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Mar-Silva AF, Diaz-Jaimes P, Domínguez-Mendoza C, Domínguez-Domínguez O, Valdiviezo-Rivera J, Espinoza-Herrera E. Genomic assessment reveals signal of adaptive selection in populations of the Spotted rose snapper Lutjanus guttatus from the Tropical Eastern Pacific. PeerJ 2023; 11:e15029. [PMID: 37009151 PMCID: PMC10062342 DOI: 10.7717/peerj.15029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Accepted: 02/17/2023] [Indexed: 03/29/2023] Open
Abstract
Background
The lack of barriers in the marine environment has promoted the idea of panmixia in marine organisms. However, oceanographic conditions and habitat characteristics have recently been linked to genetic structure in marine species. The Tropical Eastern Pacific (TEP) is characterized by dynamic current systems and heterogeneous oceanographic conditions. The Gulf of Panama (part of the equatorial segment for the TEP) is influenced by a complex current system and heterogeneous environment, which has been shown to limit the gene flow for shoreline species. Next Generation Sequencing (NGS) has contributed to detect genetic differences in previously reported panmictic species by the assessment of loci associated with selection and to understand how selection acts affects marine populations. Lutjanus guttatus is a species distributed in the TEP for which previous studies using mitochondrial data recovered a panmictic pattern along its distributional range. In this study, we used SNP data of L. guttatus individuals sampled along its range to evaluate population genetic structure and investigate whether oceanographic factors influence the species’ genetic architecture. Finally, we assessed the role of adaptive selection by evaluating the contribution of outlier and neutral loci to genetic divergence.
Methods
The RADcap method was used to obtain 24 million paired reads for 123 individuals of L. guttatus covering nearly all its distributional area. Genetic variation was assessed using both spatial and non-spatial methods by comparing three different data sets: (i) a Combined Loci (CL dataset = 2003 SNPs); a search for putative loci under selection allowed the evaluation of (ii) Neutral Loci (NL dataset = 1858 SNPs) and (iii) Outlier Loci (OL dataset = 145 SNPs). We used the estimating effective migration surface (EEMS) approach to detect possible barriers to gene flow.
Results
Genetic differences were found in the OL dataset, showing two clusters (Northern and Southern), whereas NL showed no differences. This result may be related to the Selection-Migration balance model. The limit between the Northern and Southern groups was in the Gulf of Panama, which has been previously identified as a barrier to gene flow for other species, mainly due to its heterogeneous oceanographic conditions. The results suggest that selection plays an important role in generating genetic differences in Lutjanus guttatus. A migration corridor was detected that coincides with the Costa Rica Coastal Current that flows from Central America to the Gulf of California, allowing the homogenization of the northern population. In the Southern cluster, a migration corridor was observed with the OL from Panama to Colombia, which could be associated with the currents found in the Gulf of Panama. Genetic variation found in the OL of Lutjanus guttatus highlights the usefulness of NGS data in evaluating the role of selection in population differentiation.
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Affiliation(s)
- Adán F. Mar-Silva
- Posgrado en Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México, Ciudad de México, México
| | - Pindaro Diaz-Jaimes
- Unidad de Ecología y Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - Cristina Domínguez-Mendoza
- Unidad de Ecología y Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Universidad Nacional Autónoma de México, Mexico City, Mexico
| | - Omar Domínguez-Domínguez
- Laboratorio de Biología Acuática, Facultad de Biología, Universidad Michoacana de San Nicolás de Hidalgo, Morelia, Michoacán, Mexico
- Instituto Nacional de Biodiversidad, Quito, Ecuador
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Hernández-Álvarez C, Bayona-Vásquez NJ, Domínguez-Domínguez O, Uribe-Alcocer M, Díaz-Jaimes P. Phylogeography of the Pacific Red Snapper (Lutjanus peru) and Spotted Rose Snapper (Lutjanus guttatus) in the Inshore Tropical Eastern Pacific. COPEIA 2020. [DOI: 10.1643/cg-18-157] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
Affiliation(s)
- Cristóbal Hernández-Álvarez
- Unidad Académica de Ecología y Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Circuito exterior s/n, Ciudad Universitaria, México D.F. C.P. 04510; (PDJ)
| | - Natalia J. Bayona-Vásquez
- Unidad Académica de Ecología y Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Circuito exterior s/n, Ciudad Universitaria, México D.F. C.P. 04510; (PDJ)
| | - Omar Domínguez-Domínguez
- Laboratorio de Biología Acuática, Universidad Michoacana de San Nicolás de Hidalgo, Edificio R, Ciudad Universitaria, Morelia, Michoacán C.P. 58030
| | - Manuel Uribe-Alcocer
- Unidad Académica de Ecología y Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Circuito exterior s/n, Ciudad Universitaria, México D.F. C.P. 04510; (PDJ)
| | - Píndaro Díaz-Jaimes
- Unidad Académica de Ecología y Biodiversidad Acuática, Instituto de Ciencias del Mar y Limnología, Circuito exterior s/n, Ciudad Universitaria, México D.F. C.P. 04510; (PDJ)
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Md Naim D, Kamal NZM, Mahboob S. Population structure and genetic diversity of Aedes aegypti and Aedes albopictus in Penang as revealed by mitochondrial DNA cytochrome oxidase I. Saudi J Biol Sci 2020; 27:953-967. [PMID: 32127775 PMCID: PMC7042630 DOI: 10.1016/j.sjbs.2020.01.021] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Revised: 01/14/2020] [Accepted: 01/16/2020] [Indexed: 11/24/2022] Open
Abstract
The population genetics study is crucial as it helps in understanding the epidemiological aspects of dengue and help improving a vector control measures. This research aims to investigate the population genetics structure of two common species of Aedes mosquitoes in Penang; Aedes aegypti and Aedes albopictus using Cytochrome Oxidase I (COI) mitochondrial DNA (mtDNA) marker. Molecular investigations were derived from 440 bp and 418 bp mtDNA COI on 125 and 334 larvae of Aedes aegypti and Aedes albopictus respectively, from 32 locations in Penang. All samples were employed in the BLASTn for species identification. The haplotype diversity, nucleotide diversity, neutrality test and mismatch distribution analysis were conducted in DnaSP version 5.10.1. AMOVA analysis was conducted in ARLEQUIN version 3.5 and the phylogenetic reconstructions based on maximum likelihood (ML) and neighbor-joining (NJ) methods were implemented in MEGA X. The relationships among haplotypes were further tested by creating a minimum spanning tree using Network version 4.6.1. All samples were genetically identified and clustered into six distinct species. Among the species, Ae. albopictus was the most abundant (67.2%), followed by Ae. aegypti (25.2%) and the rest were counted for Culex sp. and Toxorhynchites sp. Both Ae. aegypti and Ae. albopictus show low nucleotide diversity (π) and high haplotype diversity (h), while the neutrality test shows a negative value in most of the population for both species. There are a total of 39 and 64 haplotypes recorded for Ae. aegypti and Ae. albopictus respectively. AMOVA analysis revealed that most of the variation occurred within population for both species. Mismatch distribution analysis showed bimodal characteristic of population differentiation for Ae. aegypti but Ae. albopictus showed unimodal characteristics of population differentiation. Genetic distance based on Tamura-Nei parameter showed low genetic divergent within population and high genetic divergent among population for both species. The maximum likelihood tree showed no obvious pattern of population genetic structure for both Ae. aegypti and Ae. albopictus from Penang and a moderate to high bootstrap values has supported this conclusion. The minimum spanning network for Ae. aegypti and Ae. albopictus showed five and three dominant haplotypes respectively, which indicates a mixture of haplotypes from the regions analysed. This study revealed that there is no population genetic structure exhibited by both Ae. aegypti and Ae. albopictus in Penang. Mutation has occurred rapidly in both species and this will be challenging in controlling the populations. However, further analysis needed to confirm this statement.
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Affiliation(s)
- Darlina Md Naim
- School of Biological Sciences, Universiti Sains Malaysia, 11800 Pulau Pinang, Malaysia
| | | | - Shahid Mahboob
- Department of Zoology, College of Science, King Saud University, Riyadh 11451, Saudi Arabia
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Pedraza-Marrón CDR, Silva R, Deeds J, Van Belleghem SM, Mastretta-Yanes A, Domínguez-Domínguez O, Rivero-Vega RA, Lutackas L, Murie D, Parkyn D, Bullock LH, Foss K, Ortiz-Zuazaga H, Narváez-Barandica J, Acero A, Gomes G, Betancur-R R. Genomics overrules mitochondrial DNA, siding with morphology on a controversial case of species delimitation. Proc Biol Sci 2019; 286:20182924. [PMID: 30940064 PMCID: PMC6501682 DOI: 10.1098/rspb.2018.2924] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2019] [Accepted: 03/12/2019] [Indexed: 11/12/2022] Open
Abstract
Species delimitation is a major quest in biology and is essential for adequate management of the organismal diversity. A challenging example comprises the fish species of red snappers in the Western Atlantic. Red snappers have been traditionally recognized as two separate species based on morphology: Lutjanus campechanus (northern red snapper) and L. purpureus (southern red snapper). Recent genetic studies using mitochondrial markers, however, failed to delineate these nominal species, leading to the current lumping of the northern and southern populations into a single species ( L. campechanus). This decision carries broad implications for conservation and management as red snappers have been commercially over-exploited across the Western Atlantic and are currently listed as vulnerable. To address this conflict, we examine genome-wide data collected throughout the range of the two species. Population genomics, phylogenetic and coalescent analyses favour the existence of two independent evolutionary lineages, a result that confirms the morphology-based delimitation scenario in agreement with conventional taxonomy. Despite finding evidence of introgression in geographically neighbouring populations in northern South America, our genomic analyses strongly support isolation and differentiation of these species, suggesting that the northern and southern red snappers should be treated as distinct taxonomic entities.
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Affiliation(s)
| | - Raimundo Silva
- Instituto de Estudos Costeiros, Laboratório de Genética Aplicada, Campus Bragança, Alameda Leandro Ribeiro, S/N, Aldeia, 68600-000 Bragança, Pará, Brazil
| | - Jonathan Deeds
- USFDA Center for Food Safety and Applied Nutrition, 5001 Campus Drive, College Park, MD 20740, USA
| | - Steven M. Van Belleghem
- Department of Biology, University of Puerto Rico, Río Piedras, PO Box 23360, San Juan, PR 00931, USA
| | - Alicia Mastretta-Yanes
- CONACYT Research Fellow – Comisión Nacional para el Conocimiento y Uso de la Biodiversidad, México, Liga Periférico – Insurgentes Sur, No. 4903, 14010, México, DF, México
| | - Omar Domínguez-Domínguez
- Laboratorio de Biología Acuática, Facultad de Biología, Universidad Michoacana de San Nicolás de Hidalgo, Ciudad Universitaria, 58000, Morelia, Michoacán, México
| | - Rafael A. Rivero-Vega
- Department of Biology, University of Puerto Rico, Río Piedras, PO Box 23360, San Juan, PR 00931, USA
| | - Loretta Lutackas
- Department of Biology, University of Puerto Rico, Río Piedras, PO Box 23360, San Juan, PR 00931, USA
- North Carolina Wildlife Resources Commission, Raleigh, NC 27699-1700, USA
| | - Debra Murie
- University of Florida, School of Forest Resources and Conservation, Program of Fisheries and Aquatic Sciences, Gainesville, FL 32653, USA
| | - Daryl Parkyn
- University of Florida, School of Forest Resources and Conservation, Program of Fisheries and Aquatic Sciences, Gainesville, FL 32653, USA
| | - Lewis H. Bullock
- Florida Fish and Wildlife Research Institute, 100 8th Ave SE, St. Petersburg, FL 33701, USA
| | - Kristin Foss
- Florida Fish and Wildlife Conservation Commission, Farris Bryant Building, 620 S. Meridian St., Tallahassee, FL 32399-1600, USA
| | - Humberto Ortiz-Zuazaga
- Computer Science Department, University of Puerto Rico, Río Piedras, PO Box 23360, San Juan, PR 00931, USA
| | | | - Arturo Acero
- Universidad Nacional de Colombia Sede Caribe Cecimar, El Rodadero, Santa Marta, Colombia
| | - Grazielle Gomes
- Instituto de Estudos Costeiros, Laboratório de Genética Aplicada, Campus Bragança, Alameda Leandro Ribeiro, S/N, Aldeia, 68600-000 Bragança, Pará, Brazil
- Instituto de Estudos Costeiros, Laboratório de Genética e Biologia Molecular, Universidade Federal do Pará, Campus Bragança, Alameda Leandro Ribeiro, S/N, Aldeia, 68600-000 Bragança, Pará, Brazil
| | - Ricardo Betancur-R
- Department of Biology, The University of Oklahoma, 730 Van Vleet Oval, Room 314, Norman, OK 73019, USA
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Lack of Spatial Subdivision for the Snapper Lutjanus purpureus (Lutjanidae - Perciformes) from Southwest Atlantic Based on Multi-Locus Analyses. PLoS One 2016; 11:e0161617. [PMID: 27556738 PMCID: PMC4996478 DOI: 10.1371/journal.pone.0161617] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/07/2016] [Accepted: 08/09/2016] [Indexed: 11/25/2022] Open
Abstract
The Caribbean snapper Lutjanus purpureus is a marine species fish commonly found associated with rocky seabeds and is widely distributed along of Western Atlantic. Data on stock delineation and stock recognition are essential for establishing conservation measures for commercially fished species. However, few studies have investigated the population genetic structure of this economically valuable species, and previous studies (based on only a portion of the mitochondrial DNA) provide an incomplete picture. The present study used a multi-locus approach (12 segments of mitochondrial and nuclear DNA) to elucidate the levels of genetic diversity and genetic connectivity of L. purpureus populations and their demographic history. L. purpureus has high levels of genetic diversity, which probably implies in high effective population sizes values for the species. The data show that this species is genetically homogeneous throughout the geographic region analyzed, most likely as a result of dispersal during larval phase. Regarding demographic history, a historical population growth event occurred, likely due to sea level changes during the Pleistocene.
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Jue NK, Brulé T, Coleman FC, Koenig CC. From shelf to shelf: assessing historical and contemporary genetic differentiation and connectivity across the Gulf of Mexico in Gag, Mycteroperca microlepis. PLoS One 2015; 10:e0120676. [PMID: 25856095 PMCID: PMC4391813 DOI: 10.1371/journal.pone.0120676] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2014] [Accepted: 01/25/2015] [Indexed: 11/24/2022] Open
Abstract
Describing patterns of connectivity among populations of species with widespread distributions is particularly important in understanding the ecology and evolution of marine species. In this study, we examined patterns of population differentiation, migration, and historical population dynamics using microsatellite and mitochondrial loci to test whether populations of the epinephelid fish, Gag, Mycteroperca microlepis, an important fishery species, are genetically connected across the Gulf of Mexico and if so, whether that connectivity is attributable to either contemporary or historical processes. Populations of Gag on the Campeche Bank and the West Florida Shelf show significant, but low magnitude, differentiation. Time since divergence/expansion estimates associated with historical population dynamics indicate that any population or spatial expansions indicated by population genetics would have likely occurred in the late Pleistocene. Using coalescent-based approaches, we find that the best model for explaining observed spatial patterns of contemporary genetic variation is one of asymmetric gene flow, with movement from Campeche Bank to the West Florida Shelf. Both estimated migration rates and ecological data support the hypothesis that Gag populations throughout the Gulf of Mexico are connected via present day larval dispersal. Demonstrating this greatly expanded scale of connectivity for Gag highlights the influence of “ghost” populations (sensu Beerli) on genetic patterns and presents a critical consideration for both fisheries management and conservation of this and other species with similar genetic patterns.
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Affiliation(s)
- Nathaniel K. Jue
- Department of Biological Science, Florida State University, Tallahassee, FL, 32303, United States of America
- * E-mail:
| | - Thierry Brulé
- CINVESTAV-Mérida, Km. 6 Carretera Antigua a Progresso, A.P. 73, Cordemex, C.P. 97310, Mérida Yucatán, México
| | - Felicia C. Coleman
- Florida State University Coastal and Marine Laboratory, 3618 Coastal Highway 98, St. Teresa, FL, 32358, United States of America
| | - Christopher C. Koenig
- Florida State University Coastal and Marine Laboratory, 3618 Coastal Highway 98, St. Teresa, FL, 32358, United States of America
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da Silva R, Veneza I, Sampaio I, Araripe J, Schneider H, Gomes G. High levels of genetic connectivity among populations of yellowtail snapper, Ocyurus chrysurus (Lutjanidae-Perciformes), in the western South Atlantic revealed through multilocus analysis. PLoS One 2015; 10:e0122173. [PMID: 25769032 PMCID: PMC4359153 DOI: 10.1371/journal.pone.0122173] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2014] [Accepted: 02/05/2015] [Indexed: 01/01/2023] Open
Abstract
In the present study, five loci (mitochondrial and nuclear) were sequenced to determine the genetic diversity, population structure, and demographic history of populations of the yellowtail snapper, Ocyurus chrysurus, found along the coast of the western South Atlantic. O. chrysurus is a lutjanid species that is commonly associated with coral reefs and exhibits an ample geographic distribution, and it can therefore be considered a good model for the investigation of phylogeographic patterns and genetic connectivity in marine environments. The results reflected a marked congruence between the mitochondrial and nuclear markers as well as intense gene flow among the analyzed populations, which represent a single genetic stock along the entire coast of Brazil between the states of Pará and Espírito Santo. Our data also showed high levels of genetic diversity in the species (mainly mtDNA), as well a major historic population expansion, which most likely coincided with the sea level oscillations at the end of the Pleistocene. In addition, this species is intensively exploited by commercial fisheries, and data on the genetic structure of its populations will be essential for the development of effective conservation and management plans.
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Affiliation(s)
- Raimundo da Silva
- Laboratório de Genética Aplicada, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil
| | - Ivana Veneza
- Laboratório de Genética Aplicada, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil
| | - Iracilda Sampaio
- Laboratório de Genética e Biologia Molecular, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil
| | - Juliana Araripe
- Laboratório de Genética e Biologia Molecular, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil
| | - Horacio Schneider
- Laboratório de Genética e Biologia Molecular, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil
| | - Grazielle Gomes
- Laboratório de Genética Aplicada, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil; Laboratório de Genética e Biologia Molecular, Instituto de Estudos Costeiros, Campus Bragança-Universidade Federal do Pará, Bragança, Pará, Brasil
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Kathirvelpandian A, Gopalakrishnan A, Lakra WS, Krishna G, Sharma R, Divya PR, Kumar R, Jena JK. Mitochondrial ATPase 6/8 genes reveal genetic divergence in the Coilia dussumieri (Valenciennes, 1848) populations of north east and northwest coasts of India. Mol Biol Rep 2014; 41:3723-31. [DOI: 10.1007/s11033-014-3237-z] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2013] [Accepted: 02/06/2014] [Indexed: 11/29/2022]
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Gomes G, Sampaio I, Schneider H. Population Structure of Lutjanus purpureus (Lutjanidae - Perciformes) on the Brazilian coast: further existence evidence of a single species of red snapper in the western Atlantic. AN ACAD BRAS CIENC 2012. [DOI: 10.1590/s0001-37652012000400013] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Abstract
The present study focus on the mitochondrial control region to investigate phylogeographic patterns and population structure in Lutjanus purpureus, and to evaluate the genetic similarity between L. purpureus and L. campechanus. For the initial analysis, 810 base pairs sequence from control region were obtained from 239 specimens of L. purpureus collected from four localities off the Brazilian coast. The results revealed the presence of a single panmictic population characterized by high values of genetic diversity. The 299 base pairs hypervariable portion were used for the combined analysis of L. purpureus and L. campechanus, being 275 haplotypes identified in the 414 specimens. Phylogenetic tree and haplotype network did not indicate phylogeographic substructuring between the two species, but rather an intense intermingling of individuals. Considering their marked morphological similarity, the molecular data presented here indicate that only one species of red snapper exists in the western Atlantic.
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Affiliation(s)
- Grazielle Gomes
- Universidade Federal do Pará, Brasil; Universidade Federal do Pará, Brasil
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Gomes G, Schneider H, Vallinoto M, Santos S, Orti G, Sampaio I. Can Lutjanus purpureus (South red snapper) be "legally" considered a red snapper (Lutjanus campechanus)? Genet Mol Biol 2008. [DOI: 10.1590/s1415-47572008000200035] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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Rodrigues R, Schneider H, Santos S, Vallinoto M, Sain-Paul U, Sampaio I. Low levels of genetic diversity depicted from mitochondrial DNA sequences in a heavily exploited marine fish (Cynoscion acoupa, Sciaenidae) from the Northern coast of Brazil. Genet Mol Biol 2008. [DOI: 10.1590/s1415-47572008000300015] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
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Guo Y, Wang Z, Liu C, Liu L, Liu Y. Phylogenetic relationships of South China Sea snappers (genus Lutjanus; family Lutjanidae) based on mitochondrial DNA sequences. MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2007; 9:682-8. [PMID: 17909901 DOI: 10.1007/s10126-007-9012-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/27/2007] [Revised: 03/27/2007] [Accepted: 03/27/2007] [Indexed: 05/17/2023]
Abstract
Phylogenetic relationships of intra- and interspecies were elucidated based on complete cytochrome b (cyt b) and cytochrome c oxidase subunit II (COII) gene sequences from 12 recognized species of genus Lutjanus Bloch in the South China Sea (SCS). Using the combined data set of consensus cyt b and COII gene sequences, interspecific relationships for all 12 recognized species in SCS were consistent with Allen's morphology-based identifications, with strong correlation between the molecular and morphological characteristics. Monophyly of eight species (L. malabaricus, L. russellii, L. stellatus, L. bohar, L. johnii, L. sebae, L. fulvus, and L. fulviflamma) was strongly supported; however, the pairs L. vitta/L. ophuysenii and L. erythropterus/L. argentimaculatus were more similar than expected We inferred that L. malabaricus exists in SCS, and the introgression caused by hybridization is the reason for the unexpectedly high homogeneity.
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Affiliation(s)
- Yusong Guo
- Fisheries College, Guangdong Ocean University, Zhanjiang, 524025, China
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Burridge CP, Versace VL. Population genetic structuring in Acanthopagrus butcheri (Pisces: Sparidae): does low gene flow among estuaries apply to both sexes? MARINE BIOTECHNOLOGY (NEW YORK, N.Y.) 2007; 9:33-44. [PMID: 16937020 DOI: 10.1007/s10126-006-6023-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/15/2006] [Accepted: 06/22/2006] [Indexed: 05/11/2023]
Abstract
Acanthopagrus butcheri completes its entire life history within estuaries and coastal lakes of southern Australia, although adults occasionally move between estuaries via the sea. Consequently, it is expected that populations of A. butcheri in different estuaries will be genetically distinct, with the magnitude of genetic divergence increasing with geographic isolation. However, previous genetic studies of A. butcheri from southeast Australia yielded conflicting results; allozyme variation exhibited minimal spatial structuring (theta = 0.012), whereas mitochondrial DNA distinguished the majority of populations analyzed (theta = 0.263) and genetic divergence was positively correlated with geographic isolation. This discrepancy could reflect high male gene flow, which impacts nuclear but not mitochondrial markers. Here we estimated allele frequencies at five nuclear microsatellite loci across 11 southeast Australian populations (595 individuals). Overall structuring of microsatellite variation was weaker (theta = 0.088) than that observed for mitochondrial DNA, but was able to distinguish a greater number of populations and was positively correlated with geographic distance. Therefore, we reject high male gene flow and invoke a stepping-stone model of infrequent gene flow among estuaries for both sexes. Likewise, management of A. butcheri within the study range should be conducted at the scale of individual or geographically proximate estuaries for both sexes. The lack of allozyme structuring in southeast Australia reflects either the large variance in structuring expected among loci under neutral conditions and the low number of allozymes surveyed or a recent colonization of estuaries such that some but not all nuclear loci have approached migration-drift equilibrium.
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Affiliation(s)
- Christopher P Burridge
- School of Life and Environmental Sciences, Deakin University, PO Box 423, Warrnambool, Victoria 3280, Australia.
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Charrier G, Chenel T, Durand JD, Girard M, Quiniou L, Laroche J. Discrepancies in phylogeographical patterns of two European anglerfishes (Lophius budegassa and Lophius piscatorius). Mol Phylogenet Evol 2005; 38:742-54. [PMID: 16309924 DOI: 10.1016/j.ympev.2005.08.002] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2005] [Revised: 08/03/2005] [Accepted: 08/04/2005] [Indexed: 11/21/2022]
Abstract
In order to investigate the relative importance of historical processes and life-history traits in shaping the present-day genetic structure of European anglerfishes, 382 Lophius piscatorius and 134 Lophius budegassa were sequenced on the 5' end of the mitochondrial control region. Both species showed a limited genetic structure and some evidence of a demographic expansion that probably occurred not at the end of the Last Glacial Maximum, but earlier in the Pleistocene. The main discrepancy between the two anglerfishes concerned the genetic structure between Atlantic and Mediterranean populations, with weak but significant differentiation observed only in L. budegassa. This genetic structure was congruent with the existence of a phylogeographical break previously reported in several marine species across the Almeria-Oran front. The contrast observed between both anglerfishes was supposed to be induced by a possible more ancient (re)colonisation of the Mediterranean Sea by L. budegassa. Finally, the limited genetic structure and lack of isolation by distance observed in both species suggested high larval dispersal capacities that probably overwhelm the influence of the bathymetric distribution range on migrations of adults and juveniles.
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Affiliation(s)
- G Charrier
- Laboratoire LEMAR, Université de Bretagne Occidentale (UMR CNRS 6539), Institut Universitaire Européen de la Mer, Place Nicolas Copernic, Technopôle Brest-Iroise, FR-29280 Plouzane, France.
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