Genes ; Genetic aspects ; Genome, Plant ; Genomes ; Genomics ; Genotype ; Genotype & phenotype ; Genotypes ; Life Sciences ; Original Article ; Oryza - classification ; Oryza - genetics ; Oryza meridionalis ; Oryza sativa japonica ; Plant Biochemistry ; Plant Breeding/Biotechnology ; Plant Diseases - genetics ; Plant Diseases - microbiology ; Plant Genetics and Genomics ; Rice ; Rice blast ; Species ; Transposons</subject><ispartof>Theoretical and applied genetics, 2019-07, Vol.132 (7), p.1981-1990</ispartof><rights>Springer-Verlag GmbH Germany, part of Springer Nature 2019</rights><rights>COPYRIGHT 2019 Springer</rights><rights>Theoretical and Applied Genetics is a copyright of Springer, (2019). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c476t-c146cb5a3caa10b92f9db10e4dc62f0a67d310973b296e0737a989b6c2acf2f83</citedby><cites>FETCH-LOGICAL-c476t-c146cb5a3caa10b92f9db10e4dc62f0a67d310973b296e0737a989b6c2acf2f83</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00122-019-03332-1$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00122-019-03332-1$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/30911779$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Fujino, Kenji</creatorcontrib><creatorcontrib>Hirayama, Yuji</creatorcontrib><creatorcontrib>Obara, Mari</creatorcontrib><creatorcontrib>Ikegaya, Tomohito</creatorcontrib><title>Introgression of the chromosomal region with the Pi-cd locus from Oryza meridionalis into O. sativa L. during rice domestication</title><title>Theoretical and applied genetics</title><addtitle>Theor Appl Genet</addtitle><addtitle>Theor Appl Genet</addtitle><description>Key message
The genotype of the
Pi
-
cd
locus found in blast-resistant rice variety
Kitakurin
, which is a cultivated rice from Japan belonging to
Oryza sativa japonica
, is identical to that of its wild relative
O. meridionalis.
Crop domestication from wild relatives to cultivated species has encompassed significant phenotypic changes. However, little is known about the genetic changes involved in domestication. Here, we surveyed the origin of the
Pi
-
cd
locus across
Oryza
species with AA genomes by comparison with the genome sequences of Hoshinoyume (HS), which does not carry the
Pi
-
cd
blast resistance gene, and Kitakurin (KK), which carries the
Pi
-
cd
blast resistance gene. We found that variety-specific transposons were enriched at the
Pi
-
cd
locus. The genotype of the
Pi
-
cd
locus characterized by transposons in HS and KK was specific to each
Oryza
species with the AA genome. The Kitaake (KT) genotype at the
Pi
-
cd
locus found in KK was identical only to that of
O. meridionalis
and distributed only in subgroups of
japonica
in the World Rice Collection and
tropical japonica
in the Japanese Rice Collection, whereas it was not present in
O. rufipogon
accessions. The distinct distributions of genotypes of the
Pi
-
cd
locus clearly demonstrated that the
Pi
-
cd
locus was introgressed from
O. meridionalis
into
O. sativa
, specific to
tropical japonica
.</description><subject>Agriculture</subject><subject>Analysis</subject><subject>Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Crops, Agricultural - genetics</subject><subject>Disease Resistance - genetics</subject><subject>DNA Transposable Elements</subject><subject>Domestication</subject><subject>Evolution, Molecular</subject><subject>Genes</subject><subject>Genetic aspects</subject><subject>Genome, Plant</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Genotype</subject><subject>Genotype & phenotype</subject><subject>Genotypes</subject><subject>Life Sciences</subject><subject>Original Article</subject><subject>Oryza - classification</subject><subject>Oryza - genetics</subject><subject>Oryza meridionalis</subject><subject>Oryza sativa japonica</subject><subject>Plant Biochemistry</subject><subject>Plant Breeding/Biotechnology</subject><subject>Plant Diseases - genetics</subject><subject>Plant Diseases - microbiology</subject><subject>Plant Genetics and Genomics</subject><subject>Rice</subject><subject>Rice blast</subject><subject>Species</subject><subject>Transposons</subject><issn>0040-5752</issn><issn>1432-2242</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kl2P1CAUhonRuOPqH_DCkHijFx0P0JbhcrPxY5JJxvhxTSiFDpu2jEDV9cqfLt2ubsYYwwWE87zvyYEXoacE1gSAv4oAhNICiCiAMUYLcg-tSJkPlJb0PloBlFBUvKJn6FGMVwBAK2AP0RkDQQjnYoV-bscUfBdMjM6P2FucDgbrQ_CDj35QPQ6mmyvfXDrc1N67Qre493qK2GYM78P1D4UHE1ybQdW7iN2YPN6vcVTJfVV4t8btFNzY4eC0wa0fTExO56IfH6MHVvXRPLndz9HnN68_Xb4rdvu328uLXaFLXqdCk7LWTaWYVopAI6gVbUPAlK2uqQVV85YREJw1VNQGOONKbERTa6q0pXbDztGLxfcY_Jcp95eDi9r0vRqNn6KkRPBNfhWY0ed_oVd-CnmyhQK2ASHuqE71RrrR-hSUnk3lRSWA1HRTlpla_4PKqzWD03401uX7E8HLE0FmkvmeOjXFKLcfP5yydGF18DEGY-UxuEGFa0lAzhGRS0Rkjoi8iYgkWfTsdrqpGUz7R_I7ExlgCxCP85-ZcDf-f2x_AQ3AxMs</recordid><startdate>20190701</startdate><enddate>20190701</enddate><creator>Fujino, Kenji</creator><creator>Hirayama, Yuji</creator><creator>Obara, Mari</creator><creator>Ikegaya, Tomohito</creator><general>Springer Berlin Heidelberg</general><general>Springer</general><general>Springer Nature B.V</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>ISR</scope><scope>3V.</scope><scope>7SS</scope><scope>7TK</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20190701</creationdate><title>Introgression of the chromosomal region with the Pi-cd locus from Oryza meridionalis into O. sativa L. during rice domestication</title><author>Fujino, Kenji ; Hirayama, Yuji ; Obara, Mari ; Ikegaya, Tomohito</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c476t-c146cb5a3caa10b92f9db10e4dc62f0a67d310973b296e0737a989b6c2acf2f83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Agriculture</topic><topic>Analysis</topic><topic>Biochemistry</topic><topic>Biomedical and Life Sciences</topic><topic>Biotechnology</topic><topic>Crops, Agricultural - genetics</topic><topic>Disease Resistance - genetics</topic><topic>DNA Transposable Elements</topic><topic>Domestication</topic><topic>Evolution, Molecular</topic><topic>Genes</topic><topic>Genetic aspects</topic><topic>Genome, Plant</topic><topic>Genomes</topic><topic>Genomics</topic><topic>Genotype</topic><topic>Genotype & phenotype</topic><topic>Genotypes</topic><topic>Life Sciences</topic><topic>Original Article</topic><topic>Oryza - classification</topic><topic>Oryza - genetics</topic><topic>Oryza meridionalis</topic><topic>Oryza sativa japonica</topic><topic>Plant Biochemistry</topic><topic>Plant Breeding/Biotechnology</topic><topic>Plant Diseases - genetics</topic><topic>Plant Diseases - microbiology</topic><topic>Plant Genetics and Genomics</topic><topic>Rice</topic><topic>Rice blast</topic><topic>Species</topic><topic>Transposons</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Fujino, Kenji</creatorcontrib><creatorcontrib>Hirayama, Yuji</creatorcontrib><creatorcontrib>Obara, Mari</creatorcontrib><creatorcontrib>Ikegaya, Tomohito</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Gale In Context: Science</collection><collection>ProQuest Central (Corporate)</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Neurosciences Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Theoretical and applied genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Fujino, Kenji</au><au>Hirayama, Yuji</au><au>Obara, Mari</au><au>Ikegaya, Tomohito</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Introgression of the chromosomal region with the Pi-cd locus from Oryza meridionalis into O. sativa L. during rice domestication</atitle><jtitle>Theoretical and applied genetics</jtitle><stitle>Theor Appl Genet</stitle><addtitle>Theor Appl Genet</addtitle><date>2019-07-01</date><risdate>2019</risdate><volume>132</volume><issue>7</issue><spage>1981</spage><epage>1990</epage><pages>1981-1990</pages><issn>0040-5752</issn><eissn>1432-2242</eissn><abstract>Key message
The genotype of the
Pi
-
cd
locus found in blast-resistant rice variety
Kitakurin
, which is a cultivated rice from Japan belonging to
Oryza sativa japonica
, is identical to that of its wild relative
O. meridionalis.
Crop domestication from wild relatives to cultivated species has encompassed significant phenotypic changes. However, little is known about the genetic changes involved in domestication. Here, we surveyed the origin of the
Pi
-
cd
locus across
Oryza
species with AA genomes by comparison with the genome sequences of Hoshinoyume (HS), which does not carry the
Pi
-
cd
blast resistance gene, and Kitakurin (KK), which carries the
Pi
-
cd
blast resistance gene. We found that variety-specific transposons were enriched at the
Pi
-
cd
locus. The genotype of the
Pi
-
cd
locus characterized by transposons in HS and KK was specific to each
Oryza
species with the AA genome. The Kitaake (KT) genotype at the
Pi
-
cd
locus found in KK was identical only to that of
O. meridionalis
and distributed only in subgroups of
japonica
in the World Rice Collection and
tropical japonica
in the Japanese Rice Collection, whereas it was not present in
O. rufipogon
accessions. The distinct distributions of genotypes of the
Pi
-
cd
locus clearly demonstrated that the
Pi
-
cd
locus was introgressed from
O. meridionalis
into
O. sativa
, specific to
tropical japonica
.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><pmid>30911779</pmid><doi>10.1007/s00122-019-03332-1</doi><tpages>10</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0040-5752 |
| ispartof | Theoretical and applied genetics, 2019-07, Vol.132 (7), p.1981-1990 |
| issn | 0040-5752 1432-2242 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_2197891108 |
| source | MEDLINE; SpringerLink Journals - AutoHoldings |
| subjects | Agriculture Analysis Biochemistry Biomedical and Life Sciences Biotechnology Crops, Agricultural - genetics Disease Resistance - genetics DNA Transposable Elements Domestication Evolution, Molecular Genes Genetic aspects Genome, Plant Genomes Genomics Genotype Genotype & phenotype Genotypes Life Sciences Original Article Oryza - classification Oryza - genetics Oryza meridionalis Oryza sativa japonica Plant Biochemistry Plant Breeding/Biotechnology Plant Diseases - genetics Plant Diseases - microbiology Plant Genetics and Genomics Rice Rice blast Species Transposons |
| title | Introgression of the chromosomal region with the Pi-cd locus from Oryza meridionalis into O. sativa L. during rice domestication |
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