Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis
The Tsushima leopard cat (<i>Prionailurus bengalensis euptilurus</i>) (TLC) is a regional population of the Amur leopard cat (<i>P. bengalensis euptilurus</i>) that lives only on the Tsushima Island in Japan and is threatened with extinction. Because the TLC population is sma...
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MDPI AG
2022-06-01
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| Series: | Animals |
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| Online Access: | https://www.mdpi.com/2076-2615/12/11/1464 |
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| author | Hideyuki Ito Nobuyoshi Nakajima Manabu Onuma Miho Inoue-Murayama |
| author_facet | Hideyuki Ito Nobuyoshi Nakajima Manabu Onuma Miho Inoue-Murayama |
| author_sort | Hideyuki Ito |
| collection | DOAJ |
| description | The Tsushima leopard cat (<i>Prionailurus bengalensis euptilurus</i>) (TLC) is a regional population of the Amur leopard cat (<i>P. bengalensis euptilurus</i>) that lives only on the Tsushima Island in Japan and is threatened with extinction. Because the TLC population is small, genetic management is important. In this study, we obtained the draft genome of the TLC and identified single-nucleotide polymorphism (SNP) markers using a genotyping by random amplicon sequencing-direct (GRAS-Di) analysis. We genotyped 31 captive individuals and 50 wild individuals, of which 48 were from a previous study. The identified SNPs were used to clarify the genetic diversity and genetic structure of the wild and captive populations of the TLC. The size of the genome was estimated to be about 2.42 Gb. The number of SNP markers developed was 139, and although <i>PID</i> and probability of exclusion obtained using these SNP markers were not as high as those reported in the studies of other wild species, these SNP markers could be used to identify individuals and parentage. Moreover, the genetic diversity indices of the captive population were similar to those of the wild population. These SNP markers will be useful for understanding the ecology of the TLC and planning conservation strategies. |
| first_indexed | 2024-03-10T01:32:17Z |
| format | Article |
| id | doaj.art-23d9308aea974cccadfb0aa9d33060fd |
| institution | Directory Open Access Journal |
| issn | 2076-2615 |
| language | English |
| last_indexed | 2024-03-10T01:32:17Z |
| publishDate | 2022-06-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Animals |
| spelling | doaj.art-23d9308aea974cccadfb0aa9d33060fd2023-11-23T13:38:57ZengMDPI AGAnimals2076-26152022-06-011211146410.3390/ani12111464Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di AnalysisHideyuki Ito0Nobuyoshi Nakajima1Manabu Onuma2Miho Inoue-Murayama3Kyoto City Zoo, Kyoto 606-8333, JapanBiodiversity Division, National Institute for Environmental Studies, Tsukuba 305-8506, JapanBiodiversity Division, National Institute for Environmental Studies, Tsukuba 305-8506, JapanWildlife Research Center, Kyoto University, Kyoto 606-8203, JapanThe Tsushima leopard cat (<i>Prionailurus bengalensis euptilurus</i>) (TLC) is a regional population of the Amur leopard cat (<i>P. bengalensis euptilurus</i>) that lives only on the Tsushima Island in Japan and is threatened with extinction. Because the TLC population is small, genetic management is important. In this study, we obtained the draft genome of the TLC and identified single-nucleotide polymorphism (SNP) markers using a genotyping by random amplicon sequencing-direct (GRAS-Di) analysis. We genotyped 31 captive individuals and 50 wild individuals, of which 48 were from a previous study. The identified SNPs were used to clarify the genetic diversity and genetic structure of the wild and captive populations of the TLC. The size of the genome was estimated to be about 2.42 Gb. The number of SNP markers developed was 139, and although <i>PID</i> and probability of exclusion obtained using these SNP markers were not as high as those reported in the studies of other wild species, these SNP markers could be used to identify individuals and parentage. Moreover, the genetic diversity indices of the captive population were similar to those of the wild population. These SNP markers will be useful for understanding the ecology of the TLC and planning conservation strategies.https://www.mdpi.com/2076-2615/12/11/1464Tsushima leopard catGRAS-Digenome-wide analysisconservation program |
| spellingShingle | Hideyuki Ito Nobuyoshi Nakajima Manabu Onuma Miho Inoue-Murayama Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis Animals Tsushima leopard cat GRAS-Di genome-wide analysis conservation program |
| title | Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis |
| title_full | Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis |
| title_fullStr | Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis |
| title_full_unstemmed | Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis |
| title_short | Comparison of the Genetic Diversity of the Captive and Wild Populations of the Tsushima Leopard Cat Using a GRAS-Di Analysis |
| title_sort | comparison of the genetic diversity of the captive and wild populations of the tsushima leopard cat using a gras di analysis |
| topic | Tsushima leopard cat GRAS-Di genome-wide analysis conservation program |
| url | https://www.mdpi.com/2076-2615/12/11/1464 |
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