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1.
Genet Mol Res ; 16(2)2017 Apr 28.
Article in English | MEDLINE | ID: mdl-28453176

ABSTRACT

The use of next-generation sequencing (NGS) technologies provides a great volume of genome sequence data even for non-model species. The development of microsatellite markers using these data is a relatively quick and easy process. Dipteryx alata Vogel (Fabaceae) is an arboreal species from the Cerrado biome and is considered an important plant genetic resource. Here, we report the development of microsatellite markers for D. alata using NGS data. DNA samples from four individuals were sequenced using the Illumina MiSeq platform and high-quality reads were assembled into contigs of the D. alata genome sequence. Microsatellite regions were identified using the IMEX webserver and primer pairs were designed using the Primer3 software. The amplification settings for each locus were optimized. Fluorescent-labeled primers were developed and used to genotype individuals derived from three natural populations of D. alata. Fifty-four microsatellite regions were identified, from which 27 were elected to primer design. Among the amplified loci, 11 were polymorphic, with the number of alleles ranging from 2 to 10. The expected heterozygosity under Hardy-Weinberg Equilibrium (HWE) per locus varied from 0.191 to 0.807. Genotype and allele frequencies for all loci agreed with those expected under HWE and linkage disequilibrium was not significant for all pairs of loci. The probabilities of exclusion of paternity and of combined identity were equal to 0.993 and 5.65 x 10-8, respectively. The markers developed in this study are useful to several types of population genetic studies with D. alata and, eventually, for closely related species.


Subject(s)
Dipteryx/genetics , Microsatellite Repeats , Gene Frequency , Genetic Markers , Genotype , High-Throughput Nucleotide Sequencing , Polymorphism, Genetic , Sequence Analysis, DNA
2.
Genet Mol Res ; 14(3): 7274-8, 2015 Jul 03.
Article in English | MEDLINE | ID: mdl-26214405

ABSTRACT

Herein, we describe 34 microsatellite loci developed using an enrichment genomic library for the tree species Hancornia speciosa Gomes (Apocynaceae). Thirty-five individuals were genotyped using 34 primers to analyze the polymorphisms at each locus. The number of alleles per locus ranged from 4 to 20. The average number of alleles was 8.11, and the expected heterozygosity ranged from 0.62 to 0.94. These microsatellite primers will be useful in population genetics studies for this species.


Subject(s)
Apocynaceae/genetics , Microsatellite Repeats/genetics , Genetics, Population , Genotype , Polymorphism, Genetic , Trees/genetics
3.
Mol Ecol Resour ; 8(6): 1329-31, 2008 Nov.
Article in English | MEDLINE | ID: mdl-21586036

ABSTRACT

Annona crassiflora Mart. (Annonaceae) is a native fruit species of the region of Brazilian Cerrado with a high agronomic potential, although without any traces of domestication. A set of 10 microsatellite primer pairs was developed from an enriched genome library (TC13). An average of 19.3 alleles per locus was detected. Observed heterozygosity estimates were consistently lower than those obtained for gene diversity, evidencing a departure from Hardy-Weinberg expected proportions. The reported set of markers showed to be highly informative and constitutes a powerful tool for the development of genetic characterization studies in A. crassiflora.

4.
Rev. bras. biol ; 61(1): 1-6, Feb. 2001. ilus, graf, tab
Article in English | LILACS | ID: lil-282398

ABSTRACT

The Energetic Equivalence Rule (EER) is a controversial issue in ecology. This rule states that the amount of energy that each species uses per unit of area is independent of its body size. Here, we perform a meta-analytical procedure to combine and compare the slopes of population density and body size relationships across independent studies of mammals and birds. We then compared a distribution of 50,000 bootstrap combined slopes with the expected slope (b = -0.75) under the EER. The combined slopes obtained for mammals and birds separately were -0.755 and -0.321, respectively. The homogeneity hypothesis (i. e. within studies the slopes differ by no more than would be expected due sampling variation) was rejected in both cases. So, EER cannot be supported since the use of an exponent of -0.75 is, in fact, an oversimplification. Significant heterogeneity of slopes within each group (mammals and birds) is an indicator of inferential problems related with variation in body size, spatial scale, the regression model adopted and phylogenetic relationships among species. So, we consider that questions regarding the estimation and validity of slopes is the next challenge of density-body size relationship studies


Subject(s)
Animals , Body Constitution , Energy Metabolism , Meta-Analysis , Analysis of Variance , Birds/anatomy & histology , Birds/physiology , Confidence Intervals , Mammals/anatomy & histology , Mammals/physiology , Population Density , Reproducibility of Results
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