Genetic structure of a Neotropical sedentary fish revealed by AFLP, microsatellite and mtDNA markers: a case study

Ferreira, Dhiego G.; Galindo, Bruno A.; Frantine‐Silva, Wilson; Almeida, Fernanda Simões de; Sofia, Silvia Helena

doi:10.1007/s10592-014-0648-2

Cited by 27 publications

(20 citation statements)

References 83 publications

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“…The data on molecular variance were consistent with the results of our Bayesian analysis using STRUCTURE software, which showed that despite the existence of two possible genetic clusters in each species, several individuals were derived from a mixture of the two clusters, and that individuals from the two clusters were present in both study sites (Figure 3). Similar patterns were also reported by Ferreira et al (2014) using AFLP and SSR markers in G. brasiliensis from sites close to those sampled in present study.…”

Section: Discussionsupporting

confidence: 91%

“…They also found molecular variance differences greater than 10% among contiguous sub-localities without physical barriers, agreeing with the high level of genetic structuring found for the same subpopulations (ϕ ST ≅ 0.10). Similar results were reported by Ferreira et al (2014) in an AFLP marker analysis of the sedentary species Geophagus brasiliensis in the Laranjinha River. Lopes et al (2007) studied the migratory species Salminus brasiliensis and sampled at fish ladders of Canoas I, Canoas II, and Rio Paranapanema.…”

Section: Discussionsupporting

confidence: 89%

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Genetic analysis of five sedentary fish species in middle Laranjinha River (upper Paraná River basin): A case study

Frantine‐Silva¹,

Ferreira²,

Nascimento³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Most studies of diversity and genetic structure in neotropical fish have focused on commercial species from large rivers or their reservoirs. However, smaller tributaries have been identified as an important alternative migratory route, with independent pools of genetic diversity. In this context, the present study aimed to evaluate genetic diversity and structure in five neotropical fish species from a region of Laranjinha River in the upper Paraná River basin. PCR-RAPD (random amplified polymorphic DNA) markers were used to characterize around 40 individuals of each species distributed upstream and downstream of Corredeira Dam that interrupts the river. The descriptive index of genetic diversity (P = 30.5-82%; H E 0.122-0.312) showed that the populations have acceptable levels of genetic diversity. The values for Nei's genetic distance (D N min 0.0110 and max 0.0306) as well as the genetic structure index and the analysis of molecular variance (AMOVA, ϕ ST min 0.0132 and max 0.0385) demonstrated low, but significant levels of genetic structure. Bayesian analysis of assignment found two k clusters, including several individuals with mixed ancestry for all populations from the five species analyzed. These findings along with historical data on rainfall and the low dimensions of the dam studied here support the hypothesis that periodic floods enable the transit of individuals between different localities mitigating the differentiation process between populations.

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Section: Discussionsupporting

confidence: 91%

Section: Discussionsupporting

confidence: 89%

Genetic analysis of five sedentary fish species in middle Laranjinha River (upper Paraná River basin): A case study

Frantine‐Silva¹,

Ferreira²,

Nascimento³

et al. 2015

Genet. Mol. Res.

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“…These results are similar to those previously reported for these species (Leuzzi et al, 2004;Zaganini et al, 2012;Ferreira et al, 2015). Indeed, RAPD and microsatellite markers also revealed high levels of genetic diversity in populations of A. altiparanae from other drainages of the upper Paraná River basin, including the Grande River (H E = 0.799) (Zaganini et al, 2012), Paranapanema River (P = 72.65%) (Leuzzi et al, 2004), Tietê River, Keller River, and Pirapó River (Prioli et al, 2002).…”

Section: Genetic Diversity and Demographic Analysessupporting

confidence: 90%

“…Molecular markers, especially those derived from PCR, have contributed greatly to population genetic studies of Neotropical fish fauna (Pamponet et al, 2008;Garcez et al, 2011;Ferreira et al, 2015). Therefore, the aim of the present study was to use microsatellite and RAPD (random amplified polymorphic DNA) markers to analyze population genetics of two fish species, A. altiparanae and G. brasiliensis, which are distributed throughout the Penacho stream, Upper Paraná River.…”

Section: Introductionmentioning

confidence: 99%

Fine-scale genetic structure patterns in two freshwater fish species, Geophagus brasiliensis (Osteichthyes, Cichlidae) and Astyanax altiparanae (Osteichthyes, Characidae) throughout a Neotropical stream

et al. 2016

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ABSTRACT. Streams are very important environments for Neotropical freshwater fish fauna, and possess a high number of species. These small drainages are also highlighted by their intrinsic biological and physicochemical features; however, knowledge on the genetic distribution of fish in these drainages is limited. Therefore, in the present study, RAPD (random amplified polymorphic DNA) and microsatellite markers were used to analyze population differentiation and gene flow of Astyanax altiparanae and Geophagus brasiliensis from three sites (high, medium, and low) throughout the Penacho stream (about 32 km long), which is a Neotropical stream. Both markers revealed higher levels of genetic diversity levels for A. altiparanae ( P : 90.05; H S : 0.350) compared to G. brasiliensis ( P : 30.43; H S : 0.118), which may be related to the particular biology of each species. AMOVA revealed significant genetic variation among populations of each species. All pairwise Ф ST values were significant, ranging from 0.020 to 0.056 for A. altiparanae samples, and from 0.065 to 0.190 for G. brasiliensis samples. Bayesian clustering analysis corroborated these results and revealed clusters of both A. altiparanae (two based on RAPD data) and G. brasiliensis (two based on RAPD data and three on microsatellite data). Gene flow estimates showed that there were similar rates of migration among A. altiparanae samples and low rates of migration among some G. brasiliensis samples. These results suggest patterns of fine-scale genetic structure for both species in the Penacho stream. This information may enhance knowledge of Neotropical streams and may be useful for future management and conservation activities.

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“…Due to its high capacity to detect polymorphism and its easy and low-cost implementation (LIU;CORDES, 2004), dominant markers have been successfully employed in the characterization of genetic broodstocks and natural fish populations (GOMES et al, 2013;JACOMETO et al, 2010;HALFEN et al, 2012;FERREIRA et al, 2015;HAN et al, 2015).…”

Section: Introductionmentioning

confidence: 99%

Genetic characteristics of Tambaqui broodstocks in the state of Rondônia, Brazil: implications on production and conservation

Ribeiro

Rodríguez-Rodríguez

Resende

et al. 2016

SCA

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In recent years, the genetic monitoring of broodstocks in fish farming has been greatly highlighted due to its importance in the management and improvement of their production and conservation. Current study evaluates the genetic diversity of four Tambaqui broodstocks (Colossoma macropomum) in the state of Rondônia (Brazil) and discusses activities towards the species´s correct production management and conservation. Nine primers were employed to analyze 94 specimens from four fish farms in the municipalities of Ji-Paraná (JP), Ouro Preto do Oeste (OP), Presidente Médici (PM) and Rolim de Moura (RM). Differences in the frequency of 38 fragments, with an exclusive fragment in JP and OP, were reported. High polymorphism (52.40 to 64.60%) and Shannon Index (0.313 to 0.382) rates were observed. The analysis of molecular variance (AMOVA) demonstrated that most variation is within each stock. The identity and genetic distance between the groups ranged between 0.927 and 0.954 and between 0.047 and 0.076 respectively, with shortest distance between the OPxPM and JPxRM groups. Genetic differentiation ranged from moderate to high (Fst = 0.081 to 0.179) and the number of migrants per generation was moderate (Nm = 3.83 to 6.24). As a rule, stocks showed high genetic variability and moderate / high differentiation and genetic distance between them. The results allowed direct conservation programs and increase the productivity of this species in fish farming through breeding programs. ResumoNos últimos anos, o monitoramento genético de estoques na piscicultura tem recebido grande destaque devido a sua importância no gerenciamento e melhora da sua produção e conservação. Dessa forma, o objetivo deste estudo foi avaliar de forma inédita a diversidade genética de quatro estoques de reprodutores Tambaqui (Colossoma macropomum) do estado de Rondônia (Brasil) e através dela, discutir ações que contribuam com o correto manejo produtivo e conservação dessa espécie. Utilizaram-se nove iniciadores para analisar 94 indivíduos de quatro pisciculturas dos municípios Ji-Paraná (JP), Ouro Preto do Oeste (OP), Presidente Medici (PM) e Rolim de Moura (RM). Foram encontradas diferenças nas frequências de 38 fragmentos, com um fragmento exclusivo em JP e OP. Altos valores de polimorfismo (52,40 a 64,60%) e índice de Shannon (0,313 a 0,382) foram observados. A análise de variância molecular (AMOVA) demostrou que a maior parte da variação está dentro de cada estoque. A identidade e distância genética entre os agrupamentos variou de 0,927 a 0,954 e 0,047 a 0,076, respectivamente, com menor distância entre os agrupamentos OPxPM e JPxRM. A diferenciação genética variou de moderada a alta (Fst = 0,081 a 0,179) e o número de migrantes por geração foi moderado (Nm = 3,83 a 6,24). De forma geral, os estoques apresentaram alta variabilidade genética e moderada/alta diferenciação e distancia genética entre eles. Os resultados permitirão direcionar programas de conservação e aumentar a produtividade dessa espécie na piscicultura através de program...

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Genetic structure of a Neotropical sedentary fish revealed by AFLP, microsatellite and mtDNA markers: a case study

Cited by 27 publications

References 83 publications

Genetic analysis of five sedentary fish species in middle Laranjinha River (upper Paraná River basin): A case study

Genetic analysis of five sedentary fish species in middle Laranjinha River (upper Paraná River basin): A case study

Fine-scale genetic structure patterns in two freshwater fish species, Geophagus brasiliensis (Osteichthyes, Cichlidae) and Astyanax altiparanae (Osteichthyes, Characidae) throughout a Neotropical stream

Genetic characteristics of Tambaqui broodstocks in the state of Rondônia, Brazil: implications on production and conservation

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