Microsatellite Markers for Population Genetic Studies of the Rock Firefinch,Lagonosticta sanguinodorsalis

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.

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Research Article Utility of heterologous microsatellite markers for population genetic studies on tropical species of Asteraceae

Genetics and Molecular Research ◽

10.4238/gmr18546 ◽

2020 ◽

Vol 19 (2) ◽

Author(s):

G.G. Weber ◽

D.L. Lima ◽

L. Pilati ◽

A. Silvério ◽

P.R. Da-Silva

Keyword(s):

Microsatellite Markers ◽

Population Genetic ◽

Tropical Species ◽

Genetic Studies ◽

Research Article

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

Silvae Genetica ◽

10.2478/sg-2019-0007 ◽

2019 ◽

Vol 68 (1) ◽

pp. 41-44 ◽

Cited By ~ 1

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.

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Microsatellite markers for population-genetic studies of shiitake (Lentinula edodes) strains

Genes & Genomics ◽

10.1007/bf03191853 ◽

2009 ◽

Vol 31 (6) ◽

pp. 403-411 ◽

Cited By ~ 4

Author(s):

Ki-Hwan Kim ◽

Yong-Yul Kim ◽

Kang-Hyeon Ka ◽

Hyoung-Seok Lee ◽

Won-Chull Bak ◽

...

Keyword(s):

Microsatellite Markers ◽

Population Genetic ◽

Lentinula Edodes ◽

Genetic Studies

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De novo development and characterization of polymorphic microsatellite markers in a schilbid catfish, Silonia silondia (Hamilton, 1822) and their validation for population genetic studies

Molecular Biology Reports ◽

10.1007/s11033-016-3941-y ◽

2016 ◽

Vol 43 (2) ◽

pp. 91-98 ◽

Cited By ~ 4

Author(s):

Sangeeta Mandal ◽

J. K. Jena ◽

Rajeev K. Singh ◽

Vindhya Mohindra ◽

W. S. Lakra ◽

...

Keyword(s):

Microsatellite Markers ◽

Population Genetic ◽

De Novo ◽

Genetic Studies ◽

Polymorphic Microsatellite

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Mining of microsatellites in mitochondrial genomes of order Hypnales (Bryopsida)

Plant Science Today ◽

10.14719/pst.2019.6.sp1.697 ◽

2019 ◽

Vol 6 (sp1) ◽

pp. 635-638

Author(s):

Khushbu Anand ◽

Sonu Kumar ◽

Afroz Alam ◽

Asheesh Shankar

Keyword(s):

Genetic Variability ◽

Microsatellite Markers ◽

Species Identification ◽

In Silico ◽

Population Genetic ◽

Average Density ◽

Computational Approach ◽

Mitochondrial Genomes ◽

Genetic Studies ◽

Nucleotide Repeats

Microsatellites or SSRs are the markers of selection due to their reproducibility, degree of polymorphism, distribution throughout the genome and co-dominant nature. Microsatellites are used primarily to study the genetic variability in various species and marker aided selection. Since microsatellites can be readily amplified by PCR, they have been utilized most extensively. To reduce time and cost to a great extent, the computational approach for identifying and developing microsatellite markers by mining nucleotide sequences is preferred over the conventional methods. In the present analysis, an in-silico method was used to detect microsatellites effectively in mitochondrial genomes of Anomodon rugelii (Müll. Hal.) Keissl., Anomodon attenuatus (Hedw.) Hueb., Climacium americanum (Renauld & Cardot) Kindberg, and Hypnum imponens Hedw. (Bryopsida; Hypnales). A total of 101 perfect microsatellites were mined with an average density of 1 microsatellite/4.21 kb. The hexa-nucleotide repeats were not detected in mitochondrial genomes of studied taxa. Di-nucleotides were seen to be the most frequent repeats followed by tetra-nucleotides. The identified microsatellites were also checked for variability in length between species. The mined microsatellites will be used for gene tagging, species identification and population genetic studies.

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

HortScience ◽

10.21273/hortsci.45.4.690 ◽

2010 ◽

Vol 45 (4) ◽

pp. 690-692 ◽

Cited By ~ 7

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.

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