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Gonçalves AS, Netto-Ferreira AL, Saldanha SC, Rocha ACG, Gales SM, Silva DJF, Carvalho DC, Sales JBL, Burlamaqui TCT, Ready JS. Convergent and environmentally associated chromatic polymorphism in Bryconops Kner, 1858 (Ostariophysi: Characiformes: Iguanodectidae). PLoS One 2024; 19:e0298170. [PMID: 38358968 PMCID: PMC10868817 DOI: 10.1371/journal.pone.0298170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2023] [Accepted: 01/20/2024] [Indexed: 02/17/2024] Open
Abstract
Bryconops Kner, 1858, includes two well defined subgenera based on morphological evidence, with each containing at least one species (B. (Bryconops) caudomaculatus and B. (Creatochanes) melanurus) with a very wide distribution, within which regional populations present color variations. To test if phenotypic variation is related to cladogenetic events, we performed tests for phylogenetic independence and determined the strength of convergence for color characters in relation to water type, as the variation between clear, black and white waters is considered to be one of the major driving forces in the evolution of Amazonian fishes. Color characters for fins above the median line of the body were generally found to be independent from phylogeny and the Wheatsheaf test strongly supports convergence of the dorsal fin color between populations of species in the same type of water, with a similar trend suggested for the color of the dorsal lobe of the caudal fin. This means that simple color characters cannot necessarily be relied upon for taxonomic revisions of the genus as local phenotypic variants may represent environmentally determined plasticity or convergent evolution. Further studies are required to determine the validity of these characters.
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Affiliation(s)
- Andressa S. Gonçalves
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
| | - André L. Netto-Ferreira
- Laboratory of Ichthyology, Zoology Department, Biological Sciences Institute, Federal University of Rio Grande do Sul (UFRGS), Porto Alegre, Rio Grande do Sul, Brazil
| | - Samantha C. Saldanha
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
| | - Ana C. G. Rocha
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
| | - Suellen M. Gales
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
| | - Derlan J. F. Silva
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
| | - Daniel C. Carvalho
- Laboratório de Genética da Conservação, Programa de Pós Graduação em Biologia dos Vertebrados, Pontifícia Universidade Católica de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil
| | - João B. L. Sales
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
| | - Tibério C. T. Burlamaqui
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
- Instituto Tecnologico Vale, Belém, Pará, Brazil
| | - Jonathan S. Ready
- Group for Integrated Biological Investigation (GIBI), Center for Advanced Biodiversity Studies (CEABIO), Biological Sciences Institute, Federal University of Pará (UFPA), Belém, Pará, Brazil
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Azambuja M, Nogaroto V, Moreira-Filho O, Vicari MR. U2 and U4 snDNA Comparative Chromosomal Mapping in the Neotropical Fish Genera Apareiodon and Parodon (Characiformes: Parodontidae). Zebrafish 2023; 20:221-228. [PMID: 37797225 DOI: 10.1089/zeb.2023.0025] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/07/2023] Open
Abstract
Small nuclear DNA (snDNA) are valuable cytogenetic markers for comparative studies in chromosome evolution because different distribution patterns were found among species. Parodontidae, a Neotropical fish family, is known to have female heterogametic sex chromosome systems in some species. The U2 and U4 snDNA sites have been found to be involved in Z and W chromosome differentiation in Apareiodon sp., Apareiodon affinis, and Parodon hilarii. However, few studies have evaluated snDNA sites as propulsors of chromosome diversification among closely related fish species. In this study, we investigated the distribution of U2 and U4 snDNA clusters in the chromosomes of 10 populations/species belonging to Apareiodon and Parodon, aiming to identify chromosomal homeologies or diversification. In situ localization data revealed a submetacentric pair carrying the U2 snDNA site among the populations/species analyzed. Furthermore, all studied species demonstrated homeology in the location of U4 snDNA cluster in the proximal region of metacentric pair 1, besides an additional signal showing up with a divergence in Apareiodon. Comparative chromosomal mapping of U4 snDNA also helped to reinforce the proposal of the ZZ/ZW1W2 sex chromosome system origin in an A. affinis population. According to cytogenetic data, the study corroborates the diversification in Parodontidae paired species with uncertain taxonomy.
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Affiliation(s)
- Matheus Azambuja
- Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Viviane Nogaroto
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, Brazil
| | - Orlando Moreira-Filho
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, Brazil
| | - Marcelo Ricardo Vicari
- Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, Brazil
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, Brazil
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3
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Azambuja M, Marcondes DS, Nogaroto V, Moreira-Filho O, Vicari MR. Population structuration and chromosomal features homogeneity in Parodon nasus (Characiformes: Parodontidae): A comparison between Lower and Upper Paraná River representatives. NEOTROPICAL ICHTHYOLOGY 2022. [DOI: 10.1590/1982-0224-2021-0162] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
ABSTRACT The ichthyofauna of the La Plata hydrographic basin is divided into Upper and Lower Paraná River systems due to the geographic isolation of the Sete Quedas waterfalls, currently flooded by the lake of the Itaipu dam. In Parodontidae, pairs of species, or groups of cryptic species were described between these systems. Although genetic isolation and speciation have already been proposed in other species in the group, Parodon nasus has been maintained as a valid species and distributed throughout the La Plata river basin. In this perspective, specimens of P. nasus from four different sampling sites in the Upper and Lower Paraná River systems were compared regarding the karyotypes, molecular analyzes of population biology and species delimitation to investigate their genetic and population isolation in the La Plata river basin. Despite a geographic barrier and the immense geographic distance separating the specimens sampled from the Lower Paraná River system compared to those from the Upper Paraná River, the data obtained showed P. nasus as a unique taxon. Thus, unlike other species of Parodontidae that showed diversification when comparing the groups residing in the Lower versus Upper Paraná River, P. nasus showed a population structure and a karyotypic homogeneity.
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Ribolli J, Zaniboni Filho E, Scaranto BMS, Shibatta OA, Machado CB. Cryptic diversity and diversification processes in three cis-Andean Rhamdia species (Siluriformes: Heptapteridae) revealed by DNA barcoding. Genet Mol Biol 2021; 44:e20200470. [PMID: 34254973 PMCID: PMC8276235 DOI: 10.1590/1678-4685-gmb-2020-0470] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2020] [Accepted: 04/07/2021] [Indexed: 12/02/2022] Open
Abstract
The wide distribution of the Neotropical freshwater catfish Rhamdia offers an excellent opportunity to investigate the historical processes responsible for modeling South America’s hydrogeological structure. We used sequences from cis-Andean and Mesoamerican Rhamdia species to reconstruct and estimate divergence times among cis-Andean lineages, correlating the results with known geological events. Species delimitation methods based on distance (DNA barcoding and BIN) and coalescence (GMYC) approaches identified nine well-supported lineages from the cis-Andean region from sequences available in the BOLD dataset. The cis-Andean Rhamdia lineages diversification process began in Eocene and represented the split between cis-Andean and Mesoamerican clades. The cis-Andean clade contains two principal groups: Northwest clade (MOTUs from Amazon, Essequibo, Paraguay, and Itapecuru basins) and Southeast clade (Eastern Brazilian shield basins (Paraná, Uruguay, Iguaçu, and São Francisco) plus eastern coastal basins). The diversification of the cis-Andean Rhamdia lineages results from vicariance and geodispersion events, which played a key role in the current intricate distribution pattern of the Rhamdia lineages. The wide geographical distribution and large size of the specimens make it attractive to cultivate in different countries of the Neotropical region. The lineages delimitation minimizes identification mistakes, unintentional crossings by aquaculture, and reduces natural stocks contamination.
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Affiliation(s)
- Josiane Ribolli
- Universidade Federal de Santa Catarina, Departamento de Aquicultura, Lagoa do Peri, Laboratório de Biologia e Cultivo de Peixes de Água Doce, Florianópolis, SC, Brazil
| | - Evoy Zaniboni Filho
- Universidade Federal de Santa Catarina, Departamento de Aquicultura, Lagoa do Peri, Laboratório de Biologia e Cultivo de Peixes de Água Doce, Florianópolis, SC, Brazil
| | - Bianca Maria Soares Scaranto
- Universidade Federal de Santa Catarina, Departamento de Aquicultura, Lagoa do Peri, Laboratório de Biologia e Cultivo de Peixes de Água Doce, Florianópolis, SC, Brazil
| | - Oscar Akio Shibatta
- Universidade Estadual de Londrina, Departamento de Biologia Animal e Vegetal, Centro de Ciências Biológicas, Londrina, PR, Brazil
| | - Carolina Barros Machado
- Universidade Federal de São Carlos, Departamento de Genética e Evolução, São Carlos, SP, Brazil
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5
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Recent Apareiodon species evolutionary divergence (Characiformes: Parodontidae) evidenced by chromosomal and molecular inference. ZOOL ANZ 2020. [DOI: 10.1016/j.jcz.2020.10.010] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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Hashimoto S, Py-Daniel LHR, Batista JS. A molecular assessment of species diversity in Tympanopleura and Ageneiosus catfishes (Auchenipteridae: Siluriformes). JOURNAL OF FISH BIOLOGY 2020; 96:14-22. [PMID: 31631341 DOI: 10.1111/jfb.14173] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/03/2019] [Accepted: 10/18/2019] [Indexed: 06/10/2023]
Abstract
In order to test the congruence of genetic data to the morphologically defined Neotropical catfish genera Tympanopleura and Ageneiosus and explore species diversity, we generated 17 DNA barcodes from five of six species of Tympanopleura and 12 of 13 species of Ageneiosus. To discriminate limits between species, an automatic barcode gap discovery (ABGD), a generalised mixed yule-coalescent model (GYMC) and fixed distance thresholds Kimura two-parameter (K2P; 3%) were used to discriminate putative species limits from the DNA barcodes. The ABGD, GMYC and K2P methods agreed by each generating 13 clusters: six in Tympanopleura (five nominal plus one undescribed species) and seven in Ageneiosus. These clusters corresponded broadly to the described species, except in the case of the Ageneiosus ucayalensis group (A. akamai, A. dentatus, A. intrusus, A. ucayalensis, A. uranophthalmus and A. vittatus). Haplotype sharing and low divergences may have prevented molecular methods from distinguishing these species. We hypothesise that this is the result of a recent radiation of a sympatric species group distributed throughout the Amazon Basin. One putative new species of Tympanopleura was also supported by the molecular data. These results taken together highlight the utility of molecular methods such as DNA barcoding in understanding patterns of diversification across large geographic areas and in recognising overlooked diversity.
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Affiliation(s)
- Shizuka Hashimoto
- Instituto Nacional de Pesquisas da Amazônia, Programa de Pós-Graduação em Genética, Conservação e Biologia Evolutiva, Manaus, Amazonas, Brazil
- Instituto Nacional de Pesquisas da Amazônia, Coleção de Peixes, Programa de Coleções Científicas, Manaus, Amazonas, Brazil
| | - Lúcia H Rapp Py-Daniel
- Instituto Nacional de Pesquisas da Amazônia, Coleção de Peixes, Programa de Coleções Científicas, Manaus, Amazonas, Brazil
| | - Jacqueline S Batista
- Instituto Nacional de Pesquisas da Amazônia, Laboratório Temático de Biologia Molecular, Manaus, Amazonas, Brazil
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7
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Arruda PSS, Ferreira DC, Oliveira C, Venere PC. DNA Barcoding Reveals High Levels of Divergence among Mitochondrial Lineages of Brycon (Characiformes, Bryconidae). Genes (Basel) 2019; 10:genes10090639. [PMID: 31450860 PMCID: PMC6769914 DOI: 10.3390/genes10090639] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2019] [Revised: 08/20/2019] [Accepted: 08/21/2019] [Indexed: 02/02/2023] Open
Abstract
Brycon is an important group of Neotropical fish and the principal genus of the family Bryconidae, with 44 valid species that are found in some Central American rivers and practically all the major hydrographic basins of South America. These fish are medium to large in size, migratory, omnivorous, important seed dispersers for riparian forests, and bioindicators of environmental quality, given that they are found preferentially in rivers with clean, well oxygenated water. Many Brycon species are important fishery resources and some are farmed. Morphological and molecular studies have nevertheless indicated that the group is not monophyletic and has a number of unresolved taxonomic problems. Given this, the present study aimed to identify the Molecular Operational Taxonomic Units (MOTUs) of the genus using the mitochondrial cytochrome c oxidase I (COI) gene, with analyses of genetics distance (NJ), maximum likelihood (ML), and Bayesian Inference (BI), combined with two different species delimitation approaches (GMYC and ABGD). The results indicate that at least 31 MOTUs exist within the 18 species identified a priori based on their morphology. Many of these lineages require further investigation for a more definitive classification.
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Affiliation(s)
- Pábila S S Arruda
- Programa de Pós-Graduação em Ecologia e Conservação da Biodiversidade, Instituto de Biociências, Universidade Federal de Mato Grosso, Avenida Fernando Correia da Costa, 2367, Cuiabá, Mato Grosso 78060-900, Brazil
| | - Daniela C Ferreira
- Departamento de Biologia e Zoologia, Instituto de Biociências, Universidade Federal de Mato Grosso, Avenida Fernando Correia da Costa, 2367, Cuiabá, Mato Grosso 78060-900, Brazil
| | - Claudio Oliveira
- Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista Júlio de Mesquita Filho - UNESP, Rubião Jr S-N, Botucatu, São Paulo 18618-970, Brazil
| | - Paulo C Venere
- Departamento de Biologia e Zoologia, Instituto de Biociências, Universidade Federal de Mato Grosso, Avenida Fernando Correia da Costa, 2367, Cuiabá, Mato Grosso 78060-900, Brazil.
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8
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Santos EOD, Deon GA, Almeida RBD, Oliveira EAD, Nogaroto V, Silva HPD, Pavanelli CS, Cestari MM, Bertollo LAC, Moreira-Filho O, Vicari MR. Cytogenetics and DNA barcode reveal an undescribed Apareiodon species (Characiformes: Parodontidae). Genet Mol Biol 2019; 42:365-373. [PMID: 31259363 PMCID: PMC6726146 DOI: 10.1590/1678-4685-gmb-2018-0066] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2018] [Accepted: 08/01/2018] [Indexed: 11/22/2022] Open
Abstract
Parodontidae is a small group of fish and some species are particularly difficult
to identify due to the lack of sufficiently consistent morphological traits.
Cytogenetically, the species possess 2n = 54 chromosomes and are either
sex-homomorphic or sex-heteromorphic (regarding its chromosomes). We evaluated
data on color, tooth morphology, cytogenetics, and mitochondrial markers (COI)
in Apareiodon specimens from the Aripuanã River (Amazon basin)
and the results were compared to other congeneric taxa. Morphological results
show an overlap of body color and tooth morphology to other known
Apareiodon. The cytogenetics data showed that the 2n = 54
chromosomes, 50 m/sm + 4 st and, a ZZ/ZW sex chromosome system in
Apareiodon sp. are common to other species of the genus.
However, the number and chromosomal localization of the 45S ribosomal and
pPh2004 satellite DNA sites, in addition to W chromosome
localization of the pPh2004 appear to be exclusive cytogenetic
features in Apareiodon sp. Our phylogenetic tree revealed
well-supported clades and confirmed, by barcode species delimitation analysis, a
new Molecular Operational Taxonomic Unit (MOTU) for Apareiodon
sp. (Aripuanã River). As a whole, the above features support the occurrence of a
new species of the Apareiodon, thus far unknown for the
Parodontidae.
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Affiliation(s)
- Emanoel Oliveira Dos Santos
- Departamento de Genética, Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, PR, Brazil
| | - Geize Aparecida Deon
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, PR, Brazil
| | - Rafael Bonfim de Almeida
- Departamento de Genética, Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, PR, Brazil
| | | | - Viviane Nogaroto
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, PR, Brazil
| | - Hugmar Pains da Silva
- Laboratório de Citogenética e Genética Animal, Instituto de Biociências, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
| | - Carla Simone Pavanelli
- Núcleo de Pesquisas em Limnologia, Ictiologia e Aquicultura (Nupélia), Universidade Estadual de Maringá, Maringá, PR, Brazil
| | - Marta Margarete Cestari
- Departamento de Genética, Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, PR, Brazil
| | | | - Orlando Moreira-Filho
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, São Paulo, SP, Brazil
| | - Marcelo Ricardo Vicari
- Departamento de Genética, Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, PR, Brazil.,Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, PR, Brazil
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9
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Serrano ÉA, Melo BF, Freitas‐Souza D, Oliveira MLM, Utsunomia R, Oliveira C, Foresti F. Species delimitation in Neotropical fishes of the genus
Characidium
(Teleostei, Characiformes). ZOOL SCR 2018. [DOI: 10.1111/zsc.12318] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Érica A. Serrano
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
| | - Bruno F. Melo
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
- Department of Vertebrate Zoology National Museum of Natural History, Smithsonian Institution Washington District of Columbia
| | - Diogo Freitas‐Souza
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
| | - Maria L. M. Oliveira
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
| | - Ricardo Utsunomia
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
| | - Claudio Oliveira
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
| | - Fausto Foresti
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências Universidade Estadual Paulista Botucatu Brazil
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10
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Souza-Shibatta L, Tonini JFR, Abrahão VP, Jarduli LR, Oliveira C, Malabarba LR, Sofia SH, Shibatta OA. Reappraisal of the systematics of Microglanis cottoides (Siluriformes, Pseudopimelodidae), a catfish from southern Brazil. PLoS One 2018; 13:e0199963. [PMID: 29975765 PMCID: PMC6033443 DOI: 10.1371/journal.pone.0199963] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2018] [Accepted: 06/18/2018] [Indexed: 11/23/2022] Open
Abstract
The southern region of Brazil is characterized by high species diversity and endemism of freshwater fishes distributed across geographically isolated river basins. Microglanis cottoides has a widespread range across these river basins and occurs in sympatry with other endemic species of the genus (e.g. M. cibelae, M. eurystoma, and M. malabarbai). Herein we tested the monophyly of M. cottoides and presented for the first time information about the molecular phylogeny of species in the genus. The results suggest that M. cottoides currently forms a non-monophyletic group which includes populations endemic to the Uruguay River basin that are more closely related to M. malabarbai, and excludes M. cibelae, found to be nested within M. cottoides. Based on an integrative approach using morphological and molecular data, we propose M. cibelae as a junior synonym of M. cottoides, and the populations of the Uruguay River basin previously assigned to M. cottoides in fact belong to M. malabarbai. Our molecular phylogeny shows that M. cottoides is sister to M. parahybae, which is also a coastal species, and M. malabarbai is sister of M. garavelloi, both endemic to inland river basins. The time-calibrated phylogeny indicates that the separation between inland and the coastal clades occurred in the Tertiary period, and that the species within the coastal basins diverged in the Pliocene, which overlaps with the diversification times estimated for the two inland species as well. This pattern of diversification corroborates some previous studies with other fishes from the same region.
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Affiliation(s)
- Lenice Souza-Shibatta
- Laboratório de Genética e Ecologia Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina, Londrina, PR, Brazil
| | - João F. R. Tonini
- Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, Cambridge, MA, United States of America
| | - Vitor P. Abrahão
- Universidade de São Paulo, Museu de Zoologia da USP, São Paulo, SP, Brasil
| | | | - Claudio Oliveira
- Laboratório de Biologia e Genética de Peixes, Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista -UNESP, Botucatu, SP, Brazil
| | - Luiz R. Malabarba
- Departamento de Zoologia, Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil
| | - Silvia H. Sofia
- Laboratório de Genética e Ecologia Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina, Londrina, PR, Brazil
| | - Oscar A. Shibatta
- Departamento de Biologia Animal e Vegetal, Universidade Estadual de Londrina, Londrina, PR, Brazil
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11
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Mota TFM, Fabrin TMC, Deprá GC, Gasques LS, Oliveira AVDE, Pavanelli CS, Prioli SMAP, Prioli AJ. Molecular characterization of Moenkhausia (Pisces: Characiformes) populations with different lateral line developmental levels. AN ACAD BRAS CIENC 2018; 90:2815-2825. [PMID: 29947670 DOI: 10.1590/0001-3765201820170493] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2017] [Accepted: 01/12/2018] [Indexed: 11/21/2022] Open
Abstract
The genera Hemigrammus and Moenkhausia have been traditionally diagnosed mainly by the former having lateral line completely pored whereas the latter having a lateral line with a few pored scales. Those features have been used to diagnose species of both genera in the upper Paraná River floodplain. Specimens with the diagnostic features of Moenkhausia bonita, collected in the upper Paraná River floodplain, exhibited different developmental levels of the lateral line, making it difficult to distinguish them from specimens of Hemigrammus sp. We analyzed the gene encoding cytochrome C oxidase I (COI) and intron 1 of the nuclear gene S7 to investigate the genetic similarities between the called Hemigrammus marginatus and M. bonita and to confirm their identities. Molecular sequences of other Moenkhausia species were analyzed for genus delimitation tests. The results reveal genetic similarities of M. bonita specimens with different developmental levels of the lateral line, and also distinguish between M. bonita and Hemigrammus sp. Species delimitation tests revealed that specimens from the upper Paraná River floodplain were M. bonita and were distinct from other Moenkhausia species. The developmental level of the lateral line is not a consistent characteristic that distinguishes between Moenkhausia and Hemigrammus species.
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Affiliation(s)
- Thaís F M Mota
- Programa de Pós-Graduação em Biologia Comparada, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil
| | - Thomaz M C Fabrin
- Programa de Pós-Graduação em Ecologia de Ambientes Aquáticos Continentais, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil
| | - Gabriel C Deprá
- Programa de Pós-Graduação em Ecologia de Ambientes Aquáticos Continentais, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil
| | - Luciano S Gasques
- Departamento de Ciências Biológicas, Universidade Paranaense, Praça Mascarenhas de Moraes, 4282, Zona III, 87502-210 Umuarama, PR, Brazil
| | - Alessandra V DE Oliveira
- Departamento de Biotecnologia, Genética e Biologia Celular, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil.,Núcleo de Pesquisas em Limnologia, Ictiologia e Aquicultura, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900, Maringá, PR, Brazil
| | - Carla S Pavanelli
- Programa de Pós-Graduação em Biologia Comparada, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil.,Programa de Pós-Graduação em Ecologia de Ambientes Aquáticos Continentais, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil.,Núcleo de Pesquisas em Limnologia, Ictiologia e Aquicultura, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900, Maringá, PR, Brazil
| | - Sônia M A P Prioli
- Programa de Pós-Graduação em Biologia Comparada, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil.,Departamento de Biotecnologia, Genética e Biologia Celular, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil.,Núcleo de Pesquisas em Limnologia, Ictiologia e Aquicultura, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900, Maringá, PR, Brazil
| | - Alberto J Prioli
- Programa de Pós-Graduação em Biologia Comparada, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900 Maringá, PR, Brazil.,Núcleo de Pesquisas em Limnologia, Ictiologia e Aquicultura, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900, Maringá, PR, Brazil
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12
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Melo BF, Dorini BF, Foresti F, Oliveira C. Little Divergence Among Mitochondrial Lineages of Prochilodus (Teleostei, Characiformes). Front Genet 2018; 9:107. [PMID: 29670644 PMCID: PMC5893770 DOI: 10.3389/fgene.2018.00107] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2017] [Accepted: 03/19/2018] [Indexed: 11/13/2022] Open
Abstract
Evidence that migration prevents population structure among Neotropical characiform fishes has been reported recently but the effects upon species diversification remain unclear. Migratory species of Prochilodus have complex species boundaries and intrincate taxonomy representing a good model to address such questions. Here, we analyzed 147 specimens through barcode sequences covering all species of Prochilodus across a broad geographic area of South America. Species delimitation and population genetic methods revealed very little genetic divergence among mitochondrial lineages suggesting that extensive gene flow resulted likely from the highly migratory behavior, natural hybridization or recent radiation prevent accumulation of genetic disparity among lineages. Our results clearly delimit eight genetic lineages in which four of them contain a single species and four contain more than one morphologically problematic taxon including a trans-Andean species pair and species of the P. nigricans group. Information about biogeographic distribution of haplotypes presented here might contribute to further research on the population genetics and taxonomy of Prochilodus.
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Affiliation(s)
- Bruno F. Melo
- Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista, Botucatu, Brazil
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, United States
| | - Beatriz F. Dorini
- Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista, Botucatu, Brazil
| | - Fausto Foresti
- Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista, Botucatu, Brazil
| | - Claudio Oliveira
- Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista, Botucatu, Brazil
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13
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Souza CS, Costa-Silva GJ, Roxo FF, Foresti F, Oliveira C. Genetic and Morphological Analyses Demonstrate That Schizolecis guntheri (Siluriformes: Loricariidae) Is Likely to Be a Species Complex. Front Genet 2018; 9:69. [PMID: 29552028 PMCID: PMC5841391 DOI: 10.3389/fgene.2018.00069] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2017] [Accepted: 02/15/2018] [Indexed: 01/16/2023] Open
Abstract
Schizolecis is a monotypic genus of Siluriformes widely distributed throughout isolated coastal drainages of southeastern Brazil. Previous studies have shown that fish groups found in isolated river basins tend to differentiate over time in the absence of gene flow, resulting in allopatric speciation. In this study, we used partial sequences of the mitochondrial gene COI with the analysis of the General Mixed Yule Coalescent model (GMYC) and the Automatic Barcode Gap Discovery (ABGD) for single locus species delimitation, and a Principal Component Analysis (PCA) of external morphology to test the hypothesis that Schizolecis guntheri is a complex of species. We analyzed 94 samples of S. guntheri for GMYC and ABGD, and 82 samples for PCA from 22 coastal rivers draining to the Atlantic in southeastern Brazil from the Paraná State to the north of the Rio de Janeiro State. As a result, the GMYC model and the ABGD delimited five operational taxonomy units (OTUs – a nomenclature referred to in the present study of the possible new species delimited for the genetic analysis), a much higher number compared to the traditional alfa taxonomy that only recognizes S. guntheri across the isolated coastal rivers of Brazil. Furthermore, the PCA analysis suggests that S. guntheri is highly variable in aspects of external body proportions, including dorsal-fin spine length, pectoral-fin spine length, pelvic-fin spine length, lower caudal-fin spine length, caudal peduncle depth, anal width and mandibular ramus length. However, no exclusive character was found among the isolated populations that could be used to describe a new species of Schizolecis. Therefore, we can conclude, based on our results of PCA contrasting with the results of GMYC and ABGD, that S. guntheri represents a complex of species.
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Affiliation(s)
- Camila S Souza
- Departamento de Morfologia, Universidade Estadual Paulista "Júlio de Mesquita Filho", Instituto de Biociências de Botucatu, Botucatu, Brazil
| | - Guilherme J Costa-Silva
- Departamento de Morfologia, Universidade Estadual Paulista "Júlio de Mesquita Filho", Instituto de Biociências de Botucatu, Botucatu, Brazil.,Departamento de Biologia, Universidade Santo Amaro, São Paulo, Brazil
| | - Fábio F Roxo
- Departamento de Morfologia, Universidade Estadual Paulista "Júlio de Mesquita Filho", Instituto de Biociências de Botucatu, Botucatu, Brazil
| | - Fausto Foresti
- Departamento de Morfologia, Universidade Estadual Paulista "Júlio de Mesquita Filho", Instituto de Biociências de Botucatu, Botucatu, Brazil
| | - Claudio Oliveira
- Departamento de Morfologia, Universidade Estadual Paulista "Júlio de Mesquita Filho", Instituto de Biociências de Botucatu, Botucatu, Brazil
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14
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Paixão RV, Ribolli J, Zaniboni-Filho E. Genetic Variation of the Endangered Neotropical Catfish Steindachneridion scriptum (Siluriformes: Pimelodidae). Front Genet 2018. [PMID: 29520295 PMCID: PMC5827538 DOI: 10.3389/fgene.2018.00048] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Steindachneridion scriptum is an important species as a resource for fisheries and aquaculture; it is currently threatened and has a reduced occurrence in South America. The damming of rivers, overfishing, and contamination of freshwater environments are the main impacts on the maintenance of this species. We accessed the genetic diversity and structure of S. scriptum using the DNA barcode and control region (D-loop) sequences of 43 individuals from the Upper Uruguay River Basin (UUR) and 10 sequences from the Upper Paraná River Basin (UPR), which were obtained from GenBank. S. scriptum from the UUR and the UPR were assigned in two distinct molecular operational taxonomic units (MOTUs) with higher inter-specific K2P distance than the optimum threshold (OT = 0.0079). The COI Intra-MOTU distances of S. scriptum specimens from the UUR ranged from 0.0000 to 0.0100. The control region indicated a high number of haplotypes and low nucleotide diversity, compatible with a new population in recent expansion process. Genetic structure was observed, with high differentiation between UUR and UPR basins, identified by BAPS, haplotype network, AMOVA (FST = 0.78, p < 0.05) and Mantel test. S. scriptum from the UUR showed a slight differentiation (FST = 0.068, p < 0.05), but not isolation-by-distance. Negative values of Tajima’s D and Fu’s Fs suggest recent demographic oscillations. The Bayesian skyline plot analysis indicated possible population expansion from beginning 2,500 years ago and a recent reduction in the population size. Low nucleotide diversity, spatial population structure, and the reduction of effective population size should be considered for the planning of strategies aimed at the conservation and rehabilitation of this important fisheries resource.
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Affiliation(s)
- Rômulo V Paixão
- Laboratório de Biologia e Cultivo de Peixes de Água Doce, Departamento de Aquicultura, Universidade Federal de Santa Catarina, Florianópolis, Brazil.,Programa de Pós-Graduação em Aquicultura, Centro de Ciências Agrárias, Universidade Federal de Santa Catarina, Florianópolis, Brazil
| | - Josiane Ribolli
- Laboratório de Biologia e Cultivo de Peixes de Água Doce, Departamento de Aquicultura, Universidade Federal de Santa Catarina, Florianópolis, Brazil.,Programa de Pós-Graduação em Aquicultura, Centro de Ciências Agrárias, Universidade Federal de Santa Catarina, Florianópolis, Brazil
| | - Evoy Zaniboni-Filho
- Laboratório de Biologia e Cultivo de Peixes de Água Doce, Departamento de Aquicultura, Universidade Federal de Santa Catarina, Florianópolis, Brazil.,Programa de Pós-Graduação em Aquicultura, Centro de Ciências Agrárias, Universidade Federal de Santa Catarina, Florianópolis, Brazil
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15
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do Nascimento VD, Coelho KA, Nogaroto V, de Almeida RB, Ziemniczak K, Centofante L, Pavanelli CS, Torres RA, Moreira-Filho O, Vicari MR. Do multiple karyomorphs and population genetics of freshwater darter characines (Apareiodon affinis) indicate chromosomal speciation? ZOOL ANZ 2018. [DOI: 10.1016/j.jcz.2017.12.006] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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16
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de Sousa TP, Marques DKS, Vitorino CDA, Faria KDC, Braga GDSF, Ferreira DC, Venere PC. Cytogenetic and Molecular Data Support the Occurrence of Three Gymnotus Species (Gymnotiformes: Gymnotidae) Used as Live Bait in Corumbá, Brazil: Implications for Conservation and Management of Professional Fishing. Zebrafish 2017; 14:177-186. [PMID: 28151699 DOI: 10.1089/zeb.2016.1356] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022] Open
Abstract
In the Pantanal of Mato Grosso do Sul, electric fish (Gymnotus spp.) are the primary source of live bait, accounting for more than three-quarters of total sales. Based on chromosomal and molecular markers, the present study attempted to identify the Gymnotus species used as bait in the region of Corumbá, Mato Grosso do Sul, Brazil. Three species were detected, based on their distinct karyotypes: G. paraguensis (2n = 54), G. sylvius (2n = 40), and G. pantanal (2n = 39-40, X1X2Y/X1X1X2X2), with no evidence being found of interspecific hybrids. All three species presented a single nucleolar organizer regions (NOR) (heterochromatin CMA3+/DAPI-) and pericentromeric heterochromatin in almost all chromosomes, with a few distal and/or interstitial blocks. G. sylvius and G. pantanal had one and two pairs of chromosomes with 5S rDNA sites, respectively, while G. paraguensis had 17 chromosome pairs with these markers. The three species formed well-defined clusters in the DNA barcoding analysis. The integrated analysis of the cytogenetic and DNA barcoding data confirmed that the diversity of Gymnotus species exploited as live bait in the study region has been underestimated. These findings indicate that the markers analyzed represent valuable tools for the conservation and fishery management of the Gymnotus stocks exploited.
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Affiliation(s)
- Tatiane Pires de Sousa
- 1 Programa de Pós-graduação em Ecologia e Conservação, Universidade do Estado de Mato Grosso, Nova Xavantina, MT, Brazil
| | | | - Carla de Andrade Vitorino
- 3 Programa de Pós-graduação em Ecologia e Conservação da Biodiversidade, Instituto de Biociências, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
| | - Karina de Cassia Faria
- 1 Programa de Pós-graduação em Ecologia e Conservação, Universidade do Estado de Mato Grosso, Nova Xavantina, MT, Brazil
| | - Gisele da Silva Ferreira Braga
- 3 Programa de Pós-graduação em Ecologia e Conservação da Biodiversidade, Instituto de Biociências, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
| | - Daniela Cristina Ferreira
- 4 Programa de Pós-graduação em Zoologia, Instituto de Biociências, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
| | - Paulo Cesar Venere
- 1 Programa de Pós-graduação em Ecologia e Conservação, Universidade do Estado de Mato Grosso, Nova Xavantina, MT, Brazil .,3 Programa de Pós-graduação em Ecologia e Conservação da Biodiversidade, Instituto de Biociências, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil .,4 Programa de Pós-graduação em Zoologia, Instituto de Biociências, Universidade Federal de Mato Grosso, Cuiabá, MT, Brazil
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17
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Marceniuk AP, Siccha-Ramirez R, Barthem RB, Wosiacki WB. Redescription of Notarius grandicassis and Notarius parmocassis (Siluriformes; Ariidae), with insights into morphological plasticity and evidence of incipient speciation. SYST BIODIVERS 2017. [DOI: 10.1080/14772000.2016.1256916] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Alexandre P. Marceniuk
- Museu Paraense Emílio Goeldi, 6604-170, Belém, PA, Brazil
- Acervo Zoológico, Universidade Santa Cecília, 11045-907, Santos, SP, Brazil
| | - Raquel Siccha-Ramirez
- Laboratorio de Biologia e Genética de Peixes, Instituto de Biociencias, UNESP, 18618-689, Botucatu, SP, Brazil
- Laboratorio Costero de Tumbes, Instituto del Mar del Peru, Tumbes, Perú
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18
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Ribolli J, Scaranto BM, Shibatta OA, Bombardelli RA, Zaniboni-Filho E. DNA barcoding confirms the occurrence of Rhamdia branneri and Rhamdia voulezi (Siluriformes: Heptapteridae) in the Iguaçu River Basin. NEOTROPICAL ICHTHYOLOGY 2017. [DOI: 10.1590/1982-0224-20160147] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
ABSTRACT DNA barcoding is a widely utilized molecular-based identification of species and taxonomic resolutions. Until recently, Rhamdia voulezi and Rhamdia branneri were considered species synonyms of Rhamdia quelen; however, morphological and cytogenetic analyses have suggested the validity of distinct species. Due to the absence of molecular taxonomy of R. voulezi and R. branneri, the objective of this study was to test its validity through traditional DNA barcoding and the GMYC (General Mixed Yule Coalescent) COI-based analyses in 19 specimens from the Iguaçu River Basin. In both methodologies, three MOTUs (Molecular Operational Taxonomic Units) were identified based on the estimated optimum threshold (OT = 0.77). The average inter-MOTU distance (NJ, K2P) between R. branneri and R. voulezi was 1.4%, and 0% intra-MOTU distance in both species. The two species identified as R. branneri and R. voulezi showed correspondence with taxonomic and morphological identifications. With regard to R. quelen, the average intra-MOTU distance was greater than OT (2.7%), indicating that this species can be formed by different MOTUs. We suggest that molecular and taxonomic studies should be employed concurrently in R. quelen, to prevent contamination of wild species by hybridizations.
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19
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Machado CDB, Ishizuka TK, Freitas PDD, Valiati VH, Galetti PM. DNA barcoding reveals taxonomic uncertainty in Salminus (Characiformes). SYST BIODIVERS 2016. [DOI: 10.1080/14772000.2016.1254390] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
Affiliation(s)
- Carolina De Barros Machado
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, Km 235 - SP-310, São Carlos, SP, 13565-905, Brazil
| | - Tamylin Kaori Ishizuka
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, Km 235 - SP-310, São Carlos, SP, 13565-905, Brazil
| | - PatrÍcia Domingues De Freitas
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, Km 235 - SP-310, São Carlos, SP, 13565-905, Brazil
| | - Victor Hugo Valiati
- Laboratório de Biologia Molecular, Universidade do Vale do Rio dos Sinos, Avenida Unisinos, 950, São Leopoldo, RS, 93022-000, Brazil
| | - Pedro Manoel Galetti
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, Km 235 - SP-310, São Carlos, SP, 13565-905, Brazil
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20
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Schemberger MO, Nogaroto V, Almeida MC, Artoni RF, Valente GT, Martins C, Moreira-Filho O, Cestari MM, Vicari MR. Sequence analyses and chromosomal distribution of the Tc1/Mariner element in Parodontidae fish (Teleostei: Characiformes). Gene 2016; 593:308-14. [DOI: 10.1016/j.gene.2016.08.034] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2016] [Revised: 07/31/2016] [Accepted: 08/20/2016] [Indexed: 10/21/2022]
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21
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Melo BF, Ochoa LE, Vari RP, Oliveira C. Cryptic species in the Neotropical fish genusCurimatopsis(Teleostei, Characiformes). ZOOL SCR 2016. [DOI: 10.1111/zsc.12178] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Bruno F. Melo
- Departamento de Morfologia, Instituto de Biociências; Universidade Estadual Paulista; Distr. Rubião Jr. s/n 18618-970 Botucatu São Paulo Brazil
- Department of Vertebrate Zoology; National Museum of Natural History, Smithsonian Institution; 20013-7012 Washington DC USA
| | - Luz E. Ochoa
- Departamento de Morfologia, Instituto de Biociências; Universidade Estadual Paulista; Distr. Rubião Jr. s/n 18618-970 Botucatu São Paulo Brazil
| | - Richard P. Vari
- Department of Vertebrate Zoology, MCR-159; National Museum of Natural History, Smithsonian Institution; PO Box 37012 20013-7012 Washington DC USA
| | - Claudio Oliveira
- Departamento de Morfologia, Instituto de Biociências; Universidade Estadual Paulista; Distr. Rubião Jr. s/n 18618-970 Botucatu São Paulo Brazil
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Using Different Methods to Access the Difficult Task of Delimiting Species in a Complex Neotropical Hyperdiverse Group. PLoS One 2015; 10:e0135075. [PMID: 26332320 PMCID: PMC4557985 DOI: 10.1371/journal.pone.0135075] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2015] [Accepted: 07/16/2015] [Indexed: 11/19/2022] Open
Abstract
The genus Rineloricaria is a Neotropical freshwater fish group with a long and problematic taxonomic history, attributed to the large number of species and the pronounced similarity among them. In the present work, taxonomic information and different molecular approaches were used to identify species boundaries and characterize independent evolutionary units. We analyzed 228 samples assembled in 53 distinct morphospecies. A general mixed yule-coalescent (GMYC) analysis indicated the existence of 70 entities, while BOLD system analyses showed the existence of 56 distinct BINs. When we used a new proposed integrative taxonomy approach, mixing the results obtained by each analysis, we identified 73 OTUs. We suggest that Rineloricaria probably has some complexity in the known species and several species not formally described yet. Our data suggested that other hyperdiverse fish groups with wide distributions can be further split into many new evolutionary taxonomic units.
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23
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Inferring Diversity and Evolution in Fish by Means of Integrative Molecular Cytogenetics. ScientificWorldJournal 2015; 2015:365787. [PMID: 26345638 PMCID: PMC4546756 DOI: 10.1155/2015/365787] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2015] [Revised: 07/20/2015] [Accepted: 07/22/2015] [Indexed: 11/23/2022] Open
Abstract
Fish constitute a paraphyletic and profusely diversified group that has historically puzzled ichthyologists. Hard efforts are necessary to better understand this group, due to its extensive diversity. New species are often identified and it leads to questions about their phylogenetic aspects. Cytogenetics is becoming an important biodiversity-detection tool also used to measure biodiversity evolutionary aspects. Molecular cytogenetics by fluorescence in situ hybridization (FISH) allowed integrating quantitative and qualitative data from DNA sequences and their physical location in chromosomes and genomes. Although there is no intention on presenting a broader review, the current study presents some evidences on the need of integrating molecular cytogenetic data to other evolutionary biology tools to more precisely infer cryptic species detection, population structuring in marine environments, intra- and interspecific karyoevolutionary aspects of freshwater groups, evolutionary dynamics of marine fish chromosomes, and the origin and differentiation of sexual and B chromosomes. The new cytogenetic field, called cytogenomics, is spreading due to its capacity to give resolute answers to countless questions that cannot be answered by traditional methodologies. Indeed, the association between chromosomal markers and DNA sequencing as well as between biological diversity analysis methodologies and phylogenetics triggers the will to search for answers about fish evolutionary, taxonomic, and structural features.
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