Genetic structure and diversity in relation to the recently reduced population size of the rare conifer, Pseudotsuga japonica, endemic to Japan
Rare species consisting of small populations are subject to random genetic drift, which reduces genetic diversity. Thus, determining the relationship between population size and genetic diversity would provide key information for planning a conservation strategy for rare species. We used six microsa...
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| Veröffentlicht in: | Conservation genetics 2018-10, Vol.19 (5), p.1243-1255 |
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| creator | Tamaki, Satoshi Isoda, Keiya Takahashi, Makoto Yamada, Hiroo Yamashita, Yumiko |
| description | Rare species consisting of small populations are subject to random genetic drift, which reduces genetic diversity. Thus, determining the relationship between population size and genetic diversity would provide key information for planning a conservation strategy for rare species. We used six microsatellite markers to investigate seven extant populations of the rare conifer
Pseudotsuga japonica
, which is endemic to the Kii Peninsula and Shikoku Island regions that are geographically separated by the Kii Channel in southwest Japan. The population differentiation of
P. japonica
was relatively high (
F
ST
= 0.101) for a coniferous species, suggesting limited gene flow among populations. As expected, significant regional differentiation (AMOVA;
p
|
| doi_str_mv | 10.1007/s10592-018-1092-5 |
| format | Article |
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Pseudotsuga japonica
, which is endemic to the Kii Peninsula and Shikoku Island regions that are geographically separated by the Kii Channel in southwest Japan. The population differentiation of
P. japonica
was relatively high (
F
ST
= 0.101) for a coniferous species, suggesting limited gene flow among populations. As expected, significant regional differentiation (AMOVA;
p
< 0.05) indicated genetic divergence across the Kii Channel. A strong positive correlation between census population size and the number of rare alleles (r = 0.862,
p
< 0.05) was found, but correlations with major indices of genetic diversity were not significant (allelic richness: r = 0.649,
p
= 0.104, expected heterozygosity: r = 0.361,
p
= 0.426). The observed order of magnitude of correlation with three genetic diversity indices corresponded with the theoretically expected order of each index’ sensitivity (i.e., the rate of decline per generation) to the bottleneck event. Thus, features that exhibit a faster response, i.e., the number of rare alleles, would have been subject to deleterious effects of the recent decline in population size, which is presumably caused by the development of extensive artificial plantations of other tree species over the last several decades. Finally, we propose a conservation plan for
P. japonica
based on our findings.</description><identifier>ISSN: 1566-0621</identifier><identifier>EISSN: 1572-9737</identifier><identifier>DOI: 10.1007/s10592-018-1092-5</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Alleles ; Animal Genetics and Genomics ; Biodiversity ; Biomedical and Life Sciences ; Conservation ; Conservation Biology/Ecology ; Correlation ; Differentiation ; Divergence ; Diversity indices ; Ecology ; Endemic species ; Evolutionary Biology ; Gene flow ; Genetic diversity ; Genetic drift ; Genetic markers ; Genetic structure ; Heterozygosity ; Life Sciences ; Microsatellites ; Plant Genetics and Genomics ; Plant species ; Plantations ; Population ; Population decline ; Population differentiation ; Population genetics ; Population number ; Populations ; Pseudotsuga ; Rare species ; Research Article ; Wildlife conservation</subject><ispartof>Conservation genetics, 2018-10, Vol.19 (5), p.1243-1255</ispartof><rights>Springer Nature B.V. 2018</rights><rights>Conservation Genetics is a copyright of Springer, (2018). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c382t-45504e8a0b6c9ce7cdaac88101bec73f01660dc03cfabf401f4b574e37d9bb9f3</citedby><cites>FETCH-LOGICAL-c382t-45504e8a0b6c9ce7cdaac88101bec73f01660dc03cfabf401f4b574e37d9bb9f3</cites><orcidid>0000-0001-9099-1036</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s10592-018-1092-5$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s10592-018-1092-5$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids></links><search><creatorcontrib>Tamaki, Satoshi</creatorcontrib><creatorcontrib>Isoda, Keiya</creatorcontrib><creatorcontrib>Takahashi, Makoto</creatorcontrib><creatorcontrib>Yamada, Hiroo</creatorcontrib><creatorcontrib>Yamashita, Yumiko</creatorcontrib><title>Genetic structure and diversity in relation to the recently reduced population size of the rare conifer, Pseudotsuga japonica, endemic to Japan</title><title>Conservation genetics</title><addtitle>Conserv Genet</addtitle><description>Rare species consisting of small populations are subject to random genetic drift, which reduces genetic diversity. Thus, determining the relationship between population size and genetic diversity would provide key information for planning a conservation strategy for rare species. We used six microsatellite markers to investigate seven extant populations of the rare conifer
Pseudotsuga japonica
, which is endemic to the Kii Peninsula and Shikoku Island regions that are geographically separated by the Kii Channel in southwest Japan. The population differentiation of
P. japonica
was relatively high (
F
ST
= 0.101) for a coniferous species, suggesting limited gene flow among populations. As expected, significant regional differentiation (AMOVA;
p
< 0.05) indicated genetic divergence across the Kii Channel. A strong positive correlation between census population size and the number of rare alleles (r = 0.862,
p
< 0.05) was found, but correlations with major indices of genetic diversity were not significant (allelic richness: r = 0.649,
p
= 0.104, expected heterozygosity: r = 0.361,
p
= 0.426). The observed order of magnitude of correlation with three genetic diversity indices corresponded with the theoretically expected order of each index’ sensitivity (i.e., the rate of decline per generation) to the bottleneck event. Thus, features that exhibit a faster response, i.e., the number of rare alleles, would have been subject to deleterious effects of the recent decline in population size, which is presumably caused by the development of extensive artificial plantations of other tree species over the last several decades. Finally, we propose a conservation plan for
P. japonica
based on our findings.</description><subject>Alleles</subject><subject>Animal Genetics and Genomics</subject><subject>Biodiversity</subject><subject>Biomedical and Life Sciences</subject><subject>Conservation</subject><subject>Conservation Biology/Ecology</subject><subject>Correlation</subject><subject>Differentiation</subject><subject>Divergence</subject><subject>Diversity indices</subject><subject>Ecology</subject><subject>Endemic species</subject><subject>Evolutionary Biology</subject><subject>Gene flow</subject><subject>Genetic diversity</subject><subject>Genetic drift</subject><subject>Genetic markers</subject><subject>Genetic structure</subject><subject>Heterozygosity</subject><subject>Life Sciences</subject><subject>Microsatellites</subject><subject>Plant Genetics and Genomics</subject><subject>Plant species</subject><subject>Plantations</subject><subject>Population</subject><subject>Population decline</subject><subject>Population differentiation</subject><subject>Population genetics</subject><subject>Population number</subject><subject>Populations</subject><subject>Pseudotsuga</subject><subject>Rare species</subject><subject>Research Article</subject><subject>Wildlife conservation</subject><issn>1566-0621</issn><issn>1572-9737</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp1kM1KAzEUhQdRUKsP4C7gtqM385eZpRStSkEXug6Z5KZOqcmYH6G-hK9sygiuXN1zw3fOJSfLLihcUQB27SnUXZEDbXMKSdQH2QmtWZF3rGSHe900OTQFPc5Ovd8A0KZg9CT7XqLBMEjig4syRIdEGEXU8InOD2FHBkMcbkUYrCHBkvCGaZdownaXhIoSFRntGH8RP3whsXriREqT1gwa3Zw8e4zKBh_XgmzEmJ6lmBM0Ct_T-RT9KEZhzrIjLbYez3_nLHu9u31Z3Oerp-XD4maVy7ItQl7VNVTYCugb2UlkUgkh25YC7VGyUqfvNaAklFKLXldAddXXrMKSqa7vO13Ossspd3T2I6IPfGOjM-kkL4B1dUFZWSaKTpR01nuHmo9ueBduxynwfe986p2n3vm-d14nTzF5fGLNGt1f8v-mH9XUiNQ</recordid><startdate>20181001</startdate><enddate>20181001</enddate><creator>Tamaki, Satoshi</creator><creator>Isoda, Keiya</creator><creator>Takahashi, Makoto</creator><creator>Yamada, Hiroo</creator><creator>Yamashita, Yumiko</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7SN</scope><scope>7SS</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</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>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>RC3</scope><orcidid>https://orcid.org/0000-0001-9099-1036</orcidid></search><sort><creationdate>20181001</creationdate><title>Genetic structure and diversity in relation to the recently reduced population size of the rare conifer, Pseudotsuga japonica, endemic to Japan</title><author>Tamaki, Satoshi ; Isoda, Keiya ; Takahashi, Makoto ; Yamada, Hiroo ; Yamashita, Yumiko</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c382t-45504e8a0b6c9ce7cdaac88101bec73f01660dc03cfabf401f4b574e37d9bb9f3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Alleles</topic><topic>Animal Genetics and Genomics</topic><topic>Biodiversity</topic><topic>Biomedical and Life Sciences</topic><topic>Conservation</topic><topic>Conservation Biology/Ecology</topic><topic>Correlation</topic><topic>Differentiation</topic><topic>Divergence</topic><topic>Diversity indices</topic><topic>Ecology</topic><topic>Endemic species</topic><topic>Evolutionary Biology</topic><topic>Gene flow</topic><topic>Genetic diversity</topic><topic>Genetic drift</topic><topic>Genetic markers</topic><topic>Genetic structure</topic><topic>Heterozygosity</topic><topic>Life Sciences</topic><topic>Microsatellites</topic><topic>Plant Genetics and Genomics</topic><topic>Plant species</topic><topic>Plantations</topic><topic>Population</topic><topic>Population decline</topic><topic>Population differentiation</topic><topic>Population genetics</topic><topic>Population number</topic><topic>Populations</topic><topic>Pseudotsuga</topic><topic>Rare species</topic><topic>Research Article</topic><topic>Wildlife conservation</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Tamaki, Satoshi</creatorcontrib><creatorcontrib>Isoda, Keiya</creatorcontrib><creatorcontrib>Takahashi, Makoto</creatorcontrib><creatorcontrib>Yamada, Hiroo</creatorcontrib><creatorcontrib>Yamashita, Yumiko</creatorcontrib><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</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 (ProQuest)</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>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>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><jtitle>Conservation genetics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tamaki, Satoshi</au><au>Isoda, Keiya</au><au>Takahashi, Makoto</au><au>Yamada, Hiroo</au><au>Yamashita, Yumiko</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genetic structure and diversity in relation to the recently reduced population size of the rare conifer, Pseudotsuga japonica, endemic to Japan</atitle><jtitle>Conservation genetics</jtitle><stitle>Conserv Genet</stitle><date>2018-10-01</date><risdate>2018</risdate><volume>19</volume><issue>5</issue><spage>1243</spage><epage>1255</epage><pages>1243-1255</pages><issn>1566-0621</issn><eissn>1572-9737</eissn><abstract>Rare species consisting of small populations are subject to random genetic drift, which reduces genetic diversity. Thus, determining the relationship between population size and genetic diversity would provide key information for planning a conservation strategy for rare species. We used six microsatellite markers to investigate seven extant populations of the rare conifer
Pseudotsuga japonica
, which is endemic to the Kii Peninsula and Shikoku Island regions that are geographically separated by the Kii Channel in southwest Japan. The population differentiation of
P. japonica
was relatively high (
F
ST
= 0.101) for a coniferous species, suggesting limited gene flow among populations. As expected, significant regional differentiation (AMOVA;
p
< 0.05) indicated genetic divergence across the Kii Channel. A strong positive correlation between census population size and the number of rare alleles (r = 0.862,
p
< 0.05) was found, but correlations with major indices of genetic diversity were not significant (allelic richness: r = 0.649,
p
= 0.104, expected heterozygosity: r = 0.361,
p
= 0.426). The observed order of magnitude of correlation with three genetic diversity indices corresponded with the theoretically expected order of each index’ sensitivity (i.e., the rate of decline per generation) to the bottleneck event. Thus, features that exhibit a faster response, i.e., the number of rare alleles, would have been subject to deleterious effects of the recent decline in population size, which is presumably caused by the development of extensive artificial plantations of other tree species over the last several decades. Finally, we propose a conservation plan for
P. japonica
based on our findings.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s10592-018-1092-5</doi><tpages>13</tpages><orcidid>https://orcid.org/0000-0001-9099-1036</orcidid></addata></record> |
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| ispartof | Conservation genetics, 2018-10, Vol.19 (5), p.1243-1255 |
| issn | 1566-0621 1572-9737 |
| language | eng |
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| subjects | Alleles Animal Genetics and Genomics Biodiversity Biomedical and Life Sciences Conservation Conservation Biology/Ecology Correlation Differentiation Divergence Diversity indices Ecology Endemic species Evolutionary Biology Gene flow Genetic diversity Genetic drift Genetic markers Genetic structure Heterozygosity Life Sciences Microsatellites Plant Genetics and Genomics Plant species Plantations Population Population decline Population differentiation Population genetics Population number Populations Pseudotsuga Rare species Research Article Wildlife conservation |
| title | Genetic structure and diversity in relation to the recently reduced population size of the rare conifer, Pseudotsuga japonica, endemic to Japan |
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