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Kalaycı G. Pliocene-Pleistocene dispersal bring along low inter species diversity between Vimba species based on multilocus analysis. ZOOSYST EVOL 2022. [DOI: 10.3897/zse.98.76937] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
This study investigates phylogenetic and phylogeographic relationships of Vimba species using mitochondrial cytochrome b (cyt b) (1023 bp) and cytochrome c oxidase subunit I (COI) barcoding region (652 bp) genes. Ninety-one samples from 36 populations for the cyt b gene and 67 samples from 20 populations for the COI were analyzed. We identified 29 haplotypes and calculated overall haplotype diversity as Hd: 0.907 ± 0.015 for cyt b. We also identified 13 COI haplotypes and calculated overall haplotype diversity as 0.826 ± 0.026 for this marker. The phylogenetic analysis of Vimba species reveals the presence of four clades, based on concatenated cyt b and COI sequences. The first and second clade consist of Vimba vimba Western lineage, and Vimba vimba Caspian lineage, while the third and fourth clade consist of Vimba mirabilis and Vimba melanops. Based on haplotype network analyses and phylogeographic inferences, the Vimba genus is monophyletic, and its species dispersed in the Pleistocene era.
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Macher TH, Schütz R, Arle J, Beermann AJ, Koschorreck J, Leese F. Beyond fish eDNA metabarcoding: Field replicates disproportionately improve the detection of stream associated vertebrate species. METABARCODING AND METAGENOMICS 2021. [DOI: 10.3897/mbmg.5.66557] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Fast, reliable, and comprehensive biodiversity monitoring data are needed for environmental decision making and management. Recent work on fish environmental DNA (eDNA) metabarcoding shows that aquatic diversity can be captured fast, reliably, and non-invasively at moderate costs. Because water in a catchment flows to the lowest point in the landscape, often a stream, it can collect traces of terrestrial species via surface or subsurface runoff along its way or when specimens come into direct contact with water (e.g., when drinking). Thus, fish eDNA metabarcoding data can provide information on fish but also on other vertebrate species that live in riparian habitats. This additional data may offer a much more comprehensive approach for assessing vertebrate diversity at no additional costs. Studies on how the sampling strategy affects species detection especially of stream-associated communities, however, are scarce. We therefore performed an analysis on the effects of biological replication on both fish as well as (semi-)terrestrial species detection. Along a 2 km stretch of the river Mulde (Germany), we collected 18 1-L water samples and analyzed the relation of detected species richness and quantity of biological replicates taken. We detected 58 vertebrate species, of which 25 were fish and lamprey, 18 mammals, and 15 birds, which account for 50%, 22.2%, and 7.4% of all native species to the German federal state of Saxony-Anhalt. However, while increasing the number of biological replicates resulted in only 24.8% more detected fish and lamprey species, mammal, and bird species richness increased disproportionately by 68.9% and 77.3%, respectively. Contrary, PCR replicates showed little stochasticity. We thus emphasize to increase the number of biological replicates when the aim is to improve general species detections. This holds especially true when the focus is on rare aquatic taxa or on (semi-)terrestrial species, the so-called ‘bycatch’. As a clear advantage, this information can be obtained without any additional sampling or laboratory effort when the sampling strategy is chosen carefully. With the increased use of eDNA metabarcoding as part of national fish bioassessment and monitoring programs, the complimentary information provided on bycatch can be used for biodiversity monitoring and conservation on a much broader scale.
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Karaiskou N, Gkagkavouzis K, Minoudi S, Botskaris D, Markou K, Kalafatakis S, Antonopoulou E, Triantafyllidis A. Genetic structure and divergence of tench Tinca tinca European populations. JOURNAL OF FISH BIOLOGY 2020; 97:930-934. [PMID: 32598030 DOI: 10.1111/jfb.14448] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/12/2020] [Revised: 06/12/2020] [Accepted: 06/27/2020] [Indexed: 06/11/2023]
Abstract
The tench Tinca tinca is a freshwater species with human-mediated translocations, aquaculture interest and limited information on its genetic structure. mtDNA sequencing analysis of control region and two genes in 50 individuals from five European populations identified two phylogroups, with greater variability than that reported until now, and a hybridization zone in the Danube River region. Restriction analyses of additional samples reveal the complicated genetic structure characteristics of tench's wild and translocated populations, supporting future breeding practices.
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Affiliation(s)
- Nikoleta Karaiskou
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Konstantinos Gkagkavouzis
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Stella Minoudi
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Dimitrios Botskaris
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Kyriaki Markou
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Stavros Kalafatakis
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Efthimia Antonopoulou
- Department of Zoology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - Alexandros Triantafyllidis
- Department of Genetics, Development and Molecular Biology, School of Biology, Faculty of Sciences, Aristotle University of Thessaloniki, Thessaloniki, Greece
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Zangl L, Daill D, Gessl W, Friedrich T, Koblmüller S. Austrian gudgeons of the genusGobio(Teleostei: Gobionidae): A mixture of divergent lineages. J ZOOL SYST EVOL RES 2019. [DOI: 10.1111/jzs.12340] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Lukas Zangl
- Institute of Biology University of Graz Graz Austria
| | - Daniel Daill
- Institute of Biology University of Graz Graz Austria
- Consultants in Aquatic Ecology and Engineering –blattfisch e.U. Wels Austria
| | | | - Thomas Friedrich
- Institute of Hydrobiology and Aquatic Ecosystem Management University of Natural Resources and Life Sciences Vienna Vienna Austria
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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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Tethyan changes shaped aquatic diversification. Biol Rev Camb Philos Soc 2017; 93:874-896. [DOI: 10.1111/brv.12376] [Citation(s) in RCA: 46] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2016] [Revised: 09/12/2017] [Accepted: 09/13/2017] [Indexed: 01/19/2023]
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Xu W, Yin W, Chen A, Li J, Lei G, Fu C. Phylogeographical analysis of a cold-temperate freshwater fish, the Amur sleeper (Perccottus glenii) in the Amur and Liaohe River basins of Northeast Asia. Zoolog Sci 2014; 31:671-9. [PMID: 25284386 DOI: 10.2108/zs130046] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
The Amur sleeper Perccottus glenii (Perciformes, Gobioidei, Odontobutidae) is well known as an invasive fish in the river basins of Eastern and Central Europe, but its genetic background is unavailable across its native habitats in northeast Asia. In this study, we used the mitochondrial cytochrome b gene by sampling 19 populations of P. glenii across its native distributional areas of Liaohe and Amur River basins to explore its evolutionary history. Phylogenetic analyses identified three major clades within P. glenii, among which Clade A and Clade B were co-distributed in the Liaohe and Amur River basins, and Clade C was restricted to the latter. Molecular dating showed that the splits of Clades A, B and C have happened in the late Early-early Middle Pleistocene and the most recent common ancestors of these clades have been presented in the late Middle-early Late Pleistocene. The P. glenii showed very high levels of genetic structure among populations (ΦST = 0.801), probably due to the characters of its life histories with very limited dispersal ability. The admixture of different clades in some populations of P. glenii probably reflects historical secondary contact. These findings indicate that Pleistocene climatic oscillation and river capture were major determinants for genetic variations and evolutionary history of the P. glenii.
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Affiliation(s)
- Wang Xu
- 1 Ministry of Education Key Laboratory for Biodiversity Science and Ecological Engineering, and Institute of Biodiversity Science, Fudan University, Shanghai 200433, China
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Bossu CM, Beaulieu JM, Ceas PA, Near TJ. Explicit tests of palaeodrainage connections of southeastern North America and the historical biogeography of Orangethroat Darters (Percidae:Etheostoma:Ceasia). Mol Ecol 2013; 22:5397-417. [DOI: 10.1111/mec.12485] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2012] [Revised: 07/21/2013] [Accepted: 07/23/2013] [Indexed: 11/30/2022]
Affiliation(s)
- Christen M. Bossu
- Department of Ecology and Evolutionary Biology; Yale University; New Haven CT 06520 USA
| | - Jeremy M. Beaulieu
- National Institute for Mathematical and Biological Synthesis (NIMBioS); University of Tennessee; Knoxville TN 37996 USA
| | | | - Thomas J. Near
- Department of Ecology and Evolutionary Biology; Yale University; New Haven CT 06520 USA
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Haponski AE, Stepien CA. Phylogenetic and biogeographical relationships of theSanderpikeperches (Percidae: Perciformes): patterns across North America and Eurasia. Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12114] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Amanda E. Haponski
- The Great Lakes Genetics/Genomics Laboratory; Lake Erie Center and the Department of Environmental Sciences; The University of Toledo; 6200 Bayshore Road; Toledo; OH; 43616; USA
| | - Carol A. Stepien
- The Great Lakes Genetics/Genomics Laboratory; Lake Erie Center and the Department of Environmental Sciences; The University of Toledo; 6200 Bayshore Road; Toledo; OH; 43616; USA
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Lajbner Z, Linhart O, Kotlík P. Human-aided dispersal has altered but not erased the phylogeography of the tench. Evol Appl 2011; 4:545-61. [PMID: 25568004 PMCID: PMC3352427 DOI: 10.1111/j.1752-4571.2010.00174.x] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2010] [Accepted: 11/08/2010] [Indexed: 11/29/2022] Open
Abstract
Human-aided dispersal can result in phylogeographic patterns that do not reflect natural historical processes, particularly in species prone to intentional translocations by humans. Here, we use a multiple-gene sequencing approach to assess the effects of human-aided dispersal on phylogeography of the tench Tinca tinca, a widespread Eurasian freshwater fish with a long history in aquaculture. Spatial genetic analysis applied to sequence data from four unlinked loci and 67 geographic localities (38-382 gene copies per locus) defined two groups of populations that were little structured geographically but were significantly differentiated from each other, and it identified locations of major genetic breaks, which were concordant across genes and were driven by distributions of two phylogroups. This pattern most reasonably reflects isolation in two major glacial refugia and subsequent range expansions, with the Eastern and Western phylogroups remaining largely allopatric throughout the tench range. However, this phylogeographic variation was also present in all 17 cultured breeds studied, and some populations at the western edge of the native range contained the Eastern phylogroup. Thus, natural processes have played an important role in structuring tench populations, but human-aided dispersal has also contributed significantly, with the admixed genetic composition of cultured breeds most likely contributing to the introgression.
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Affiliation(s)
- Zdeněk Lajbner
- Laboratory of Fish Genetics, Department of Vertebrate Evolutionary Biology and Genetics, Institute of Animal Physiology and Genetics, Academy of Sciences of the Czech RepublicLiběchov, Czech Republic
- Department of Zoology, Faculty of Science, Charles UniversityPrague, Czech Republic
| | - Otomar Linhart
- University of South Bohemia, České Budějovice, Faculty of Fisheries and Protection of Waters, Research Institute of Fish Culture and Hydrobiology at VodňanyCzech Republic
| | - Petr Kotlík
- Laboratory of Fish Genetics, Department of Vertebrate Evolutionary Biology and Genetics, Institute of Animal Physiology and Genetics, Academy of Sciences of the Czech RepublicLiběchov, Czech Republic
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Hayden B, Coscia I, Mariani S. Low cytochrome b variation in bream Abramis brama. JOURNAL OF FISH BIOLOGY 2011; 78:1579-1587. [PMID: 21539561 DOI: 10.1111/j.1095-8649.2011.02941.x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
Variability in cytochrome b (cytb) in European populations of bream Abramis brama was assessed. The cytb gene was found to be strongly conserved in A. brama relative to other cyprinid taxa. This limits the usefulness of this marker in examining geographical genetic structure in this species and raises interesting questions as to the recent evolutionary history of the species.
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Affiliation(s)
- B Hayden
- School of Biological Sciences, Queen's University Belfast, Medical Biology Centre, 97 Lisburn Road, Belfast BT9 7BL, UK
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Abstract
Geographic distribution of some 350 taxa from the Caspian and Black Sea basins were analyzed with regard to recent taxonomy, phylogeny, endemicity and ecological classification. A check-list of the Caspian Sea fishes (taxa from families down to subspecies) is provided. Eighty species and subspecies permanently occur or occasionally recorded from the North Caspian while 33–35 species and subspecies being only distributed in the Middle and South Caspian. Forty-four species are common for the two ecoregions. A comparison of the Caspian and the Black Sea fish faunas and their historical evolution is given with special respect to palaeogeography and palaeohydrology of the basin.
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Affiliation(s)
- A.M. Naseka
- Laboratory of Ichthyology, Zoological Institute, Russian Academy of Sciences, Universitetskaya Emb. 1, St. Petersburg 199034, Russia
| | - N.G. Bogutskaya
- Laboratory of Ichthyology, Zoological Institute, Russian Academy of Sciences, Universitetskaya Emb. 1, St. Petersburg 199034, Russia
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