DNA polymorphism at the Pgi locus of a wild yam, Dioscorea tokoro
To study the origin and maintenance mechanisms of the PGI allozyme polymorphism of a wild plant, Dioscorea tokoro, DNA sequences of the entire coding region (1701 bp) and two intronic regions (total 2049 bp) of the Pgi gene as well as a part of the Adh gene (590 bp) were analyzed. Two replacement su...
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| Veröffentlicht in: | Genetics (Austin) 1997-12, Vol.147 (4), p.1899-1914 |
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| creator | Terauchi, R. (University of Frankfurt, Germany.) Terachi, T Miyashita, N.T |
| description | To study the origin and maintenance mechanisms of the PGI allozyme polymorphism of a wild plant, Dioscorea tokoro, DNA sequences of the entire coding region (1701 bp) and two intronic regions (total 2049 bp) of the Pgi gene as well as a part of the Adh gene (590 bp) were analyzed. Two replacement substitutions were revealed to be responsible for the differentiation of three allozymes alleles (Pgi-a, Pgi-b and Pgi-c) that occur in natural population in intermediate frequencies. Interspecific comparison of DNA sequences identified Pgi-b as the oldest allele, from which two other alleles were derived probably within the last 150,000 years. The level of DNA polymorphism at D. tokoro Pgi locus was low. No elevated level of DNA polymorphism was detected in the close vicinity of the two replacement sites differentiating the three allozymes. Departures from the neutral mutation hypothesis were detected by Fu and Li's and MK tests. The observed patterns of DNA polymorphism are explainable by both (1) the neutral mutation hypothesis with an assumption of small effective size of D. tokoro population, and (2) the positive selection hypothesis that the allele frequencies of Pgi-a and Pgi-c have increased in a short time by their selective advantages. |
| doi_str_mv | 10.1093/genetics/147.4.1899 |
| format | Article |
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(University of Frankfurt, Germany.) ; Terachi, T ; Miyashita, N.T</creator><creatorcontrib>Terauchi, R. (University of Frankfurt, Germany.) ; Terachi, T ; Miyashita, N.T</creatorcontrib><description>To study the origin and maintenance mechanisms of the PGI allozyme polymorphism of a wild plant, Dioscorea tokoro, DNA sequences of the entire coding region (1701 bp) and two intronic regions (total 2049 bp) of the Pgi gene as well as a part of the Adh gene (590 bp) were analyzed. Two replacement substitutions were revealed to be responsible for the differentiation of three allozymes alleles (Pgi-a, Pgi-b and Pgi-c) that occur in natural population in intermediate frequencies. Interspecific comparison of DNA sequences identified Pgi-b as the oldest allele, from which two other alleles were derived probably within the last 150,000 years. The level of DNA polymorphism at D. tokoro Pgi locus was low. No elevated level of DNA polymorphism was detected in the close vicinity of the two replacement sites differentiating the three allozymes. Departures from the neutral mutation hypothesis were detected by Fu and Li's and MK tests. The observed patterns of DNA polymorphism are explainable by both (1) the neutral mutation hypothesis with an assumption of small effective size of D. tokoro population, and (2) the positive selection hypothesis that the allele frequencies of Pgi-a and Pgi-c have increased in a short time by their selective advantages.</description><identifier>ISSN: 0016-6731</identifier><identifier>ISSN: 1943-2631</identifier><identifier>EISSN: 1943-2631</identifier><identifier>DOI: 10.1093/genetics/147.4.1899</identifier><identifier>PMID: 9409845</identifier><identifier>CODEN: GENTAE</identifier><language>eng</language><publisher>United States: Genetics Soc America</publisher><subject>ADH GENE ; ADN ; ALCOHOL DEHYDROGENASE ; Alcohol Dehydrogenase - genetics ; ALCOHOL DESHIDROGENASA ; ALCOOL DESHYDROGENASE ; ALLOENZYMES ; ALLOZYME ; ALLOZYMES ; ALOZIMAS ; Amino Acid Sequence ; AMINO ACID SEQUENCES ; Amino Acids - metabolism ; Base Sequence ; Botany ; CHEMICAL COMPOSITION ; COMPLEMENTARY DNA ; COMPOSICION QUIMICA ; COMPOSITION CHIMIQUE ; Deoxyribonucleic acid ; DIOSCOREA ; DIOSCOREA QUINQUELOBA ; DIOSCOREA TENUIPES ; DNA ; DNA, Plant ; ENZYME POLYMORPHISM ; EXONS ; Flowers & plants ; GENBANK/AB006001 ; GENBANK/AB006002 ; GENBANK/AB006088 ; GENBANK/D88913 ; GENBANK/D88914 ; GENBANK/D88915 ; GENBANK/D88916 ; GENBANK/D88917 ; GENBANK/D88918 ; GENBANK/D88919 ; GENBANK/D88920 ; GENBANK/D88921 ; GENBANK/D88922 ; GENBANK/D88923 ; GENBANK/D88924 ; GENBANK/D88925 ; GENBANK/D88926 ; GENBANK/D88927 ; GENBANK/D88928 ; GENBANK/D88929 ; GENBANK/D88930 ; GENBANK/D88931 ; GENBANK/D88932 ; GENBANK/D88933 ; GENBANK/D88934 ; GENBANK/D88935 ; GENBANK/D88936 ; GENBANK/D88937 ; GENBANK/D88938 ; GENBANK/D88939 ; GENE ; GENES ; Genes, Plant ; GENETIC POLYMORPHISM ; GENOTIPOS ; GENOTYPE ; GENOTYPES ; GLUCOSA 6 FOSFATO ISOMERASA ; GLUCOSE 6 PHOSPHATE ISOMERASE ; Glucose-6-Phosphate Isomerase - genetics ; HAPLOTYPES ; HONSHU ; INTRONS ; Investigations ; JAPAN ; JAPON ; MOLECULAR SEQUENCE DATA ; MUTACION ; MUTATION ; NUCLEOTIDE SEQUENCE ; PGI GENE ; POLIMORFISMO ENZIMATICO ; POLIMORFISMO GENETICO ; Polymorphism, Genetic ; POLYMORPHISME ENZYMATIQUE ; POLYMORPHISME GENETIQUE ; SECUENCIA NUCLEOTIDICA ; SEQUENCE NUCLEOTIDIQUE ; Solanaceae - enzymology ; Solanaceae - genetics ; Solanaceae - metabolism ; STRUCTURAL GENES</subject><ispartof>Genetics (Austin), 1997-12, Vol.147 (4), p.1899-1914</ispartof><rights>Copyright Genetics Society of America Dec 1997</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c578t-6cc1691ddb0563176264c4be781f8f0b3dc79bed14acd602a95ea2da711a17483</citedby></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/9409845$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Terauchi, R. (University of Frankfurt, Germany.)</creatorcontrib><creatorcontrib>Terachi, T</creatorcontrib><creatorcontrib>Miyashita, N.T</creatorcontrib><title>DNA polymorphism at the Pgi locus of a wild yam, Dioscorea tokoro</title><title>Genetics (Austin)</title><addtitle>Genetics</addtitle><description>To study the origin and maintenance mechanisms of the PGI allozyme polymorphism of a wild plant, Dioscorea tokoro, DNA sequences of the entire coding region (1701 bp) and two intronic regions (total 2049 bp) of the Pgi gene as well as a part of the Adh gene (590 bp) were analyzed. Two replacement substitutions were revealed to be responsible for the differentiation of three allozymes alleles (Pgi-a, Pgi-b and Pgi-c) that occur in natural population in intermediate frequencies. Interspecific comparison of DNA sequences identified Pgi-b as the oldest allele, from which two other alleles were derived probably within the last 150,000 years. The level of DNA polymorphism at D. tokoro Pgi locus was low. No elevated level of DNA polymorphism was detected in the close vicinity of the two replacement sites differentiating the three allozymes. Departures from the neutral mutation hypothesis were detected by Fu and Li's and MK tests. The observed patterns of DNA polymorphism are explainable by both (1) the neutral mutation hypothesis with an assumption of small effective size of D. tokoro population, and (2) the positive selection hypothesis that the allele frequencies of Pgi-a and Pgi-c have increased in a short time by their selective advantages.</description><subject>ADH GENE</subject><subject>ADN</subject><subject>ALCOHOL DEHYDROGENASE</subject><subject>Alcohol Dehydrogenase - genetics</subject><subject>ALCOHOL DESHIDROGENASA</subject><subject>ALCOOL DESHYDROGENASE</subject><subject>ALLOENZYMES</subject><subject>ALLOZYME</subject><subject>ALLOZYMES</subject><subject>ALOZIMAS</subject><subject>Amino Acid Sequence</subject><subject>AMINO ACID SEQUENCES</subject><subject>Amino Acids - metabolism</subject><subject>Base Sequence</subject><subject>Botany</subject><subject>CHEMICAL COMPOSITION</subject><subject>COMPLEMENTARY DNA</subject><subject>COMPOSICION QUIMICA</subject><subject>COMPOSITION CHIMIQUE</subject><subject>Deoxyribonucleic acid</subject><subject>DIOSCOREA</subject><subject>DIOSCOREA QUINQUELOBA</subject><subject>DIOSCOREA TENUIPES</subject><subject>DNA</subject><subject>DNA, Plant</subject><subject>ENZYME POLYMORPHISM</subject><subject>EXONS</subject><subject>Flowers & plants</subject><subject>GENBANK/AB006001</subject><subject>GENBANK/AB006002</subject><subject>GENBANK/AB006088</subject><subject>GENBANK/D88913</subject><subject>GENBANK/D88914</subject><subject>GENBANK/D88915</subject><subject>GENBANK/D88916</subject><subject>GENBANK/D88917</subject><subject>GENBANK/D88918</subject><subject>GENBANK/D88919</subject><subject>GENBANK/D88920</subject><subject>GENBANK/D88921</subject><subject>GENBANK/D88922</subject><subject>GENBANK/D88923</subject><subject>GENBANK/D88924</subject><subject>GENBANK/D88925</subject><subject>GENBANK/D88926</subject><subject>GENBANK/D88927</subject><subject>GENBANK/D88928</subject><subject>GENBANK/D88929</subject><subject>GENBANK/D88930</subject><subject>GENBANK/D88931</subject><subject>GENBANK/D88932</subject><subject>GENBANK/D88933</subject><subject>GENBANK/D88934</subject><subject>GENBANK/D88935</subject><subject>GENBANK/D88936</subject><subject>GENBANK/D88937</subject><subject>GENBANK/D88938</subject><subject>GENBANK/D88939</subject><subject>GENE</subject><subject>GENES</subject><subject>Genes, Plant</subject><subject>GENETIC POLYMORPHISM</subject><subject>GENOTIPOS</subject><subject>GENOTYPE</subject><subject>GENOTYPES</subject><subject>GLUCOSA 6 FOSFATO ISOMERASA</subject><subject>GLUCOSE 6 PHOSPHATE ISOMERASE</subject><subject>Glucose-6-Phosphate Isomerase - genetics</subject><subject>HAPLOTYPES</subject><subject>HONSHU</subject><subject>INTRONS</subject><subject>Investigations</subject><subject>JAPAN</subject><subject>JAPON</subject><subject>MOLECULAR SEQUENCE DATA</subject><subject>MUTACION</subject><subject>MUTATION</subject><subject>NUCLEOTIDE SEQUENCE</subject><subject>PGI GENE</subject><subject>POLIMORFISMO ENZIMATICO</subject><subject>POLIMORFISMO GENETICO</subject><subject>Polymorphism, Genetic</subject><subject>POLYMORPHISME ENZYMATIQUE</subject><subject>POLYMORPHISME GENETIQUE</subject><subject>SECUENCIA NUCLEOTIDICA</subject><subject>SEQUENCE NUCLEOTIDIQUE</subject><subject>Solanaceae - enzymology</subject><subject>Solanaceae - genetics</subject><subject>Solanaceae - metabolism</subject><subject>STRUCTURAL GENES</subject><issn>0016-6731</issn><issn>1943-2631</issn><issn>1943-2631</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1997</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkU9v1DAQxS0EKkvhEyAkiwNcyNbjOP5zQVq1UCpVgAQ9W47jJC5JvNgJ0X57stptBRUSpzm8N09v5ofQSyBrICo_a9zgRm_TGTCxZmuQSj1CK1AszyjP4TFaEQI84yKHp-hZSreEEK4KeYJOFCNKsmKFNhefN3gbul0f4rb1qcdmxGPr8NfG4y7YKeFQY4Nn31V4Z_p3-MKHZEN0Bo_hR4jhOXpSmy65F8d5im4-fvh-_im7_nJ5db65zmwh5Jhxa4ErqKqSFEs5wSlnlpVOSKhlTcq8skKVrgJmbMUJNapwhlZGABgQTOan6P0hdzuVvausG8ZoOr2Nvjdxp4Px-m9l8K1uwi8NlMi8KJaAN8eAGH5OLo2698m6rjODC1PSQjEpgLL_GoFTCQXZG18_MN6GKQ7LFzQFtkQpuu-dH0w2hpSiq-8rA9F7jvqOo144aqb3HJetV39ee79zBLfobw9665t29tHp1JuuW9yg53n-V1JtgjZN9EnffAOlBJGUCJn_BleisQo</recordid><startdate>199712</startdate><enddate>199712</enddate><creator>Terauchi, R. (University of Frankfurt, Germany.)</creator><creator>Terachi, T</creator><creator>Miyashita, N.T</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>7X8</scope><scope>5PM</scope></search><sort><creationdate>199712</creationdate><title>DNA polymorphism at the Pgi locus of a wild yam, Dioscorea tokoro</title><author>Terauchi, R. (University of Frankfurt, Germany.) ; Terachi, T ; Miyashita, N.T</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c578t-6cc1691ddb0563176264c4be781f8f0b3dc79bed14acd602a95ea2da711a17483</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1997</creationdate><topic>ADH GENE</topic><topic>ADN</topic><topic>ALCOHOL DEHYDROGENASE</topic><topic>Alcohol Dehydrogenase - genetics</topic><topic>ALCOHOL DESHIDROGENASA</topic><topic>ALCOOL DESHYDROGENASE</topic><topic>ALLOENZYMES</topic><topic>ALLOZYME</topic><topic>ALLOZYMES</topic><topic>ALOZIMAS</topic><topic>Amino Acid Sequence</topic><topic>AMINO ACID SEQUENCES</topic><topic>Amino Acids - metabolism</topic><topic>Base Sequence</topic><topic>Botany</topic><topic>CHEMICAL COMPOSITION</topic><topic>COMPLEMENTARY DNA</topic><topic>COMPOSICION QUIMICA</topic><topic>COMPOSITION CHIMIQUE</topic><topic>Deoxyribonucleic acid</topic><topic>DIOSCOREA</topic><topic>DIOSCOREA QUINQUELOBA</topic><topic>DIOSCOREA TENUIPES</topic><topic>DNA</topic><topic>DNA, Plant</topic><topic>ENZYME POLYMORPHISM</topic><topic>EXONS</topic><topic>Flowers & plants</topic><topic>GENBANK/AB006001</topic><topic>GENBANK/AB006002</topic><topic>GENBANK/AB006088</topic><topic>GENBANK/D88913</topic><topic>GENBANK/D88914</topic><topic>GENBANK/D88915</topic><topic>GENBANK/D88916</topic><topic>GENBANK/D88917</topic><topic>GENBANK/D88918</topic><topic>GENBANK/D88919</topic><topic>GENBANK/D88920</topic><topic>GENBANK/D88921</topic><topic>GENBANK/D88922</topic><topic>GENBANK/D88923</topic><topic>GENBANK/D88924</topic><topic>GENBANK/D88925</topic><topic>GENBANK/D88926</topic><topic>GENBANK/D88927</topic><topic>GENBANK/D88928</topic><topic>GENBANK/D88929</topic><topic>GENBANK/D88930</topic><topic>GENBANK/D88931</topic><topic>GENBANK/D88932</topic><topic>GENBANK/D88933</topic><topic>GENBANK/D88934</topic><topic>GENBANK/D88935</topic><topic>GENBANK/D88936</topic><topic>GENBANK/D88937</topic><topic>GENBANK/D88938</topic><topic>GENBANK/D88939</topic><topic>GENE</topic><topic>GENES</topic><topic>Genes, Plant</topic><topic>GENETIC POLYMORPHISM</topic><topic>GENOTIPOS</topic><topic>GENOTYPE</topic><topic>GENOTYPES</topic><topic>GLUCOSA 6 FOSFATO ISOMERASA</topic><topic>GLUCOSE 6 PHOSPHATE ISOMERASE</topic><topic>Glucose-6-Phosphate Isomerase - genetics</topic><topic>HAPLOTYPES</topic><topic>HONSHU</topic><topic>INTRONS</topic><topic>Investigations</topic><topic>JAPAN</topic><topic>JAPON</topic><topic>MOLECULAR SEQUENCE DATA</topic><topic>MUTACION</topic><topic>MUTATION</topic><topic>NUCLEOTIDE SEQUENCE</topic><topic>PGI GENE</topic><topic>POLIMORFISMO ENZIMATICO</topic><topic>POLIMORFISMO GENETICO</topic><topic>Polymorphism, Genetic</topic><topic>POLYMORPHISME ENZYMATIQUE</topic><topic>POLYMORPHISME GENETIQUE</topic><topic>SECUENCIA NUCLEOTIDICA</topic><topic>SEQUENCE NUCLEOTIDIQUE</topic><topic>Solanaceae - enzymology</topic><topic>Solanaceae - genetics</topic><topic>Solanaceae - metabolism</topic><topic>STRUCTURAL GENES</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Terauchi, R. 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(University of Frankfurt, Germany.)</au><au>Terachi, T</au><au>Miyashita, N.T</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>DNA polymorphism at the Pgi locus of a wild yam, Dioscorea tokoro</atitle><jtitle>Genetics (Austin)</jtitle><addtitle>Genetics</addtitle><date>1997-12</date><risdate>1997</risdate><volume>147</volume><issue>4</issue><spage>1899</spage><epage>1914</epage><pages>1899-1914</pages><issn>0016-6731</issn><issn>1943-2631</issn><eissn>1943-2631</eissn><coden>GENTAE</coden><abstract>To study the origin and maintenance mechanisms of the PGI allozyme polymorphism of a wild plant, Dioscorea tokoro, DNA sequences of the entire coding region (1701 bp) and two intronic regions (total 2049 bp) of the Pgi gene as well as a part of the Adh gene (590 bp) were analyzed. Two replacement substitutions were revealed to be responsible for the differentiation of three allozymes alleles (Pgi-a, Pgi-b and Pgi-c) that occur in natural population in intermediate frequencies. Interspecific comparison of DNA sequences identified Pgi-b as the oldest allele, from which two other alleles were derived probably within the last 150,000 years. The level of DNA polymorphism at D. tokoro Pgi locus was low. No elevated level of DNA polymorphism was detected in the close vicinity of the two replacement sites differentiating the three allozymes. Departures from the neutral mutation hypothesis were detected by Fu and Li's and MK tests. The observed patterns of DNA polymorphism are explainable by both (1) the neutral mutation hypothesis with an assumption of small effective size of D. tokoro population, and (2) the positive selection hypothesis that the allele frequencies of Pgi-a and Pgi-c have increased in a short time by their selective advantages.</abstract><cop>United States</cop><pub>Genetics Soc America</pub><pmid>9409845</pmid><doi>10.1093/genetics/147.4.1899</doi><tpages>16</tpages><oa>free_for_read</oa></addata></record> |
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| identifier | ISSN: 0016-6731 |
| ispartof | Genetics (Austin), 1997-12, Vol.147 (4), p.1899-1914 |
| issn | 0016-6731 1943-2631 1943-2631 |
| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_1208355 |
| source | Oxford University Press Journals All Titles (1996-Current); MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Alma/SFX Local Collection |
| subjects | ADH GENE ADN ALCOHOL DEHYDROGENASE Alcohol Dehydrogenase - genetics ALCOHOL DESHIDROGENASA ALCOOL DESHYDROGENASE ALLOENZYMES ALLOZYME ALLOZYMES ALOZIMAS Amino Acid Sequence AMINO ACID SEQUENCES Amino Acids - metabolism Base Sequence Botany CHEMICAL COMPOSITION COMPLEMENTARY DNA COMPOSICION QUIMICA COMPOSITION CHIMIQUE Deoxyribonucleic acid DIOSCOREA DIOSCOREA QUINQUELOBA DIOSCOREA TENUIPES DNA DNA, Plant ENZYME POLYMORPHISM EXONS Flowers & plants GENBANK/AB006001 GENBANK/AB006002 GENBANK/AB006088 GENBANK/D88913 GENBANK/D88914 GENBANK/D88915 GENBANK/D88916 GENBANK/D88917 GENBANK/D88918 GENBANK/D88919 GENBANK/D88920 GENBANK/D88921 GENBANK/D88922 GENBANK/D88923 GENBANK/D88924 GENBANK/D88925 GENBANK/D88926 GENBANK/D88927 GENBANK/D88928 GENBANK/D88929 GENBANK/D88930 GENBANK/D88931 GENBANK/D88932 GENBANK/D88933 GENBANK/D88934 GENBANK/D88935 GENBANK/D88936 GENBANK/D88937 GENBANK/D88938 GENBANK/D88939 GENE GENES Genes, Plant GENETIC POLYMORPHISM GENOTIPOS GENOTYPE GENOTYPES GLUCOSA 6 FOSFATO ISOMERASA GLUCOSE 6 PHOSPHATE ISOMERASE Glucose-6-Phosphate Isomerase - genetics HAPLOTYPES HONSHU INTRONS Investigations JAPAN JAPON MOLECULAR SEQUENCE DATA MUTACION MUTATION NUCLEOTIDE SEQUENCE PGI GENE POLIMORFISMO ENZIMATICO POLIMORFISMO GENETICO Polymorphism, Genetic POLYMORPHISME ENZYMATIQUE POLYMORPHISME GENETIQUE SECUENCIA NUCLEOTIDICA SEQUENCE NUCLEOTIDIQUE Solanaceae - enzymology Solanaceae - genetics Solanaceae - metabolism STRUCTURAL GENES |
| title | DNA polymorphism at the Pgi locus of a wild yam, Dioscorea tokoro |
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