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Mattox GM, Britz R, Souza CS, Casas AL, Lima FC, Oliveira C. Two new species of miniature tetras of the fish genus Priocharax from the Rio Juruá drainage, Acre, Brazil (Teleostei: Characiformes: Characidae). CAN J ZOOL 2023. [DOI: 10.1139/cjz-2022-0136] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/12/2023]
Abstract
Two new miniature tetra species of the Neotropical characid genus Priocharax Weitzman and Vari, 1987 are described, raising the known species diversity to seven. Both species occur in the Rio Juruá system, Cruzeiro do Sul municipality, Acre State, Brazil. Priocharax toledopizae sp. nov. occurs in streams flowing to the lower Rio Moa, a tributary of Rio Juruá, and is distinguished from congeners by a combination of presence of claustrum and infraorbitals 1 and 2, absence of infraorbital 3, and presence of five branched pelvic-fin rays. Priocharax marupiara sp. nov. is known from Igarapé Canela Fina, tributary of Rio Juruá, and is diagnosed by a combination of fewer maxillary teeth (21–27 vs. 27–58 in remaining species), fewer branched anal-fin rays (18–23 vs. 22–27 in two species) and colour pattern. Both species differ from each other in the general body shape: Priocharax toledopizae is more robust with deep body and Priocharax marupiara more elongate. DNA barcode data support the specific distinctness of the two new species and that of the other five species in the genus. We describe a remarkable sexual dimorphism of the pelvic girdle of Priocharax toledopizae in which the pelvic musculature is enlarged forming a pedicel for the fin in mature males. Most localities where these species were found suffer from significant degradation mainly due to litter accumulation and suppression of the riparian forest, raising concerns about their conservation status.
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Affiliation(s)
- George M.T. Mattox
- Laboratório de Ictiologia de Sorocaba, Departamento de Biologia, Universidade Federal de São Carlos, Sorocaba, São Paulo 18052-780, Brazil
| | - Ralf Britz
- Senckenberg Natural History Collections Dresden, Museum of Zoology, Dresden, 01109, Germany
| | - Camila S. Souza
- Departamento de Biologia Estrutural e Funcional, Instituto de Biociências, Universidade Estadual Paulista – Campus Botucatu, Botucatu, São Paulo 18618-689, Brazil
| | - André L.S. Casas
- Departamento de Ciências do Mar, Instituto do Mar, Universidade Federal de São Paulo, Santos, São Paulo 11015-020, Brazil
| | - Flávio C.T. Lima
- Museu de Diversidade Biológica, Universidade Estadual de Campinas, Caixa Postal 6109, Campinas, São Paulo 13083-683, Brazil
| | - Claudio Oliveira
- Departamento de Biologia Estrutural e Funcional, Instituto de Biociências, Universidade Estadual Paulista – Campus Botucatu, Botucatu, São Paulo 18618-689, Brazil
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Tsoupas A, Papavasileiou S, Minoudi S, Gkagkavouzis K, Petriki O, Bobori D, Sapounidis A, Koutrakis E, Leonardos I, Karaiskou N, Triantafyllidis A. DNA barcoding identification of Greek freshwater fishes. PLoS One 2022; 17:e0263118. [PMID: 35081163 PMCID: PMC8791500 DOI: 10.1371/journal.pone.0263118] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2021] [Accepted: 01/12/2022] [Indexed: 11/18/2022] Open
Abstract
Biodiversity is a key factor for the functioning and efficiency of an ecosystem. Greece, though covering a relatively small surface area, hosts a great deal of species diversity. This is especially true for freshwater fishes. In recent years, the traditional methods of species identification have been supplemented by the use of molecular markers. The present study therefore aims to extensively produce DNA barcodes for Greek freshwater fish species and investigate thoroughly if the presently accepted species classification is in agreement with molecular data. A 624-bases long fragment of the COI gene was sequenced, from 406 freshwater fish specimens belonging to 24 genera and originating from 18 lake and river sites. These sequences were used along with 596 sequences from the same genera, recovered from BOLD, for the construction of phylogenetic trees and the estimation of genetic distances between individuals. In total, 1002 sequences belonging to 72 species were analyzed. The method was found to be effective for 55 of 72 studied species. 17 closely related species with low interspecific genetic distances were observed, for which further study is proposed. It should also be noted that, in four cases, cryptic diversity was observed, where groups originally identified as one species exhibited genetic distance great enough to be separated into discrete species. Region specific haplotypes were also detected within populations of 14 species, giving the possibility to identify even the geographic origin of a species. Our findings are discussed in the light of the rich history of the Balkan peninsula and provide a significant steppingstone for the further study of Greek and European freshwater fish biodiversity.
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Affiliation(s)
- Alexandros Tsoupas
- Faculty of Sciences, Department of Genetics, Development and Molecular Biology, Laboratory of Animal Population Genetics, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Sofia Papavasileiou
- Faculty of Sciences, Department of Genetics, Development and Molecular Biology, Laboratory of Animal Population Genetics, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Styliani Minoudi
- Faculty of Sciences, Department of Genetics, Development and Molecular Biology, Laboratory of Animal Population Genetics, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
- Bioanalysis and Omics (BIOMIC), Center for Interdisciplinary Research and Innovation (CIRI-AUTH), Balkan Center, Thessaloniki, Greece
| | - Konstantinos Gkagkavouzis
- Faculty of Sciences, Department of Genetics, Development and Molecular Biology, Laboratory of Animal Population Genetics, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
- Bioanalysis and Omics (BIOMIC), Center for Interdisciplinary Research and Innovation (CIRI-AUTH), Balkan Center, Thessaloniki, Greece
| | - Olga Petriki
- Faculty of Sciences, Department of Zoology, Laboratory of Ichthyology, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Dimitra Bobori
- Faculty of Sciences, Department of Zoology, Laboratory of Ichthyology, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
- * E-mail: (DB); (AT)
| | - Argyrios Sapounidis
- Department of Inland Waters and Lagoons, Fisheries Research Institute, Hellenic Agricultural Organization “DEMETER”, Nea Peramos, Kavala, Greece
| | - Emmanouil Koutrakis
- Department of Inland Waters and Lagoons, Fisheries Research Institute, Hellenic Agricultural Organization “DEMETER”, Nea Peramos, Kavala, Greece
| | - Ioannis Leonardos
- Department of Biological Applications and Technologies, Laboratory of Zoology, School of Health Sciences, University of Ioannina, Ioannina, Greece
| | - Nikoleta Karaiskou
- Faculty of Sciences, Department of Genetics, Development and Molecular Biology, Laboratory of Animal Population Genetics, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
- Bioanalysis and Omics (BIOMIC), Center for Interdisciplinary Research and Innovation (CIRI-AUTH), Balkan Center, Thessaloniki, Greece
| | - Alexandros Triantafyllidis
- Faculty of Sciences, Department of Genetics, Development and Molecular Biology, Laboratory of Animal Population Genetics, School of Biology, Aristotle University of Thessaloniki, Thessaloniki, Greece
- Bioanalysis and Omics (BIOMIC), Center for Interdisciplinary Research and Innovation (CIRI-AUTH), Balkan Center, Thessaloniki, Greece
- * E-mail: (DB); (AT)
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New Sets of Primers for DNA Identification of Non-Indigenous Fish Species in the Volga-Kama Basin (European Russia). WATER 2022. [DOI: 10.3390/w14030437] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Abstract
Adequate species’ identification is critical for the detection and monitoring of biological invasions. In this study, we proposed and assessed the efficiency of newly created primer sets for the genetic identification of non-indigenous species (NIS) of fishes in the Volga basin based on: (a) a “long” fragment of cytochrome c oxidase subunit one of the mitochondrial gene (COI) (0.7 kb), used in “classical” DNA barcoding; (b) a short 3’-fragment (0.3 kb) of COI, suitable for use in high-throughput sequencing systems (i.e., for dietary analysis); (c) fragment of 16S mitochondrial rRNA, including those designed to fill the library of reference sequences for work on the metabarcoding of communities and eDNA studies; (d) a fragment of 18S nuclear rRNA, including two hypervariable regions V1-V2, valuable for animal phylogeny. All four sets of primers demonstrated a high amplification efficiency and high specificity for freshwater fish. Also, we proposed the protocols for the cost-effective isolation of total DNA and purification of the PCR product without the use of commercial kits. We propose an algorithm to carry out extremely cheap studies on the assessment of biological diversity without expensive equipment. We also present original data on the genetic polymorphism of all mass NIS fish species in the Volga-Kama region. The high efficiency of DNA identification based on our primers is shown relative to the traditional monitoring of biological invasions.
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OUP accepted manuscript. Zool J Linn Soc 2022. [DOI: 10.1093/zoolinnean/zlac030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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Dutra GM, Vita G, Gentile PV, Ochoa LE, Netto-Ferreira AL. Integrative taxonomy reveals a new species of Cyphocharax (Characiformes: Curimatidae) from the Upper Paraíba do Sul River basin, Brazil. NEOTROPICAL ICHTHYOLOGY 2022. [DOI: 10.1590/1982-0224-2022-0017] [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 A new species of Cyphocharax is described from the Upper Paraíba do Sul River basin, São Paulo, Brazil based on integrated morphological and molecular delimitation criteria. It is morphologically distinguished from its congeners by the presence of a round, dark blotch at the midlength of the caudal peduncle not extending to the proximal portions of the median caudal-fin rays, 19–20 circumpeduncular scales, 34–41 perforated lateral-line scales, 6–7 longitudinal scale rows above and below the lateral line, greatest body depth corresponding to 34.7–39.9% of standard length (SL), and the caudal peduncle depth corresponding to 13.3–15.2% of SL. The lowest genetic distances between the new species and other congeners are: 2.5% from C. gilbert, followed by 3.0% from C. santacatarinae, and 3.2% from C. aff. gilbert. All species delimitation criteria employed herein corroborated the recognition of the new species. In addition, comments on its conservation status are provided.
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Affiliation(s)
| | - George Vita
- Museu de Zoologia da Universidade de São Paulo, Brazil
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Reia L, Oliveira C, Benine RC. Moenkhausia andrica (Characiformes: Characidae): a new species from the rio Tapajós basin, Brazil, with minute fin hooklets in females. JOURNAL OF FISH BIOLOGY 2021; 99:1380-1392. [PMID: 34259347 DOI: 10.1111/jfb.14847] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2021] [Revised: 05/17/2021] [Accepted: 07/15/2021] [Indexed: 06/13/2023]
Abstract
In this study, a new species of Moenkhausia is described from the upper rio Juruena, rio Tapajós basin, Brazil. It is distinguished from all congeners by the presence of minute bony hooks in all fins of both mature females and males and combination of a prepelvic region flattened, dorsal portion of the humeral blotch extending two scales horizontally and vertically, lateral line with 28-32 scales, five scale series above and below lateral line; circumpeduncular scales 13-14, anal-fin rays 16-19 and dorsal portion of eyes blue in live specimens. The new species is also supported by high divergence in the mitochondrial gene cytochrome c oxidase subunit I (COI). The presence of minute fin bony hooks in both females and males, population variations and late development of the lateral line in Moenkhausia andrica are discussed.
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Affiliation(s)
- Lais Reia
- Laboratório de Ictiologia, Setor de Zoologia, Instituto de Biociências de Botucatu, Universidade Estadual Paulista, São Paulo, Brazil
| | - Claudio Oliveira
- Laboratório de Biologia e Genética de Peixes, Departamento de Biologia Estrutural e Funcional, Instituto de Biociências de Botucatu, Universidade Estadual Paulista, São Paulo, Brazil
| | - Ricardo C Benine
- Laboratório de Ictiologia, Setor de Zoologia, Instituto de Biociências de Botucatu, Universidade Estadual Paulista, São Paulo, Brazil
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Gianì S, Silletti S, Gavazzi F, Morello L, Spinsanti G, Parati K, Breviario D. aTBP: A versatile tool for fish genotyping. PLoS One 2020; 15:e0237111. [PMID: 32750100 PMCID: PMC7402489 DOI: 10.1371/journal.pone.0237111] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2020] [Accepted: 07/20/2020] [Indexed: 11/18/2022] Open
Abstract
Animal Tubulin-Based-Polymorphism (aTBP), an intron length polymorphism method recently developed for vertebrate genotyping, has been successfully applied to the identification of several fish species. Here, we report data that demonstrate the ability of the aTBP method to assign a specific profile to fish species, each characterized by the presence of commonly shared amplicons together with additional intraspecific polymorphisms. Within each aTBP profile, some fragments are also recognized that can be attributed to taxonomic ranks higher than species, e.g. genus and family. Versatility of application across different taxonomic ranks combined with the presence of a significant number of DNA polymorphisms, makes the aTBP method an additional and useful tool for fish genotyping, suitable for different purposes such as species authentication, parental recognition and detection of allele variations in response to environmental changes.
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Affiliation(s)
- Silvia Gianì
- Department Scienze Bioagroalimentari, Istituto Biologia e Biotecnologia Agraria, National Research Council, Milano, Italy
| | - Silvia Silletti
- Department Scienze Bioagroalimentari, Istituto Biologia e Biotecnologia Agraria, National Research Council, Milano, Italy
| | - Floriana Gavazzi
- Department Scienze Bioagroalimentari, Istituto Biologia e Biotecnologia Agraria, National Research Council, Milano, Italy
| | - Laura Morello
- Department Scienze Bioagroalimentari, Istituto Biologia e Biotecnologia Agraria, National Research Council, Milano, Italy
| | | | - Katia Parati
- Istituto Sperimentale Italiano Lazzaro Spallanzani, Rivolta d’Adda (CR), Italy
| | - Diego Breviario
- Department Scienze Bioagroalimentari, Istituto Biologia e Biotecnologia Agraria, National Research Council, Milano, Italy
- * E-mail:
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Ma Q, He K, Wang X, Jiang J, Zhang X, Song Z. Better Resolution for Cytochrome b than Cytochrome c Oxidase Subunit I to Identify Schizothorax Species (Teleostei: Cyprinidae) from the Tibetan Plateau and Its Adjacent Area. DNA Cell Biol 2020; 39:579-598. [PMID: 32069124 DOI: 10.1089/dna.2019.5031] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
Abstract
The genus Schizothorax is one of the most diverse groups of schizothoracine fish. Many species within this genus possess highly similar morphological characters and are very difficult to be identified accurately only based on morphology. The present study aims to test the effectiveness of mitochondrial cytochrome c oxidase subunit I (COI) gene and cytochrome b (Cytb) gene for discriminating the Schizothorax fish. A total of 185 individuals of 11 species for COI gene and 264 individuals of 23 species for Cytb gene were used for analyzing, respectively. According to the genetic distances, only one species based on COI gene and five species based on Cytb gene had "barcoding gaps," respectively. The tree-based analysis displayed that four species based on COI gene and six species based on Cytb gene clustered monophyletic group with strong support, respectively. The optimal threshold value of Schizothorax is 0.005 based on COI gene and 0.008 based on Cytb gene. The results of genetic similarity tests performed through online BLAST showed that 108 of 185 similarity searches succeeded in identifying conspecific sequences based on COI gene and 199 of 264 succeeded in identifying conspecific sequences based on Cytb gene. Considering greater interspecific genetic distance in Kimura 2-parameter (K2P) analysis and many clades with higher supporting values in tree-based analysis, we suggest that Cytb gene has better resolution in discrimination of Schizothorax species than COI gene. However, there are still many confused clustering relationships based on molecular data currently available. Incomplete lineage sorting, the existence of possible cryptic species and problematic morphological identification, etc. might have greatly weakened the resolution of Cytb gene in discrimination of Schizothorax species.
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Affiliation(s)
- Qingzhan Ma
- College of Life Sciences, Sichuan Key Laboratory of Conservation Biology on Endangered Wildlife, College of Life Sciences, Sichuan University, Chengdu, China
| | - Kun He
- College of Life Sciences, Sichuan Key Laboratory of Conservation Biology on Endangered Wildlife, College of Life Sciences, Sichuan University, Chengdu, China
| | - Xiaodong Wang
- College of Life Sciences, Sichuan Key Laboratory of Conservation Biology on Endangered Wildlife, College of Life Sciences, Sichuan University, Chengdu, China
| | - Jianping Jiang
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Xiuyue Zhang
- College of Life Sciences, Sichuan Key Laboratory of Conservation Biology on Endangered Wildlife, College of Life Sciences, Sichuan University, Chengdu, China
| | - Zhaobin Song
- College of Life Sciences, Sichuan Key Laboratory of Conservation Biology on Endangered Wildlife, College of Life Sciences, Sichuan University, Chengdu, China.,College of Life Sciences, Key Laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China
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Malanski E, Sarmento-Soares LM, Silva-Malanski ACG, Lopes MM, Ingenito LFDS, Buckup PA. A new species of Characidium (Characiformes: Crenuchidae) from coastal basins in the Atlantic Rainforest of eastern Brazil, with phylogenetic and phylogeographic insights into the Characidium alipioi species group. NEOTROPICAL ICHTHYOLOGY 2019. [DOI: 10.1590/1982-0224-20180121] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
ABSTRACT A new species of Characidium from southeastern Brazil is described based on morphological and molecular evidence from specimens collected between the rio Jucuruçu and rio Doce basins. The new species belongs to a group of species within Characidium with an unscaled area in the isthmus and is distinguished from these species, except C. alipioi, C. fasciatum, C. hasemani, and C. kamakan, by the greater distance (greater than 10% SL) and presence of 5-7 scales between the anus and the anal fin, and presence of 14 series of scales around the caudal peduncle. The species is distinguished from C. alipioi by having 4 series of scales above the lateral line (vs. 5 series) and greater distance between the anus and the anal fin; from C. fasciatum and C. kamakan, by the smaller body depth at the dorsal-fin origin, at the anal-fin origin, and at the caudal peduncle; from C. hasemani, by the short distances between the tip of the snout and the pelvic fin, the tip of the snout and the anal fin, and the tip of the snout and the tip of anal fin. The new species forms a presumably monophyletic group with C. alipioi and C. kamakan.
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Affiliation(s)
- Evandro Malanski
- Instituto Nacional da Mata Atlântica, Brazil; Universidade Federal do Rio de Janeiro, Brazil; Universidade Federal do Espírito Santo, Brazil
| | - Luisa Maria Sarmento-Soares
- Instituto Nacional da Mata Atlântica, Brazil; Universidade Federal do Espírito Santo, Brazil; Universidade Estadual de Feira de Santana, Brazil
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