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Matos A, Gomes-Dos-Santos A, Teixeira A, Varandas S, Sousa R, Karaouzas I, Zogaris S, Froufe E, Lopes-Lima M. The complete mitochondrial genome of Potomida acarnanica (Kobelt, 1879). Mitochondrial DNA B Resour 2024; 9:696-700. [PMID: 38835640 PMCID: PMC11149565 DOI: 10.1080/23802359.2024.2353271] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2024] [Accepted: 05/05/2024] [Indexed: 06/06/2024] Open
Abstract
Freshwater mussels (Bivalvia, Unionida) play essential roles in the well-functioning of ecosystems, even providing essential services to humans. However, these bivalves face numerous threats (e.g. habitat loss and fragmentation, pollution, introduction of invasive species, and climate change) which have already led to the extinction of many populations. This underscores the need to fully characterize the biology of these species, particularly those, such as Potomida acarnanica, that are still poorly studied. This study presents the first mitogenome of P. acarnanica (Kobelt, 1879), an endemic species of Greece with a distribution limited to only two river basins. The mitochondrial genome of a P. acarnanica specimen, collected at Pamisos River (Peloponnese, Greece), was sequenced by Illumina high-throughput sequencing. This mitogenome (16,101 bp) is characterized by 13 protein-coding genes, 22 transfer RNA and 2 ribosomal RNA genes. The size of this mitogenome is within the range of another Potomida mitogenome already published for the species Potomida littoralis. In the phylogenetic inference, P. acarnanica was recovered as monophyletic with P. littoralis mitogenome in the Lamprotulini tribe, as expected. This genomic resource will assist in genetically characterizing the species, potentially benefiting future evolutionary studies and conservation efforts.
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Affiliation(s)
- Ana Matos
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Matosinhos, Portugal
| | - André Gomes-Dos-Santos
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Matosinhos, Portugal
| | - Amílcar Teixeira
- Centro de Investigação de Montanha (CIMO), Instituto Politécnico de Bragança, Bragança, Portugal
- Mountain Research Centre, School of Agriculture, Polytechnic Institute of Bragança, Bragança, Portugal
| | - Simone Varandas
- Forestry Department, Centre for Research and Technology of Agro-Environment and Biological Sciences, University of Trás-os-Montes and Alto Douro, Vila Real, Portugal
| | - Ronaldo Sousa
- CBMA-Centre of Molecular and Environmental Biology, Department of Biology, University of Minho, Braga, Portugal
| | - Ioannis Karaouzas
- Hellenic Centre for Marine Research, Institute of Marine Biological Resources and Inland Waters, Anavyssos, Greece
| | - Stamatis Zogaris
- Hellenic Centre for Marine Research, Institute of Marine Biological Resources and Inland Waters, Anavyssos, Greece
| | - Elsa Froufe
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Matosinhos, Portugal
| | - Manuel Lopes-Lima
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, InBIO Laboratório Associado, Universidade do Porto, Vairão, Portugal
- BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Vairão, Portugal
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2
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El Yaagoubi S, Vuataz L, El Alami M, Gattolliat JL. A new species of the Baetisfuscatus group (Ephemeroptera, Baetidae) from Morocco. Zookeys 2023; 1180:27-50. [PMID: 37744949 PMCID: PMC10517345 DOI: 10.3897/zookeys.1180.109298] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Accepted: 08/23/2023] [Indexed: 09/26/2023] Open
Abstract
Baetisrifensissp. nov. is the first representative of the Baetisfuscatus group to be described from the Maghreb. It was collected from streams in the Rif region of northern Morocco. All species of the B.fuscatus group are morphologically very similar, with slight differences in colour. Thus, in addition to morphological description, species delimitation based on genetic evidence was carried out. The new species was compared with other members of the B.fuscatus group from the Palaearctic region.
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Affiliation(s)
- Sara El Yaagoubi
- Laboratoire Ecologie, Systématique, Conservation de la Biodiversité (LESCB), Unité de Recherche Labellisée CNRST N°18, Université Abdelmalek Essaâdi, Faculté des Sciences, Département de Biologie, B.P.2121 93002 Tétouan, MoroccoUniversité Abdelmalek EssaâdiTetouanMorocco
| | - Laurent Vuataz
- Muséum Cantonal des Sciences Naturelles, Palais de Rumine, Place Riponne 6, CH-1005 Lausanne, SwitzerlandMuséum Cantonal des Sciences Naturelles, Palais de RumineLausanneSwitzerland
- University of Lausanne (UNIL), Department of Ecology and Evolution, CH-1015 Lausanne, SwitzerlandUniversity of Lausanne (UNIL)LausanneSwitzerland
| | - Majida El Alami
- Laboratoire Ecologie, Systématique, Conservation de la Biodiversité (LESCB), Unité de Recherche Labellisée CNRST N°18, Université Abdelmalek Essaâdi, Faculté des Sciences, Département de Biologie, B.P.2121 93002 Tétouan, MoroccoUniversité Abdelmalek EssaâdiTetouanMorocco
| | - Jean-Luc Gattolliat
- Muséum Cantonal des Sciences Naturelles, Palais de Rumine, Place Riponne 6, CH-1005 Lausanne, SwitzerlandMuséum Cantonal des Sciences Naturelles, Palais de RumineLausanneSwitzerland
- University of Lausanne (UNIL), Department of Ecology and Evolution, CH-1015 Lausanne, SwitzerlandUniversity of Lausanne (UNIL)LausanneSwitzerland
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3
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Secci-Petretto G, Englmaier GK, Weiss SJ, Antonov A, Persat H, Denys GPJ, Schenekar T, Romanov VI, Taylor EB, Froufe E. Evaluating a species phylogeny using ddRAD SNPs: Cyto-nuclear discordance and introgression in the salmonid genus Thymallus (Salmonidae). Mol Phylogenet Evol 2023; 178:107654. [PMID: 36336233 DOI: 10.1016/j.ympev.2022.107654] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2022] [Revised: 10/05/2022] [Accepted: 10/31/2022] [Indexed: 11/06/2022]
Abstract
Hybridization and introgression are very common among freshwater fishes due to the dynamic nature of hydrological landscapes. Cyclic patterns of allopatry and secondary contact provide numerous opportunities for interspecific gene flow, which can lead to discordant paths of evolution for mitochondrial and nuclear genomes. Here, we used double digest restriction-site associated DNA sequencing (ddRADseq) to obtain a genome-wide single nucleotide polymorphism (SNP) dataset comprehensive for allThymallus (Salmonidae)species to infer phylogenetic relationships and evaluate potential recent and historical gene flow among species. The newly obtained nuclear phylogeny was largely concordant with a previously published mitogenome-based topology but revealed a few cyto-nuclear discordances. These incongruencies primarily involved the placement of internal nodes rather than the resolution of species, except for one European species where anthropogenic stock transfers are thought to be responsible for the observed pattern. The analysis of four contact zones where multiple species are found revealed a few cases of mitochondrial capture and limited signals of nuclear introgression. Interestingly, the mechanisms restricting interspecific gene flow might be distinct; while in zones of secondary contact, small-scale physical habitat separation appeared as a limiting factor, biologically based reinforcement mechanisms are presumed to be operative in areas where species presumably evolved in sympatry. Signals of historical introgression were largely congruent with the routes of species dispersal previously inferred from mitogenome data. Overall, the ddRADseq dataset provided a robust phylogenetic reconstruction of the genus Thymallus including new insights into historical hybridization and introgression, opening up new questions concerning their evolutionary history.
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Affiliation(s)
- Giulia Secci-Petretto
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, 4450-208 Matosinhos, Portugal; Department of Biology, Faculty of Sciences, U. Porto - University of Porto, Portugal
| | - Gernot K Englmaier
- University of Graz, Institute of Biology, Universitätsplatz 2, 8010 Graz, Austria
| | - Steven J Weiss
- University of Graz, Institute of Biology, Universitätsplatz 2, 8010 Graz, Austria.
| | - Alexander Antonov
- Institute of Water and Ecological Problems, Far East Branch, Russian Academy of Sciences, ul. Kim Yu Chena 65, Khabarovsk, 680063 Russia
| | - Henri Persat
- Société Française d'Ichthyologie, Muséum National d'Histoire Naturelle Paris, France, 57 rue Cuvier CP26, 75005 Paris, France
| | - Gael P J Denys
- Unité Patrimoine Naturel - Centre d'expertise et de données (2006 OFB - CNRS - MNHN), Muséum national d'Histoire naturelle, 36 rue Geoffroy Saint-Hilaire CP 41, 75005 Paris, France; Biologie des organismes et écosystèmes aquatiques (BOREA 8067), MNHN, CNRS, IRD, SU, UCN, UA, 57 rue Cuvier CP26, 75005 Paris, France
| | - Tamara Schenekar
- University of Graz, Institute of Biology, Universitätsplatz 2, 8010 Graz, Austria
| | | | - Eric B Taylor
- Department of Zoology, Biodiversity Research Centre and Beaty Biodiversity Museum, University of British Columbia, 6270 University Blvd, Vancouver, BC V6T 1Z, Canada
| | - Elsa Froufe
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, 4450-208 Matosinhos, Portugal.
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4
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Wenne R, Zbawicka M, Prądzińska A, Kotta J, Herkül K, Gardner JPA, Apostolidis AP, Poćwierz-Kotus A, Rouane-Hacene O, Korrida A, Dondero F, Baptista M, Reizopoulou S, Hamer B, Sundsaasen KK, Árnyasi M, Kent MP. Molecular genetic differentiation of native populations of Mediterranean blue mussels, Mytilus galloprovincialis Lamarck, 1819, and the relationship with environmental variables. THE EUROPEAN ZOOLOGICAL JOURNAL 2022. [DOI: 10.1080/24750263.2022.2086306] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022] Open
Affiliation(s)
- R. Wenne
- Department of Genetics and Marine Biotechnology, Institute of Oceanology, Polish Academy of Sciences, 81-712 Sopot, Poland
| | - M. Zbawicka
- Department of Genetics and Marine Biotechnology, Institute of Oceanology, Polish Academy of Sciences, 81-712 Sopot, Poland
| | - A. Prądzińska
- Department of Genetics and Marine Biotechnology, Institute of Oceanology, Polish Academy of Sciences, 81-712 Sopot, Poland
| | - J. Kotta
- Department of Marine Systems, Estonian Marine Institute, University of Tartu, 12619 Tallinn, Estonia
| | - K. Herkül
- Department of Marine Systems, Estonian Marine Institute, University of Tartu, 12619 Tallinn, Estonia
| | - J. P. A. Gardner
- School of Biological Sciences, Victoria University of Wellington, Wellington, 6140, New Zealand
| | - A. P. Apostolidis
- Department of Animal Production, Faculty of Agriculture, Aristotle University of Thessaloniki, Thessaloniki, Greece
| | - A. Poćwierz-Kotus
- Department of Genetics and Marine Biotechnology, Institute of Oceanology, Polish Academy of Sciences, 81-712 Sopot, Poland
| | - O. Rouane-Hacene
- Department of Biology, Faculty of Nature and Life Sciences, University of Oran 1 - Ahmed Ben Bella, Algeria
| | - A. Korrida
- High Institute of Nursing Professions and Health Techniques, ISPITS-Agadir, Moroccan Ministry of Health and Social Protection, Kingdom of Morocco
| | - F. Dondero
- Department of Science and Technological Innovation (DISIT), Ecotoxicology and Ecology, Università del Piemonte Orientale “Amedeo Avogadro”, Novara, 15121, Italy
| | - M. Baptista
- Marine and Environmental Sciences Centre, University of Lisbon, Portugal
| | - S. Reizopoulou
- Department of Biological Oceanography, Institute of Oceanography, Hellenic Centre for Marine Research, Athens Sounio, 19013 Anavyssos, Greece
| | - B. Hamer
- Ruđer Bošković Institute, Center for Marine Research Rovinj, Rovinj, Croatia
| | - K. K. Sundsaasen
- Department of Animal and Aquacultural Sciences, Centre for Integrative Genetics (Cigene), Faculty of Biosciences, Norwegian University of Life Sciences, No-1432 Ås, Norway
| | - M. Árnyasi
- Department of Animal and Aquacultural Sciences, Centre for Integrative Genetics (Cigene), Faculty of Biosciences, Norwegian University of Life Sciences, No-1432 Ås, Norway
| | - M. P. Kent
- Department of Animal and Aquacultural Sciences, Centre for Integrative Genetics (Cigene), Faculty of Biosciences, Norwegian University of Life Sciences, No-1432 Ås, Norway
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Population Genetic Structures of the Jellyfish Aurelia coerulea Polyps along Korean Coasts and Implications as Revealed by Mitochondrial COI. Zool Stud 2022; 60:e63. [PMID: 35665083 DOI: 10.6620/zs.2021.60-63] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2021] [Accepted: 07/20/2021] [Indexed: 11/18/2022]
Abstract
The moon jellyfish, Aurelia coerulea, is is globally distributed, and its blooms have been responsible for severe environmental impacts. Benthic polyp populations are important for forming and maintaining medusa populations; however, their genetic structures are mostly unknown. Here, we analysed the genetic structure and phylogeographic pattern of A. coerulea polyps using the mitochondrial COI of 229 specimens collected from four different coastal regions of Korea. Molecular discrimination by COI assigned all polyps to A. coruelea. Population genetics revealed 53 haplotypes with high diversity and significant genetic structure, distinguishing two haplogroups (A and B) that coexist in all regions. Haplogroup A exhibited a star-like haplotype network pattern, while haplogroup B demonstrated a branched haplotype network pattern. Our results suggest that, the two haplogroups detected have existed in sympatry along Korean coasts. However, haplogroup A may have been established by a recent population expansion, while haplogroup B may have been established a long time ago. The strong genetic structure found within the polyp population of A. coerulea may have an effect on the moon jellyfish blooms on Korean coasts.
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6
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Nagel KO, Schiøtte T, Gofarov MY, Vikhrev IV, Konopleva ES, Bolotov IN. Re-discovery of the type series of the Indian freshwater mussel Parreysia corrugata (O. F. Müller, 1774) with the designation of the lectotype (Bivalvia: Unionidae: Parreysiinae). J NAT HIST 2022. [DOI: 10.1080/00222933.2022.2063083] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Affiliation(s)
- Karl-Otto Nagel
- Malacological Section, Senckenberg Research Institute and Natural History Museum Frankfurt/M, Senckenberganlage 25, Frankfurt am Main, Germany
| | - Tom Schiøtte
- Natural History Museum of Denmark (Zoology), Copenhagen OE, Denmark
| | - Mikhail Y. Gofarov
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, Russia
| | - Ilya V. Vikhrev
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, Russia
- Northern Arctic Federal University, Arkhangelsk, Russia
| | - Ekaterina S. Konopleva
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, Russia
- Northern Arctic Federal University, Arkhangelsk, Russia
| | - Ivan N. Bolotov
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Arkhangelsk, Russia
- Northern Arctic Federal University, Arkhangelsk, Russia
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7
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Rassam H, Ghamizi M, Benaissa H, Clewing C, Albrecht C. The fingernail clams (Bivalvia: Veneroida: Sphaeriidae) of Morocco: Diversity, distribution and conservation status. Biodivers Data J 2021; 9:e73346. [PMID: 34916867 PMCID: PMC8671715 DOI: 10.3897/bdj.9.e73346] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Accepted: 10/14/2021] [Indexed: 11/12/2022] Open
Abstract
Background In Morocco, many uncertainties surround the current diversity and distribution of the bivalve family Sphaeriidae. Such information, including taxonomy and conservation status, are vital for further studies to improve the knowledge of this family in Morocco and represents the first step towards the development of a national conservation plan for all freshwater bivalves.Between 2016 and 2019, several investigations were carried out to assess the diversity and distribution of Sphaeriidae in the different basins of Morocco, covering different types of habitat (lakes, springs, rivers and small ponds). The identification of specimens and their morpho-ecological features was based on morphological and morphometric analyses. The data on the general distribution of the collected species allowed the evaluation of their conservation status as well.The shell morphology and morphometric analyses revealed the existence of five species belonging to the genus Pisidium [P.casertanum (Poli, 1791), P. (cf.) personatum Malm, 1855, P.subtruncatum Malm, 1855, P.amnicum (O. F. Müller, 1774) and Pisidium sp.] and one species to the genus of Musculium [M.lacustre (O. F. Müller, 1774)]. Sphaeriidae were found in all Moroccan basins, except Bouregreg and Sakia El Hamra-Oued Eddahab Basins. The results showed that Sebou Basin was the species richest with the occurrence of the five species, while Loukkos and Sous-Massa Basins had the lowest-species richness with one species only. The conservation status of sphaeriids in Morocco was evaluated for the first time and resulted in P. (cf.) personatum and P.subtruncatum being proposed as Least Concern and Vulnerable, respectively, while the status of Regionally Extinct is suggested for both species P.amnicum and M.lacustre. New information First evaluation of the diversity and species richness of the family Sphaeriidae in Morocco with an assignment of an updated conservation status of the recorded species.
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Affiliation(s)
- Hanane Rassam
- Laboratory of Water, Biodiversity and Climate change, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech, Morocco Laboratory of Water, Biodiversity and Climate change, Faculty of Sciences Semlalia, Cadi Ayyad University Marrakech Morocco
| | - Mohamed Ghamizi
- Laboratory of Water, Biodiversity and Climate change, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech, Morocco Laboratory of Water, Biodiversity and Climate change, Faculty of Sciences Semlalia, Cadi Ayyad University Marrakech Morocco
| | - Hassan Benaissa
- Laboratory of Water, Biodiversity and Climate change, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech. Fishing department, Marine Fisheries Technology Institute, Al Hoceima, Morocco Laboratory of Water, Biodiversity and Climate change, Faculty of Sciences Semlalia, Cadi Ayyad University, Marrakech. Fishing department, Marine Fisheries Technology Institute Al Hoceima Morocco
| | - Catharina Clewing
- Department of Animal Ecology & Systematics, Justus Liebig University Giessen, Giessen, Germany Department of Animal Ecology & Systematics, Justus Liebig University Giessen Giessen Germany
| | - Christian Albrecht
- Department of Animal Ecology & Systematics, Justus Liebig University Giessen, Giessen, Germany Department of Animal Ecology & Systematics, Justus Liebig University Giessen Giessen Germany
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8
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Lopes-Lima M, Gürlek ME, Kebapçı Ü, Şereflişan H, Yanık T, Mirzajani A, Neubert E, Prié V, Teixeira A, Gomes-Dos-Santos A, Barros-García D, Bolotov IN, Kondakov AV, Vikhrev IV, Tomilova AA, Özcan T, Altun A, Gonçalves DV, Bogan AE, Froufe E. Diversity, biogeography, evolutionary relationships, and conservation of Eastern Mediterranean freshwater mussels (Bivalvia: Unionidae). Mol Phylogenet Evol 2021; 163:107261. [PMID: 34273504 DOI: 10.1016/j.ympev.2021.107261] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/29/2021] [Revised: 07/09/2021] [Accepted: 07/12/2021] [Indexed: 11/24/2022]
Abstract
Located at the junction between Europe, Africa, and Asia, with distinct evolutionary origins and varied ecological and geographical settings, together with a marked history of changes in orogeny and configuration of the main river basins, turned the Eastern Mediterranean into a region of high diversity and endemism of freshwater taxa. Freshwater mussels (Bivalvia, Unionidae) from the Western Palearctic have been widely studied in their European range, but little attention has been dedicated to these taxa in the Eastern Mediterranean region and their diversity and phylogeography are still poorly understood. The present study aims to resolve the diversity, biogeography, and evolutionary relationships of the Eastern Mediterranean freshwater mussels. To that end, we performed multiple field surveys, phylogenetic analyses, and a thorough taxonomic revaluation. We reassessed the systematics of all Unionidae species in the region, including newly collected specimens across Turkey, Israel, and Iran, combining COI + 16S + 28S and COI phylogenies with molecular species delineation methods. Phylogeographical patterns were characterized based on published molecular data, newly sequenced specimens, and species distribution data, as well as ancestral range estimations. We reveal that Unionidae species richness in the Eastern Mediterranean is over 70% higher than previously assumed, counting 19 species within two subfamilies, the Unioninae (14) and Gonideinae (5). We propose two new species, Anodonta seddonisp. nov. and Leguminaia anatolicasp. nov. Six additional taxa, Unio delicatusstat. rev., Unio eucirrusstat. rev., Unio huetistat. rev., Unio sesirmensisstat. rev., Unio terminalisstat. rev. removed from the synonymy of Unio tigridis, as well as Unio damascensisstat. rev. removed from the synonymy of Unio crassus, are re-described. The nominal taxa Unio rothi var. komarowi O. Boettger, 1880 and Unio armeniacus Kobelt, 1911 are proposed as new synonyms of Unio bruguierianus, and Anodonta cyrea Drouët, 1881 and Anodonta cilicica Kobelt & Rolle, 1895 as new synonyms of Anodonta anatina. Also, the presence of Unio tumidus in the Maritza River is confirmed. The phylogeographic patterns described here are interpreted concerning major past geological events. Conservation needs and implications are presented, together with populations and species conservation priorities.
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Affiliation(s)
- Manuel Lopes-Lima
- CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources, University of Porto, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal; SSC/IUCN - Mollusc Specialist Group, Species Survival Commission, International Union for Conservation of Nature, c/o The David Attenborough Building, Pembroke Street, CB2 3QZ Cambridge, United Kingdom.
| | - Mustafa Emre Gürlek
- Burdur Vocational School of Food Agriculture and Livestock, Mehmet Akif Ersoy University, 15100 Burdur, Turkey
| | - Ümit Kebapçı
- Biology Department of Art and Science Faculty, Mehmet Akif Ersoy University, Burdur, Turkey
| | - Hülya Şereflişan
- Marine Sciences and Technology Faculty, Iskenderun Technical University, 31200 Iskenderun, Hatay, Turkey
| | - Telat Yanık
- Ataturk University, Faculty of Fishery, 25240 Erzurum, Turkey
| | - Alireza Mirzajani
- Inland Waters Aquaculture Research Center, Iranian Fisheries Science Research Institute, Agricultural Research Education and Extension Organization (AREEO), P.O. Box 66, Bandar-e Anzali, Iran
| | - Eike Neubert
- Natural History Museum Bern, Bernastr. 15, CH-3005 Bern, Switzerland; Institute of Ecology and Evolution, University of Bern, CH-3012 Bern, Switzerland
| | - Vincent Prié
- CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources, University of Porto, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; Institute of Systematics, Evolution, Biodiversity (ISYEB), National Museum of Natural History (MNHN), CNRS, SU, EPHE, UA CP 51, 57 rue Cuvier, 75005 Paris, France
| | - Amilcar Teixeira
- Centro de Investigação de Montanha (CIMO), Instituto Politécnico de Bragança, Campus de Santa Apolónia, 5300-253 Bragança, Portugal
| | - André Gomes-Dos-Santos
- CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal; Department of Biology, Faculty of Sciences, University of Porto, Rua do Campo Alegre, 1021/1055 Porto, Portugal
| | - David Barros-García
- CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
| | - Ivan N Bolotov
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163017 Arkhangelsk, Russia; Saint-Petersburg State University, Universitetskaya Emb. 7/9, 199034 Saint Petersburg, Russia
| | - Alexander V Kondakov
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163017 Arkhangelsk, Russia; Saint-Petersburg State University, Universitetskaya Emb. 7/9, 199034 Saint Petersburg, Russia
| | - Ilya V Vikhrev
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163017 Arkhangelsk, Russia; Saint-Petersburg State University, Universitetskaya Emb. 7/9, 199034 Saint Petersburg, Russia
| | - Alena A Tomilova
- N. Laverov Federal Center for Integrated Arctic Research of the Ural Branch of the Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia
| | - Tahir Özcan
- Marine Sciences and Technology Faculty, Iskenderun Technical University, 31200 Iskenderun, Hatay, Turkey
| | - Ayhan Altun
- Marine Sciences and Technology Faculty, Iskenderun Technical University, 31200 Iskenderun, Hatay, Turkey
| | - Duarte V Gonçalves
- CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
| | - Arthur E Bogan
- North Carolina Museum of Natural Sciences, 11 West Jones St, Raleigh, NC 27601, United States
| | - Elsa Froufe
- CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
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9
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Gomes-Dos-Santos A, Lopes-Lima M, Machado AM, Marcos Ramos A, Usié A, Bolotov IN, Vikhrev IV, Breton S, Castro LFC, da Fonseca RR, Geist J, Österling ME, Prié V, Teixeira A, Gan HM, Simakov O, Froufe E. The Crown Pearl: a draft genome assembly of the European freshwater pearl mussel Margaritifera margaritifera (Linnaeus, 1758). DNA Res 2021; 28:6182681. [PMID: 33755103 PMCID: PMC8088596 DOI: 10.1093/dnares/dsab002] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2020] [Accepted: 03/22/2021] [Indexed: 11/17/2022] Open
Abstract
Since historical times, the inherent human fascination with pearls turned the freshwater pearl mussel Margaritifera margaritifera (Linnaeus, 1758) into a highly valuable cultural and economic resource. Although pearl harvesting in M. margaritifera is nowadays residual, other human threats have aggravated the species conservation status, especially in Europe. This mussel presents a myriad of rare biological features, e.g. high longevity coupled with low senescence and Doubly Uniparental Inheritance of mitochondrial DNA, for which the underlying molecular mechanisms are poorly known. Here, the first draft genome assembly of M. margaritifera was produced using a combination of Illumina Paired-end and Mate-pair approaches. The genome assembly was 2.4 Gb long, possessing 105,185 scaffolds and a scaffold N50 length of 288,726 bp. The ab initio gene prediction allowed the identification of 35,119 protein-coding genes. This genome represents an essential resource for studying this species’ unique biological and evolutionary features and ultimately will help to develop new tools to promote its conservation.
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Affiliation(s)
- André Gomes-Dos-Santos
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal.,Department of Biology, Faculty of Sciences, University of Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal
| | - Manuel Lopes-Lima
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal.,CIBIO/InBIO-Research Center in Biodiversity and Genetic Resources, Universidade do Porto, Campus Agrário de Vairão, Rua Padre Armando Quintas, 4485-661 Vairão, Portugal.,IUCN SSC Mollusc Specialist Group, c/o IUCN, Cambridge, England
| | - André M Machado
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
| | - António Marcos Ramos
- Centro de Biotecnologia Agrícola e Agro-alimentar do Alentejo (CEBAL), Instituto Politécnico de Beja (IPBeja), 7801-908 Beja, Portugal.,MED-Mediterranean Institute for Agriculture, Environment and Development, CEBAL-Centro de Biotecnologia Agrícola e Agro-Alimentar do Alentejo, 7801-908 Beja, Portugal
| | - Ana Usié
- Centro de Biotecnologia Agrícola e Agro-alimentar do Alentejo (CEBAL), Instituto Politécnico de Beja (IPBeja), 7801-908 Beja, Portugal.,MED-Mediterranean Institute for Agriculture, Environment and Development, CEBAL-Centro de Biotecnologia Agrícola e Agro-Alimentar do Alentejo, 7801-908 Beja, Portugal
| | - Ivan N Bolotov
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Arkhangelsk 163000, Russia
| | - Ilya V Vikhrev
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Arkhangelsk 163000, Russia
| | - Sophie Breton
- Department of Biological Sciences, University of Montreal, Montreal, Canada
| | - L Filipe C Castro
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal.,Department of Biology, Faculty of Sciences, University of Porto, Rua do Campo Alegre, 4169-007 Porto, Portugal
| | - Rute R da Fonseca
- Center for Macroecology, Evolution and Climate, GLOBE Institute, University of Copenhagen, 2100 Copenhagen, Denmark
| | - Juergen Geist
- Aquatic Systems Biology Unit, Technical University of Munich, TUM School of Life Sciences, D-85354 Freising, Germany
| | - Martin E Österling
- Department of Environmental and Life Sciences-Biology, Karlstad University, 651 88 Karlstad, Sweden
| | - Vincent Prié
- Research Associate, Institute of Systematics, Evolution, Biodiversity (ISYEB), National Museum of Natural History (MNHN), CNRS, SU, EPHE, 75005 Paris, France
| | - Amílcar Teixeira
- Centro de Investigação de Montanha (CIMO), Instituto Politécnico de Bragança, Bragança, Portugal
| | - Han Ming Gan
- GeneSEQ Sdn Bhd, Bandar Bukit Beruntung, Rawang 48300, Selangor, Malaysia
| | - Oleg Simakov
- Department of Neurosciences and Developmental Biology, University of Vienna, 1010 Vienna, Austria
| | - Elsa Froufe
- CIIMAR/CIMAR-Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
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10
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Ghiselli F, Gomes-Dos-Santos A, Adema CM, Lopes-Lima M, Sharbrough J, Boore JL. Molluscan mitochondrial genomes break the rules. Philos Trans R Soc Lond B Biol Sci 2021; 376:20200159. [PMID: 33813887 DOI: 10.1098/rstb.2020.0159] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022] Open
Abstract
The first animal mitochondrial genomes to be sequenced were of several vertebrates and model organisms, and the consistency of genomic features found has led to a 'textbook description'. However, a more broad phylogenetic sampling of complete animal mitochondrial genomes has found many cases where these features do not exist, and the phylum Mollusca is especially replete with these exceptions. The characterization of full mollusc mitogenomes required considerable effort involving challenging molecular biology, but has created an enormous catalogue of surprising deviations from that textbook description, including wide variation in size, radical genome rearrangements, gene duplications and losses, the introduction of novel genes, and a complex system of inheritance dubbed 'doubly uniparental inheritance'. Here, we review the extraordinary variation in architecture, molecular functioning and intergenerational transmission of molluscan mitochondrial genomes. Such features represent a great potential for the discovery of biological history, processes and functions that are novel for animal mitochondrial genomes. This provides a model system for studying the evolution and the manifold roles that mitochondria play in organismal physiology, and many ways that the study of mitochondrial genomes are useful for phylogeny and population biology. This article is part of the Theo Murphy meeting issue 'Molluscan genomics: broad insights and future directions for a neglected phylum'.
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Affiliation(s)
- Fabrizio Ghiselli
- Department of Biological, Geological and Environmental Sciences, University of Bologna, Italy
| | - André Gomes-Dos-Santos
- CIIMAR, Interdisciplinary Centre of Marine and Environmental Research, and Department of Biology, Faculty of Sciences, University of Porto, Portugal
| | - Coen M Adema
- Center for Evolutionary and Theoretical Immunology, Department of Biology, University of New Mexico, Albuquerque, USA
| | - Manuel Lopes-Lima
- CIBIO/InBIO, Research Center in Biodiversity and Genetic Resources, University of Porto, Vairão, Portugal
| | - Joel Sharbrough
- Department of Biology, Colorado State University, Fort Collins, USA
| | - Jeffrey L Boore
- Providence St Joseph Health and the Institute for Systems Biology, Seattle, USA
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11
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Boulaassafer K, Ghamizi M, Machordom A, Albrecht C, Delicado D. Hidden species diversity of Corrosella Boeters, 1970 (Caenogastropoda: Truncatelloidea) in the Moroccan Atlas reveals the ancient biogeographic link between North Africa and Iberia. ORG DIVERS EVOL 2021. [DOI: 10.1007/s13127-021-00490-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
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12
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The genetic diversity and differentiation of mussels with complex life cycles and relations to host fish migratory traits and densities. Sci Rep 2020; 10:17435. [PMID: 33060747 PMCID: PMC7567107 DOI: 10.1038/s41598-020-74261-z] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/06/2020] [Accepted: 09/28/2020] [Indexed: 11/12/2022] Open
Abstract
Many landscape and biotic processes shape the genetic structure of populations. The genetic structure of species with parasitic stages may also depend on the life history and ecology of their host. We investigated population genetic structure of the mussel Margaritifera margaritifera in Southern Sweden, and in relation to the population size and life history of its hosts, Salmo trutta and S. salar. Mussel populations were genetically differentiated into two clusters, further subdivided into four clusters and distinct conservation units. Regardless of host species, the genetic differentiation was lower among mussel populations sustained by sea-migrating than by resident hosts, while the genetic diversity was higher in mussel populations sustained by sea-migrating than by resident hosts. Genetic diversity of mussel populations was positively related to host abundance. Mussel population size was positively related to high genetic diversity of mussels sustained by resident hosts, while low mussel population size sustained by sea-migrating hosts had a high genetic diversity. The results of our study suggest a combined influence of mussels and host fish on genetic structure of unionoid mussels. We suggest to conserve not only mussel population sizes and host fish species, but also consider host migratory/resident behaviour and abundance when designing conservation programs.
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13
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Lopes-Lima M, Hattori A, Kondo T, Hee Lee J, Ki Kim S, Shirai A, Hayashi H, Usui T, Sakuma K, Toriya T, Sunamura Y, Ishikawa H, Hoshino N, Kusano Y, Kumaki H, Utsugi Y, Yabe S, Yoshinari Y, Hiruma H, Tanaka A, Sao K, Ueda T, Sano I, Miyazaki JI, Gonçalves DV, Klishko OK, Konopleva ES, Vikhrev IV, Kondakov AV, Yu Gofarov M, Bolotov IN, Sayenko EM, Soroka M, Zieritz A, Bogan AE, Froufe E. Freshwater mussels (Bivalvia: Unionidae) from the rising sun (Far East Asia): phylogeny, systematics, and distribution. Mol Phylogenet Evol 2020; 146:106755. [PMID: 32028028 DOI: 10.1016/j.ympev.2020.106755] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/15/2019] [Revised: 01/10/2020] [Accepted: 01/28/2020] [Indexed: 10/25/2022]
Abstract
Freshwater mussels (Bivalvia: Unionidae) is a diverse family with around 700 species being widespread in the Northern Hemisphere and Africa. These animals fulfill key ecological functions and provide important services to humans. Unfortunately, populations have declined dramatically over the last century, rendering Unionidae one of the world's most imperiled taxonomic groups. In Far East Asia (comprising Japan, Korea, and Eastern Russia), conservation actions have been hindered by a lack of basic information on the number, identity, distribution and phylogenetic relationships of species. Available knowledge is restricted to studies on national and sub-national levels. The present study aims to resolve the diversity, biogeography and evolutionary relationships of the Far East Asian Unionidae in a globally comprehensive phylogenetic and systematic context. We reassessed the systematics of all Unionidae species in the region, including newly collected specimens from across Japan, South Korea, and Russia, based on molecular (including molecular species delineation and a COI + 28S phylogeny) and comparative morphological analyses. Biogeographical patterns were then assessed based on available species distribution data from the authors and previous reference works. We revealed that Unionidae species richness in Far East Asia is 30% higher than previously assumed, counting 43 species (41 native + 2 alien) within two Unionidae subfamilies, the Unioninae (32 + 1) and Gonideinae (9 + 1). Four of these species are new to science, i.e. Beringiana gosannensissp. nov., Beringiana fukuharaisp. nov., Buldowskia kamiyaisp. nov., and Koreosolenaia sitgyensisgen. & sp. nov. We also propose a replacement name for Nodularia sinulata, i.e. Nodularia breviconchanom. nov. and describe a new tribe (Middendorffinaiini tribe nov.) within the Unioninae subfamily. Biogeographical patterns indicate that this fauna is related to that from China south to Vietnam until the Mekong River basin. The Japanese islands of Honshu, Shikoku, Kyushu, Hokkaido, and the Korean Peninsula were identified as areas of particularly high conservation value, owing to high rates of endemism, diversity and habitat loss. The genetically unique species within the genera Amuranodonta, Obovalis, Koreosolenaiagen. nov., and Middendorffinaia are of high conservation concern.
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Affiliation(s)
- Manuel Lopes-Lima
- CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources, University of Porto, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal; SSC/IUCN - Mollusc Specialist Group, Species Survival Commission, International Union for Conservation of Nature, c/o The David Attenborough Building, Pembroke Street, CB2 3QZ Cambridge, United Kingdom
| | - Akimasa Hattori
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Takaki Kondo
- Division of Natural Science, Osaka Kyoiku University Kashiwara, 582-8582 Osaka, Japan
| | - Jin Hee Lee
- Daegu Science High School, 42110 Daegu, South Korea
| | - Sang Ki Kim
- NNIBR - Animal & Plant Research Team, Nakdonggang National Institute of Biological Resources, 37242 Sangju, South Korea
| | - Akihisa Shirai
- Musashi High School and Junior High School, Musashi Academy of the Nezu Foudation, 1-26-1, Toyotama-kami, Nerima-ku, Tokyo 176-8535, Japan
| | - Hironori Hayashi
- Department of Urban and Environmental Engineering, Kyushu University, 744 Motooka, Nishi-ku, Fukuoka 819-0395, Fukuoka, Japan
| | - Taira Usui
- Sapporo Youth and Women's Activity Association, Takino Suzuran Hillside National Government Park, 247 Takino, Minami-ku, Sapporo, Hokkaido 005-0862, Japan
| | - Kanta Sakuma
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan; Azabu University, 1-17-71 Fuchinobe, Chuo-ku, Sagamihara-shi, 252-5201 Kanagawa, Japan
| | - Taishi Toriya
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan; University of Tsukuba, 1-1-1 Tennodai, Tsukuba, Ibaraki 305-8577, Japan
| | - Youhei Sunamura
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan; Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, 156-8502 Tokyo, Japan
| | - Haruki Ishikawa
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan; Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya-ku, 156-8502 Tokyo, Japan
| | - Naoki Hoshino
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan; Keio University, 5322 Endo, Fujisawa-shi, Kanagawa 252-0882, Japan
| | - Yushi Kusano
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan; Shinshu University, 3-1-1 Asahi, Matsumoto-shi, Nagano 390-8621, Japan
| | - Hinata Kumaki
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Yuya Utsugi
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Shinnosuke Yabe
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Yuma Yoshinari
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Hazuki Hiruma
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Akiko Tanaka
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Kentaro Sao
- Matsuyama High School, 1-6-10 Matsuyama-cho, Higashimatsuyama, Saitama 355-0018, Japan
| | - Takuya Ueda
- Freshwater Fisheries Research Laboratory, Chiba Prefectural Fisheries Research Center, 1390 Usuidai, Sakura, Chiba 285-0864, Japan
| | - Isao Sano
- Graduate School of Life Sciences, Tohoku University, Sendai, Miyagi 980-0862, Japan
| | - Jun-Ichi Miyazaki
- Faculty of Education, University of Yamanashi, Kofu, Yamanashi 400-8510, Japan
| | - Duarte V Gonçalves
- CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources, University of Porto, Campus Agrário de Vairão, 4485-661 Vairão, Portugal; CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
| | - Olga K Klishko
- Institute of Natural Resources, Ecology, and Cryology Siberian Branch, Russian Academy of Sciences, str. Nedoresova, 16a, Chita, Russia
| | - Ekaterina S Konopleva
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163000 Arkhangelsk, Russia
| | - Ilya V Vikhrev
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163000 Arkhangelsk, Russia; Laboratory of Macroecology & Biogeography of Invertebrates, Saint Petersburg State University, Universitetskaya Emb. 7/9, 199034 Saint Petersburg, Russia
| | - Alexander V Kondakov
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163000 Arkhangelsk, Russia; Laboratory of Macroecology & Biogeography of Invertebrates, Saint Petersburg State University, Universitetskaya Emb. 7/9, 199034 Saint Petersburg, Russia
| | - Mikhail Yu Gofarov
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163000 Arkhangelsk, Russia
| | - Ivan N Bolotov
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000 Arkhangelsk, Russia; Northern Arctic Federal University, Northern Dvina Emb. 17, 163000 Arkhangelsk, Russia
| | - Elena M Sayenko
- FSCEATB FEB RAS - Federal Scientific Center of the East Asia Terrestrial Biodiversity, Far Eastern Branch of Russian Academy of Sciences, pr. 100-letiya Vladivostoka 159, 690022 Vladivostok, Russia
| | - Marianna Soroka
- Instytute of Biology, University of Szczecin, Felczaka 3c, 71-412 Szczecin, Poland
| | - Alexandra Zieritz
- University of Nottingham, School of Geography, Nottingham, United Kingdom
| | - Arthur E Bogan
- North Carolina State Museum of Natural Sciences, 11 West Jones St., Raleigh, NC 27601, United States
| | - Elsa Froufe
- CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, P 4450-208 Matosinhos, Portugal
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14
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Bolotov IN, Konopleva ES, Vikhrev IV, Lopes-Lima M, Bogan AE, Lunn Z, Chan N, Win T, Aksenova OV, Gofarov MY, Tomilova AA, Kondakov AV. Eight new freshwater mussels (Unionidae) from tropical Asia. Sci Rep 2019; 9:12053. [PMID: 31427656 PMCID: PMC6700347 DOI: 10.1038/s41598-019-48528-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2019] [Accepted: 08/07/2019] [Indexed: 11/25/2022] Open
Abstract
Freshwater mussels are sensitive to habitat and water quality, revealing the fastest rates of human-mediated global extinction among aquatic animals. These animals are especially diverse in tropical Asia, the faunas of which are characterized by high levels of endemism. Here we describe four new species and four new subspecies of freshwater mussels from Myanmar. Leoparreysia whittenisp. nov., the smallest representative of this genus, was discovered from the Ayeyarwady and Chindwin rivers. Radiatula myitthanensissp. nov. and R. chindwinensissp. nov. were recorded from the Chindwin Basin, and R. mouhoti haungthayawensisssp. nov. has been discovered from the Haungthayaw River. Indochinella pugio has been revised with a description of three subspecies: I. pugio viridissimassp. nov. from the Sittaung, Bilin and Bago rivers, I. pugio daweiensisssp. nov. from the Dawei River, and I. pugio paradoxassp. nov. from the Haungthayaw River. Yaukthwa elongatulasp. nov., a peculiar species, conchologically resembling representatives of the genus Solenaia (Gonideinae) with ultra-elongated shell was found in the Chindwin Basin. Our records highlight that tropical Asia harbors numerous, but still overlooked local endemic lineages of freshwater bivalves, which may be on the brink of extinction due to the high anthropogenic and climate change impacts.
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Affiliation(s)
- Ivan N Bolotov
- Northern Arctic Federal University, Northern Dvina Emb. 17, 163002, Arkhangelsk, Russian Federation. .,Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation.
| | - Ekaterina S Konopleva
- Northern Arctic Federal University, Northern Dvina Emb. 17, 163002, Arkhangelsk, Russian Federation.,Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation
| | - Ilya V Vikhrev
- Northern Arctic Federal University, Northern Dvina Emb. 17, 163002, Arkhangelsk, Russian Federation.,Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation
| | - Manuel Lopes-Lima
- CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources, University of Porto, Campus Agrário de Vairão, Rua Padre Armando Quintas 7, 4485-661, Vairão, Portugal.,CIIMAR/CIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Avenida General Norton de Matos, S/N, 4450-208, Matosinhos, Portugal.,SSC/IUCN - Mollusc Specialist Group, Species Survival Commission, International Union for Conservation of Nature, c/o The David Attenborough Building, Pembroke Street, CB2 3QZ, Cambridge, United Kingdom
| | - Arthur E Bogan
- North Carolina State Museum of Natural Sciences, 11 West Jones St., Raleigh, NC, 27601, United States of America
| | - Zau Lunn
- Fauna & Flora International - Myanmar Program, Yangon, Myanmar
| | - Nyein Chan
- Fauna & Flora International - Myanmar Program, Yangon, Myanmar
| | - Than Win
- Department of Zoology, Hpa-An University, Hpa-An, Kayin State, Myanmar
| | - Olga V Aksenova
- Northern Arctic Federal University, Northern Dvina Emb. 17, 163002, Arkhangelsk, Russian Federation.,Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation
| | - Mikhail Yu Gofarov
- Northern Arctic Federal University, Northern Dvina Emb. 17, 163002, Arkhangelsk, Russian Federation.,Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation
| | - Alena A Tomilova
- Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation
| | - Alexander V Kondakov
- Northern Arctic Federal University, Northern Dvina Emb. 17, 163002, Arkhangelsk, Russian Federation.,Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Northern Dvina Emb. 23, 163000, Arkhangelsk, Russian Federation
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15
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Reconstructing evolution at the community level: A case study on Mediterranean amphibians. Mol Phylogenet Evol 2019; 134:211-225. [PMID: 30797941 DOI: 10.1016/j.ympev.2019.02.013] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2018] [Revised: 02/14/2019] [Accepted: 02/16/2019] [Indexed: 11/22/2022]
Abstract
Reconstructing reliable timescales for species evolution is an important and indispensable goal of modern biogeography. However, many factors influence the estimation of divergence times, and uncertainty in the inferred time trees remains a major issue that is often insufficiently acknowledged. We here focus on a fundamental problem of time tree analysis: the combination of slow-evolving (nuclear DNA) and fast-evolving (mitochondrial DNA) markers in a single time tree. Both markers differ in their suitability to infer divergences at different time scales (the 'genome-timescale-dilemma'). However, strategies to infer shallow and deep divergences in a single time tree have rarely been compared empirically. Using Mediterranean amphibians as model system that is exceptional in its geographic and taxonomic completeness of available genetic information, we analyze 202 lineages of western Palearctic amphibians across the entire Mediterranean region. We compiled data of four nuclear and five mitochondrial genes and used twelve fossil calibration points widely acknowledged for amphibian evolution. We reconstruct time trees for an extensive lineage-level data set and compare the performances of the different trees: the first tree is based on primary fossil calibration and mitochondrial DNA, while the second tree is based on a combination of primary fossil and on secondary calibrations taken from a nuclear tree using mitochondrial DNA (two-step protocol). Focusing on a set of nodes that are most likely explained by vicariance, we statistically compare the reconstructed alternative time trees by applying a biogeographical plausibility test. Our two-step protocol outperformed the alternative approach in terms of spatial and temporal plausibility. It allows us to infer scenarios for Mediterranean amphibian evolution in eight geographic provinces. We identified several tectonic and climatic events explaining the majority of Mediterranean amphibian divergences, with Plio-Pleistocene climatic fluctuations being the dominant driver for intrageneric evolution. However, often more than one event could be invoked for a specific split. We give recommendations for the use of secondary calibrations in future molecular clock analyses at the community level.
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16
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Meira A, Lopes-Lima M, Varandas S, Teixeira A, Arenas F, Sousa R. Invasive crayfishes as a threat to freshwater bivalves: Interspecific differences and conservation implications. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 649:938-948. [PMID: 30179822 DOI: 10.1016/j.scitotenv.2018.08.341] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2018] [Revised: 08/06/2018] [Accepted: 08/24/2018] [Indexed: 06/08/2023]
Abstract
Freshwater bivalves have suffered major global declines, being the introduction of invasive alien species (IAS) an important, but not well studied, mechanism of threat. This study assessed the predator-prey relationship between two non-native crayfish species (Procambarus clarkii and Pacifastacus leniusculus) and three native (Anodonta anatina, Potomida littoralis and Unio delphinus) and one non-native (Corbicula fluminea) freshwater bivalve species through experiments in laboratory and validation under natural conditions (Sabor River basin, Portugal). All native bivalve species were preyed both in laboratory and in the field; however, both crayfish species were unable to prey C. fluminea. Predation was dependent on crayfish and bivalve species but was not affected neither by crayfish nor bivalve sizes. In the laboratory, the most preyed species by both crayfishes was A. anatina. On average, this species was preyed at least 12% more than other species, when crayfishes had a choice. Similar results were found in the field. We also found signs of competition between both crayfishes, being P. clarkii more dominant and aggressive as this species, on average, manipulated the bivalves 63.6% more times and 24:33 min longer than P. leniusculus, and initiated 55.8% more agnostic bouts. Our results support the idea that P. clarkii and P. leniusculus can affect native freshwater bivalves, but clear interspecific differences were detected. Both crayfishes may have direct and indirect impacts on bivalve populations by increasing mortality or by reducing their fitness. In addition, since both crayfishes do not prey C. fluminea, they offer this IAS another advantage over native bivalves. Given the widespread distribution of both P. clarkii and P. leniusculus and the threatened status of many freshwater bivalves, the dynamics and impacts of this relationship should be taken in account in the implementation of management measures devoted to the conservation of native freshwater bivalves.
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Affiliation(s)
- Alexandra Meira
- CBMA - Centre of Molecular and Environmental Biology, Department of Biology, University of Minho, Campus Gualtar, 4710-057 Braga, Portugal.
| | - Manuel Lopes-Lima
- CIBIO/InBIO - Research Center in Biodiversity and Genetic Resources, University of Porto, Campus Agrário de Vairão, Vairão, Portugal; CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Av. General Norton de Matos s/n, 4450-208 Matosinhos, Portugal
| | - Simone Varandas
- CITAB-UTAD - Centre for Research and Technology of Agro-Environment and Biological Sciences, University of Trás-os-Montes and Alto Douro, Forestry Department, Vila Real, Portugal
| | - Amílcar Teixeira
- CIMO-ESA-IPB - Mountain Research Centre, School of Agriculture, Polytechnic Institute of Bragança, Bragança, Portugal
| | - Francisco Arenas
- CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Av. General Norton de Matos s/n, 4450-208 Matosinhos, Portugal
| | - Ronaldo Sousa
- CBMA - Centre of Molecular and Environmental Biology, Department of Biology, University of Minho, Campus Gualtar, 4710-057 Braga, Portugal; CIIMAR - Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Terminal de Cruzeiros do Porto de Leixões, Av. General Norton de Matos s/n, 4450-208 Matosinhos, Portugal
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17
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Emre Gürlek M. A new genus and two new species of freshwater Gastropoda from the Ceyhan River Basin in the eastern Mediterranean (Mollusca: Gastropoda: Truncatelloidea). ZOOLOGY IN THE MIDDLE EAST 2018. [DOI: 10.1080/09397140.2018.1540153] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Affiliation(s)
- Mustafa Emre Gürlek
- Vocational School of Health Services, Mehmet Akif Ersoy University, Burdur, Turkey
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18
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Araujo R, Buckley D, Nagel KO, García-Jiménez R, Machordom A. Species boundaries, geographic distribution and evolutionary history of the Western Palaearctic freshwater mussels Unio (Bivalvia: Unionidae). Zool J Linn Soc 2017. [DOI: 10.1093/zoolinnean/zlx039] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Affiliation(s)
- Rafael Araujo
- Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain
| | - David Buckley
- Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain
| | | | - Ricardo García-Jiménez
- Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain
| | - Annie Machordom
- Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain
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19
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Vikhrev IV, Bolotov IN, Altun A, Gofarov MY, Dvoryankin GA, Kondakov AV, Ozcan T, Ozcan G. The revenant: rediscovery of Margaritifera homsensis from Orontes drainage with remarks on its taxonomic status and conservation (Bivalvia: Margaritiferidae). SYST BIODIVERS 2017. [DOI: 10.1080/14772000.2017.1343876] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Affiliation(s)
- Ilya V. Vikhrev
- IBIGER – Institute of Biogeography and Genetic Resources, Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Severnaya Dvina Emb. 23, Arkhangelsk 163000, Russian Federation
- Scientific Department, Northern (Arctic) Federal University, Severnaya Dvina Emb. 17, Arkhangelsk 163002, Russian Federation
| | - Ivan N. Bolotov
- IBIGER – Institute of Biogeography and Genetic Resources, Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Severnaya Dvina Emb. 23, Arkhangelsk 163000, Russian Federation
- Scientific Department, Northern (Arctic) Federal University, Severnaya Dvina Emb. 17, Arkhangelsk 163002, Russian Federation
| | - Ayhan Altun
- Faculty of Marine Sciences and Technology, Iskenderun Technical University, Iskenderun 31200, Hatay, Turkey
| | - Mikhail Y. Gofarov
- IBIGER – Institute of Biogeography and Genetic Resources, Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Severnaya Dvina Emb. 23, Arkhangelsk 163000, Russian Federation
- Scientific Department, Northern (Arctic) Federal University, Severnaya Dvina Emb. 17, Arkhangelsk 163002, Russian Federation
| | - Gennady A. Dvoryankin
- SevPINRO – Northern Branch of the Polar Scientific-Research Institute of Fish Husbandry and Oceanography, Uritskogo 17, Arkhangelsk 163000, Russian Federation
| | - Alexander V. Kondakov
- IBIGER – Institute of Biogeography and Genetic Resources, Federal Center for Integrated Arctic Research, Russian Academy of Sciences, Severnaya Dvina Emb. 23, Arkhangelsk 163000, Russian Federation
- Scientific Department, Northern (Arctic) Federal University, Severnaya Dvina Emb. 17, Arkhangelsk 163002, Russian Federation
| | - Tahir Ozcan
- Faculty of Marine Sciences and Technology, Iskenderun Technical University, Iskenderun 31200, Hatay, Turkey
| | - Gulnaz Ozcan
- Faculty of Marine Sciences and Technology, Iskenderun Technical University, Iskenderun 31200, Hatay, Turkey
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