scholarly journals Development of microsatellite markers for the critically endangered conifer Glyptostrobus pensilis (Cupressaceae) using transcriptome data

2019 ◽  
Vol 68 (1) ◽  
pp. 41-44 ◽  
Author(s):  
Xin-Yu Li ◽  
Xue-Ying Lin ◽  
Markus Ruhsam ◽  
Lu Chen ◽  
Xing-Tong Wu ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Related Species ◽  
Population Genetic ◽  
Critically Endangered ◽  
Transcriptome Data ◽  
Genetic Studies ◽  
Chinese Populations ◽  
Expected Heterozygosity ◽  
Ssr Loci ◽  
Hardy Weinberg Equilibrium

Abstract Glyptostrobus pensilis (Cupressaceae) is a critically endangered conifer which occurs in China, Laos, and Vietnam where it is only known from a few populations. Here we aim to develop microsatellite markers which can be used to study the genetic variation within this species. Using transcriptome data we tested 170 SSR loci for polymorphism in 16 samples. Twenty-three loci were polymorphic and selected for the genetic analysis of 83 individuals from three Chinese populations. The number of alleles per locus and population ranged from one to eight, the observed and expected heterozygosity from Ho = 0.00-1.00 and He = 0.00-0.83, respectively. Fifteen loci deviated from Hardy-Weinberg equilibrium in at least one of the three populations. The majority of loci could also be successfully amplified in four related species, namely Cryptomeria fortunei, Taxodium distichum, Taxodium ascendens and Cunninghamia lanceolata. These developed microsatellites are suitable for population genetic studies of Glyptostrobus pensilis and related species.

scholarly journals Isolation and Characterization of Twenty Polymorphic Microsatellite Loci for Moringa oleifera (Moringaceae)

HortScience ◽  
2010 ◽  
Vol 45 (4) ◽  
pp. 690-692 ◽  
Author(s):  
Jiang-Chong Wu ◽  
Jing Yang ◽  
Zhi-Jian Gu ◽  
Yan-Ping Zhang
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Population Genetic ◽  
Moringa Oleifera ◽  
Microsatellite Primers ◽  
Genetic Studies ◽  
Isolation And Characterization ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite

By using a modified biotin-streptavidin capturing method, a total of 20 polymorphic microsatellite markers were developed from Moringa oleifera Lam. (Moringaceae), a useful multipurpose tree. Twenty-four domesticated individuals, with germplasms of India and Myanmar, were used to screen polymorphism of these 20 microsatellite markers. The number of alleles per locus ranged from two to six. The expected and observed heterozygosity varied from 0.3608 to 0.7606 and from 0.0000 to 0.8750, respectively. Seven loci were significantly deviated from Hardy-Weinberg equilibrium. The availability of these microsatellite primers would provide a powerful tool for aspects of detailed population genetic studies of M. oleifera.

scholarly journals Isolation and Characterization of Polymorphic Microsatellite Markers for Two Subterranean Termites

Sociobiology ◽  
2017 ◽  
Vol 64 (3) ◽  
pp. 352 ◽  
Author(s):  
Yu-Lei Dang ◽  
Hong-Gui Zhang ◽  
Yu-Feng Meng ◽  
Min Zhang ◽  
Sha Zhao ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Population Genetic ◽  
Subterranean Termites ◽  
Polymorphic Markers ◽  
Isolation And Characterization ◽  
Expected Heterozygosity ◽  
Hardy Weinberg Equilibrium ◽  
Polymorphic Microsatellite

We isolated 15 and 18 highly polymorphic genomic microsatellite markers from two subterranean termites, Reticulitermes aculabialis and R. labralis, respectively. A total of 53 alleles were detected in 15 microsatellite loci of R. aculabialis, and the alleles were 3.533±1.302 (mean±SD), while the corresponding data of R. labralis were 115 detected alleles in 18 microsatellite loci with 6.389±1.754 alleles. The observed and expected heterozygosity was 0.496±0.236 and 0.564±0.125 in R. aculabialis, and 0.368±0.263 and 0.702±0.115 in R. labralis, respectively. Seven loci were highly polymorphic (PIC>0.5) in R. aculabialis, and 15 loci were highly polymorphic (PIC>0.5) in R. labralis. All loci showed Hardy–Weinberg equilibrium. These polymorphic markers provide useful tools for population genetic and breeding system studies of subterranean termites.

scholarly journals Microsatellite markers for population genetic studies of the blowfly Chrysomya putoria (Diptera: Calliphoridae)

2009 ◽  
Vol 104 (7) ◽  
pp. 1047-1050 ◽  
Author(s):  
Rosangela Aparecida Rodrigues ◽  
Ana Maria Lima de Azeredo-Espin ◽  
Tatiana Teixeira Torres
Keyword(s):  
Microsatellite Markers ◽  
Population Genetic ◽  
Genetic Studies

Population genetics and conservation of the critically endangered Clematis acerifolia (Ranunculaceae)

2005 ◽  
Vol 83 (10) ◽  
pp. 1248-1256 ◽  
Author(s):  
J. López-Pujol ◽  
F.-M. Zhang ◽  
S. Ge
Keyword(s):  
Genetic Diversity ◽  
Population Genetic ◽  
Critically Endangered ◽  
Ex Situ ◽  
Genetic Structuring ◽  
Long Term Storage ◽  
Hardy Weinberg Equilibrium ◽  
Term Storage

Allozyme electrophoresis was used to evaluate the levels of genetic diversity and population genetic structure of the critically endangered Clematis acerifolia Maximowicz (Ranunculaceae), a narrow endemic species in China. On the basis of variation at 19 putative loci in nine populations covering the entire distribution of this species, low values of genetic diversity were detected (P = 20.5%, A = 1.27, and He = 0.072). A significant deficiency of heterozygotes was found in all populations. Most loci showed deviations from the Hardy–Weinberg equilibrium, probably as a result of population genetic structuring. The high genetic divergence among populations (FST = 0.273) can be interpreted as an effect of the extinction of local populations and genetic drift within extant populations, and has probably been enhanced by habitat fragmentation in recent decades. Threats to this species are mainly anthropogenic (road works, construction of holiday resorts, and extraction activities), although stochastic risks cannot be ignored. Therefore, to preserve extant genetic variation of C. acerifolia, in situ strategies, such as the preservation of its habitat or at least the most diverse populations, and ex situ measures, such as the collection and long-term storage of seeds, should be adopted.

Microsatellite markers of Gonystylus bancanus (Thymelaeaceae) for population genetic studies and DNA fingerprinting

2009 ◽  
Vol 1 (1) ◽  
pp. 153-157 ◽  
Author(s):  
Kevin Kit Siong Ng ◽  
Soon Leong Lee ◽  
Chin Hong Ng ◽  
Lee Hong Tnah ◽  
Chai Ting Lee ◽  
...  
Keyword(s):  
Microsatellite Markers ◽  
Dna Fingerprinting ◽  
Population Genetic ◽  
Genetic Studies

scholarly journals Characterization of Novel Genotyping-by-sequencing (GBS)-based Simple Sequence Repeats (SSRs) and Their Application for Population Genomics of Capoeta Aculeata (Valenciennes, 1844)

2021 ◽  
Author(s):  
Habibollah Gandomkar ◽  
Seyed Pezhman Hosseini Shekarabi ◽  
Hossein Ali Abdolhay ◽  
Sajad Nazari ◽  
Mehdi Shamsaei Mehrjan
Keyword(s):  
Genetic Structure ◽  
Microsatellite Markers ◽  
Population Genetic Structure ◽  
Population Genetic ◽  
Population Genomics ◽  
Freshwater Species ◽  
Zagros Basin ◽  
Next Generation Sequencing Technology ◽  
Ssr Loci ◽  
Polymorphic Microsatellite

Abstract The species Capoeta aculeata (Valenciennes, 1844) is one of the most important freshwater species endemic to Iran. However, the investigation of a population genetic structure of this species is limited by the low number of molecular markers currently described. In this study, we implemented next generation sequencing technology to identify polymorphic microsatellite markers and investigate the population genetic structure of C. aculeata sampled from three geographical sites in Iran. We sequenced 60 individuals from three populations occurring in the Zagros basin. We characterized and developed 36 novel polymorphic microsatellite markers and these loci were examined in 120 individuals from three populations occurring in the Zagros basin. The average number of alleles per locus varied from 1.7 to 16. (average = 7.89). The results showed that, the polymorphism information content (PCI) of these SSR loci varied from 0.254 to 0.888. The observed heterozygosity (Ho) per locus ranged from 0.170 to 0.881, while the expected heterozygosity (He) per locus was from 0.170 to 0.881. Among these SSR loci, 20 loci deviated significantly from the Hardy–Weinberg equilibrium after Bonferroni correction (p< 0.05). These microsatellite markers could provide a valuable tool for future population and conservation genetics studies of C. aculeate populations and other closely related species.

scholarly journals Development of microsatellite markers for the house cricket, Acheta domesticus (Orthoptera: Gryllidae)

2020 ◽  
Vol 21 (9) ◽  
Author(s):  
Yash Munnalal Gupta ◽  
SUPATCHAREE TANASARNPAIBOON ◽  
KITTISAK BUDDHACHAT ◽  
SURIN PEYACHOKNAGUL ◽  
PHATTHARAPORN INTHIM ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Genetic Analysis ◽  
Microsatellite Markers ◽  
Population Genetic ◽  
Acheta Domesticus ◽  
House Cricket ◽  
Population Genetic Analysis ◽  
Closely Related Species ◽  
Genetic Studies ◽  
Future Population

Abstract. Gupta YM, Tanasarnpaiboon S, Buddhachat K, Peyachoknagul S, Inthim P, Homchan S. 2020. Development of microsatellite markers for the house cricket, Acheta domesticus (Orthoptera: Gryllidae). Biodiversitas 21: 4094-4099. The house cricket, Acheta domesticus, is one of the species of crickets commonly found in Thailand. Insect breeders in Thailand prefer to breed house cricket as food due to its better taste and popularity among local people. Moreover, largescale breeding industries also breed house cricket to produce cricket-based edible products. Insect breeding industry is growing rapidly and requires primary precaution for sustainable production. To facilitate breeding system to maintain genetic variation in the captive population, we have sequenced the whole genome of A. domesticus to search for simple sequence repeats (SSRs) in order to develop polymorphic microsatellite markers for preliminary population genetic analysis. A total of 112,157 SSRs with primer pairs were identified in our analysis.  Of these, 91 were randomly selected to check for amplification of microsatellite polymorphisms. From these, nine microsatellites were used to check genetic variation in forty-five individuals of A. domesticus from the Phitsanulok population (Thailand).  These microsatellite markers also showed cross-amplification with other three species of edible crickets, specifically Gryllus bimaculatus, Gryllus testaceus, and Brachytrupes portentosus. The microsatellite markers presented herein will facilitate future population genetic analysis of A. domesticus populations. Moreover, the transferability of these makers would also enable researchers to conduct genetic studies for other closely related species.

scholarly journals Development and characterization of 29 polymorphic microsatellite loci of Megalobrama pellegrini by next-generation sequencing technology and cross-species amplification in related species

2016 ◽  
Author(s):  
Wen Song ◽  
Dongmei Zhu ◽  
Yefeng Lv ◽  
Weimin Wang
Keyword(s):  
Microsatellite Markers ◽  
Microsatellite Loci ◽  
Related Species ◽  
Polymorphic Information Content ◽  
Sequencing Technology ◽  
Next Generation Sequencing Technology ◽  
Expected Heterozygosity ◽  
Polymorphic Microsatellite ◽  
Generation Sequencing

Megalobrama pellegrini is one of the economically important freshwater fish in China. Here, we developed 29 polymorphic microsatellite loci of M. pellegrini. The number of alleles (Na), effective number of alleles (Ne), observed heterozygosity (HO), expected heterozygosity (HE) and polymorphic information content (PIC) ranged from 3 to 11 (mean±SD 5.4828±1.9571), 2.8708 to 9.6257 (mean±SD 5.0865±1.6681), 0.4333 to 0.9333 (mean±SD 0.7874±0.1213), 0.6627 to 0.9113 (mean±SD 0.7946±0.0751) and 0.5785 to 0.8868 (mean±SD 0.7439±0.0950), respectively. Cross-species amplification was successful at most loci for related species such as M. amblycephala, M. hoffmanni, M. skolkovii and Parabramis pekinensis. The transferability rate of the 29 polymorphic microsatellite markers in M. amblycephala, M. hoffmanni, M. skolkovii and P. pekinensis were 96.55%, 86.21%, 86.21% and 75.86%, respectively. These polymorphic microsatellites are not only useful in genetic study and conservation of M. pellegrini, but also an effective tool for identifying the related species. We could use 5 microsatellite markers (HHF-63, HHF-104, HHF-113, HHF-148, HHF-163) to distinguish the 5 species.

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