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1.
Chinese alligator (Alligator sinensis) is a critically endangered species endemic to China. In this study, the extent of genetic variation in the captive alligators
of the Changxing Reserve Center was investigated using microsatellite markers derived from American alligators. Out of 22
loci employed, 21 were successfully amplified in the Chinese alligator. Sequence analysis showed loci in American alligators
had a bigger average size than that of the Chinese alligators and the longest allele of an individual locus almost always
existed in the species with longer stretch of repeat units. Eight of the 22 loci were found to be polymorphic with a total
of 26 alleles present among 32 animals scored, yielding an average of 3.25 alleles per polymorphic locus. The expected heterozygosity
(H
E) ranged at a moderate level from 0.4385 to 0.7163 in this population. Compared to that in the American alligators, a lower
level of microsatellite diversity existed in the Changxing population as revealed by about 46% fewer alleles per locus and
smaller H
E at the homologous loci. The average exclusion power and the ability to detect shared genotypes and multiple paternity were
evaluated for those markers. Results suggested that when the polymorphic loci were combined, they could be sensitive markers
in genetic diversity study and relatedness inference within the Chinese alligator populations. The level of genetic diversity
present in the current Changxing population indicated an important resource to complement reintroductions based on the individuals
from the other population. In addition, the microsatellite markers and their associated diversity characterized in this population
could be utilized to further investigate the genetic status of this species. 相似文献
2.
Cupressus chenggiana S. Y. Hu (Cupressaceae) is an endemic and endangered conifer species in southwest China. In order to study the population
genetics and design the effective conservation methods, we aimed to develop microsatellite primers for this species in the
present study. We developed eight new microsatellite loci for this species through biotin capture method. Polymorphism of
each locus was further assessed in 18 individuals from three geographically distant populations. The number of alleles per
locus ranged from 6 to 11 with an average of 8.13. The observed and expected heterozygosities ranged from 0.219 to 0.296 and
from 0.374 to 0.470, with averages of 0.254 and 0.417, respectively. We further found that three of nine microsatellite loci
developed previously for another congeneric species showed polymorphic banding patters. We performed primer-crossing tests
of these loci in the other two congeneric species which are closely related to C. chenggiana (C. gigantea and C. duclouxiana). These microsatellite markers would be effective for analyzing genetic diversity and population genetic structure of this
species and its morphological differentiation with the close relatives. 相似文献
3.
Phaedranassa tunguraguae is an endangered species endemic to Ecuador. Eight highly polymorphic microsatellite loci were isolated from an enriched genomic library for this species. Levels of polymorphism were evaluated using a total of 31 individuals from a single natural population. An average of 14.1 alleles per locus was detected, and observed heterozygosity ranged from 0.387 to 0.903. All but one locus depart significantly from Hardy–Weinberg equilibrium. These loci are the first microsatellite primers isolated for Amaryllidaceae and will be utilized to investigate patterns of genetic variation of P. tunguraguae, which will contribute data relevant to the conservation of the species. 相似文献
4.
The Chinese crested ibis, Nipponia nippon, is a critically endangered bird. The current population of this species has developed from four wild individuals rediscovered in 1981. Given its conservation status, there is considerable interest in assessing the genetic diversity and individual relatedness in this species. For this purpose, a set of eight polymorphic di‐ or trinucleotide microsatellite loci was developed for the crested ibis. The expected heterozygosity at these loci ranges from 0.01 to 0.50, with less than four alleles being observed at individual loci, a reflection of the serious population bottleneck experienced by this species. 相似文献
5.
Development and characterization of 24 microsatellite markers in Primula tosaensis,an endangered primrose,using MiSeq 下载免费PDF全文
Masaya Yamamoto Yoshihiro Handa Hiroki Aihara Hiroaki Setoguchi 《Plant Species Biology》2018,33(1):77-80
Primula tosaensis (Primulaceae) is an endangered primrose endemic to Japan. In this study, 24 novel microsatellite markers were developed using Illumina MiSeq sequencing to facilitate conservation of this endangered species. The genetic diversity and polymorphisms of these novel markers were measured in 32 individuals from a wild P. tosaensis population. The number of alleles and expected heterozygosities ranged from 2 to 5 (mean = 2.8) and from 0.119 to 0.724 (mean = 0.395), respectively. All loci were in Hardy–Weinberg equilibrium. The markers developed in this study will provide a powerful and practical tool for investigating the population structure and genetic diversity of P. tosaensis. 相似文献
6.
Peng Yan Xiaobing Wu Yiyang Wang Zhigang Jiang Changming Gu Chaoling Wang 《Zoo biology》2006,25(6):479-490
The Chinese alligator (Alligator sinensis) is a critically endangered species in China. Wild populations of Chinese alligator are on the edge of extinction. Through a release program, some captive‐bred alligators will be selected and released into the wild to supplement and renew natural populations. The purpose of this study was to investigate the genetic variation of captive‐bred Chinese alligators by AFLP markers and to select individuals with maximally different genetic backgrounds for release. Forty‐three captive‐bred alligators of the second filial generation from the Anhui Research Center for Chinese Alligator Reproduction (ARCCAR) were surveyed using four primer combinations, yielding 117 AFLP markers. According to AFLP fingerprints, six samples had distinctly different band patterns compared to other samples. When the six samples were removed from the analysis, there were 19 monomorphic loci and 98 polymorphic loci yielding 84% polymorphic loci. Moreover, the genetic similarity (GS) among 37 samples varied from 0.13–0.97, and the average was 0.7503±0.0064 standard error (SE). When the six samples were included, the GS value among the 43 samples declined and varied from 0.06–0.97, and the average was 0.6523±0.0079 SE. Based on a cluster analysis using UPGMA, a dendrogram of the 43 alligators was constructed. According to the cluster analysis and gender of the 43 samples, eight Chinese alligators with very different genetic backgrounds were selected and suggested for release with two groups in the future. Zoo Biol 0:1–12, 2006. © 2006 Wiley‐Liss, Inc. 相似文献
7.
? Premise of the study: The development of compound microsatellite markers was conducted in Neolitsea sericea to investigate genetic diversity and population genetic structure of this endangered insular species. ? Methods and Results: Using the compound microsatellite marker technique, 10 compound microsatellite markers that were successfully amplified showed polymorphism when assessed in 55 individuals from two populations in East China and Japan. Overall, the number of alleles ranged from 3 to 17, with an average of 7.9 alleles per locus. In addition, these primers could be easily amplified in Neolitsea aurata var. paraciculata and N. aurata var. chekiangensis. ? Conclusions: The highly polymorphic markers developed and characterized in this study will be useful for population genetic studies of N. sericea. 相似文献
8.
Shangchen Yang Tianming Lan Yi Zhang Qing Wang Haimeng Li Nicolas Dussex Sunil Kumar Sahu Minhui Shi Mengyuan Hu Yixin Zhu Jun Cao Lirong Liu Jianqing Lin Qiu-Hong Wan Huan Liu Sheng-Guo Fang 《Molecular ecology resources》2023,23(1):294-311
Critically endangered species are usually restricted to small and isolated populations. High inbreeding without gene flow among populations further aggravates their threatened condition and reduces the likelihood of their long-term survival. Chinese alligator (Alligator sinensis) is one of the most endangered crocodiles in the world and has experienced a continuous decline over the past c. 1 million years. In order to identify the genetic status of the remaining populations and aid conservation efforts, we assembled the first high-quality chromosome-level genome of Chinese alligator and explored the genomic characteristics of three extant breeding populations. Our analyses revealed the existence of at least three genetically distinct populations, comprising two breeding populations in China (Changxing and Xuancheng) and one breeding population in an American wildlife refuge. The American population does not belong to the last two populations of its native range (Xuancheng and Changxing), thus representing genetic diversity extinct in the wild and provides future opportunities for genetic rescue. Moreover, the effective population size of these three populations has been continuously declining over the past 20 ka. Consistent with this decline, the species shows extremely low genetic diversity, a large proportion of long runs of homozygous fragments, and mutational load across the genome. Finally, to provide genomic insights for future breeding management and conservation, we assessed the feasibility of mixing extant populations based on the likelihood of introducing new deleterious alleles and signatures of local adaptation. Overall, this study provides a valuable genomic resource and important genomic insights into the ecology, evolution, and conservation of critically endangered alligators. 相似文献
9.
Hung-Du Lin Teh-Wang Lee Fang-Jiao Lin Chung-Jian Lin Tzen-Yuh Chiang 《Conservation Genetics》2008,9(4):945-947
Pararasbora moltrechti (Cyprinidae) is an endangered freshwater fish with a scattered distribution in the central Taiwan. In order to undertake
a conservation program for this species in Taiwan, it is essential to evaluate its genetic diversity and population structure.
For this purpose, we described the development of eight microsatellite loci in P. moltrechti for genetic studies. These new molecular markers were tested in 36 individuals of the rare species. The number of alleles
per locus ranged from 8 to 14. As the expected heterozygosity varied from 0.770 to 0.932, all microsatellite loci, however,
were significantly deviated from Hardy–Weinberg expectations due to the heterozygote deficiency.
Hung-Du Lin and Teh-Wang Lee contributed equally. 相似文献
10.
Yan-qiu Peng Jian-wen Shao Hai-long Wu Xiao-ping Zhang Guo-ping Zhu 《Conservation Genetics》2009,10(5):1441-1443
Primula merrilliana (Primulaceae) is an endangered plant endemic to south Anhui Province in China. In this study, we isolated fifteen polymorphic
microsatellite loci from a population of 22 individuals using a modified biotin-capture method. Our isolated loci provided
microsatellite markers with polymorphism of 3–11 alleles per locus. The expected and observed heterozygosities ranged from
0.392 to 0.855 and from 0.136 to 1.000, respectively. These markers would be the useful tools for analyzing questions concerning
population genetic structure and mating system of Primula merrilliana. 相似文献
11.
Schisandra sphenanthera (Schisandraceae) is a traditional Chinese medicinal plant. In this study, nine polymorphic microsatellite loci were developed
and characterized for the species. A genomic DNA enrichment protocol was used to isolate microsatellite loci and polymorphism
was explored using 36 individuals sampled from a natural population. The observed number of alleles ranged from 2 to 10 with
an average of 5.2. Expected and observed heterozygosity ranged from 0.30 to 0.82 and 0.33 to 0.97, respectively. These microsatellites
have been directly applied to both population and conservation genetic studies of S. sphenanthera. 相似文献
12.
We isolated and characterized 11 microsatellite loci in the grasshopper Oedaleus decorus (Orthoptera: Acrididae), an endangered species in Central Europe. Polymorphism was studied from two populations, one out of two populations known from Switzerland (n = 20 individuals) and one site from south of France (n = 20). The number of alleles and the expected heterozygosity ranged from five to 12 and from 0.559 to 0.898, respectively, in the Swiss population, and from 14 to 23 and from 0.895 to 0.974, respectively, in the French population. These microsatellite markers are suitable for further conservation genetic studies of O. decorus. 相似文献
13.
All cat species, except domestic cats, are either threatened or endangered. The Asiatic lion (Panthera leo persica), a critically endangered species, is driven to a single habitat zone in Gir forests in India for its survival. The present status of this big cat compels us to acquire deeper knowledge of its genetic variability and phylogenetic relationships. Here we report the isolation of highly polymorphic microsatellite loci from a partial genomic library of the Asiatic lion. These loci were characterized and have shown high levels of variation ranging from six to 11 alleles per locus in the population studied. 相似文献
14.
MAKOTO HATAKEYAMA TOMOHISA WATANABE MINORU IKEDA MASAMICHI NAKAJIMA HIROSHI KAWAMULA NOBUHIKO TANIGUCHI 《Molecular ecology resources》2005,5(4):893-895
Japanese huchen, Hucho perryi, is an endangered fish in Japan. In order to promote a conservation program for this species, it is necessary to evaluate its genetic diversity and population genetics. For this purpose, we designed 15 primers containing dinucleotide microsatellite regions and examined their allelic variation using a total of 23 wild individuals collected from two different localities. Eight loci showed moderate allelic variation ranging from two to four alleles, with expected heterozygosities from 0.043 to 0.548. These markers will be useful for the assessment of genetic variation for this species. 相似文献
15.
The southern brown bandicoot (Isoodon obesulus) was once widely distributed throughout coastal regions of Australia, however, populations have now become fragmented and the number of individuals are declining rapidly. As a result, this species is now classified as endangered in New South Wales and requires management. We have developed eight microsatellite markers to investigate levels of genetic variation and subdivision among these isolated populations. These microsatellite markers show levels of variability ranging from four to eight alleles and observed heterozygosities of 0.353–0.938. These microsatellite markers are also suitable for similar population studies on other related marsupials. 相似文献
16.
The Yangtze sturgeon (Acipenser dabryanus) is an endemic species in China. Using 454 sequencing, eight polymorphic tri‐, tetra‐, penta‐, and hexanucleotide microsatellite loci were isolated in this study. The raw sequence data from a one‐eighth run of 454 sequencings were 38.0 Mbp containing 94 222 reads/sequences. Of 80 microsatellite loci, only eight loci were polymorphic in a population of 30 individuals. The number of alleles per locus ranged from 4 to 14 (mean 7.62), and the observed heterozygosities varied between 0.46 and 0.88 (mean 0.74). Cross amplification was tested in congeneric species Acipenser sturio and Acipenser sinensis. These new microsatellite markers will be useful for further studies on genetic variation, parentage analysis, and conservation management for this critically endangered species. 相似文献
17.
An enrichment protocol was used to isolate and characterise microsatellite loci in Rosmarinus officinalis, a Mediterranean chamephyte. Twelve microsatellite loci were characterised and amplified a total of 117 alleles in a sample
of 30 individuals from one population, with an average of 9.75 alleles per locus. Observed heterozygosities ranged from 0.333
to 0.900. Cross-species transferability was also assayed in the two other species of the genus. The cumulated probabilities
of exclusion for paternity and parentage of the 12 loci were of 0.999971 and 1, respectively, supporting the usefulness of
these microsatellite loci for parentage analyses. Nine out of 12 microsatellite loci amplified in the two species and were
polymorphic detecting a total of 49 and 45 in R. eriocalyx and R. tomentosus, respectively. Twenty-two alleles were exclusive of R. eriocalyx and 12 of R. tomentosus, additionally, three alleles were shared between these two species but were otherwise absent in the analysed individuals
of R. officinalis. In total, this set of markers amplified 154 different microsatellite alleles, supporting their usefulness to conduct population
genetic, reproductive biology and hybridisation studies in Rosmarinus. 相似文献
18.
Korean barbel, Hemibarbus mylodon, is an endangered freshwater species endemic to Korea. In order to undertake a conservation program for this species in Korea, it is essential to evaluate its genetic diversity and population structure. For this purpose, we developed 10 polymorphic microsatellite markers and examined their allelic variation using a total of 60 wild individuals collected from three different localities. The number of alleles per locus ranged from three to 26. The expected and observed heterozygosities per locus ranged from 0.19 to 0.94 and from 0.20 to 0.98, respectively. Significant departures from Hardy–Weinberg equilibrium expectations occurred in four loci. These markers will be useful for the assessment of genetic diversity for this species. 相似文献
19.
GUANGXIANG TONG YOUYI KUANG JIASHENG YIN LIQUN LIANG XIAOWEN SUN 《Molecular ecology resources》2006,6(4):1099-1101
Hucho taimen (Pallas) is an endangered species in China. To evaluate the species’ genetic diversity and population genetic structure, we isolated six polymorphic microsatellite markers from its genomic libraries by (ACA)16 enriched, and characterized using 61 wild individuals. The number of alleles per locus ranged from two to seven, expected heterozygosity ranged from 0.3200 to 0.7410, polymorphism information content ranged from 0.3047 to 0.6896. These markers will be useful for the genetic variation assessment of taimen. 相似文献
20.
Isolation and characterization of microsatellite markers for Viola mirabilis (Violaceae) using a next‐generation sequencing platform 下载免费PDF全文
We isolated and characterized microsatellite loci in Viola mirabilis (Violaceae), an endangered species from South Korea. Twenty‐three polymorphic microsatellite loci were developed and tested in Korean, Chinese and Japanese populations. The number of alleles per locus varied from two to eight. The observed and expected heterozygosities within the three populations were 0.000–0.625 and 0.469–0.695, respectively. A total of six loci in the Korean population, one locus in the Chinese population and seven loci in the Japanese population deviated from Hardy–Weinberg equilibrium. We expect that these newly developed microsatellite markers will contribute to understanding the phylogeography and population genetics of V. mirabilis, which will aid in developing conservation strategies for this species. 相似文献