Genetic analysis of a local population of Oryza glumaepatula using SSR markers: implications for management and conservation programs
Knowledge of natural diversity and population structures of wild species, which might be related to cultivated species, is fundamental for conservation and breeding purposes. In this study, a genetic characterization of a large population of Oryza glumaepatula , occurring in a 10 km 2 area located a...
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| Veröffentlicht in: | Genetica 2009-11, Vol.137 (2), p.221-231 |
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| creator | de Campos Vaz, Ana Rosa de Oliveira Borba, Tereza Cristina Brondani, Claudio Rangel, Paulo Hideo Nakano de Oliveira Camargo, Graziela Silvia de Campos Telles, Mariana Pires Filho, José Alexandre Felizola Diniz Brondani, Rosana Pereira Vianello |
| description | Knowledge of natural diversity and population structures of wild species, which might be related to cultivated species, is fundamental for conservation and breeding purposes. In this study, a genetic characterization of a large population of
Oryza glumaepatula
, occurring in a 10 km
2
area located at Tamengo Basin (Paraguay River, Brazil), was performed using SSR markers. This population is annually dragged from the river to permit navigation; one goal of this study was to examine the impact of this removal on genetic variability. From 18 polymorphic SSR markers, a total of 190 alleles were detected in a sample of 126 individuals, with an average of 10.3 alleles/locus, and a
H
e
of 0.67. The five QTL-related markers showed an average
H
e
value of 0.56, while the remaining 13 markers detected an average estimate of 0.70. An apparent outcrossing rate of 30%, a high proportion of alleles at low frequencies (56%), and the presence of exclusive alleles (9.5%) were found, with strong evidence of the establishment of individuals from different populations upstream in the Paraguay River. For conservation purposes, the river drag has no effect on the population. However, periodical seed collection from the Corumbá population can preserve part of the genetic variability present in upstream populations reducing the need for upriver collecting expeditions. |
| doi_str_mv | 10.1007/s10709-009-9393-8 |
| format | Article |
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Oryza glumaepatula
, occurring in a 10 km
2
area located at Tamengo Basin (Paraguay River, Brazil), was performed using SSR markers. This population is annually dragged from the river to permit navigation; one goal of this study was to examine the impact of this removal on genetic variability. From 18 polymorphic SSR markers, a total of 190 alleles were detected in a sample of 126 individuals, with an average of 10.3 alleles/locus, and a
H
e
of 0.67. The five QTL-related markers showed an average
H
e
value of 0.56, while the remaining 13 markers detected an average estimate of 0.70. An apparent outcrossing rate of 30%, a high proportion of alleles at low frequencies (56%), and the presence of exclusive alleles (9.5%) were found, with strong evidence of the establishment of individuals from different populations upstream in the Paraguay River. For conservation purposes, the river drag has no effect on the population. However, periodical seed collection from the Corumbá population can preserve part of the genetic variability present in upstream populations reducing the need for upriver collecting expeditions.</description><identifier>ISSN: 0016-6707</identifier><identifier>EISSN: 1573-6857</identifier><identifier>DOI: 10.1007/s10709-009-9393-8</identifier><identifier>PMID: 19636802</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Animal Genetics and Genomics ; Biomedical and Life Sciences ; Brazil ; Cluster Analysis ; Conservation of Natural Resources - methods ; Evolutionary Biology ; Gene Frequency ; Genetic Markers - genetics ; Genetic Variation ; Genetics, Population ; Human Genetics ; Life Sciences ; Local population ; Microbial Genetics and Genomics ; Minisatellite Repeats - genetics ; Oryza - genetics ; Oryza glumaepatula ; Plant Genetics and Genomics ; Quantitative Trait Loci - genetics ; Rivers ; Seed collection ; Upstream</subject><ispartof>Genetica, 2009-11, Vol.137 (2), p.221-231</ispartof><rights>Springer Science+Business Media B.V. 2009</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c402t-46ac35a1e4bd2305f457a3fa432b92996fdecdfc15d51e5e3cce4c19621ee7493</citedby><cites>FETCH-LOGICAL-c402t-46ac35a1e4bd2305f457a3fa432b92996fdecdfc15d51e5e3cce4c19621ee7493</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/s10709-009-9393-8$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10709-009-9393-8$$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/19636802$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>de Campos Vaz, Ana Rosa</creatorcontrib><creatorcontrib>de Oliveira Borba, Tereza Cristina</creatorcontrib><creatorcontrib>Brondani, Claudio</creatorcontrib><creatorcontrib>Rangel, Paulo Hideo Nakano</creatorcontrib><creatorcontrib>de Oliveira Camargo, Graziela Silvia</creatorcontrib><creatorcontrib>de Campos Telles, Mariana Pires</creatorcontrib><creatorcontrib>Filho, José Alexandre Felizola Diniz</creatorcontrib><creatorcontrib>Brondani, Rosana Pereira Vianello</creatorcontrib><title>Genetic analysis of a local population of Oryza glumaepatula using SSR markers: implications for management and conservation programs</title><title>Genetica</title><addtitle>Genetica</addtitle><addtitle>Genetica</addtitle><description>Knowledge of natural diversity and population structures of wild species, which might be related to cultivated species, is fundamental for conservation and breeding purposes. In this study, a genetic characterization of a large population of
Oryza glumaepatula
, occurring in a 10 km
2
area located at Tamengo Basin (Paraguay River, Brazil), was performed using SSR markers. This population is annually dragged from the river to permit navigation; one goal of this study was to examine the impact of this removal on genetic variability. From 18 polymorphic SSR markers, a total of 190 alleles were detected in a sample of 126 individuals, with an average of 10.3 alleles/locus, and a
H
e
of 0.67. The five QTL-related markers showed an average
H
e
value of 0.56, while the remaining 13 markers detected an average estimate of 0.70. An apparent outcrossing rate of 30%, a high proportion of alleles at low frequencies (56%), and the presence of exclusive alleles (9.5%) were found, with strong evidence of the establishment of individuals from different populations upstream in the Paraguay River. For conservation purposes, the river drag has no effect on the population. However, periodical seed collection from the Corumbá population can preserve part of the genetic variability present in upstream populations reducing the need for upriver collecting expeditions.</description><subject>Animal Genetics and Genomics</subject><subject>Biomedical and Life Sciences</subject><subject>Brazil</subject><subject>Cluster Analysis</subject><subject>Conservation of Natural Resources - methods</subject><subject>Evolutionary Biology</subject><subject>Gene Frequency</subject><subject>Genetic Markers - genetics</subject><subject>Genetic Variation</subject><subject>Genetics, Population</subject><subject>Human Genetics</subject><subject>Life Sciences</subject><subject>Local population</subject><subject>Microbial Genetics and Genomics</subject><subject>Minisatellite Repeats - genetics</subject><subject>Oryza - genetics</subject><subject>Oryza glumaepatula</subject><subject>Plant Genetics and Genomics</subject><subject>Quantitative Trait Loci - genetics</subject><subject>Rivers</subject><subject>Seed collection</subject><subject>Upstream</subject><issn>0016-6707</issn><issn>1573-6857</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2009</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>eNqFkUtr3TAQhUVpaW7S_oBuiuimK6d6y8ouhOYBgUDTroWuPDZOZcuR7MLNvv-7uvWFQKB0IQQz35zDzEHoAyWnlBD9JVOiialIeYYbXtWv0IZKzStVS_0abQihqlKa6CN0nPMDKaBW5i06okZxVRO2Qb-vYIS599iNLuxyn3FsscMhehfwFKcluLmP4756l3ZPDndhGRxMbi4dvOR-7PD9_Tc8uPQTUj7D_TCF3v8dyriNqXRG18EA41w8GuxLHdKvVXVKsUtuyO_Qm9aFDO8P_wn6cfn1-8V1dXt3dXNxflt5QdhcCeU8l46C2DaME9kKqR1vneBsa5gxqm3AN62nspEUJHDvQfiyLKMAWhh-gj6vusX4cYE826HPHkJwI8QlWyOFIoZQ9l9Sc0GU0YYX8tML8iEuqVwzW8aVrpmu9xBdIZ9izglaO6W-3GxnKbH7LO2apS0R2X2Wti4zHw_Cy3aA5nniEF4B2Ark0ho7SM_O_1b9AwPDq_M</recordid><startdate>20091101</startdate><enddate>20091101</enddate><creator>de Campos Vaz, Ana Rosa</creator><creator>de Oliveira Borba, Tereza Cristina</creator><creator>Brondani, Claudio</creator><creator>Rangel, Paulo Hideo Nakano</creator><creator>de Oliveira Camargo, Graziela Silvia</creator><creator>de Campos Telles, Mariana Pires</creator><creator>Filho, José Alexandre Felizola Diniz</creator><creator>Brondani, Rosana Pereira Vianello</creator><general>Springer Netherlands</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>3V.</scope><scope>7QL</scope><scope>7SN</scope><scope>7SS</scope><scope>7T7</scope><scope>7TK</scope><scope>7U9</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>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20091101</creationdate><title>Genetic analysis of a local population of Oryza glumaepatula using SSR markers: implications for management and conservation programs</title><author>de Campos Vaz, Ana Rosa ; de Oliveira Borba, Tereza Cristina ; Brondani, Claudio ; Rangel, Paulo Hideo Nakano ; de Oliveira Camargo, Graziela Silvia ; de Campos Telles, Mariana Pires ; Filho, José Alexandre Felizola Diniz ; Brondani, Rosana Pereira Vianello</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c402t-46ac35a1e4bd2305f457a3fa432b92996fdecdfc15d51e5e3cce4c19621ee7493</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2009</creationdate><topic>Animal Genetics and Genomics</topic><topic>Biomedical and Life Sciences</topic><topic>Brazil</topic><topic>Cluster Analysis</topic><topic>Conservation of Natural Resources - methods</topic><topic>Evolutionary Biology</topic><topic>Gene Frequency</topic><topic>Genetic Markers - genetics</topic><topic>Genetic Variation</topic><topic>Genetics, Population</topic><topic>Human Genetics</topic><topic>Life Sciences</topic><topic>Local population</topic><topic>Microbial Genetics and Genomics</topic><topic>Minisatellite Repeats - genetics</topic><topic>Oryza - genetics</topic><topic>Oryza glumaepatula</topic><topic>Plant Genetics and Genomics</topic><topic>Quantitative Trait Loci - genetics</topic><topic>Rivers</topic><topic>Seed collection</topic><topic>Upstream</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>de Campos Vaz, Ana Rosa</creatorcontrib><creatorcontrib>de Oliveira Borba, Tereza Cristina</creatorcontrib><creatorcontrib>Brondani, Claudio</creatorcontrib><creatorcontrib>Rangel, Paulo Hideo Nakano</creatorcontrib><creatorcontrib>de Oliveira Camargo, Graziela Silvia</creatorcontrib><creatorcontrib>de Campos Telles, Mariana Pires</creatorcontrib><creatorcontrib>Filho, José Alexandre Felizola Diniz</creatorcontrib><creatorcontrib>Brondani, Rosana Pereira Vianello</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Neurosciences Abstracts</collection><collection>Virology and AIDS 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>Environmental Sciences and Pollution Management</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>AIDS and Cancer Research Abstracts</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>Algology Mycology and Protozoology Abstracts (Microbiology C)</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>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Genetica</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>de Campos Vaz, Ana Rosa</au><au>de Oliveira Borba, Tereza Cristina</au><au>Brondani, Claudio</au><au>Rangel, Paulo Hideo Nakano</au><au>de Oliveira Camargo, Graziela Silvia</au><au>de Campos Telles, Mariana Pires</au><au>Filho, José Alexandre Felizola Diniz</au><au>Brondani, Rosana Pereira Vianello</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genetic analysis of a local population of Oryza glumaepatula using SSR markers: implications for management and conservation programs</atitle><jtitle>Genetica</jtitle><stitle>Genetica</stitle><addtitle>Genetica</addtitle><date>2009-11-01</date><risdate>2009</risdate><volume>137</volume><issue>2</issue><spage>221</spage><epage>231</epage><pages>221-231</pages><issn>0016-6707</issn><eissn>1573-6857</eissn><abstract>Knowledge of natural diversity and population structures of wild species, which might be related to cultivated species, is fundamental for conservation and breeding purposes. In this study, a genetic characterization of a large population of
Oryza glumaepatula
, occurring in a 10 km
2
area located at Tamengo Basin (Paraguay River, Brazil), was performed using SSR markers. This population is annually dragged from the river to permit navigation; one goal of this study was to examine the impact of this removal on genetic variability. From 18 polymorphic SSR markers, a total of 190 alleles were detected in a sample of 126 individuals, with an average of 10.3 alleles/locus, and a
H
e
of 0.67. The five QTL-related markers showed an average
H
e
value of 0.56, while the remaining 13 markers detected an average estimate of 0.70. An apparent outcrossing rate of 30%, a high proportion of alleles at low frequencies (56%), and the presence of exclusive alleles (9.5%) were found, with strong evidence of the establishment of individuals from different populations upstream in the Paraguay River. For conservation purposes, the river drag has no effect on the population. However, periodical seed collection from the Corumbá population can preserve part of the genetic variability present in upstream populations reducing the need for upriver collecting expeditions.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><pmid>19636802</pmid><doi>10.1007/s10709-009-9393-8</doi><tpages>11</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0016-6707 |
| ispartof | Genetica, 2009-11, Vol.137 (2), p.221-231 |
| issn | 0016-6707 1573-6857 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_954609012 |
| source | MEDLINE; SpringerLink Journals - AutoHoldings |
| subjects | Animal Genetics and Genomics Biomedical and Life Sciences Brazil Cluster Analysis Conservation of Natural Resources - methods Evolutionary Biology Gene Frequency Genetic Markers - genetics Genetic Variation Genetics, Population Human Genetics Life Sciences Local population Microbial Genetics and Genomics Minisatellite Repeats - genetics Oryza - genetics Oryza glumaepatula Plant Genetics and Genomics Quantitative Trait Loci - genetics Rivers Seed collection Upstream |
| title | Genetic analysis of a local population of Oryza glumaepatula using SSR markers: implications for management and conservation programs |
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