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Microsatellite DNA markers for the commercially important fish Hypophthalmus donascimientoi (Pisces: Siluriformes: Pimelodidae) in the Amazon basin: isolation, characterization and amplification in congeneric species

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Abstract

Background

The genus Hypophthalmus comprises six species (H. edentatus, H. marginatus, H. fimbriatus, and H. oremaculatus), and the recently described: H. donascimientoi and H. celiae. The popular name for Hypophthalmus spp. in Brazil is mapará, this name refers to the six species. This group of fish has commercial importance for the states of Amazonas and Pará and, for this reason, requires studies to identify fish stocks. One approach is to use molecular markers, which have been very useful in studies with identification and population analysis of fish. Microsatellite molecular markers (SSRs) are one of the most informative markers for this purpose. There is little populations study of Hypophthalmus using SSRs, and there are less than six loci for the species Hypophthalmus marginatus available in the literature. With the construction of a genomic library of H. donascimientoi, we aimed to isolate and characterize SSRS markers and evaluate the extent of interspecific amplification.

Methods and results

A genomic library was constructed with regions enriched of microsatellite for Hypophthalmus donascimientoi. A total of 126 contigs with 42 SSRs were used to design flanking primers for 39 microsatellites. Fifteen loci were characterized in three locations of the Solimões/Amazonas Rivers. The number of alleles ranged from one to 17 with a total of 126 alleles. The mean observed heterozygosity (HO) and expected heterozygosity (HE) were 0.721–0.692, respectively (S.d. HO 0.061 and HE 0.060). Two loci showed significant deviation in the HWE. The PIC ranged from 0.375 to 0.908. Such identified, 12 highly informative loci, and two moderately informative loci. Among the fifteen loci characterized, seven were successfully amplified in four other species of the genus.

Conclusions

The microsatellite showed promise for estimating the genetic variability of H. donascimientoi and can be used as an efficient tool in population analyses of this species and in congeneric species analyzed.

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Change history

  • 24 May 2023

    In the author names “Jacqueline da Silva Batista and Adriano de Jesus Bentes”, “da Silva” and “de Jesus” are corrected as particles.

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Funding

This study was funded via FAPEAM/SEPLANCTI/Governo do Estado do Amazonas: PIPT/FAPEAM (514/2008) for JSB and the call POSGRAD 2020 (159/2020) for JSB/PPG-GCBEv-INPA; by the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) PROSUL/CNPq (490598/2007–2) for JAAG by MCTIC/INPA/PPI. We would like to thank Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES—88882.444352/2019–01) for the scholarship awarded to GMGM during this study. We would also like to thank Coleção de Recursos Genéticos do Instituto Nacional de Pesquisas da Amazônia (CRG/INPA) and the Coleção de Tecidos de Genética Animal at Universidade Federal do Amazonas (CTGA/UFAM) for supplying the samples for the study, and Carlos Marques for the technical assistance with the IT. This publication is part of the doctoral thesis of GMGM via the PPG-GCBEv/INPA. The authors declare that no funds, grants, or other support were received during the preparation of this manuscript.

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Authors and Affiliations

  1. Programa de Pós-Graduação em Genética, Conservação e Biologia Evolutiva (PPG-GCBEv/INPA), Laboratório Temático de Biologia Molecular (LTBM), Instituto Nacional de Pesquisas da Amazônia (INPA), Manaus, AM, Brazil

    Giselle Moura Guimarães-Marques

  2. Laboratório Temático de Biologia Molecular (LTBM), Instituto Nacional de Pesquisas da Amazônia (INPA), Manaus, AM, Brazil

    Adriano de Jesus Bentes

  3. Coordenação de Biodiversidade (COBIO), Programa de Pós-Graduação em Genética Conservação e Biologia Evolutiva (PPG-GCBEv), Laboratório Temático de Biologia Molecular (LTBM), Instituto Nacional de Pesquisas da Amazônia (INPA), Manaus, AM, Brazil

    Kyara Martins Formiga

  4. Coordenação de Biodiversidade (COBIO), Laboratório Temático de Biologia Molecular (LTBM), Programa de Pós-Graduação em Genética, Conservação e Biologia Evolutiva (PPG-GCBEv), Instituto Nacional de Pesquisas da Amazônia (INPA), Av. André Araújo, 2936, CEP 69067-375, Manaus, AM, Brazil

    Jacqueline da Silva Batista

Authors
  1. Giselle Moura Guimarães-Marques
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  2. Adriano de Jesus Bentes
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  3. Kyara Martins Formiga
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  4. Jacqueline da Silva Batista
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Contributions

GMGM, KMF and JSB conceived the study; GMGM, KMF and JSB collected the specimens; GMGM, AJB and JSB conducted the experiments and analyzed the data; GMGM and JSB wrote the manuscript. All authors read and approved the final version.

Corresponding author

Correspondence to Jacqueline da Silva Batista.

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Conflict of interest

The authors declare that they have no conflicts of interest. This manuscript contains original data and has not been published and is not being considered for publishing in any other journal.

Ethical approval

The collection, transport and genetic access were approved by the Brazilian Institute of the Environment and Renewable Natural Resources (IBAMA) through licenses No. 130, 25890–1, 40844–2, 40844–5.

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Guimarães-Marques, G.M., de Jesus Bentes, A., Formiga, K.M. et al. Microsatellite DNA markers for the commercially important fish Hypophthalmus donascimientoi (Pisces: Siluriformes: Pimelodidae) in the Amazon basin: isolation, characterization and amplification in congeneric species. Mol Biol Rep 50, 3957–3962 (2023). https://doi.org/10.1007/s11033-023-08284-w

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