Isolation and characterization of microsatellite loci in Taxus sumatrana (Taxaceae) using PCR-based isolation of microsatellite arrays (PIMA)

Huang, Chi‐Chun; Chiang, Tzen‐Yuh; Hsu, Tsai‐Wen

doi:10.1007/s10592-007-9341-z

Cited by 31 publications

(21 citation statements)

References 10 publications

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“…For genetic typing five nuclear SSR loci were analyzed: Tax26, Tax31, Tax36 (Dubreuil et al 2008), TS09 (Huang et al 2007) and Tax362 (Chybicki et al 2011) according to the protocol described elsewhere (Chybicki et al 2011). …”

Section: Molecular Methodsmentioning

confidence: 99%

Variable rates of random genetic drift in protected populations of English yew: implications for gene pool conservation

2012

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Protecting populations in their natural habitat allows for the maintenance of naturally evolved adaptations and ecological relationships. However, the conservation of genetic resources often requires complementary practices like gene banks, translocations or reintroductions. In order to minimize inbreeding depression and maximize the adaptive potential of future populations, populations chosen for ex situ conservation should be selected according to criteria that will result in a reduction of global coancestry in the population. Generally, large populations should reveal lower coancestry and higher genetic variation than small populations. If detailed knowledge about coancestry is lacking, census population number (N c ) can be used as a proxy for required characteristics. However, a simple measure of N c may be misleading in particular cases as genetic processes rely on effective population size (N e ) rather than N c and these two measures may differ substantially due to demographic processes. We used an example of English yew to address whether N c can be a good predictor of genetic parameters when used in conservation programs. Using microsatellite markers, we estimated allelic richness, inbreeding and coancestry coefficients of six relatively large yew populations in Poland. Each population was characterized by N e using the linkage disequilibrium method. Our results showed that populations of English yew were subject to substantial divergence and genetic drift, with both being inversely proportional to the effective subpopulation size (N e ). Additionally, allelic richness appeared proportional to N e but not to N c . However, the N e /N ratio differed greatly among populations, which was possibly due to different population histories. From the results we concluded that choosing source populations based only on their census size can be fairly misleading. Implications for conservation are briefly discussed.

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Section: Molecular Methodsmentioning

confidence: 99%

Variable rates of random genetic drift in protected populations of English yew: implications for gene pool conservation

2012

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“…Taxus sumatrana juga dapat dijumpai di Afganistan, Tibet, Nepal, Vietnam, India, Buthan, Burma, Cina, Filipina, dan Taiwan (Earle 2016). Taxus sumatrana tumbuh di daerah dengan ketinggian 1.500-2.800 m dpl (Huang et al 2008;Rachmat 2008;Susilo 2015).…”

Section: Pendahuluanunclassified

Pola penyebaran dan potensi kerapatan Taxus sumatrana di Gunung Tujuh, Kabupaten Kerinci, Jambi

Frianto¹,

Novriyanti²

2016

Prosiding Seminar Nasional Masyarakat Biodiversitas Indonesia

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Abstrak. Frianto D, Novriyanti E. 2016. Pola penyebaran dan potensi kerapatan Taxus sumatrana di Gunung Tujuh, Kabupaten Kerinci,. Taxus sumatrana termasuk ke dalam genus Taxus, famili Taxaceae, dan subdivisi Gymnospermae. Taxus merupakan tanaman sumber paclitaxel (taxol) yang bersifat antikanker. Studi ini bertujuan untuk mengetahui pola penyebaran dan potensi kerapatan Taxus sumatrana di Gunung Tujuh, Kabupaten Kerinci, Provinsi Jambi. Penelitian dilaksanakan dengan metode jalur dan garis berpetak. Pengamatan dilakukan pada ketinggian 1.690-2.120 m dpl. Data pola penyebaran dianalisis dengan rumus indeks Morisita, sedangkan untuk mengetahui pola penyebaran secara berkelompok atau tidak dilakukan dengan distribusi Chi-square. Faktor abiotik yang diamati meliputi suhu tanah, pH tanah, dan intensitas cahaya. Hasil pengamatan menunjukkan bahwa pola penyebaran Taxus sumatrana di Gunung Tujuh berdasarkan indeks Morisita terjadi secara berkelompok (1,21). Sementara itu, hasil uji lanjut distribusi Chi-square (155,49) menunjukkan pola penyebaran yang tidak berbeda nyata dengan pola penyebaran berkelompok. Pada eksplorasi ini, Taxus sering ditemukan di daerah-daerah tebing tepi sungai. Potensi kerapatan Taxus sumatrana sekitar 10,19 pohon/ha. Faktor lingkungan yang diamati meliputi suhu tanah yaitu berkisar antara 20,9-23,5 o C, pH tanah sekitar 6,8, dan intensitas cahaya berkisar antara 257-639 Lux. Taxus is a source of paclitaxel (taxol), an anticancer substance. This study aimed to examine the distribution pattern and the density potential of T. sumatrana at Mount Tujuh, Kerinci District, Jambi Province. The research was conducted with a combination of transect and line compartment method. The observation was conducted at an elevation of 1.690-2.120 m asl. The collected data of distribution pattern were analyzed with Morisita Index. Further, the data was analyzed with Chi-square distribution to define grouped or ungrouped distribution pattern. Abiotic factors observed included soil temperature, soil pH, and light intensity. The results showed that the distribution pattern of T. sumatrana in Mount Tujuh based on Morisita Index was classified as grouped (1.21). Meanwhile, the results of further analysis of Chi-square distribution (155.49) showed the result that there was no significant difference with a grouped distribution pattern. In this study, Taxus was mostly found at ravine or cliff of river banks. Potential of the density of T. sumatrana was 10.19 trees/ha. The abiotic factors observed included soil temperature ranged between 20.9-23.5 o C, soil pH was about 6.8 and light intensity ranged between 257-639 Lux.Keywords: Mount Tujuh, distribution pattern, density potential, Taxus sumatrana PENDAHULUANTaxus sumatrana termasuk ke dalam famili Taxaceae dan subdivisi Gymnospermae. Di Indonesia, T. sumatrana dikenal dengan nama cemara sumatra. Taxus sumatrana tumbuh pada strata subkanopi di hutan pegunungan. Tempat tumbuh T. sumatrana umumnya terdapat di bagian punggung bukit, lereng-lereng terjal, dan tepian jurang (R...

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“…Simple sequence repeat (SSR) markers offer a powerful tool for characterizing genetic diversity and have been widely used for genome mapping, population genetics, and related areas (Ellegren, 2004;Kalia et al, 2011;Zalapa et al, 2012). In recent years, several SSR markers have been developed for different species of the genus Taxus, such as T. sumatrana (Huang et al, 2008), T. yunnanensis (Miao et al, 2014), T. baccata (Dubreuil et al, 2008), T. chinensis var. mairei (Zhou et al, 2009), and T. wallichiana (Yang et al, 2009).…”

Section: Introductionmentioning

confidence: 99%

Development of microsatellite loci for Taxus wallichiana var. wallichiana (Taxaceae) and cross-amplification in Taxaceae

B¹,

Sun²,

Zheng³

2015

Genet. Mol. Res.

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ABSTRACT. Nine polymorphic microsatellite loci were isolated and characterized in Taxus wallichiana var. wallichiana, an endangered species in China. The number of alleles per locus ranged from 2 to 20. Observed and expected heterozygosities varied from 0.0260 to 0.5325 and 0.3603 to 0.9231, respectively. Positive cross-amplification of the 9 loci was observed in 2 other varieties of T. wallichiana and 4 other Taxaceae species. These loci will be of value for studying population genetic structures and for genetic resource conservation in T. wallichiana and other Taxus species.

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Isolation and characterization of microsatellite loci in Taxus sumatrana (Taxaceae) using PCR-based isolation of microsatellite arrays (PIMA)

Cited by 31 publications

References 10 publications

Variable rates of random genetic drift in protected populations of English yew: implications for gene pool conservation

Variable rates of random genetic drift in protected populations of English yew: implications for gene pool conservation

Pola penyebaran dan potensi kerapatan Taxus sumatrana di Gunung Tujuh, Kabupaten Kerinci, Jambi

Development of microsatellite loci for Taxus wallichiana var. wallichiana (Taxaceae) and cross-amplification in Taxaceae

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