Development and characterization of 32 microsatellite loci in Genipa americana (Rubiaceae)

Manoel, Ricardo de Oliveira; Freitas, Miguel Luiz Menezes; Barreto, Mariana Araújo; Moraes, Mário Luiz Teixeira de; Souza, Anete Pereira de; Sebbenn, Alexandre Magno

doi:10.3732/apps.1300084

Cited by 7 publications

(10 citation statements)

References 3 publications

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“…The total genomic DNA was extracted from approximately 100 mg of leaf material, according to the CTAB (cetyltrimethyl ammonium bromide) method described by Doyle and Doyle (1987), with modifications, namely: increased concentration of polyvinylpyrrolidone (PVP) from 1 to 2%; CTAB, from 2 to 5%; and βmercaptoethanol, from 0.2 to 2% in the extraction buffer; and incubation time reduction from 60 to 30 minutes (at 65°C).The DNA quality and quantification was evaluated by electrophoresis in a1% agarose gel stained with ethidium bromide (0.2 mg / mL) and by nanodrop. The quantified DNA was diluted to generate working solutions at 7.5 ng/μL (Manoel et al, 2014).…”

Section: Dna Extraction and Quantificationmentioning

confidence: 99%

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Research Article The genetic diversity and population structure of Genipa Americana (Rubiaceae) in Northern Mato Grosso, Brazil

Ruzza¹,

Rossi²,

Bispo³

et al. 2018

Genet. Mol. Res.

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Genipa americana (Rubiaceae) is an endemic Amazon-region species that may be subject to inbreeding, since it grows in fragmented environments. To examine this possibility, we examined the genetic diversity and population structure of three G. americana populations naturally grown in Northern Mato Grosso State using SSR markers. Sixty-four individuals were sampled from the three populations: 20 in AFL, 20 in MTP, and 24 in NBD. DNA extraction was performed according to the CTAB method, with modifications. Six SSR primers developed for the species were used. The allele frequency, the observed and expected heterozygosity, polymorphism information content), and the fixation Index were estimated. Molecular variance and principal coordinates analyses were conducted, and the most likely number of groups was inferred using the Structure software to help understand the genetic structure of the populations. The six microsatellite loci used showed 17 alleles, ©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 17 (4): gmr18017 D.A.C. Ruzza et al 2 in total, ranging from 2 to 4 alleles per locus, with a mean of 2.83. The expected heterozygosity ranged from 0.35 to 0.67 and remained higher than the observed heterozygosity for all loci. The three populations showed genetic diversity, shared genetic material and presented high inbreeding indexes. Cluster analysis results showed genetic material sharing between populations, as well as a lack of genetic structuring among individuals according to their geographical origins. The molecular characterization revealed that the genetic diversity is higher within than between populations. The three populations had shared genetic material and a high inbreeding index due to low observed heterozygosity. This could be a consequence of the fragmented environment where these populations currently live in, since it reduces the number of G. americana individuals and can increase inbreeding.

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Section: Dna Extraction and Quantificationmentioning

confidence: 99%

“…Seventeen SSR primers developed for G. americana were tested (Manoel et al, 2014)and six of them were selected for analysis ( Table 1).…”

Section: Amplification and Genotyping Of Ssr Locimentioning

confidence: 99%

Research Article The genetic diversity and population structure of Genipa Americana (Rubiaceae) in Northern Mato Grosso, Brazil

Ruzza¹,

Rossi²,

Bispo³

et al. 2018

Genet. Mol. Res.

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“…Microsatellite loci were amplified by polymerase chain reaction in a 15-mL final volume, using GoTaq ® Colorless Master Mix containing 7.5 mL 2X GoTaq ® Colorless Master Mix, 0.9 mM of each primer (forward and reverse), 3.0 μL nuclease-free water, and 7.5 ng template DNA. The amplification program for all the primers consisted of an initial denaturing step at 94°C for 1 min, followed by 35 cycles of each amplification at 94°C for 1 min, 1 min at the specific annealing temperature for each primer pair (Manoel et al, 2014), 72°C for 1 min, and a final elongation step at 72°C for 10 min. Amplifications were performed using a Mastercycler (Eppendorf, Hamburg, Germany).…”

Section: Methodsmentioning

confidence: 99%

“…Progeny and regenerant DNA was extracted from the leaf tissue of germinated seeds using the method of Doyle and Doyle (1987). Six primers were used (Manoel et al, 2014). Microsatellite loci were amplified by polymerase chain reaction in a 15-mL final volume, using GoTaq ® Colorless Master Mix containing 7.5 mL 2X GoTaq ® Colorless Master Mix, 0.9 mM of each primer (forward and reverse), 3.0 μL nuclease-free water, and 7.5 ng template DNA.…”

Section: Methodsmentioning

confidence: 99%

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Mendelian inheritance, genetic linkage, and genotypic disequilibrium at microsatellite loci in Genipa americana L. (Rubiaceae)

Manoel

Freitas

Tambarussi³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Genipa americana is a tropical tree species that is widely distributed in the humid tropical and subtropical regions of Central and South America. This study investigated Mendelian inheritance, genetic linkage, and genotypic disequilibrium at six microsatellite loci developed for G. americana. Adult trees (188) and regenerants (163) were sampled and genotyped in a fragmented population of the species. We also genotyped open-pollinated seeds from 12 seed-trees during reproductive events in 2010 and 2011. Significant deviations from the expected 1:1 Mendelian segregation were detected in 29.5% of the tests. Significant genetic linkage between pairwise loci was detected R.O. Manoel et al. 8162©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 14 (3): 8161-8169 (2015) in 54.4% of the tests, but no genotypic disequilibrium was detected between pairwise loci for adult trees and regenerants. Overall, the results indicate that the six loci analyzed may be used in studies of G. americana's genetic diversity and structure, its mating system, and in parentage analyses.

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Selection of Genipa americana L. seed trees by genetic divergence in fruit, seeds, and seedlings

Cola,

da Penha Moreira Gonçalves,

Maciel

et al. 2023

Genet Resour Crop Evol

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Development and characterization of 32 microsatellite loci in Genipa americana (Rubiaceae)

Cited by 7 publications

References 3 publications

Research Article The genetic diversity and population structure of <i>Genipa Americana</i> (Rubiaceae) in Northern Mato Grosso, Brazil

Research Article The genetic diversity and population structure of <i>Genipa Americana</i> (Rubiaceae) in Northern Mato Grosso, Brazil

Mendelian inheritance, genetic linkage, and genotypic disequilibrium at microsatellite loci in Genipa americana L. (Rubiaceae)

Selection of Genipa americana L. seed trees by genetic divergence in fruit, seeds, and seedlings

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