scholarly journals Isolation and characterization of ten new microsatellite markers in Machaerium villosum Vogel (Fabaceae)

Hoehnea ◽  
2014 ◽  
Vol 41 (1) ◽  
pp. 77-80
Author(s):  
João Giudice-Neto ◽  
Rafael Flora Ramos ◽  
Evandro Marsola de Moraes ◽  
Márcio José da Silva ◽  
Vera Nisaka Solferini
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Southeastern Brazil ◽  
Atlantic Rain Forest ◽  
High Genetic Diversity ◽  
Isolation And Characterization ◽  
Minas Gerais State ◽  
The Mean ◽  
Significant Linkage

Machaerium villosum is an important tree species from Southeastern Brazil. We report hereby 10 new microsatellite markers to investigate the structure and genetic diversity of this species. Ninety-seven alleles were detected in 60 specimens from a natural population in Minas Gerais State. High genetic diversity has been found. The mean observed and expected heterozygosities were 0.771 and 0.802, respectively. One locus showed significant Hardy-Weinberg departure and five loci combinations showed significant linkage disequilibrium. These 10 new microsatellite loci will be used to evaluate the genetic diversity of this species in order to understand the fragmentation effects of the Brazilian Atlantic Rain Forest.

scholarly journals Short Note: Isolation and Characterization of 12 Polymorphic Microsatellite Markers in Engelhardia roxburghiana (Juglandaceae)

2014 ◽  
Vol 63 (1-6) ◽  
pp. 109-112 ◽  
Author(s):  
Dan-Dan Zhang ◽  
Pi Luo ◽  
Ying Chen ◽  
Zheng-Feng Wang ◽  
Wan-Hui Ye ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Short Note ◽  
Screening Method ◽  
Wide Distribution ◽  
Enriched Library ◽  
Isolation And Characterization ◽  
Nuclear Microsatellite ◽  
Polymorphic Microsatellite

Abstract Engelhardia roxburghiana is a common half evergreen tree with a wide distribution in southeast Asia. Despite its ecological and pharmaceutical values, its genetic diversity is poorly studied. Our objective was to develop nuclear microsatellite markers to investigate the level of genetic diversity within and among populations in the future. Using the microsatellite-enriched library and PCR-based screening method, 12 microsatellite markers were developed and showed polymorphism in a population. The number of alleles per locus for these 12 microsatellites ranged from four to 15. The observed and expected heterozygosities ranged from 0.358 to 0.897 and from 0.369 to 0.886, respectively. The developed microsatellites will be useful for studying genetic diversity and population structure in E. roxburghiana.

scholarly journals Isolation and Characterization of Microsatellites For The Endangered Endemic Tree Nothofagus Alessandrii (Nothofagaceae)

2021 ◽  
Author(s):  
Cristian Torres-Díaz ◽  
Moisés A. Valladares ◽  
Marco A. Molina-Montenegro ◽  
Freddy Mora-Poblete
Keyword(s):  
Genetic Diversity ◽  
Conservation Status ◽  
Genetic Connectivity ◽  
Mean Values ◽  
Isolation And Characterization ◽  
Genetic Diversity And Structure ◽  
Hardy Weinberg Equilibrium ◽  
The Mean ◽  
Pooled Sample

Abstract Nothofagus alessandrii (Nothofagaceae) is one of the most endangered trees from Chile. Despite its conservation status, few molecular markers are available to study its population genetic, connectivity and to assist reproduction programs. Novel polymorphic microsatellites from the genome of N. alessandrii were isolated and characterized using high-through sequencing. A total of 30 primer pairs were synthesized and 18 microsatellites were amplified correctly. Polymorphism and genetic diversity was evaluated in 58 individuals from three populations of N. alessandrii. Sixteen of them were polymorphic and the number of alleles in the pooled sample ranged from 2 to 14, the mean number of alleles was 4.81. The mean values of observed heterozigosity (HO) and excepted heterozygosity (HE) of the Chanco population were 0.392 and 0.383. The mean values of HO and HE in the population of Empedrado (0.397 and 0.360, respectively) and Fundo el Desprecio (0.397 and 0.395, respectively) were similar. Linkage disequilibrium was found in a few pairs of loci suggesting that most of the markers can be considered as independent. Significant deviations from Hardy- Weinberg equilibrium (P < 0.05) were found in several loci probably due to low sampling size. Transferability to the congeneric N. pumilio was successful in only four out of the sixteen polymorphic markers. The microsatellite markers developed in this study will be useful to study the genetic diversity and structure and to develop integrated managements plans for the conservation on this endangered species.

scholarly journals Molecular Characterization of Lates niloticus (Perciformes, Latidae) Populations from three Nigerian Waterbodies using Random Amplified Polymorphic DNA and Microsatellite Markers

2017 ◽  
Vol 51 (1) ◽  
pp. 31-36
Author(s):  
K. E. Ogbuebunu ◽  
M. O. Awodiran
Keyword(s):  
Genetic Diversity ◽  
Population Structure ◽  
Gene Flow ◽  
Microsatellite Markers ◽  
Random Amplified Polymorphic Dna ◽  
Population Level ◽  
Effective Number ◽  
Lates Niloticus ◽  
The Mean

Abstract Thirty Lates niloticus (Linnaeus, 1758) from three Nigerian waterbodies were genotyped on six RAPD primers and five microsatellites loci. RAPD revealed that effective number of alleles (AE) at population level per locus was within the range of 1.641 ± 0.066 to 1.645 ± 0.041 while the mean number of alleles (AN) across populations equals 2.000. Characterization on five microsatellites loci revealed genetic diversity within and among studied populations. Observed heterozygousity (HO) was within the range of 0.317 ± 0.335 to 0.523 ± 0.315 while expected heterozygousity (HE) was within the range of 0.414 ± 0.306 to 0.715 ± 0.097. Proportion of differentiation (FST) within populations was 0.236. Overall gene flow (Nm) among populations equals 0.806. This study established the successful use of RAPD and microsatellite as tools for studying population structure of fish species, especially L. niloticus. Thus, it can be concluded that L. niloticus in the three (3) sampled Nigerian waterbodies is undergoing evolution.

scholarly journals Primer Note: Microsatellite-AFLP development for Araucaria araucana (Mol.) K. Koch, an endangered conifer of Chilean and Argentinean native forests

2011 ◽  
Vol 60 (1-6) ◽  
pp. 285-288 ◽  
Author(s):  
G. Marconi ◽  
M. A. Martín ◽  
M. Cherubini ◽  
L. Raggi ◽  
F. Drake ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Native Species ◽  
Conservation Strategy ◽  
Native Forests ◽  
Araucaria Araucana ◽  
The Mean ◽  
Two Populations ◽  
Aflp Technique

Abstract Araucaria araucana (Mol.) K. Koch is one of the most important native species of Chile and Argentina, and also one of the most endangered. In this study, we report the development and characterization of a set of microsatellite markers in the species by means of the microsatellite-AFLP (M-AFLP) technique. A total of 25 M-AFLP derived bands, showing a typical microsatellite pattern, were selected and sequenced. Of these, 12 that contained microsatellite sequences, were used for primer extension. Six of the resulting SSR markers provided easily interpretable patterns and were used to investigate the level of genetic diversity in two populations of A. araucana. A total of 43 alleles were amplified. The mean overall loci of observed and expected heterozygosities for the Conguillio and Villa Araucaria populations were 0.322 and 0.443, respectively. The primers presented in this study may provide useful information for the establishment of a conservation strategy in the species.

scholarly journals Assessment of genetic diversity among wild populations of the striped catfish (Pangasianodon hypophthalmus) by 20 novel microsatellite markers

2021 ◽  
Vol 63 (7) ◽  
pp. 37-41
Author(s):  
Van Sang Nguyen ◽  
◽  
Minh Thanh Nguyen ◽  
Hoang Thong Nguyen ◽  
Hoang Gia Linh Tran ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Microsatellite Markers ◽  
Polymorphic Information Content ◽  
Draft Genome ◽  
Null Alleles ◽  
Wild Populations ◽  
High Genetic Diversity ◽  
Pangasianodon Hypophthalmus ◽  
Striped Catfish ◽  
The Mean

The striped catfish, Pangasianodon hypophthalmus, is one of the most economically important aquaculture species in Vietnam. This study developed 26 novel microsatellite markers from the draft genome of the striped catfish to assess the genetic diversity of three wild populations of the striped catfish (Bien Ho, Cuu Long, and Kratie) for establishing the breeding program. The study exhibited that 6 out of 26 loci had significantly high null allele frequency and deviated from Hardy - Weinberg equilibrium; thus, they were eliminated for further analysis. Across 20 loci without null alleles, a total of 255 different alleles was identified, ranging from 7 to 21 alleles per locus, with many unique alleles for each population. The results based on 20 loci revealed the mean polymorphic information content PIC=0.783; the mean observed heterozygosity Ho=0.809; the mean expected heterozygosity He=0.812; inbreeding coefficient Fis=-0.0147 (Fis<0). The results indicated that the striped catfish populations have high genetic diversity and are suitable for selective breeding. The Analysis of Molecular Variance (AMOVA) and comparison of genetic distances showed significant genetic differentiation among three populations while the Kratie population was distant from the others.

scholarly journals Isolation and Characterization of Microsatellite Markers in the Endangered Species Taxus wallichiana Using the FIASCO Method

HortScience ◽  
2009 ◽  
Vol 44 (7) ◽  
pp. 2043-2045 ◽  
Author(s):  
Jun-Bo Yang ◽  
Hong-Tao Li ◽  
De-Zhu Li ◽  
Jie Liu ◽  
Lian-Ming Gao ◽  
...  
Keyword(s):  
Endangered Species ◽  
Microsatellite Markers ◽  
Conservation Strategy ◽  
Eastern Himalayas ◽  
Allele Number ◽  
Isolation And Characterization ◽  
Significant Linkage ◽  
Himalayan Yew ◽  
Taxus Wallichiana

The Himalayan yew, Taxus wallichiana Zucc., is an endangered species with a scatted distribution in the Eastern Himalayas and southwestern China. In the present study, 10 microsatellite markers from the genome of T. wallichiana were developed using the protocol of fast isolation by amplified fragment length polymorphism of sequences containing repeats (FIASCO). Polymorphism of each locus was assessed in 28 samples from four wild populations of the Himalayan yew. The allele number of the microsatellites ranged from two to five with an average of 2.9 per allele. The observed and expected heterozygosity varied from 0.00 to 1.00 and from 0.3818 to 0.7552, respectively. Cross-species amplification in another two yew species showed eight of them holding promise for sister species. Two of the 10 loci (TG126 and TC49) significantly deviated from Hardy-Weinberg expectations. No significant linkage disequilibrium was detected between the comparisons of these loci. These polymorphic microsatellite markers would be useful tools for population genetics studies and assessing genetic variations to establish conservation strategy of this endangered species.

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