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Baiko D, Lisnerová M, Bartošová-Sojková P, Holzer AS, Blabolil P, Schabuss M, Fiala I. Solving the Myxidium rhodei (Myxozoa) puzzle: insights into its phylogeny and host specificity in Cypriniformes. Parasite 2024; 31:35. [PMID: 38949637 PMCID: PMC11216160 DOI: 10.1051/parasite/2024030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Accepted: 05/16/2024] [Indexed: 07/02/2024] Open
Abstract
Myxidium rhodei Léger, 1905 (Cnidaria: Myxozoa) is a kidney-infecting myxosporean that was originally described from the European bitterling Rhodeus amarus. Subsequently, it has been documented based on spore morphology in more than 40 other cypriniform species, with the roach Rutilus rutilus being the most commonly reported host. This study introduces the first comprehensive data assessment of M. rhodei, conducted through morphological, ecological and molecular methods. The morphological and phylogenetic analyses of SSU rDNA sequences of Myxidium isolates obtained from European bitterling and roach did not support parasite conspecificity from these fish. In fact, the roach-infecting isolates represent three distinct parasite species. The first two, M. rutili n. sp. and M. rutilusi n. sp., are closely related cryptic species clustering with other myxosporeans in the freshwater urinary clade, sharing the same tissue tropism. The third one, M. batuevae n. sp., previously assigned to M. cf. rhodei, clustered in the hepatic biliary clade sister to bitterling-infecting M. rhodei. Our examination of diverse cypriniform fishes, coupled with molecular and morphological analyses, allowed us to untangle the cryptic species nature of M. rhodei and discover the existence of novel species. This underscores the largely undiscovered range of myxozoan diversity and highlights the need to incorporate sequence data in diagnosing novel species.
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Affiliation(s)
- Dariya Baiko
- Institute of Parasitology, Biology Centre of the Czech Academy of Sciences České Budějovice 37005 Czech Republic
- Faculty of Science, University of South Bohemia in České Budějovice České Budějovice 37005 Czech Republic
- Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl von Ossietzky University Oldenburg Oldenburg 26129 Germany
| | - Martina Lisnerová
- Institute of Parasitology, Biology Centre of the Czech Academy of Sciences České Budějovice 37005 Czech Republic
| | - Pavla Bartošová-Sojková
- Institute of Parasitology, Biology Centre of the Czech Academy of Sciences České Budějovice 37005 Czech Republic
| | - Astrid S. Holzer
- Institute of Parasitology, Biology Centre of the Czech Academy of Sciences České Budějovice 37005 Czech Republic
- Fish Health Division, University of Veterinary Medicine Vienna 1210 Austria
| | - Petr Blabolil
- Faculty of Science, University of South Bohemia in České Budějovice České Budějovice 37005 Czech Republic
- Institute of Hydrobiology, Biology Centre of the Czech Academy of Sciences České Budějovice 37005 Czech Republic
| | | | - Ivan Fiala
- Institute of Parasitology, Biology Centre of the Czech Academy of Sciences České Budějovice 37005 Czech Republic
- Faculty of Science, University of South Bohemia in České Budějovice České Budějovice 37005 Czech Republic
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Benavente JN, Véliz D, Quezada-Romegialli C, Gomez-Uchida D. Uniparental and biparental markers unravel invasion pathways, population admixture, and genetic structure in naturalized rainbow trout (Oncorhynchus mykiss). JOURNAL OF FISH BIOLOGY 2023; 103:1277-1288. [PMID: 37535430 DOI: 10.1111/jfb.15520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/16/2022] [Revised: 06/27/2023] [Accepted: 08/02/2023] [Indexed: 08/05/2023]
Abstract
The present study combined uniparental mtDNA and biparental SNPs to illuminate the invasion and colonization pathways of rainbow trout, Oncorhynchus mykiss, one of the world's most widespread invasive fishes, that has been intensively propagated in Chile, South America. The specific aims of the study were (i) to evaluate potential donor populations, which could be either from the species' native range in North America or from introduced populations in Europe, by comparing mtDNA D-loop/control region haplotypes; and (ii) to assess the factors that have shaped genetic diversity and contemporary genetic structure of rainbow trout populations introduced to Chile through SNP genotyping. The authors comprehensively sampled 24 sites in 12 basins ranging from the High Andean Plateau (Altiplano, 18° S) to northern Patagonia (41° S). Results of the mtDNA data of naturalized trout populations from rivers in the Altiplano (northern Chile) differed from those collected in central and southern Chile, suggesting an origin from North American hatcheries. Naturalized trout populations in central and southern Chile, on the contrary, shared haplotypes with specimens found in European hatcheries. The southern and central Chile populations also contained rare haplotypes, possibly indicating potential spread through aquaculture escapes. Results of the SNP analysis revealed higher allelic richness for trout sampled in sites influenced by commercial aquaculture than sites without commercial aquaculture, likely due to increased admixture between aquaculture broodstock and naturalized trout. The analysis further uncovered some complex patterns of divergent trout populations with low genetic diversity as well as increased relatedness between individuals from isolated sites, suggesting possible local populations. A comprehensive characterization of genetic diversity and structure of rainbow trout should help identify management areas that may augment socioeconomic benefits while preventing the spread and further impacts on biodiversity.
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Affiliation(s)
- Javiera N Benavente
- Departmento de Ciencias Ecológicas, Universidad de Chile, Santiago, Chile
- Genomics in Ecology, Evolution and Conservation Lab, Departmento de Zoología, Facultad de Ciencias Naturales y Oceanográficas, Universidad de Concepción, Concepción, Chile
| | - David Véliz
- Departmento de Ciencias Ecológicas, Universidad de Chile, Santiago, Chile
- Centro de Ecología y Manejo de Islas Oceánicas (ESMOI), Coquimbo, Chile
| | - Claudio Quezada-Romegialli
- Plataforma de Monitoreo Genómico y Ambiental (PGMA), Departamento de Química, Facultad de Ciencias, Universidad de Tarapacá, Tarapacá, Chile
| | - Daniel Gomez-Uchida
- Genomics in Ecology, Evolution and Conservation Lab, Departmento de Zoología, Facultad de Ciencias Naturales y Oceanográficas, Universidad de Concepción, Concepción, Chile
- Núcleo Milenio INVASAL, Concepción, Chile
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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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Takács P, Maasz G, Zrínyi Z, Boross N, Vitál Z, Kánainé Sipos DI, Bánó B, Staszny Á, Takács PS, Kovács B. Infirm effect of phylogeny on morphometric features in a cryptic Gobio species complex. CONTRIBUTIONS TO ZOOLOGY 2022. [DOI: 10.1163/18759866-bja10026] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Abstract
Several recent notes prove that taxonomic relations of close relative animal groups (species complexes or cryptic species) can be revealed by the combined use of genetic and morphologic methodologies. At the same time scarce information can be found about how phylogeny, population origin, and sexual dimorphism affect the morphometric features of these species. In our present work, we performed simultaneous phylogenetic and morphological studies on the taxonomically still questionable Carpathian stream dwelling gudgeons (Cyprinidae, Gobio) by using two different methodologies (distance based and geometric morphometry). Our results were in correspondence with the previous findings, showing the presence of three phylogenetically more or less distinct groups in the area. The results of the whole-body geometric and the traditional, distance-based morphometry reflected the extent of phylogenetic differences. While the results of geometric scale morphometry did not correspond with the genetic subdivisions. Results of three way PERMANOVA analyses showed that the phylogenetic effects on morphometry is less considerable as the population origin or the sexual dimorphism at these cyprinid taxa. Our investigation contributed to the better understanding of the taxonomy of fish stocks in the Carpathian Basin, and to their conservation, but additional investigations will be needed to clarify the exact taxonomic position of the gudgeons (’Gobio sp1’) dominating the eastern part of the studied drainage.
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Affiliation(s)
- Péter Takács
- Corresponding author, Balaton Limnological Research Institute, Klebelsberg Kuno street 3, Tihany, 8237, Hungary,
| | - Gabor Maasz
- Soós Ernő Research and Development Center, University of Pannonia, 8800 Nagykanizsa, Hungary,
| | - Zita Zrínyi
- Soós Ernő Research and Development Center, University of Pannonia, 8800 Nagykanizsa, Hungary,
| | - Nóra Boross
- Balaton Limnological Research Institute, Klebelsberg Kuno street 3, Tihany, 8237, Hungary,
| | - Zoltán Vitál
- National Agricultural Research and Innovation Centre, Research Institute for Fisheries and Aquaculture, Anna-liget u. 35, Szarvas 5540, Hungary,
| | - Dóra Ildikó Kánainé Sipos
- Deparment of Molecular Ecology, Institute of Aquaculture and Environmental Safety, Hungarian University of Agricultural and Life Sciences, Gödöllő, 2100, Hungary,
| | - Bálint Bánó
- Balaton Limnological Research Institute, Klebelsberg Kuno street 3, Tihany, 8237, Hungary
- Deparment of Molecular Ecology, Institute of Aquaculture and Environmental Safety, Hungarian University of Agricultural and Life Sciences, Gödöllő, 2100, Hungary,
| | - Ádám Staszny
- Department of Freshwater Fish Ecology, Institute of Aquaculture and Environmental Safety, Hungarian University of Agricultural and Life Sciences, Gödöllő, 2100, Hungary,
| | - Péter Sály Takács
- Centre for Ecological Research, Institute of Aquatic Ecology, Budapest, Karolina street 29, Hungary,
| | - Balázs Kovács
- Department of Freshwater Fish Ecology, Institute of Aquaculture and Environmental Safety, Hungarian University of Agricultural and Life Sciences, Gödöllő, 2100, Hungary,
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Guinand B, Oral M, Tougard C. Brown trout phylogenetics: A persistent mirage towards (too) many species. JOURNAL OF FISH BIOLOGY 2021; 99:298-307. [PMID: 33483952 DOI: 10.1111/jfb.14686] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Revised: 12/28/2020] [Accepted: 01/19/2021] [Indexed: 06/12/2023]
Affiliation(s)
- Bruno Guinand
- ISEM, Université de Montpellier, CNRS, IRD, EPHE, Montpellier, France
| | - Münevver Oral
- Faculty of Fisheries and Aquatic Science, Recep Tayyip Erdogan University, Rize, Turkey
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6
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Takács P, Ferincz Á, Imecs I, Kovács B, Nagy AA, Ihász K, Vitál Z, Csoma E. Increased spatial resolution of sampling in the Carpathian basin helps to understand the phylogeny of central European stream-dwelling gudgeons. BMC ZOOL 2021; 6:3. [PMID: 37170347 PMCID: PMC10127091 DOI: 10.1186/s40850-021-00069-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/18/2020] [Accepted: 02/25/2021] [Indexed: 11/10/2022] Open
Abstract
Abstract
Background
Phylogenetic studies of widespread European fish species often do not completely cover their entire distribution area, and some areas are often excluded from analyses than others. For example, Carpathian stocks are often omitted from these surveys or are under-represented in the samples. However, this area served as an extra-Mediterranean refugia for many species; therefore, it is assumed that fish stocks here may show special phylogenetic features. For this reason, increased spatial resolution of sampling, namely revealing genetic information from unexamined Carpathian areas within the range of doubtful taxa, may help us better understand their phylogenetic features. To test this hypothesis, a phylogenetic investigation using a partial mtCR sequence data was conducted on 56 stream-dwelling freshwater fish (Gobio spp.) individuals collected from 11 rivers of the data-deficient Southeastern Carpathian area. Moreover, we revieved the available phylogenetic data of Middle-Danubian stream-dwelling gudgeon lineages to delineate their distribution in the area.
Results
Seven out of the nine detected haplotypes were newly described, suggesting the studied area hosts distinct and diverse Gobio stocks. Two valid species (G. obtusirostris, G. gobio), and a haplogroup with doubtful phylogenetic position” G. sp. 1" were detected in the area, showing a specific spatial distribution pattern. The distribution of the detected lineages in the Middle-Danubian area correspond with recent and paleo hydrogeographic features, at the same time mainly on their bordering areas show considerable overlap.
Conclusions
Despite the relatively limited geographic range of the study, our results provide important information which contributes to a better understanding of the phylogenetic, taxonomic and distribution features of Central European gudgeons. The genetically confirmed distribution data of the indicated lineages corresponds well with the recent and near-recent hydrogeographic features of the area, and assumes several hybrid zones in the Carpathian Basin. Additionally, the results show that the middle and lower Danubian watershed cannot be excluded from the range of G. gobio. Moreover, the” G. sp. 1", is slightly differentiated but phylogenetically distinct entity, and is the only Gobio taxa thus far detected in the middle and lower Tisza-basin. However, further investigations are necessary to clarify the taxonomic position of this group.
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Current genetic admixture between relictual populations might enhance the recovery of an elusive carnivore. CONSERV GENET 2019. [DOI: 10.1007/s10592-019-01199-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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Michaux JR, Hürner H, Krystufek B, Sarà M, Ribas A, Ruch T, Vekhnik V, Renaud S. Genetic structure of a European forest species, the edible dormouse ( Glis glis): a consequence of past anthropogenic forest fragmentation? Biol J Linn Soc Lond 2019. [DOI: 10.1093/biolinnean/bly176] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- J R Michaux
- Conservation Genetics Laboratory, Institut de Botanique, Chemin de la Vallée, Liège, Belgium
- CIRAD/INRA UMR117 ASTRE, Campus International de Baillarguet, Montpellier Cedex 5, France
| | - H Hürner
- Conservation Genetics Laboratory, Institut de Botanique, Chemin de la Vallée, Liège, Belgium
| | - B Krystufek
- Slovenian Museum of Natural History, Presernova, Ljubljana, Slovenia
| | - M Sarà
- Dipartimento STEBICEF, Via Archirafi, Palermo, Italy
| | - A Ribas
- Museu de Granollers-Ciències Naturals C/Francesc Macià, Granollers, Spain
| | - T Ruch
- Institute for Cell Biology and Neuroscience, Johann Wolfgang-Goethe Universität Frankfurt am Main, Frankfurt am Main, Germany
| | - V Vekhnik
- Zhiguli State Nature Reserve, Bakhilova Polyana Village, Samara Oblast, Russia
| | - S Renaud
- Laboratoire de Biométrie et Biologie Evolutive, UMR 5558, Université Lyon, CNRS, Villeurbanne, France
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Bartáková V, Bryja J, Šanda R, Bektas Y, Stefanov T, Choleva L, Smith C, Reichard M. High cryptic diversity of bitterling fish in the southern West Palearctic. Mol Phylogenet Evol 2018; 133:1-11. [PMID: 30586649 DOI: 10.1016/j.ympev.2018.12.025] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2018] [Revised: 10/24/2018] [Accepted: 12/20/2018] [Indexed: 11/17/2022]
Abstract
South-east Europe, along with the adjacent region of south-west Asia, is an important biodiversity hotspot with high local endemism largely contributed by contemporary continental lineages that retreated to southern refugia during colder Quaternary periods. We investigated the genetic diversity of the European bitterling fish (Rhodeus amarus) species complex (Cyprinidae) across its range in the western Palearctic, but with a particular emphasis in the region of Balkan, Pontic and Caspian refugia. We genotyped 12 polymorphic microsatellite loci and a partial sequence of mitochondrial gene cytochrome b (CYTB) for a set of 1,038 individuals from 60 populations. We used mtDNA sequences to infer phylogenetic relationships and historical demography, and microsatellite markers to describe fine-scale genetic variability and structure. Our mtDNA analysis revealed six well-supported lineages, with limited local co-occurrence. Two lineages are distributed throughout central and western Europe (lineages "A" and "B"), with two zones of secondary contact. Another two lineages were restricted to the Ponto-Aegean region of Greece (lineages "C" and "D") and the final two lineages were restricted south of the Caucasus mountains (lineage "E" from the Black Sea watershed and lineage "F" from the Caspian watershed). A signal of recent expansion was revealed in the two widespread lineages and the Ponto-Aegean lineage "C". The geographic distribution of clusters detected by nuclear microsatellites corresponded well with mitochondrial lineages and demonstrated finely sub-structured populations. A profound population structure suggested a significant role of genetic drift in differentiation among lineages. Lineage divergence in the Ponto-Aegean and Caspian regions are substantial, supporting the validity of two described endemic species (Rhodeus meridionalis as lineage "D" and Rhodeus colchicus as lineage "E") and invite taxonomic evaluation of the other two southern lineages (Thracean "C" and Caspian "F").
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Affiliation(s)
- Veronika Bartáková
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic; Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Josef Bryja
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic; Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Radek Šanda
- National Museum, Department of Zoology, Václavské nám. 68, 115 79 Prague 1, Czech Republic
| | - Yusuf Bektas
- Department of Basic Sciences, Faculty of Fisheries, Recep Tayyip Erdogan University, 53100 Rize, Turkey
| | - Tihomir Stefanov
- National Museum of Natural History, Bulgarian Academy of Sciences, 1 Tsar Osvoboditel Blv., 1000 Sofia, Bulgaria
| | - Lukáš Choleva
- The Czech Academy of Sciences, Institute of Animal Physiology and Genetics, Laboratory of Fish Genetics, Rumburská 89, 277 21 Liběchov, Czech Republic; Department of Biology and Ecology, Faculty of Science, University of Ostrava, Chittussiho 10, Ostrava 710 00, Czech Republic
| | - Carl Smith
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic; Department of Ecology & Vertebrate Zoology, University of Łódź, Banacha 12/16, 90-237 Łódź, Poland; School of Biology and Bell-Pettigrew Museum of Natural History, University of St Andrews, St Andrews KY16 8LB, UK
| | - Martin Reichard
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic.
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Absence of spatial genetic structure in common dentex (Dentex dentex Linnaeus, 1758) in the Mediterranean Sea as evidenced by nuclear and mitochondrial molecular markers. PLoS One 2018; 13:e0203866. [PMID: 30208106 PMCID: PMC6135516 DOI: 10.1371/journal.pone.0203866] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2017] [Accepted: 08/29/2018] [Indexed: 11/29/2022] Open
Abstract
The common dentex, Dentex dentex, is a fish species which inhabits marine environments in the Mediterranean and Northeast Atlantic regions. This is an important species from an ecological, economic and conservation perspective, however critical information on its population genetic structure is lacking. Most samples were obtained from the Mediterranean Sea (17 sites) with an emphasis around Corsica (5 sites), plus one Atlantic Ocean site. This provided an opportunity to examine genetic structuring at local and broader scales to provide science based data for the management of fishing stocks in the region. Two mitochondrial regions were examined (D-loop and COI) along with eight microsatellite loci. The COI data was combined with publicly available sequences and demonstrated past misidentification of common dentex. All markers indicated the absence of population genetic structure from the Bay of Biscay to the eastern Mediterranean Sea. Bayesian approaches, as well as the statistical tests performed on the allelic frequencies from microsatellite loci, indicated low differentiation between samples; there was only a slight (p = 0.05) indication of isolation by distance. Common dentex is a marine fish species with a unique panmictic population in the Mediterranean and likely in the Atlantic Ocean as well.
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Bartáková V, Bryja J, Reichard M. Fine-scale genetic structure of the European bitterling at the intersection of three major European watersheds. BMC Evol Biol 2018; 18:105. [PMID: 29973160 PMCID: PMC6030748 DOI: 10.1186/s12862-018-1219-9] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Accepted: 06/20/2018] [Indexed: 11/24/2022] Open
Abstract
BACKGROUND Anthropogenic factors can have a major impact on the contemporary distribution of intraspecific genetic diversity. Many freshwater fishes have finely structured and locally adapted populations, but their natural genetic structure can be affected by river engineering schemes across river basins, fish transfers in aquaculture industry and conservation management. The European bitterling (Rhodeus amarus) is a small fish that is a brood parasite of freshwater mussels and is widespread across continental Europe. Its range recently expanded, following sharp declines in the 1970s and 1980s. We investigated its genetic variability and spatial structure at the centre of its distribution at the boundary of three watersheds, testing the role of natural and anthropogenic factors in its genetic structure. RESULTS Sequences of mitochondrial cytochrome B (CYTB) revealed that bitterling colonised central Europe from two Ponto-Caspian refugia, which partly defines its contemporary genetic structure. Twelve polymorphic microsatellite loci revealed pronounced interpopulation differentiation, with significant small-scale differentiation within the same river basins. At a large scale, populations from the Baltic Sea watershed (middle Oder and Vistula basins) were distinct from those from the Black Sea watershed (Danube basin), while populations from rivers of the North Sea watershed (Rhine, Elbe) originated from the admixture of both original sources. Notable exceptions demonstrated the potential role of human translocations across watersheds, with the upper River Oder (Baltic watershed) inhabited by fish from the Danube basin (Black Sea watershed) and a population in the southern part of the River Elbe (North Sea watershed) basin possessing a signal of admixture from the Danube basin. CONCLUSIONS Hydrography and physical barriers to dispersal are only partly reflected in the genetic structure of the European bitterling at the intersection of three major watersheds in central Europe. Drainage boundaries have been obscured by human-mediated translocations, likely related to common carp, Cyprinus carpio, cultivation and game-fish management. Despite these translocations, populations of bitterling are significantly structured by genetic drift, possibly reinforced by its low dispersal ability. Overall, the impact of anthropogenic factors on the genetic structure of the bitterling populations in central Europe is limited.
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Affiliation(s)
- Veronika Bartáková
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Josef Bryja
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic
- Department of Botany and Zoology, Faculty of Science, Masaryk University, Kotlářská 2, 611 37 Brno, Czech Republic
| | - Martin Reichard
- The Czech Academy of Sciences, Institute of Vertebrate Biology, Květná 8, 603 65 Brno, Czech Republic
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12
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Smith C. Bayesian inference supports the host selection hypothesis in explaining adaptive host specificity by European bitterling. Oecologia 2016; 183:379-389. [PMID: 27888335 PMCID: PMC5306149 DOI: 10.1007/s00442-016-3780-5] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2016] [Accepted: 11/12/2016] [Indexed: 01/13/2023]
Abstract
Generalist parasites have the capacity to infect multiple hosts. The temporal pattern of host specificity by generalist parasites is rarely studied, but is critical to understanding what variables underpin infection and thereby the impact of parasites on host species and the way they impose selection on hosts. Here, the temporal dynamics of infection of four species of freshwater mussel by European bitterling fish (Rhodeus amarus) was investigated over three spawning seasons. Bitterling lay their eggs in the gills of freshwater mussels, which suffer reduced growth, oxygen stress, gill damage and elevated mortality as a result of parasitism. The temporal pattern of infection of mussels by European bitterling in multiple populations was examined. Using a Bernoulli Generalized Additive Mixed Model with Bayesian inference it was demonstrated that one mussel species, Unio pictorum, was exploited over the entire bitterling spawning season. As the season progressed, bitterling showed a preference for other mussel species, which were inferior hosts. Temporal changes in host use reflected elevated density-dependent mortality in preferred hosts that were already infected. Plasticity in host specificity by bitterling conformed with the predictions of the host selection hypothesis. The relationship between bitterling and their host mussels differs qualitatively from that of avian brood parasites.
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Affiliation(s)
- Carl Smith
- School of Biology, University of St Andrews, St Andrews, UK. .,Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno, Czech Republic. .,Bell-Pettigrew Museum of Natural History, University of St Andrews, Bute Building, St Andrews, Fife, KY16 9TS, UK.
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13
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Choudhary JS, Naaz N, Prabhakar CS, Lemtur M. Genetic analysis of oriental fruit fly, Bactrocera dorsalis (Diptera: Tephritidae) populations based on mitochondrial cox1 and nad1 gene sequences from India and other Asian countries. Genetica 2016; 144:611-623. [PMID: 27699519 DOI: 10.1007/s10709-016-9929-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2016] [Accepted: 09/24/2016] [Indexed: 11/25/2022]
Abstract
The study examined the genetic diversity and demographic history of Bactrocera dorsalis, a destructive and polyphagous insect pest of fruit crops in diverse geographic regions of India. 19 widely dispersed populations of the fly from India and other Asian countries were analysed using partial sequences of mitochondrial cytochrome oxidase I (cox1) and NADH dehydrogenase 1 (nad1) genes to investigate genetic diversity, genetic structure, and demographic history in the region. Genetic diversity indices [number of haplotypes (H), haloptype diversity (Hd), nucleotide diversity (π) and average number of nucleotide difference (k)] of populations revealed that B. dorsalis maintains fairly high level of genetic diversity without isolation by distance among the geographic regions. Demographic analysis showed significant (negative) Tajimas' D and Fu's F S with non significant sum of squared deviations (SSD) values, which indicate the possibility of recent sudden expansion of species and is further supported through distinctively star-like distribution structure of haplotypes among populations. Thus, the results indicate that both ongoing and historical factors have played important role in determining the genetic structure and diversity of the species in India. Consequently, sterile insect technique (SIT) could be a possible management strategy of species in the regions.
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Affiliation(s)
- Jaipal S Choudhary
- ICAR Research Complex for Eastern Region, Research Centre, Plandu, Ranchi, Jharkhand, 834010, India.
| | - Naiyar Naaz
- ICAR Research Complex for Eastern Region, Research Centre, Plandu, Ranchi, Jharkhand, 834010, India
| | - Chandra S Prabhakar
- ICAR Research Complex for Eastern Region, Research Centre, Plandu, Ranchi, Jharkhand, 834010, India
- Department of Entomology, Veer Kunwar Singh College of Agriculture, Bihar Agricultural University, Sabour, Dumraon, Buxar, Bihar, 802136, India
| | - Moanaro Lemtur
- ICAR Research Complex for Eastern Region, Research Centre, Plandu, Ranchi, Jharkhand, 834010, India
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14
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Mandák B, Havrdová A, Krak K, Hadincová V, Vít P, Zákravský P, Douda J. Recent similarity in distribution ranges does not mean a similar postglacial history: a phylogeographical study of the boreal tree species Alnus incana based on microsatellite and chloroplast DNA variation. THE NEW PHYTOLOGIST 2016; 210:1395-1407. [PMID: 26831816 DOI: 10.1111/nph.13848] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/06/2015] [Accepted: 12/06/2015] [Indexed: 06/05/2023]
Abstract
We reconstructed the historical pattern of postglacial biogeographic range expansion of the boreal tree species Alnus incana in Europe. To assess population genetic structure and diversity, we performed a combined analysis of nuclear microsatellite loci and chloroplast DNA sequences (65 populations, 1004 individuals). Analysis of haplotype and microsatellite diversity revealed that southeastern refugial populations situated in the Carpathians and the Balkan Peninsula did not spread north and cannot be considered as important source populations for postglacial recolonization of Europe; populations in Eastern Europe did not establish Fennoscandian populations; populations in Fennoscandia and Eastern Europe have no unique genetic cluster, but represent a mix with a predominant cluster typical for Central Europe; and that colonization of Fennoscandia and Eastern Europe took place from Central Europe. Our findings highlight the importance of an effective refugium in Central Europe located outside classical southern refugia confirming the existence of northern refugia for boreal trees in Europe. The postglacial range expansion of A. incana did not follow the model established for Picea abies. Fennoscandian populations are not derived from Eastern European ones, but from Central European ones.
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Affiliation(s)
- Bohumil Mandák
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
- Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Kamýcká 129, CZ-165 21, Praha 6 - Suchdol, Czech Republic
| | - Alena Havrdová
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
- Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Kamýcká 129, CZ-165 21, Praha 6 - Suchdol, Czech Republic
| | - Karol Krak
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
- Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Kamýcká 129, CZ-165 21, Praha 6 - Suchdol, Czech Republic
| | - Věroslava Hadincová
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
| | - Petr Vít
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
- Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Kamýcká 129, CZ-165 21, Praha 6 - Suchdol, Czech Republic
| | - Petr Zákravský
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
| | - Jan Douda
- Institute of Botany, Academy of Sciences of the Czech Republic, Zámek 1, CZ-252 43, Průhonice, Czech Republic
- Faculty of Environmental Sciences, Czech University of Life Sciences Prague, Kamýcká 129, CZ-165 21, Praha 6 - Suchdol, Czech Republic
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15
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Reichard M, Douda K, Przybyłski M, Popa OP, Karbanová E, Matasová K, Rylková K, Polačik M, Blažek R, Smith C. Population-specific responses to an invasive species. Proc Biol Sci 2016; 282:20151063. [PMID: 26180070 DOI: 10.1098/rspb.2015.1063] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
Predicting the impacts of non-native species remains a challenge. As populations of a species are genetically and phenotypically variable, the impact of non-native species on local taxa could crucially depend on population-specific traits and adaptations of both native and non-native species. Bitterling fishes are brood parasites of unionid mussels and unionid mussels produce larvae that parasitize fishes. We used common garden experiments to measure three key elements in the bitterling-mussel association among two populations of an invasive mussel (Anodonta woodiana) and four populations of European bitterling (Rhodeus amarus). The impact of the invasive mussel varied between geographically distinct R. amarus lineages and between local populations within lineages. The capacity of parasitic larvae of the invasive mussel to exploit R. amarus was higher in a Danubian than in a Baltic R. amarus lineage and in allopatric than in sympatric R. amarus populations. Maladaptive oviposition by R. amarus into A. woodiana varied among populations, with significant population-specific consequences for R. amarus recruitment. We suggest that variation in coevolutionary states may predispose different populations to divergent responses. Given that coevolutionary relationships are ubiquitous, population-specific attributes of invasive and native populations may play a critical role in the outcome of invasion. We argue for a shift from a species-centred to population-centred perspective of the impacts of invasions.
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Affiliation(s)
- Martin Reichard
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, Brno 603 65, Czech Republic
| | - Karel Douda
- Department of Zoology and Fisheries, Czech University of Life Sciences Prague, Kamýcká 129, Prague 165 00, Czech Republic
| | - Mirosław Przybyłski
- Department of Ecology and Vertebrate Zoology, University of Łodz, Banacha 12/16, Łodz 90-237, Poland
| | - Oana P Popa
- Grigore Antipa National Museum of Natural History, Kiseleff Street, no. 1, Bucharest 011341, Romania
| | - Eva Karbanová
- Department of Zoology and Fisheries, Czech University of Life Sciences Prague, Kamýcká 129, Prague 165 00, Czech Republic
| | - Klára Matasová
- Department of Zoology and Fisheries, Czech University of Life Sciences Prague, Kamýcká 129, Prague 165 00, Czech Republic
| | - Kateřina Rylková
- Department of Zoology and Fisheries, Czech University of Life Sciences Prague, Kamýcká 129, Prague 165 00, Czech Republic
| | - Matej Polačik
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, Brno 603 65, Czech Republic
| | - Radim Blažek
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, Brno 603 65, Czech Republic
| | - Carl Smith
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, Brno 603 65, Czech Republic School of Biology, University of St Andrews, St Andrews, Fife KY16 8LB, UK
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16
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Chang CH, Li F, Shao KT, Lin YS, Morosawa T, Kim S, Koo H, Kim W, Lee JS, He S, Smith C, Reichard M, Miya M, Sado T, Uehara K, Lavoué S, Chen WJ, Mayden RL. Phylogenetic relationships of Acheilognathidae (Cypriniformes: Cyprinoidea) as revealed from evidence of both nuclear and mitochondrial gene sequence variation: evidence for necessary taxonomic revision in the family and the identification of cryptic species. Mol Phylogenet Evol 2014; 81:182-94. [PMID: 25238947 DOI: 10.1016/j.ympev.2014.08.026] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2014] [Revised: 08/28/2014] [Accepted: 08/29/2014] [Indexed: 10/24/2022]
Abstract
Bitterlings are relatively small cypriniform species and extremely interesting evolutionarily due to their unusual reproductive behaviors and their coevolutionary relationships with freshwater mussels. As a group, they have attracted a great deal of attention in biological studies. Understanding the origin and evolution of their mating system demands a well-corroborated hypothesis of their evolutionary relationships. In this study, we provide the most comprehensive phylogenetic reconstruction of species relationships of the group based on partitioned maximum likelihood and Bayesian methods using DNA sequence variation of nuclear and mitochondrial genes on 41 species, several subspecies and three undescribed species. Our findings support the monophyly of the Acheilognathidae. Two of the three currently recognized genera are not monophyletic and the family can be subdivided into six clades. These clades are further regarded as genera based on both their phylogenetic relationships and a reappraisal of morphological characters. We present a revised classification for the Acheilognathidae with five genera/lineages: Rhodeus, Acheilognathus (new constitution), Tanakia (new constitution), Paratanakia gen. nov., and Pseudorhodeus gen. nov. and an unnamed clade containing five species currently referred to as "Acheilognathus". Gene trees of several bitterling species indicate that the taxa are not monophyletic. This result highlights a potentially dramatic underestimation of species diversity in this family. Using our new phylogenetic framework, we discuss the evolution of the Acheilognathidae relative to classification, taxonomy and biogeography.
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Affiliation(s)
- Chia-Hao Chang
- Biodiversity Research Center, Academia Sinica, Taipei 11529, Taiwan; Department of Biological Science and Technology, National Chiao Tung University, Hsinchu 30068, Taiwan; Department of Biology, Saint Louis University, St. Louis, MO 63103, USA
| | - Fan Li
- Department of Oceanography, National Sun Yet-sen University, Kaohsiung 80424, Taiwan; Institute of Biodiversity Science, Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, Fudan University, Shanghai 200433, China
| | - Kwang-Tsao Shao
- Biodiversity Research Center, Academia Sinica, Taipei 11529, Taiwan
| | - Yeong-Shin Lin
- Department of Biological Science and Technology, National Chiao Tung University, Hsinchu 30068, Taiwan; Institute of Bioinformatics and Systems Biology, National Chiao Tung University, Hsinchu 30068, Taiwan
| | | | - Sungmin Kim
- School of Biological Sciences, Seoul National University, Seoul 151-747, Republic of Korea
| | - Hyeyoung Koo
- Department of Biological Science, Sangji University, Wonju 220-702, Republic of Korea
| | - Won Kim
- School of Biological Sciences, Seoul National University, Seoul 151-747, Republic of Korea
| | - Jae-Seong Lee
- Department of Biological Sciences, Sungkyunkwan University, Suwon 440-746, Republic of Korea
| | - Shunping He
- Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China
| | - Carl Smith
- School of Biology, University of St Andrews, St Andrews, Fife KY16 8LB, UK; Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, 603 65 Brno, Czech Republic
| | - Martin Reichard
- Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Květná 8, 603 65 Brno, Czech Republic
| | - Masaki Miya
- Natural History Museum & Institute, Chiba 260-8682, Japan
| | - Tetsuya Sado
- Natural History Museum & Institute, Chiba 260-8682, Japan
| | - Kazuhiko Uehara
- Aquatic Life Conservation Research Center, Research Institute of Environment, Agriculture and Fisheries, Osaka 572-0088, Japan
| | - Sébastien Lavoué
- Institute of Oceanography, National Taiwan University, Taipei 10617, Taiwan
| | - Wei-Jen Chen
- Institute of Oceanography, National Taiwan University, Taipei 10617, Taiwan.
| | - Richard L Mayden
- Department of Biology, Saint Louis University, St. Louis, MO 63103, USA
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17
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Jeon HB, Suk HY. Pseudo but actually genuine:Rhodeus pseudosericeusprovides insight into the phylogeographic history of the Amur bitterling. Anim Cells Syst (Seoul) 2014. [DOI: 10.1080/19768354.2014.936506] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022] Open
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18
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Kuo HC, Chen SF, Fang YP, Flanders J, Rossiter SJ. Comparative rangewide phylogeography of four endemic Taiwanese bat species. Mol Ecol 2014; 23:3566-86. [DOI: 10.1111/mec.12838] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2013] [Accepted: 06/09/2014] [Indexed: 11/28/2022]
Affiliation(s)
- Hao-Chih Kuo
- School of Biological and Chemical Sciences; Queen Mary University of London; London E1 4NS UK
| | - Shiang-Fan Chen
- Center for General Education; National Taipei University; New Taipei City 23741 Taiwan
| | - Yin-Ping Fang
- Department of Biological Resources; National Chiayi University; Chiayi City 60004 Taiwan
| | - Jon Flanders
- School of Biological Sciences; University of Bristol; Bristol BS8 1UG UK
| | - Stephen J. Rossiter
- School of Biological and Chemical Sciences; Queen Mary University of London; London E1 4NS UK
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19
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Kawamura K, Ueda T, Arai R, Smith C. Phylogenetic relationships of bitterling fishes (Teleostei: Cypriniformes: Acheilognathinae), inferred from mitochondrial cytochrome B sequences. Zoolog Sci 2014; 31:321-9. [PMID: 24832905 DOI: 10.2108/zs130233] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
Bitterling (Teleostei: Acheilognathinae) are small cyprinid fishes with a discrete distribution in East Asia and Europe. We used a complete mitochondrial cytochrome b sequence (1141 bp) from 49 species or subspecies in three genera (Tanakia, Rhodeus, and Acheilognathus), sampled across the major part of their distribution, to elucidate their phylogeny and biogeography, focusing particularly on their origin and dispersal. Based on high support value, the monophyletic Acheilognathinae separated into two major clades, Acheilognathus and Tanakia-Rhodeus. In the latter clade, the monophyly of Rhodeus was poorly supported, though it was topologically nested in Tanakia. On the basis of molecular-clock calibration, both clades diverged in the middle Miocene, with Tanakia-Rhodeus diverging slightly earlier than Acheilognathus. The Tanakia-Rhodeus clade expanded its distribution westward from the Far East, eventually reaching Europe, while Acheilognathus dispersed in the temperate regions of East Asia. A feature common to both clades is that most extant species, including Japanese endemics, appeared by the end of the Pliocene, corresponding with the present delineation of the Japanese archipelago. Autumn-spawning species with an embryonic diapause, unique to bitterling among cyprinid fishes, formed two distinct lineages (barbatulusrhombeus and longipinnis-typus) within Acheilognathus. The estimated time of divergence of the two lineages was approximately from the late Pliocene, a period characterized by glaciations. The timing of divergence suggests that the shift of spawning from spring to autumn, coupled with embryonic diapause, convergently emerged twice in the evolution of bitterling, possibly as an adaptation to the climate of the late Pliocene.
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Affiliation(s)
- Kouichi Kawamura
- 1 Faculty of Bioresources, Mie University, Kurimamachiya 1577, Tsu, Mie 514-8507, Japan
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20
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Molecular cytogenetic study of the European bitterling Rhodeus amarus (Teleostei: Cyprinidae: Acheilognathinae). Genetica 2014; 142:141-8. [PMID: 24677088 PMCID: PMC4000624 DOI: 10.1007/s10709-014-9761-x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2013] [Accepted: 03/21/2014] [Indexed: 11/06/2022]
Abstract
The European bitterlings (Rhodeus amarus) from the Eastern locations were cytogenetically examined by conventional and molecular techniques. All analyzed individuals presented invariably the same chromosomal constitution of 2n = 48, with 8 metacentrics + 20 submetacentrics + 20 subtelo-acrocentrics and C-banding positive heterochromatin at the pericentromeric regions in most of the chromosomes. Moreover, some of the chromosomes had short arms entirely built with heterochromatin. GC-rich Ag-NORs (nucleolus organizer regions) were located at the short arms of two submetacentric chromosomes, and the length polymorphism of these regions was found. Multiple location of 28S rDNA sequences with fluorescence in situ hybridization signals was observed on the long and/or short arms of three submetacentric chromosomes including NOR regions and short arms of three to five acrocentric chromosomes in the studied fish. 5S rDNA sites were found on the short arms of two subtelocentric chromosomes, and telomeric repeats were localized at the ends of all chromosomes. Provided results have expanded our knowledge concerning genetic characteristics of the European bitterlings that may be profitable in the conservation programs of this endangered species.
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21
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López-Uribe MM, Zamudio KR, Cardoso CF, Danforth BN. Climate, physiological tolerance and sex-biased dispersal shape genetic structure of Neotropical orchid bees. Mol Ecol 2014; 23:1874-90. [PMID: 24641728 DOI: 10.1111/mec.12689] [Citation(s) in RCA: 53] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2013] [Revised: 01/20/2014] [Accepted: 02/03/2014] [Indexed: 11/26/2022]
Abstract
Understanding the impact of past climatic events on the demographic history of extant species is critical for predicting species' responses to future climate change. Palaeoclimatic instability is a major mechanism of lineage diversification in taxa with low dispersal and small geographical ranges in tropical ecosystems. However, the impact of these climatic events remains questionable for the diversification of species with high levels of gene flow and large geographical distributions. In this study, we investigate the impact of Pleistocene climate change on three Neotropical orchid bee species (Eulaema bombiformis, E. meriana and E. cingulata) with transcontinental distributions and different physiological tolerances. We first generated ecological niche models to identify species-specific climatically stable areas during Pleistocene climatic oscillations. Using a combination of mitochondrial and nuclear markers, we inferred calibrated phylogenies and estimated historical demographic parameters to reconstruct the phylogeographical history of each species. Our results indicate species with narrower physiological tolerance experienced less suitable habitat during glaciations and currently exhibit strong population structure in the mitochondrial genome. However, nuclear markers with low and high mutation rates show lack of association with geography. These results combined with lower migration rate estimates from the mitochondrial than the nuclear genome suggest male-biased dispersal. We conclude that despite large effective population sizes and capacity for long-distance dispersal, climatic instability is an important mechanism of maternal lineage diversification in orchid bees. Thus, these Neotropical pollinators are susceptible to disruption of genetic connectivity in the event of large-scale climatic changes.
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22
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Hwang DS, Lee WO, Lee JS. Complete mitochondrial genome of the freshwater fish, Rhodeus suigensis (Cypriniformes, Cyprinidae). MITOCHONDRIAL DNA 2013; 25:5-6. [PMID: 23510332 DOI: 10.3109/19401736.2013.775262] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The complete mitochondrial genome was sequenced from the cyprinid freshwater fish, Rhodeus suigensis. The genome sequence was 16,733 bp in size, and the gene order and contents were identical with the congeneric species R. uyekii. Of 13 protein-coding genes (PGCs), 3 genes (CO2, CO3 and Cytb) had an incomplete stop codon as shown in R. uyekii. Fot the base composition, R. suigensis showed anti-G bias (13.66% and 12.37%) on the second and third positions of the PCGs.
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Affiliation(s)
- Dae-Sik Hwang
- Department of Molecular and Environmental Bioscience, Graduate School, Hanyang University , Seoul , South Korea
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23
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Bektaş Y, Beldüz AO, Turan D. The phylogenetic position of Turkish populations within the European Bitterling,Rhodeus amarus(Osteichthyes: Cyprinidae). ZOOLOGY IN THE MIDDLE EAST 2013. [DOI: 10.1080/09397140.2013.795063] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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24
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Tracking invasion histories in the sea: facing complex scenarios using multilocus data. PLoS One 2012; 7:e35815. [PMID: 22545140 PMCID: PMC3335797 DOI: 10.1371/journal.pone.0035815] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2011] [Accepted: 03/27/2012] [Indexed: 11/22/2022] Open
Abstract
In recent years, new analytical tools have allowed researchers to extract historical information contained in molecular data, which has fundamentally transformed our understanding of processes ruling biological invasions. However, the use of these new analytical tools has been largely restricted to studies of terrestrial organisms despite the growing recognition that the sea contains ecosystems that are amongst the most heavily affected by biological invasions, and that marine invasion histories are often remarkably complex. Here, we studied the routes of invasion and colonisation histories of an invasive marine invertebrate Microcosmus squamiger (Ascidiacea) using microsatellite loci, mitochondrial DNA sequence data and 11 worldwide populations. Discriminant analysis of principal components, clustering methods and approximate Bayesian computation (ABC) methods showed that the most likely source of the introduced populations was a single admixture event that involved populations from two genetically differentiated ancestral regions - the western and eastern coasts of Australia. The ABC analyses revealed that colonisation of the introduced range of M. squamiger consisted of a series of non-independent introductions along the coastlines of Africa, North America and Europe. Furthermore, we inferred that the sequence of colonisation across continents was in line with historical taxonomic records - first the Mediterranean Sea and South Africa from an unsampled ancestral population, followed by sequential introductions in California and, more recently, the NE Atlantic Ocean. We revealed the most likely invasion history for world populations of M. squamiger, which is broadly characterized by the presence of multiple ancestral sources and non-independent introductions within the introduced range. The results presented here illustrate the complexity of marine invasion routes and identify a cause-effect relationship between human-mediated transport and the success of widespread marine non-indigenous species, which benefit from stepping-stone invasions and admixture processes involving different sources for the spread and expansion of their range.
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25
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Dubut V, Fouquet A, Voisin A, Costedoat C, Chappaz R, Gilles A. From Late Miocene to Holocene: processes of differentiation within the Telestes genus (Actinopterygii: Cyprinidae). PLoS One 2012; 7:e34423. [PMID: 22479629 PMCID: PMC3315529 DOI: 10.1371/journal.pone.0034423] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2011] [Accepted: 02/28/2012] [Indexed: 11/23/2022] Open
Abstract
Investigating processes and timing of differentiation of organisms is critical in the understanding of the evolutionary mechanisms involved in microevolution, speciation, and macroevolution that generated the extant biodiversity. From this perspective, the Telestes genus is of special interest: the Telestes species have a wide distribution range across Europe (from the Danubian district to Mediterranean districts) and have not been prone to translocation. Molecular data (mtDNA: 1,232 bp including the entire Cyt b gene; nuclear genome: 11 microsatellites) were gathered from 34 populations of the Telestes genus, almost encompassing the entire geographic range. Using several phylogenetic and molecular dating methods interpreted in conjunction with paleoclimatic and geomorphologic evidence, we investigated the processes and timing of differentiation of the Telestes lineages. The observed genetic structure and diversity were largely congruent between mtDNA and microsatellites. The Messinian Salinity Crisis (Late Miocene) seems to have played a major role in the speciation processes of the genus. Focusing on T. souffia, a species occurring in the Danube and Rhone drainages, we were able to point out several specific events from the Pleistocene to the Holocene that have likely driven the differentiation and the historical demography of this taxon. This study provides support for an evolutionary history of dispersal and vicariance with unprecedented resolution for any freshwater fish in this region.
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Affiliation(s)
- Vincent Dubut
- Aix-Marseille Université, CNRS, IRD, UMR 7263-IMBE, Equipe Evolution Génome Environnement, Centre Saint-Charles, Case 36, Marseille, France.
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26
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Extremely low genetic diversity indicating the endangered status of Ranodon sibiricus (Amphibia: Caudata) and implications for phylogeography. PLoS One 2012; 7:e33378. [PMID: 22428037 PMCID: PMC3299782 DOI: 10.1371/journal.pone.0033378] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2011] [Accepted: 02/08/2012] [Indexed: 10/29/2022] Open
Abstract
BACKGROUND The Siberian salamander (Ranodon sibiricus), distributed in geographically isolated areas of Central Asia, is an ideal alpine species for studies of conservation and phylogeography. However, there are few data regarding the genetic diversity in R. sibiricus populations. METHODOLOGY/PRINCIPAL FINDINGS We used two genetic markers (mtDNA and microsatellites) to survey all six populations of R. sibiricus in China. Both of the markers revealed extreme genetic uniformity among these populations. There were only three haplotypes in the mtDNA, and the overall nucleotide diversity in the mtDNA was 0.00064, ranging from 0.00000 to 0.00091 for the six populations. Although we recovered 70 sequences containing microsatellite repeats, there were only two loci that displayed polymorphism. We used the approximate Bayesian computation (ABC) method to study the demographic history of the populations. This analysis suggested that the extant populations diverged from the ancestral population approximately 120 years ago and that the historical population size was much larger than the present population size; i.e., R. sibiricus has experienced dramatic population declines. CONCLUSION/SIGNIFICANCE Our findings suggest that the genetic diversity in the R. sibiricus populations is the lowest among all investigated amphibians. We conclude that the isolation of R. sibiricus populations occurred recently and was a result of recent human activity and/or climatic changes. The Pleistocene glaciation oscillations may have facilitated intraspecies genetic homogeneity rather than enhanced divergence. A low genomic evolutionary rate and elevated inbreeding frequency may have also contributed to the low genetic variation observed in this species. Our findings indicate the urgency of implementing a protection plan for this endangered species.
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Khlopova AV, Kul'bachnyi S. Histological structure of the female gonads and ovipositor of the European bitterling,Rhodeus amarus(Bloch, 1782) (Cyprinidae: Acheilognathinae). ACTA ZOOL-STOCKHOLM 2012. [DOI: 10.1111/j.1463-6395.2012.00563.x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Anna V. Khlopova
- Khabarovsk Branch of the Pacific Fisheries Research Centre; Khabarovsk; 680028; Russia
| | - Sergey Kul'bachnyi
- Khabarovsk Branch of the Pacific Fisheries Research Centre; Khabarovsk; 680028; Russia
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Reichard M, Vrtílek M, Douda K, Smith C. An invasive species reverses the roles in a host-parasite relationship between bitterling fish and unionid mussels. Biol Lett 2012; 8:601-4. [PMID: 22337503 DOI: 10.1098/rsbl.2011.1234] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
The impact of multiple invading species can be magnified owing to mutual facilitation--termed 'invasional meltdown'--but invasive species can also be adversely affected by their interactions with other invaders. Using a unique reciprocal host-parasite relationship between a bitterling fish (Rhodeus amarus) and unionid mussels, we show that an invasive mussel reverses the roles in the relationship. Bitterling lay their eggs into mussel gills, and mussel larvae parasitize fish. Bitterling recently colonized Europe and parasitize all sympatric European mussels, but are unable to use a recently invasive mussel, Anodonta woodiana. The parasitic larvae of A. woodiana successfully develop on R. amarus, whereas larvae of European mussels are rejected by bitterling. This demonstrates that invading species may temporarily benefit from a coevolutionary lag by exploiting evolutionarily naive hosts, but the resulting relaxed selection may facilitate its exploitation by subsequent invading species, leading to unexpected consequences for established interspecific relationships.
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Affiliation(s)
- Martin Reichard
- Academy of Sciences of Czech Republic, Institute of Vertebrate Biology, Květná 8, 60365 Brno, Czech Republic.
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Reichard M, Smith C, Řežucha R. Personality traits, reproductive behaviour and alternative mating tactics in male European bitterling, Rhodeus amarus. BEHAVIOUR 2012. [DOI: 10.1163/156853912x643908] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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The oriental fruit fly, Bactrocera dorsalis, in China: origin and gradual inland range expansion associated with population growth. PLoS One 2011; 6:e25238. [PMID: 21984907 PMCID: PMC3184951 DOI: 10.1371/journal.pone.0025238] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2011] [Accepted: 08/30/2011] [Indexed: 11/19/2022] Open
Abstract
The oriental fruit fly, Bactrocera dorsalis, expanded throughout mainland China in the last century to become one of the most serious pests in the area, yet information on this process are fragmentary. Three mitochondrial genes (nad1, cytb and nad5) were used to infer the genetic diversity, population structure and demographic history of the oriental fruit fly from its entire distribution range in China. High levels of genetic diversity, as well as a significant correspondence between genetic and geographic distances, suggest that the invasion process might have been gradual, with no associated genetic bottlenecks. Three population groups could be identified, nevertheless the overall genetic structure was weak. The effective number of migrants between populations, estimated using the coalescent method, suggested asymmetric gene flow from the costal region of Guangdong to most inland regions. The demographic analysis indicates the oriental fruit fly underwent a recent population expansion in the Central China. We suggest the species originated in the costal region facing the South China Sea and gradually expanded to colonize mainland China, expanding here to high population numbers.
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Pariset L, Mariotti M, Gargani M, Joost S, Negrini R, Perez T, Bruford M, Ajmone Marsan P, Valentini A. Genetic diversity of sheep breeds from Albania, Greece, and Italy assessed by mitochondrial DNA and nuclear polymorphisms (SNPs). ScientificWorldJournal 2011; 11:1641-59. [PMID: 22125424 PMCID: PMC3201683 DOI: 10.1100/2011/186342] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2011] [Revised: 07/30/2011] [Accepted: 08/08/2011] [Indexed: 11/17/2022] Open
Abstract
We employed mtDNA and nuclear SNPs to investigate the genetic diversity of sheep breeds of three countries of the Mediterranean basin: Albania, Greece, and Italy. In total, 154 unique mtDNA haplotypes were detected by means of D-loop sequence analysis. The major nucleotide diversity was observed in Albania. We identified haplogroups, A, B, and C in Albanian and Greek samples, while Italian individuals clustered in groups A and B. In general, the data show a pattern reflecting old migrations that occurred in postneolithic and historical times. PCA analysis on SNP data differentiated breeds with good correspondence to geographical locations. This could reflect geographical isolation, selection operated by local sheep farmers, and different flock management and breed admixture that occurred in the last centuries.
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Affiliation(s)
- Lorraine Pariset
- Department for Innovation in Biological, Agro-Food and Forest Systems, Tuscia University, 01100 Viterbo, Italy.
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REICHARD M, BRYJA J, POLAČIK M, SMITH C. No evidence for host specialization or host-race formation in the European bitterling (Rhodeus amarus), a fish that parasitizes freshwater mussels. Mol Ecol 2011; 20:3631-43. [DOI: 10.1111/j.1365-294x.2011.05198.x] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Host–parasite interactions in sympatric and allopatric populations of European bitterling. Parasitol Res 2011; 109:801-8. [DOI: 10.1007/s00436-011-2326-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2011] [Accepted: 02/23/2011] [Indexed: 10/18/2022]
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Triantafyllidis A, Bobori D, Koliamitra C, Gbandi E, Mpanti M, Petriki O, Karaiskou N. DNA barcoding analysis of fish species diversity in four north Greek lakes. ACTA ACUST UNITED AC 2011; 22 Suppl 1:37-42. [DOI: 10.3109/19401736.2010.542242] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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