Fish As Ecological Indicators in Mediterranean Streams: the Catalan Experience
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Adding Nuclear Rhodopsin Data Where Mitochondrial COI Indicates Discrepancies – Can This Marker Help to Explain Conflicts in Cyprinids?
DNA Barcodes 2015; 3: 187–199 Research Article Open Access S. Behrens-Chapuis*, F. Herder, H. R. Esmaeili, J. Freyhof, N. A. Hamidan, M. Özuluğ, R. Šanda, M. F. Geiger Adding nuclear rhodopsin data where mitochondrial COI indicates discrepancies – can this marker help to explain conflicts in cyprinids? DOI 10.1515/dna-2015-0020 or haplotype sharing (12 species pairs) with presumed Received February 27, 2015; accepted October 1, 2015 introgression based on mtCOI data. We aimed to test Abstract: DNA barcoding is a fast and reliable tool for the utility of the nuclear rhodopsin marker to uncover species identification, and has been successfully applied reasons for the high similarity and haplotype sharing in to a wide range of freshwater fishes. The limitations these different groups. The included labeonine species reported were mainly attributed to effects of geographic belonging to Crossocheilus, Hemigrammocapoeta, scale, taxon-sampling, incomplete lineage sorting, or Tylognathus and Typhlogarra were found to be nested mitochondrial introgression. However, the metrics for within the genus Garra based on mtCOI. This specific the success of assigning unknown samples to species or taxonomic uncertainty was also addressed by the use genera also depend on a suited taxonomic framework. of the additional nuclear marker. As a measure of the A simultaneous use of the mitochondrial COI and the delineation success we computed barcode gaps, which nuclear RHO gene turned out to be advantageous for were present in 75% of the species based on mtCOI, but the barcode efficiency in a few previous studies. Here, in only 39% based on nuclear rhodopsin sequences. -
Adding Nuclear Rhodopsin Data Where Mitochondrial COI Indicates Discrepancies – Can This Marker Help to Explain Conflicts in Cyprinids?
DNA Barcodes 2015; 3: 187–199 Research Article Open Access S. Behrens-Chapuis*, F. Herder, H. R. Esmaeili, J. Freyhof, N. A. Hamidan, M. Özuluğ, R. Šanda, M. F. Geiger Adding nuclear rhodopsin data where mitochondrial COI indicates discrepancies – can this marker help to explain conflicts in cyprinids? DOI 10.1515/dna-2015-0020 or haplotype sharing (12 species pairs) with presumed Received February 27, 2015; accepted October 1, 2015 introgression based on mtCOI data. We aimed to test Abstract: DNA barcoding is a fast and reliable tool for the utility of the nuclear rhodopsin marker to uncover species identification, and has been successfully applied reasons for the high similarity and haplotype sharing in to a wide range of freshwater fishes. The limitations these different groups. The included labeonine species reported were mainly attributed to effects of geographic belonging to Crossocheilus, Hemigrammocapoeta, scale, taxon-sampling, incomplete lineage sorting, or Tylognathus and Typhlogarra were found to be nested mitochondrial introgression. However, the metrics for within the genus Garra based on mtCOI. This specific the success of assigning unknown samples to species or taxonomic uncertainty was also addressed by the use genera also depend on a suited taxonomic framework. of the additional nuclear marker. As a measure of the A simultaneous use of the mitochondrial COI and the delineation success we computed barcode gaps, which nuclear RHO gene turned out to be advantageous for were present in 75% of the species based on mtCOI, but the barcode efficiency in a few previous studies. Here, in only 39% based on nuclear rhodopsin sequences. -
Systematic List of the Romanian Vertebrate Fauna
Travaux du Muséum National d’Histoire Naturelle © Décembre Vol. LIII pp. 377–411 «Grigore Antipa» 2010 DOI: 10.2478/v10191-010-0028-1 SYSTEMATIC LIST OF THE ROMANIAN VERTEBRATE FAUNA DUMITRU MURARIU Abstract. Compiling different bibliographical sources, a total of 732 taxa of specific and subspecific order remained. It is about the six large vertebrate classes of Romanian fauna. The first class (Cyclostomata) is represented by only four species, and Pisces (here considered super-class) – by 184 taxa. The rest of 544 taxa belong to Tetrapoda super-class which includes the other four vertebrate classes: Amphibia (20 taxa); Reptilia (31); Aves (382) and Mammalia (110 taxa). Résumé. Cette contribution à la systématique des vertébrés de Roumanie s’adresse à tous ceux qui sont intéressés par la zoologie en général et par la classification de ce groupe en spécial. Elle représente le début d’une thème de confrontation des opinions des spécialistes du domaine, ayant pour but final d’offrir aux élèves, aux étudiants, aux professeurs de biologie ainsi qu’à tous ceux intéressés, une synthèse actualisée de la classification des vertébrés de Roumanie. En compilant différentes sources bibliographiques, on a retenu un total de plus de 732 taxons d’ordre spécifique et sous-spécifique. Il s’agît des six grandes classes de vertébrés. La première classe (Cyclostomata) est représentée dans la faune de Roumanie par quatre espèces, tandis que Pisces (considérée ici au niveau de surclasse) l’est par 184 taxons. Le reste de 544 taxons font partie d’une autre surclasse (Tetrapoda) qui réunit les autres quatre classes de vertébrés: Amphibia (20 taxons); Reptilia (31); Aves (382) et Mammalia (110 taxons). -
Thèse Gaël Denys 2015.Pdf
MUSEUM NATIONAL D’HISTOIRE NATURELLE Ecole Doctorale Sciences de la Nature et de l’Homme – ED 227 Année 2015 N°attribué par la bibliothèque |_|_|_|_|_|_|_|_|_|_|_|_| THESE Pour obtenir le grade de DOCTEUR DU MUSEUM NATIONAL D’HISTOIRE NATURELLE Spécialité : Ecologie et Evolution Présentée et soutenue publiquement par Gaël DENYS Le 16 décembre 2015 Taxonomie intégrative des poissons d’eau douce de France métropolitaine Sous la direction de : Professeur Philippe KEITH et du Docteur Agnès DETTAI JURY : M. Feunteun Eric Professeur, Muséum national d’Histoire naturelle, Dinard Président M. Brito Paulo Professeur, Universidade do Estado do Rio de Janeiro, Brésil Rapporteur M. Laffaille Pascal Professeur des Universités, Institut National Polytechnique de Toulouse Rapporteur M. Persat Henri Chargé de recherche, CNRS, Lyon Examinateur M. Poulet Nicolas Chargé de mission, ONEMA, Toulouse Examinateur M. Keith Philippe Professeur, Muséum national d’Histoire naturelle, Paris Directeur de thèse Mme Dettai Agnès Maître de conférence, Muséum national d’Histoire naturelle, Paris Directrice de thèse 2 Remerciements Je souhaite tout d’abord remercier les membres du jury, Paolo Brito, Pascal Laffaille, Eric Feunteun, Henri Persat et Nicolas Poulet pour le temps et l’attention qu’ils ont consacrés à l’examen de mes travaux. Merci également à Jean Allardi et Georges Carrel, membres de mon comité de thèse, pour m’avoir orienté dans mes recherches et prodigué de nombreux conseils. Je remercie Guy Duhamel de m’avoir accueilli au sein du Département Milieux et Peuplements Aquatiques (DMPA), et Sylvie Dufour de m’avoir accepté à l’UMR Borea pour que je puisse y préparer ma thèse. -
Functional Diversity Measures Revealed Impacts of Non-Native Species and Habitat Degradation on Species-Poor Freshwater Fish Assemblages
Functional diversity measures revealed impacts of non-native species and habitat degradation on species-poor freshwater fish assemblages Nicole Colin, Sébastien Villéger, Martin Wilkes, Adolfo de Sostoa, Alberto Maceda-Veiga Accepted peer reviewed version deposited in Coventry University Repository Original citation: Colin, N; Villeger, S; Wilkes, M; de Sostoa, A; Maceda-Veiga, A. (2018) Functional diversity measures revealed impacts of non-native species and habitat degradation on species-poor freshwater fish assemblages Science of The Total Environment (625), 861-871. DOI: 10.1016/j.scitotenv.2017.12.316 http://dx.doi.org/10.1016/j.scitotenv.2017.12.316 Elsevier CC BY-NC-ND Copyright © and Moral Rights are retained by the author(s) and/ or other copyright owners. A copy can be downloaded for personal non-commercial research or study, without prior permission or charge. This item cannot be reproduced or quoted extensively from without first obtaining permission in writing from the copyright holder(s). The content must not be changed in any way or sold commercially in any format or medium without the formal permission of the copyright holders. Functional diversity measures revealed impacts of non-native species and habitat degradation on species-poor freshwater fish assemblages Nicole Colin1,2*, Sébastien Villéger3, Martin Wilkes4, Adolfo de Sostoa1, Alberto Maceda- Veiga1,5 1Department of Evolutionary Biology, Ecology & Environmental Sciences-Institute of Research in Biodiversity (IRBio-UB), University of Barcelona, 08028 Barcelona, -
International Standardization of Common Names for Iberian Endemic Freshwater Fishes Pedro M
Limnetica, 28 (2): 189-202 (2009) Limnetica, 28 (2): x-xx (2008) c Asociacion´ Iberica´ de Limnolog´a, Madrid. Spain. ISSN: 0213-8409 International Standardization of Common Names for Iberian Endemic Freshwater Fishes Pedro M. Leunda1,∗, Benigno Elvira2, Filipe Ribeiro3,6, Rafael Miranda4, Javier Oscoz4,Maria Judite Alves5,6 and Maria Joao˜ Collares-Pereira5 1 GAVRN-Gestion´ Ambiental Viveros y Repoblaciones de Navarra S.A., C/ Padre Adoain 219 Bajo, 31015 Pam- plona/Iruna,˜ Navarra, Espana.˜ 2 Universidad Complutense de Madrid, Facultad de Biolog´a, Departamento de Zoolog´a y Antropolog´a F´sica, 28040 Madrid, Espana.˜ 3 Virginia Institute of Marine Science, School of Marine Science, Department of Fisheries Science, Gloucester Point, 23062 Virginia, USA. 4 Universidad de Navarra, Departamento de Zoolog´a y Ecolog´a, Apdo. Correos 177, 31008 Pamplona/Iruna,˜ Navarra, Espana.˜ 5 Universidade de Lisboa, Faculdade de Ciencias,ˆ Centro de Biologia Ambiental, Campo Grande, 1749-016 Lis- boa, Portugal. 6 Museu Nacional de Historia´ Natural, Universidade de Lisboa, Rua da Escola Politecnica´ 58, 1269-102 Lisboa, Portugal. 2 ∗ Corresponding author: [email protected] 2 Received: 8/10/08 Accepted: 22/5/09 ABSTRACT International Standardization of Common Names for Iberian Endemic Freshwater Fishes Iberian endemic freshwater shes do not have standardized common names in English, which is usually a cause of incon- veniences for authors when publishing for an international audience. With the aim to tackle this problem, an updated list of Iberian endemic freshwater sh species is presented with a reasoned proposition of a standard international designation along with Spanish and/or Portuguese common names adopted in the National Red Data Books. -
Adding Nuclear Rhodopsin Data Where Mitochondrial COI Indicates Discrepancies – Can This Marker Help to Explain Conflicts in Cyprinids?
DNA Barcodes 2015; 3: 187–199 Research Article Open Access S. Behrens-Chapuis*, F. Herder, H. R. Esmaeili, J. Freyhof, N. A. Hamidan, M. Özuluğ, R. Šanda, M. F. Geiger Adding nuclear rhodopsin data where mitochondrial COI indicates discrepancies – can this marker help to explain conflicts in cyprinids? DOI 10.1515/dna-2015-0020 or haplotype sharing (12 species pairs) with presumed Received February 27, 2015; accepted October 1, 2015 introgression based on mtCOI data. We aimed to test Abstract: DNA barcoding is a fast and reliable tool for the utility of the nuclear rhodopsin marker to uncover species identification, and has been successfully applied reasons for the high similarity and haplotype sharing in to a wide range of freshwater fishes. The limitations these different groups. The included labeonine species reported were mainly attributed to effects of geographic belonging to Crossocheilus, Hemigrammocapoeta, scale, taxon-sampling, incomplete lineage sorting, or Tylognathus and Typhlogarra were found to be nested mitochondrial introgression. However, the metrics for within the genus Garra based on mtCOI. This specific the success of assigning unknown samples to species or taxonomic uncertainty was also addressed by the use genera also depend on a suited taxonomic framework. of the additional nuclear marker. As a measure of the A simultaneous use of the mitochondrial COI and the delineation success we computed barcode gaps, which nuclear RHO gene turned out to be advantageous for were present in 75% of the species based on mtCOI, but the barcode efficiency in a few previous studies. Here, in only 39% based on nuclear rhodopsin sequences. -
Almeida STOTEN 17 with SI.Pdf
Science of the Total Environment 605–606 (2017) 1055–1063 Contents lists available at ScienceDirect Science of the Total Environment journal homepage: www.elsevier.com/locate/scitotenv Relationship of fish indices with sampling effort and land use change in a large Mediterranean river David Almeida a, Juan Diego Alcaraz-Hernández a, Roberto Merciai a, Lluís Benejam b, Emili García-Berthou a,⁎ a GRECO, Institute of Aquatic Ecology, University of Girona, 17003 Girona, Catalonia, Spain b BETA Technology Centre, Aquatic Ecology Group, University of Vic – Central University of Catalonia, 08500 Vic, Catalonia, Spain HIGHLIGHTS GRAPHICAL ABSTRACT • Fish-based indices have been barely tested in lower reaches of large European rivers. • Two fish-based indices (EFI+ and IBICAT2b) respond significantly to land use change in the River Ebro. • EFI+ also depends on sampling effort. • Existing standard protocols should be carefully followed for ecological assess- ment using fish. article info abstract Article history: Fish are invaluable ecological indicators in freshwater ecosystems but have been less used for ecological assess- Received 15 April 2017 ments in large Mediterranean rivers. We evaluated the effects of sampling effort (transect length) on fish metrics, Received in revised form 2 June 2017 such as species richness and two fish indices (the new European Fish Index EFI+ and a regional index, IBICAT2b), Accepted 3 June 2017 in the mainstem of a large Mediterranean river. For this purpose, we sampled by boat electrofishing five sites each Available online xxxx with 10 consecutive transects corresponding to a total length of 20 times the river width (European standard re- Editor: D. Barcelo quired by the Water Framework Directive) and we also analysed the effect of sampling area on previous surveys. -
Revision of Phoxinus in France with the Description of Two New Species (Teleostei, Leuciscidae)
Regular paper Revision of Phoxinus in France with the description of two new species (Teleostei, Leuciscidae) by Gaël P.J. DENYS* (1, 2), Agnès DETTAI (3), Henri PERSAT (4), Piotr DASZKIEWICZ (1), Mélyne HAUTECŒUR (2) & Philippe KEITH (2) Abstract. – French minnows of the genus Phoxinus are revised based on molecular data (COI and 12S rDNA markers), morphological characters and nuptial colouration patterns. The results delineate six groups of popu- lations, which are recognised as species. Phoxinus phoxinus is found in eastern France in the lower and mid- dle Rhine and Seine drainages. Phoxinus bigerri occurs in the Adour drainage and populations from the Lake Geneva basin and the upper Rhine drainage are identified as Phoxinus csikii. Phoxinus dragarum, new species, from the Garonne drainage, is distinguished by its unique nuptial colour pattern (green stripe in Z3 reaching up to the anal fin base and Z4 greenish yellow in male; Z4 green-ochre and black line below in Z5 reaching from the pectoral fin bases to the anal fin base in female), and by an incomplete lateral line generally reaching to a point in front of the anal fin base or just shortly beyond the origin of the last anal fin ray. Phoxinus fayollarum, new spe- cies, from the Loire drainage, is distinguished by its unique nuptial colour pattern (green bars in Z3 and Z4, Z4 bright yellow, and belly red in male; green stripe in Z3, Z4 yellow-pinkish, and red spots at the pectoral, pelvic © SFI Submitted: 8 Jul. 2020 and anal fin base in female). Minnows of the Rhône drainage are identified as Phoxinus septimaniae. -
First Record of Phoxinus Csikii Hankó, 1922 (Actinopterygii, Cypriniformes) in France SFI
Ichthyological note First record of Phoxinus csikii Hankó, 1922 (Actinopterygii, Cypriniformes) in France SFI © by Submitted: 26 Sep. 2018 Accepted: 14 Jan. 2019 * Editor: R. Causse Gaël P.J. DENYS (1, 2) & Sébastien MANNE (3) Résumé. – Premier signalement de Phoxinus csikii Hankó, 1922 evolutionary lineages in Europe (see Palandačić et al., 2017a). (Actinopterygii, Cypriniformes) en France. Southern French catchments were also related to the description of two new species in addition to P. phoxinus (Linnaeus, 1758) in the Une identification moléculaire par barcoding (marqueur du COI, 651 pb) a été réalisée sur un vairon capturé dans le Rupt de French Northern drainages (Kottelat, 2007; Kottelat and Freyhof, Mad à Essey-et-Maizerais (bassin du Rhin/Moselle). Ainsi, ce spé- 2007; Keith et al., 2011): P. bigerri Kottelat, 2007 in the Adour cimen appartient à l’espèce récemment revalidée Phoxinus csikii drainage and P. septimaniae Kottelat, 2007 in the Mediterranean Hankó, 1922. Il s’agit ainsi du premier signalement de cette espè- basin and also in the Rhône drainage considering molecular data ce en France, et de la quatrième espèce de vairon connue dans ce pays. (e.g. Palandačić et al., 2017a). Following these studies, the Rhine system harbours the follow- Key words. – France – Rhine basin – First record – Molecular ing four minnow taxa: Phoxinus phoxinus (from where its neotype identification –Phoxinus csikii. specimen (NRM 55108 from the River Agger) was designated by Kottelat (2007)), P. csikii, P. cf. morella (Leske, 1774) and P. ������septi- maniae with potential cases of hybridization (Knebelsberger et al., European minnows Phoxinus are small leuciscids with an Eur- 2015; Palandačić et al., 2017a). -
Pdf 841.74 K
Molecular Biology Research Communications 2015;4(4):189-206 MBRC Original Article Open Access Molecular systematics and distribution review of the endemic cyprinid species, Persian chub, Acanthobrama persidis (Coad, 1981) in Southern Iran (Teleostei: Cyprinidae) Azad Teimori1, , Hamid Reza Esmaeili2,*, Golnaz Sayyadzadeh2, Neda Zarei2, Ali Gholamhosseini3 1) Department of Biology, Faculty of Sciences, Shahid Bahonar University of Kerman, Kerman, Iran. 2) Ichthyology Research laboratory, Department of Biology, College of Sciences, Shiraz University, Shiraz, Iran 3) Department of Biology, College of Sciences, Shiraz University, Shiraz, Iran ABSTRACT The Iranian Persian chub is an endemic species of the family Cyprinidae known only from few localities in drainages of Southern Iran. It was originally described in the genus Pseudophoxinus as (Pseudophoxinus persidis) and then Petroleuciscus (as Petroleuciscus persidis). In this study, we examined phylogenetic relationships of the Iranian Persian chub with other relatives in the family Cyprinidae based on the mitochondrial cytochrome b gene to estimate the phylogenetic (and taxonomic) position of the species. Our molecular phylogenies show that new fish sequences from the drainages in southern Iran are clustered with sequences of the genus Acanthobrama from GenBank while the sequences from two other genera (Pseudophoxinus and Petroleuciscus) are in distinct clade. Therefore, we conclude that the populations of Persian Chub in drainages of southern Iran (i.e., Kol, Kor, Maharlu and Persis) belong to the genus Acanthobrama and species Acanthobrama persidis. The predicted geographic distributions for the species showed a large area of suitable climate for A. persidis across south and west of Iran especially in the Kor River basin. Some other parts in the Persis and Tigris are also might have been suitable habitats for this cyprinid species showing possible dispersal route of Acanthobrama from Tigris to the Persis, Kor and Kol basins. -
Pool-Type Fishway Design for a Potamodromous Cyprinid in the Iberian Peninsula: the Iberian Barbel—Synthesis and Future Directions
sustainability Article Pool-Type Fishway Design for a Potamodromous Cyprinid in the Iberian Peninsula: The Iberian Barbel—Synthesis and Future Directions 1, , 2, , 3 4 Ana T. Silva * y , María Bermúdez * y , José M. Santos , Juan R. Rabuñal and Jerónimo Puertas 5 1 Norwegian Institute for Nature Research (NINA), P.O. Box 5685 Torgarden, 7485 Trondheim, Norway 2 Environmental Fluid Dynamics Group, Andalusian Institute for Earth System Research, University of Granada, Av. Del Mediterraneo s/n, 18006 Granada, Spain 3 Forest Research Centre, School of Agriculture, University of Lisbon, 1000 Lisbon, Portugal; [email protected] 4 Centre of Technological Innovation in Construction and Civil Engineering (CITEEC), University of A Coruña, 15001 A Coruña, Spain; [email protected] 5 Civil Engineering School, University of A Coruña, 15001 A Coruña, Spain; [email protected] * Correspondence: [email protected] (A.T.S.); [email protected] (M.B.) A.T.S. and M.B. contributed equally to this work and are considered to be co-first authors. y Received: 27 February 2020; Accepted: 15 April 2020; Published: 21 April 2020 Abstract: The Iberian barbel (Luciobarbus bocagei) is one of the most common cyprinids in the Iberian Peninsula, whose migratory routes are often hampered by anthropogenic barriers. Fishways might be an effective mitigation measure if they integrate designed operational characteristics that account for the biomechanical requirements of this species. Understanding the flow conditions inside the fishway, and how barbel responds to the hydrodynamics of the flow is imperative to improve free migratory routes with minimum energetic cost associated. Herein, we analyze and synthesize the main findings of research on pool-type fishways for upstream passage of the Iberian barbel and derive recommendations of design criteria for pool-type fishways for this species and others of similar biomechanics capacities.