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Cossu P, Mura L, Dedola GL, Lai T, Sanna D, Scarpa F, Azzena I, Fois N, Casu M. Detection of Genetic Patterns in Endangered Marine Species Is Affected by Small Sample Sizes. Animals (Basel) 2022; 12:ani12202763. [PMID: 36290149 PMCID: PMC9597844 DOI: 10.3390/ani12202763] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Revised: 10/10/2022] [Accepted: 10/11/2022] [Indexed: 11/05/2022] Open
Abstract
Knowledge of Genetic diversity and its spatial distribution is crucial to improve conservation plans for endangered species. Genetic tools help ensure species' long-term persistence by unraveling connectivity patterns and evolutionary trajectories of populations. Here, microsatellite genotypes of individuals from populations of Patella ferruginea are used to assess the effect of sample size on metrics of within-and between-population genetic diversity by combining empirical and simulated data. Within-population metrics are slightly to moderately affected by small sample size, albeit the magnitude of the bias is proportional to the effective population size and gene flow. The power of detecting genetic differentiation among populations increases with sample size, albeit the gain of increasing the number of sampled individuals tends to be negligible between 30 and 50. Our results line up with those of previous studies and highlight that small sample sizes are not always a hindrance to investigating genetic patterns in endangered marine species. Caution is needed in interpreting genetic patterns based on small sample sizes when the observed genetic differentiation is weak. This study also highlights the importance of carrying out genetic monitoring in seemingly well-preserved but potentially isolated populations.
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Affiliation(s)
- Piero Cossu
- Department of Sciences for Nature and Environmental Resources, University of Sassari, 07100 Sassari, Italy
- Department of Veterinary Medicine, University of Sassari, 07100 Sassari, Italy
- Correspondence: ; Tel.: +39-079-2280924
| | - Laura Mura
- Dipartimento per la Ricerca nelle Produzioni Animali, Agris Sardegna, 07040 Olmedo, Italy
| | - Gian Luca Dedola
- Department of Sciences for Nature and Environmental Resources, University of Sassari, 07100 Sassari, Italy
| | - Tiziana Lai
- Department of Sciences for Nature and Environmental Resources, University of Sassari, 07100 Sassari, Italy
| | - Daria Sanna
- Department of Sciences for Nature and Environmental Resources, University of Sassari, 07100 Sassari, Italy
- Department of Biomedical Sciences, University of Sassari, 07100 Sassari, Italy
| | - Fabio Scarpa
- Department of Sciences for Nature and Environmental Resources, University of Sassari, 07100 Sassari, Italy
- Department of Biomedical Sciences, University of Sassari, 07100 Sassari, Italy
| | - Ilenia Azzena
- Department of Veterinary Medicine, University of Sassari, 07100 Sassari, Italy
- Department of Biomedical Sciences, University of Sassari, 07100 Sassari, Italy
| | - Nicola Fois
- Dipartimento per la Ricerca nelle Produzioni Animali, Agris Sardegna, 07040 Olmedo, Italy
| | - Marco Casu
- Department of Sciences for Nature and Environmental Resources, University of Sassari, 07100 Sassari, Italy
- Department of Veterinary Medicine, University of Sassari, 07100 Sassari, Italy
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Evolutionary and Conservation Genetics. Life (Basel) 2021; 11:life11111160. [PMID: 34833036 PMCID: PMC8621666 DOI: 10.3390/life11111160] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2021] [Accepted: 10/28/2021] [Indexed: 01/08/2023] Open
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Bouzaza Z, Vera M, Mezali K. Population genetic structure of the endangered limpet Patella ferruginea (Gastropoda: Patellidae) in the western Mediterranean: new evidence implicating marine barriers’ effects. MOLLUSCAN RESEARCH 2021. [DOI: 10.1080/13235818.2020.1857932] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Affiliation(s)
- Zoheir Bouzaza
- Protection, Valorisation of Coastal Marine Resources and Molecular Systematic Laboratory, Department of Marine Science and Aquaculture, Faculty of Natural Sciences and Life, Abdelhamid Ibn Badis University-Mostaganem, Mostaganem, Algeria
| | - Manuel Vera
- Department of Zoology, Genetics and Physical Antrhopology, Faculty of Veterinary, University of Santiago de Compostela Lugo, Spain
| | - Karim Mezali
- Protection, Valorisation of Coastal Marine Resources and Molecular Systematic Laboratory, Department of Marine Science and Aquaculture, Faculty of Natural Sciences and Life, Abdelhamid Ibn Badis University-Mostaganem, Mostaganem, Algeria
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Espinosa F, Carballo JL, Bautista-Guerrero E, Yáñez B, García-Gómez JC, Michel-Morfín JE. Redescription of the highly endangered species Scutellastra mexicana (Broderip & G.B. Sowerby I, 1829) (Mollusca, Gastropoda). J NAT HIST 2020. [DOI: 10.1080/00222933.2020.1777337] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Affiliation(s)
- F. Espinosa
- Laboratorio de Biología Marina, Departamento de Fisiología y Zoología, Facultad de Biología, Universidad de Sevilla, Sevilla, Spain
| | - J. L. Carballo
- Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México (Unidad Académica Mazatlán), Mazatlán (SIN), México
| | - E. Bautista-Guerrero
- Laboratorio de Ecología Marina, Centro Universitario de la Costa, Universidad de Guadalajara, Puerto Vallarta, México
| | - B. Yáñez
- Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México (Unidad Académica Mazatlán), Mazatlán (SIN), México
| | - J. C. García-Gómez
- Laboratorio de Biología Marina, Departamento de Fisiología y Zoología, Facultad de Biología, Universidad de Sevilla, Sevilla, Spain
| | - J. E. Michel-Morfín
- Departamento de Ecología, Centro Universitario de Ciencias Biológicas y Agropecuarias, Universidad de Guadalajara, Zapopan, México
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Fa DA, Finlayson G, Sempere-Valverde J, García-Gómez JC. ‘Impossible’ re-introduction of the endangered limpet Patella ferruginea Gmelin, 1791? Progress in resolving translocation mortality. ENDANGER SPECIES RES 2018. [DOI: 10.3354/esr00921] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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Kallouche MM, Acevedo I, Ghalek M, Bouras D, Machordom A. Filling the limpet gap: molecular characterization of the genus Patella (Patellidae, Gastropoda) in the Algerian coasts of Oran. ACTA ZOOL ACAD SCI H 2018. [DOI: 10.17109/azh.64.2.161.2018] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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Kristof A, de Oliveira AL, Kolbin KG, Wanninger A. A putative species complex in the Sea of Japan revealed by DNA sequence data: a study on Lottia cf. kogamogai (Gastropoda: Patellogastropoda). J ZOOL SYST EVOL RES 2016; 54:177-181. [PMID: 27397971 PMCID: PMC4936521 DOI: 10.1111/jzs.12120] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/04/2015] [Indexed: 11/29/2022]
Abstract
A putative new limpet species (Patellogastropoda) from the Sea of Japan is revealed by molecular genetic analyses using the mitochondrial markers 16S rRNA and cytochrome c oxidase subunit I (CO1), as well as the DNA marker 18S rRNA. Our data indicate that the limpet, collected in the Peter the Great Bay (Russian Federation), is not, as its morphology suggests, the Japanese species Lottia kogamogai Sasaki and Okutani, 1994, and might also hint towards another putative species complex in the Sea of Japan. The different currents between the Far East Asian mainland (cold, subpolar jet running southwards) and the Japanese archipelago (warm, subtropical jet running northwards) are likely to act as a barrier that has a substantial influence on species distribution in these waters. Accordingly, our results indicate that it is about time for a revision of patellogastropod species with a reported distribution in Japanese and Far Eastern Russian waters by an integrative approach using molecular genetic and morphological characters. The species investigated herein is referred to as Lottia cf. kogamogai until it is morphologically re-examined and compared with primary type specimens of known species.
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Affiliation(s)
- Alen Kristof
- Department of Integrative ZoologyUniversity of ViennaViennaAustria
| | | | - Konstantin G. Kolbin
- Laboratory of Cell DifferentiationA.V. Zhirmunsky Institute for Marine BiologyFar East Branch of the Russian Academy of SciencesVladivostokRussia
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Dong YW, Wang HS, Han GD, Ke CH, Zhan X, Nakano T, Williams GA. The impact of Yangtze River discharge, ocean currents and historical events on the biogeographic pattern of Cellana toreuma along the China coast. PLoS One 2012; 7:e36178. [PMID: 22563446 PMCID: PMC3338569 DOI: 10.1371/journal.pone.0036178] [Citation(s) in RCA: 90] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2012] [Accepted: 03/27/2012] [Indexed: 11/18/2022] Open
Abstract
AIM Genetic data were used to measure the phylogeographic distribution of the limpet, Cellana toreuma along the China coast in order to acsertain impacts of historic events, ocean currents and especially freshwater discharge from the Yangtze River on the connectivity of intertidal species with limited larval dispersal capability. METHODOLOGY/PRINCIPAL FINDINGS Genetic variation in 15 populations of C. toreuma (n = 418), ranging from the Yellow Sea (YS), East China Sea (ECS) and South China Sea (SCS), were determined from partial mitochondrial cytochrome c oxidase subunit I gene. Genetic diversity and divergence based on haplotype frequencies were analyzed using CONTRIB, and AMOVA was used to examine genetic population structure. Historic demographic expansions were evaluated from both neutrality tests and mismatch distribution tests. Among the 30 haplotypes identified, a dominant haplotype No. 1 (H1) existed in all the populations, and a relatively abundant private haplotype (H2) in YS. Pairwise F(ST) values between YS and the other two groups were relatively high and the percentage of variation among groups was 10.9%. CONCLUSIONS The high nucleotide and gene diversity in the YS, with large pairwise genetic distances and relatively high percentages of variation among groups, suggests that this group was relatively isolated from ECS and SCS. This is likely driven by historic events, ocean currents, and demographic expansion. We propose that freshwater discharge from the Yangtze River, which may act as physical barrier limiting the southward dispersal of larvae from northern populations, is especially important in determining the separation of the YS group from the rest of the Chinese populations of C. toreuma.
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Affiliation(s)
- Yun-wei Dong
- State Key Laboratory of Marine Environmental Science, College of Oceanography and Earth Science, Xiamen University, Xiamen, China.
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Patterns of spatial genetic structuring in the endangered limpet Patella ferruginea: implications for the conservation of a Mediterranean endemic. Genetica 2012; 139:1293-1308. [PMID: 22286933 DOI: 10.1007/s10709-012-9631-3] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2011] [Accepted: 01/13/2012] [Indexed: 10/14/2022]
Abstract
Patella ferruginea Gmelin, 1791 is an endangered marine gastropod endemic to the Western Mediterranean. Its range is restricted to the Sardinian-Corsican region (SCR), North Africa, a few scattered sites in Southern Spain, and Sicily. Inter-simple sequence repeat (ISSR) markers and three different mitochondrial DNA (mtDNA) regions, Cytochrome c Oxidase subunit I, 12S (small-subunit ribosomal RNA gene) and 16S (large-subunit ribosomal RNA gene), were used to investigate the presence of genetic population structuring. The mtDNA sequences showed very low levels of genetic differentiation. Conversely, ISSRs showed the presence of two main genetic groups, corresponding to Spain, North Africa and Sicily and the SCR. The SCR was further split into two subgroups. The ISSR results suggest that, on a regional scale, the genetic structure of P. ferruginea is mainly determined by the restriction of gene flow by dispersal barriers. On a more local scale human harvesting may play a crucial role in population structuring by increasing the effect of genetic drift.
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SÁ-PINTO ALEXANDRA, BAIRD STUARTJE, PINHO CATARINA, ALEXANDRINO PAULO, BRANCO MADALENA. A three-way contact zone between forms of Patella rustica (Mollusca: Patellidae) in the central Mediterranean Sea. Biol J Linn Soc Lond 2010. [DOI: 10.1111/j.1095-8312.2010.01405.x] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Sá-Pinto A, Branco M, Sayanda D, Alexandrino P. Patterns of colonization, evolution and gene flow in species of the genus Patella in the Macaronesian Islands. Mol Ecol 2007; 17:519-32. [PMID: 18179442 DOI: 10.1111/j.1365-294x.2007.03563.x] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The study of phylogeographical patterns may contribute to a better understanding of factors affecting the dispersal of organisms in ecological and historical times. For intertidal organisms, islands are particularly suitable models allowing the test of predictions related to the efficacy of pelagic larvae dispersal. Here, we study the phylogeographical patterns and gene flow within three groups of species of the genus Patella present in the Macaronesian Islands that have been previously shown to be monophyletic. The genetic variability of around 600 bp of the mitochondrial gene cytochrome c oxidase subunit I was studied by single strand conformation polymorphism and/or sequencing for seven species of limpets. A total of 420 samples were analysed from the Macaronesian archipelagos, North Africa, and Atlantic and Mediterranean shores of the Iberian Peninsula. No clear geographical pattern or temporal congruence was found between the three groups of species, pointing to independent histories and colonization events. However, for the three groups, the split between the Macaronesian and the mainland forms most probably occurred before 3.9 million years ago, predating the establishment of the current circulation patterns. The presence of pelagic larvae in these species is shown to be insufficient to ensure gene flow between continental and Macaronesian populations and between the Macaronesian archipelagos. In the endangered Azorean populations of Patella candei, there is restricted gene flow to Flores and Graciosa.
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Affiliation(s)
- Alexandra Sá-Pinto
- CIBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Campus Agrário de Vairão, 4485-661 Vairão, Portugal.
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ESPINOSA FREE, GUERRA-GARCÍA JOSEM, FA DARREN, GARCÍA-GÓMEZ JCARLOS. Aspects of reproduction and their implications for the conservation of the endangered limpet,Patella ferruginea. INVERTEBR REPROD DEV 2006. [DOI: 10.1080/07924259.2006.9652197] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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