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Jiang S, Li Z, Li J, Xu K, Ye Y. Analysis of Genetic Diversity and Structure of Eight Populations of Nerita yoldii along the Coast of China Based on Mitochondrial COI Gene. Animals (Basel) 2024; 14:718. [PMID: 38473102 DOI: 10.3390/ani14050718] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 01/14/2024] [Accepted: 01/29/2024] [Indexed: 03/14/2024] Open
Abstract
Nerita yoldii is a euryhaline species commonly found in the intertidal zone. To investigate the genetic diversity of 233 N. yoldii individuals from eight locations along the coast of China, we utilized the mitochondrial COI gene as a molecular marker. A total of 34 haplotypes were detected, exhibiting a mean haplotype diversity (Hd) of 0.5915 and a mean nucleotide diversity (Pi) of 0.0025, indicating high levels of genetic diversity among all populations. An analysis of molecular variance (AMOVA) indicated that the primary source of genetic variation occurs within populations. In addition, neutral tests and mismatch analyses suggested that N. yoldii populations may have experienced bottleneck events. Moderate genetic differentiation was observed between Xiapu and other populations, excluding the Taizhou population, and may be attributed to the ocean currents. Intensively studying the genetic variation and population structure of N. yoldii populations contributes to understanding the current population genetics of N. yoldii in the coastal regions of China. This not only provides a reference for the study of other organisms in the same region but also lays the foundation for the systematic evolution of the Neritidae family.
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Affiliation(s)
- Senping Jiang
- National Engineering Research Center for Marine Aquaculture, Zhejiang Ocean University, Zhoushan 316022, China
| | - Zhenhua Li
- Key Laboratory of Sustainable Utilization of Technology Research for Fisheries Resources of Zhejiang Province, Scientific Observing and Experimental Station of Fishery Resources for Key Fishing Grounds, Ministry of Agriculture and Rural Affairs of China, Zhejiang Marine Fisheries Research Institute, Zhoushan 316021, China
| | - Jiji Li
- National Engineering Research Center for Marine Aquaculture, Zhejiang Ocean University, Zhoushan 316022, China
| | - Kaida Xu
- Key Laboratory of Sustainable Utilization of Technology Research for Fisheries Resources of Zhejiang Province, Scientific Observing and Experimental Station of Fishery Resources for Key Fishing Grounds, Ministry of Agriculture and Rural Affairs of China, Zhejiang Marine Fisheries Research Institute, Zhoushan 316021, China
| | - Yingying Ye
- National Engineering Research Center for Marine Aquaculture, Zhejiang Ocean University, Zhoushan 316022, China
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2
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Narváez-Barandica JC, Quintero-Galvis JF, Aguirre-Pabón JC, Castro LR, Betancur R, Acero Pizarro A. A Comparative Phylogeography of Three Marine Species with Different PLD Modes Reveals Two Genetic Breaks across the Southern Caribbean Sea. Animals (Basel) 2023; 13:2528. [PMID: 37570336 PMCID: PMC10417521 DOI: 10.3390/ani13152528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2023] [Revised: 07/02/2023] [Accepted: 07/19/2023] [Indexed: 08/13/2023] Open
Abstract
The comparative phylogeography of marine species with contrasting dispersal potential across the southern Caribbean Sea was evaluated by the presence of two putative barriers: the Magdalena River plume (MRP) and the combination of the absence of a rocky bottom and the almost permanent upwelling in the La Guajira Peninsula (ARB + PUG). Three species with varying biological and ecological characteristics (i.e., dispersal potentials) that inhabit shallow rocky bottoms were selected: Cittarium pica (PLD < 6 days), Acanthemblemaria rivasi (PLD < 22 days), and Nerita tessellata (PLD > 60 days). We generated a set of SNPs for the three species using the ddRad-seq technique. Samples of each species were collected in five locations from Capurganá to La Guajira. For the first time, evidence of a phylogeographic break caused by the MRP is provided, mainly for A. rivasi (AMOVA: ΦCT = 0.420). The ARB + PUG barrier causes another break for A. rivasi (ΦCT = 0.406) and C. pica (ΦCT = 0.224). Three populations (K = 3) were identified for A. rivasi and C. pica, while N. tessellata presented one population (K = 1). The Mantel correlogram indicated that A. rivasi and C. pica fit the hierarchical population model, and only the A. rivasi and C. pica comparisons showed phylogeographic congruence. Our results demonstrate how the biological traits of these three species and the biogeographic barriers have influenced their phylogeographic structure.
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Affiliation(s)
- Juan Carlos Narváez-Barandica
- Centro de Genética y Biología Molecular, Universidad del Magdalena, Carrera 32 No 22–08, Santa Marta 470004, Colombia; (J.C.A.-P.); (L.R.C.)
| | - Julián F. Quintero-Galvis
- Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile, Valdivia 5110566, Chile;
| | - Juan Carlos Aguirre-Pabón
- Centro de Genética y Biología Molecular, Universidad del Magdalena, Carrera 32 No 22–08, Santa Marta 470004, Colombia; (J.C.A.-P.); (L.R.C.)
| | - Lyda R. Castro
- Centro de Genética y Biología Molecular, Universidad del Magdalena, Carrera 32 No 22–08, Santa Marta 470004, Colombia; (J.C.A.-P.); (L.R.C.)
| | - Ricardo Betancur
- Biology Department, University of Oklahoma, Norman, OK 73019, USA;
| | - Arturo Acero Pizarro
- Instituto de Estudios en Ciencias del Mar (CECIMAR), Universidad Nacional de Colombia sede Caribe, Santa Marta 470006, Colombia;
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3
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Do Deep Mitochondrial DNA Divergences within Intertidal Gastropods Reveal Phylogeographic Signals from Earlier Glacial Cycles? DIVERSITY 2023. [DOI: 10.3390/d15030346] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/05/2023]
Abstract
Climatic cycles have frequently been hypothesised to influence the phylogeography of temperate marine organisms through such factors as hydrological changes and landbridge formation at glacial maxima. However, it is rarely considered whether observed phylogeographic patterns are predominantly influenced by the most recent cycle or those that preceded it. Whether high genetic divergences within intertidal taxa provide an opportunity to investigate such questions is studied here. Three southeastern Australian gastropod taxa that exhibit such divergence were studied, namely, Ascorhis tasmanica, Phallomedusa solida and the regions’ two species of the genus Nerita. Maximum likelihood phylogenetic analyses revealed bootstrap-supported clades within Nerita atramentosa, N. melanotragus and P. solida each of which may have been influenced by climatically induced isolation in previous glacial cycles. These clades are all now very widely distributed within the ranges of their respective species. The loss of variants resulting in the divergence of the haplotypes in the clades may be stochastic but was more likely due to selection, at least for P. solida. Ascorhis tasmanica was revealed to have a comparatively large number of sporadically distributed divergent groups; however, their evolution may have been more influenced by factors other than climate cycles.
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Colgan D, Lumsdaine H. Genetic assessment of the variation and distribution of the species of Salinator (Panpulmonata: Amphibolidae) in south-eastern Australia. Biodivers Data J 2020; 8:e54724. [PMID: 33199964 PMCID: PMC7644653 DOI: 10.3897/bdj.8.e54724] [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: 05/26/2020] [Accepted: 09/16/2020] [Indexed: 11/12/2022] Open
Abstract
Amphibolidae is one of the most abundant families of gastropods in estuarine environments of south-eastern Australia. However, the range limits of the species of Salinator, one of the family’s two genera in the region, remain unclear partly due to uncertainty of identifications based solely on shell morphology. Insufficient data have been collected to address questions regarding the genetic variability of any of the species of Salinator. Here, DNA sequences from a segment of the cytochrome c oxidase subunit I and 28S ribosomal RNA genes were collected to investigate the distribution and variation of the three Salinator species in the region, these being S.fragilis, S.rhamphidia and S.tecta. The results demonstrate a large range extension in S.rhamphidia and suggest that S.tecta may have limited distribution in Tasmania. In contrast to previously-studied estuarine Mollusca in the south-eastern coasts of the mainland and Tasmania, S.rhamphidia has regional differentiation. There is evidence of genetic disequilibrium within S.fragilis, suggesting that it may presently comprise contributions from two distinct sets of populations.
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Affiliation(s)
- Donald Colgan
- The Australian Museum, Sydney, Australia The Australian Museum Sydney Australia
| | - Hugo Lumsdaine
- The Australian Museum, Sydney, Australia The Australian Museum Sydney Australia
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5
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Abdou A, Lord C, Keith P, Galzin R. Phylogéographie de Neritina stumpffi Boettger, 1890 et Neritina canalis Sowerby, 1825 (Gastropoda, Cycloneritida, Neritidae). ZOOSYSTEMA 2019. [DOI: 10.5252/zoosystema2019v41a12] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Ahmed Abdou
- Unité Biologie des organismes et écosystèmes aquatiques (BOREA), Muséum national d'Histoire naturelle, Sorbonne Université, Université de Caen Normandie, Université des Antilles, CNRS, IRD, case postale 26, 57 rue Cuvier, F-75231 Paris cedex 05 (Fran
| | - Clara Lord
- Unité Biologie des organismes et écosystèmes aquatiques (BOREA), Muséum national d'Histoire naturelle, Sorbonne Université, Université de Caen Normandie, Université des Antilles, CNRS, IRD, case postale 26, 57 rue Cuvier, F-75231 Paris cedex 05 (Fran
| | - Philippe Keith
- Unité Biologie des organismes et écosystèmes aquatiques (BOREA), Muséum national d'Histoire naturelle, Sorbonne Université, Université de Caen Normandie, Université des Antilles, CNRS, IRD, case postale 26, 57 rue Cuvier, F-75231 Paris cedex 05 (Fran
| | - René Galzin
- Laboratoire d'excellence Corail, USR 3278 CNRS-EPHE-UPVD, Centre de Recherches insulaires et Observatoire de l'Environnement (CRIOBE), BP 1013 Papetoai, 98729 Moorea, Polynésie française (France)
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6
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Yıldırım Y, Anderson MJ, Hansson B, Patel S, Millar CD, Rainey PB. Genetic structure of the grey side-gilled sea slug (Pleurobranchaea maculata) in coastal waters of New Zealand. PLoS One 2018; 13:e0202197. [PMID: 30114275 PMCID: PMC6095540 DOI: 10.1371/journal.pone.0202197] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/25/2017] [Accepted: 07/30/2018] [Indexed: 01/09/2023] Open
Abstract
Pleurobranchaea maculata is a rarely studied species of the Heterobranchia found throughout the south and western Pacific-and recently recorded in Argentina-whose population genetic structure is unknown. Interest in the species was sparked in New Zealand following a series of dog deaths caused by ingestions of slugs containing high levels of the neurotoxin tetrodotoxin. Here we describe the genetic structure and demographic history of P. maculata populations from five principle locations in New Zealand based on extensive analyses of 12 microsatellite loci and the COI and CytB regions of mitochondrial DNA (mtDNA). Microsatellite data showed significant differentiation between northern and southern populations with population structure being associated with previously described regional variations in tetrodotoxin concentrations. However, mtDNA sequence data did not support such structure, revealing a star-shaped haplotype network with estimates of expansion time suggesting a population expansion in the Pleistocene era. Inclusion of publicly available mtDNA sequence sea slugs from Argentina did not alter the star-shaped network. We interpret our data as indicative of a single founding population that fragmented following geographical changes that brought about the present day north-south divide in New Zealand waters. Lack of evidence of cryptic species supports data indicating that differences in toxicity of individuals among regions are a consequence of differences in diet.
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Affiliation(s)
- Yeşerin Yıldırım
- New Zealand Institute for Advanced Study, Massey University, Auckland, New Zealand
| | - Marti J. Anderson
- New Zealand Institute for Advanced Study, Massey University, Auckland, New Zealand
- Institute of Natural and Mathematical Sciences, Massey University, Auckland, New Zealand
| | - Bengt Hansson
- Department of Biology, Lund University, Lund, Sweden
| | - Selina Patel
- School of Biological Sciences, University of Auckland, Auckland, New Zealand
| | - Craig D. Millar
- School of Biological Sciences, University of Auckland, Auckland, New Zealand
| | - Paul B. Rainey
- New Zealand Institute for Advanced Study, Massey University, Auckland, New Zealand
- Department of Microbial Population Biology, Max Planck Institute for Evolutionary Biology, Plön, Germany
- Ecole Supérieure de Physique et de Chimie Industrielles de la Ville de Paris (ESPCI ParisTech), CNRS UMR 8231, PSL Research University, Paris, France
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7
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Stubbs RL, Folk RA, Xiang CL, Soltis DE, Cellinese N. Pseudo-parallel patterns of disjunctions in an Arctic-alpine plant lineage. Mol Phylogenet Evol 2018; 123:88-100. [DOI: 10.1016/j.ympev.2018.02.016] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2017] [Revised: 02/10/2018] [Accepted: 02/15/2018] [Indexed: 12/22/2022]
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8
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Visser JH, Bennett NC, Jansen van Vuuren B. Local and regional scale genetic variation in the Cape dune mole-rat, Bathyergus suillus. PLoS One 2014; 9:e107226. [PMID: 25229558 PMCID: PMC4167993 DOI: 10.1371/journal.pone.0107226] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2014] [Accepted: 08/14/2014] [Indexed: 11/18/2022] Open
Abstract
The distribution of genetic variation is determined through the interaction of life history, morphology and habitat specificity of a species in conjunction with landscape structure. While numerous studies have investigated this interplay of factors in species inhabiting aquatic, riverine, terrestrial, arboreal and saxicolous systems, the fossorial system has remained largely unexplored. In this study we attempt to elucidate the impacts of a subterranean lifestyle coupled with a heterogeneous landscape on genetic partitioning by using a subterranean mammal species, the Cape dune mole-rat (Bathyergus suillus), as our model. Bathyergus suillus is one of a few mammal species endemic to the Cape Floristic Region (CFR) of the Western Cape of South Africa. Its distribution is fragmented by rivers and mountains; both geographic phenomena that may act as geographical barriers to gene-flow. Using two mitochondrial fragments (cytochrome b and control region) as well as nine microsatellite loci, we determined the phylogeographic structure and gene-flow patterns at two different spatial scales (local and regional). Furthermore, we investigated genetic differentiation between populations and applied Bayesian clustering and assignment approaches to our data. Nearly every population formed a genetically unique entity with significant genetic structure evident across geographic barriers such as rivers (Berg, Verlorenvlei, Breede and Gourits Rivers), mountains (Piketberg and Hottentots Holland Mountains) and with geographic distance at both spatial scales. Surprisingly, B. suillus was found to be paraphyletic with respect to its sister species, B. janetta-a result largely overlooked by previous studies on these taxa. A systematic revision of the genus Bathyergus is therefore necessary. This study provides a valuable insight into how the biology, life-history and habitat specificity of animals inhabiting a fossorial system may act in concert with the structure of the surrounding landscape to influence genetic distinctiveness and ultimately speciation.
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Affiliation(s)
- Jacobus H. Visser
- Department of Zoology, University of Johannesburg, Auckland Park, South Africa
| | - Nigel C. Bennett
- Mammal Research Institute, Department of Zoology and Entomology, University of Pretoria, Pretoria, South Africa
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9
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Naughton K, O’Hara T, Appleton B, Cisternas P. Antitropical distributions and species delimitation in a group of ophiocomid brittle stars (Echinodermata: Ophiuroidea: Ophiocomidae). Mol Phylogenet Evol 2014; 78:232-44. [DOI: 10.1016/j.ympev.2014.05.020] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2013] [Revised: 05/06/2014] [Accepted: 05/14/2014] [Indexed: 10/25/2022]
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10
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Amin S, Prentis PJ, Gilding EK, Pavasovic A. Assembly and annotation of a non-model gastropod (Nerita melanotragus) transcriptome: a comparison of de novo assemblers. BMC Res Notes 2014; 7:488. [PMID: 25084827 PMCID: PMC4124492 DOI: 10.1186/1756-0500-7-488] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2014] [Accepted: 07/25/2014] [Indexed: 01/22/2023] Open
Abstract
Background The sequencing, de novo assembly and annotation of transcriptome datasets generated with next generation sequencing (NGS) has enabled biologists to answer genomic questions in non-model species with unprecedented ease. Reliable and accurate de novo assembly and annotation of transcriptomes, however, is a critically important step for transcriptome assemblies generated from short read sequences. Typical benchmarks for assembly and annotation reliability have been performed with model species. To address the reliability and accuracy of de novo transcriptome assembly in non-model species, we generated an RNAseq dataset for an intertidal gastropod mollusc species, Nerita melanotragus, and compared the assembly produced by four different de novo transcriptome assemblers; Velvet, Oases, Geneious and Trinity, for a number of quality metrics and redundancy. Results Transcriptome sequencing on the Ion Torrent PGM™ produced 1,883,624 raw reads with a mean length of 133 base pairs (bp). Both the Trinity and Oases de novo assemblers produced the best assemblies based on all quality metrics including fewer contigs, increased N50 and average contig length and contigs of greater length. Overall the BLAST and annotation success of our assemblies was not high with only 15-19% of contigs assigned a putative function. Conclusions We believe that any improvement in annotation success of gastropod species will require more gastropod genome sequences, but in particular an increase in mollusc protein sequences in public databases. Overall, this paper demonstrates that reliable and accurate de novo transcriptome assemblies can be generated from short read sequencers with the right assembly algorithms.
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Affiliation(s)
| | | | | | - Ana Pavasovic
- School of Biomedical Sciences, Faculty of Health, Queensland University of Technology, GPO Box 2434, Brisbane, Qld 4001, Australia.
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11
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Amor MD, Norman MD, Cameron HE, Strugnell JM. Allopatric speciation within a cryptic species complex of Australasian octopuses. PLoS One 2014; 9:e98982. [PMID: 24964133 PMCID: PMC4070898 DOI: 10.1371/journal.pone.0098982] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2013] [Accepted: 05/09/2014] [Indexed: 11/18/2022] Open
Abstract
Despite extensive revisions over recent decades, the taxonomy of benthic octopuses (Family Octopodidae) remains in a considerable flux. Among groups of unresolved status is a species complex of morphologically similar shallow-water octopods from subtropical Australasia, including: Allopatric populations of Octopus tetricus on the eastern and western coasts of Australia, of which the Western Australian form is speculated to be a distinct or sub-species; and Octopus gibbsi from New Zealand, a proposed synonym of Australian forms. This study employed a combination of molecular and morphological techniques to resolve the taxonomic status of the ‘tetricus complex’. Phylogenetic analyses (based on five mitochondrial genes: 12S rRNA, 16S rRNA, COI, COIII and Cytb) and Generalised Mixed Yule Coalescent (GMYC) analysis (based on COI, COIII and Cytb) distinguished eastern and Western Australian O. tetricus as distinct species, while O. gibbsi was found to be synonymous with the east Australian form (BS = >97, PP = 1; GMYC p = 0.01). Discrete morphological differences in mature male octopuses (based on sixteen morphological traits) provided further evidence of cryptic speciation between east (including New Zealand) and west coast populations; although females proved less useful in morphological distinction among members of the tetricus complex. In addition, phylogenetic analyses suggested populations of octopuses currently treated under the name Octopus vulgaris are paraphyletic; providing evidence of cryptic speciation among global populations of O. vulgaris, the most commercially valuable octopus species worldwide.
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Affiliation(s)
- Michael D. Amor
- Genetics Department, La Trobe Institute for Molecular Science, La Trobe University, Bundoora, Victoria, Australia
- Science Department, Museum Victoria, Carlton, Victoria, Australia
- * E-mail:
| | - Mark D. Norman
- Science Department, Museum Victoria, Carlton, Victoria, Australia
| | - Hayley E. Cameron
- School of Biological Sciences, Monash University, Clayton, Victoria, Australia
| | - Jan M. Strugnell
- Genetics Department, La Trobe Institute for Molecular Science, La Trobe University, Bundoora, Victoria, Australia
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12
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Naughton KM, O'Hara TD, Appleton B, Gardner MG. Sympatric cryptic species in the crinoid genus Cenolia (Echinodermata: Crinoidea: Comasteridae) delineated by sequence and microsatellite markers. Mol Phylogenet Evol 2014; 78:160-71. [PMID: 24862222 DOI: 10.1016/j.ympev.2014.05.006] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2014] [Revised: 04/29/2014] [Accepted: 05/05/2014] [Indexed: 11/15/2022]
Abstract
The marine species of the southern coast of Australia have not been well studied with regard to molecular connectivity. Cryptic species are expected to be prevalent on this coastline. Here, we investigate the crinoid genus Cenolia (Echinodermata: Crinoidea: Comasteridae) using molecular methods to elucidate cryptic species and phylogenetic relationships. The genus Cenolia dominates the southern Australian crinoid fauna in shallow waters. Few studies have examined crinoids for cryptic species at a molecular level and these have been predominantly based on mitochondrial data. We employ the nuclear markers 28S rRNA and ITS-2 in addition to the mitochondrial COI. Six divergent mitochondrial clades were identified. Gene flow between confirmed clades was subsequently examined by the use of six novel microsatellite markers, showing that sympatric taxa with low mtDNA divergences (1.7% K2P) were not interbreeding in the wild. The type specimens of Cenolia benhami and C. spanoschistum were examined, as well as all six divergent clades. Morphological characters dividing taxa were refined. Due to comb pinnule morphology, the New Zealand species benhami was determined to belong to the genus Oxycomanthus (nov. comb.). Three new species of Cenolia (including the Australian "benhami") require description.
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Affiliation(s)
- K M Naughton
- Sciences, Museum Victoria, GPO Box 666, Melbourne, Victoria 3000, Australia; Department of Genetics, Faculty of Science, University of Melbourne, Parkville, Victoria 3010, Australia.
| | - T D O'Hara
- Sciences, Museum Victoria, GPO Box 666, Melbourne, Victoria 3000, Australia
| | - B Appleton
- Department of Genetics, Faculty of Science, University of Melbourne, Parkville, Victoria 3010, Australia
| | - M G Gardner
- School of Biological Sciences, Flinders University, GPO Box 2100, Adelaide 5001, South Australia, Australia; Evolutionary Biology Unit, South Australian Museum, North Terrace, Adelaide 5000, South Australia, Australia
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13
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Postaire B, Bruggemann JH, Magalon H, Faure B. Evolutionary dynamics in the southwest Indian ocean marine biodiversity hotspot: a perspective from the rocky shore gastropod genus Nerita. PLoS One 2014; 9:e95040. [PMID: 24736639 PMCID: PMC3988148 DOI: 10.1371/journal.pone.0095040] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2013] [Accepted: 03/22/2014] [Indexed: 01/14/2023] Open
Abstract
The Southwest Indian Ocean (SWIO) is a striking marine biodiversity hotspot. Coral reefs in this region host a high proportion of endemics compared to total species richness and they are particularly threatened by human activities. The island archipelagos with their diverse marine habitats constitute a natural laboratory for studying diversification processes. Rocky shores in the SWIO region have remained understudied. This habitat presents a high diversity of molluscs, in particular gastropods. To explore the role of climatic and geological factors in lineage diversification within the genus Nerita, we constructed a new phylogeny with an associated chronogram from two mitochondrial genes [cytochrome oxidase sub-unit 1 and 16S rRNA], combining previously published and new data from eight species sampled throughout the region. All species from the SWIO originated less than 20 Ma ago, their closest extant relatives living in the Indo-Australian Archipelago (IAA). Furthermore, the SWIO clades within species with Indo-Pacific distribution ranges are quite recent, less than 5 Ma. These results suggest that the regional diversification of Nerita is closely linked to tectonic events in the SWIO region. The Reunion mantle plume head reached Earth's surface 67 Ma and has been stable and active since then, generating island archipelagos, some of which are partly below sea level today. Since the Miocene, sea-level fluctuations have intermittently created new rocky shore habitats. These represent ephemeral stepping-stones, which have likely facilitated repeated colonization by intertidal gastropods, like Nerita populations from the IAA, leading to allopatric speciation. This highlights the importance of taking into account past climatic and geological factors when studying diversification of highly dispersive tropical marine species. It also underlines the unique history of the marine biodiversity of the SWIO region.
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Affiliation(s)
- Bautisse Postaire
- Laboratoire d’ECOlogie MARine, Université de la Réunion, FRE3560 INEE-CNRS, Saint Denis, La Réunion, France
- Labex CORAIL, Perpignan, France
| | - J. Henrich Bruggemann
- Laboratoire d’ECOlogie MARine, Université de la Réunion, FRE3560 INEE-CNRS, Saint Denis, La Réunion, France
- Labex CORAIL, Perpignan, France
| | - Hélène Magalon
- Laboratoire d’ECOlogie MARine, Université de la Réunion, FRE3560 INEE-CNRS, Saint Denis, La Réunion, France
- Labex CORAIL, Perpignan, France
| | - Baptiste Faure
- Laboratoire d’ECOlogie MARine, Université de la Réunion, FRE3560 INEE-CNRS, Saint Denis, La Réunion, France
- Biotope, Service Recherche et Développement, Mèze, France
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14
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Golding RE. Molecular phylogeny and systematics of Australian and East Timorese Stenothyridae (Caenogastropoda: Truncatelloidea). MOLLUSCAN RESEARCH 2014. [DOI: 10.1080/13235818.2014.888969] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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15
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Haye PA, Segovia NI, Muñoz-Herrera NC, Gálvez FE, Martínez A, Meynard A, Pardo-Gandarillas MC, Poulin E, Faugeron S. Phylogeographic structure in benthic marine invertebrates of the southeast Pacific coast of Chile with differing dispersal potential. PLoS One 2014; 9:e88613. [PMID: 24586356 PMCID: PMC3929388 DOI: 10.1371/journal.pone.0088613] [Citation(s) in RCA: 68] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/06/2012] [Accepted: 01/15/2014] [Indexed: 11/18/2022] Open
Abstract
The role of dispersal potential on phylogeographic structure, evidenced by the degree of genetic structure and the presence of coincident genetic and biogeographic breaks, was evaluated in a macrogeographic comparative approach along the north-central coast of Chile, across the biogeographic transition zone at 30°S. Using 2,217 partial sequences of the mitochondrial Cytochrome Oxidase I gene of eight benthic invertebrate species along ca. 2,600 km of coast, we contrasted dispersal potential with genetic structure and determined the concordance between genetic divergence between biogeographic regions and the biogeographic transition zone at 30°S. Genetic diversity and differentiation highly differed between species with high and low dispersal potential. Dispersal potential, sometimes together with biogeographic region, was the factor that best explained the genetic structure of the eight species. The three low dispersal species, and one species assigned to the high dispersal category, had a phylogeographic discontinuity coincident with the biogeographic transition zone at 30°S. Furthermore, coalescent analyses based on the isolation-with-migration model validate that the split between biogeographic regions north and south of 30°S has a historic origin. The signatures of the historic break in high dispersers is parsimoniously explained by the homogenizing effects of gene flow that have erased the genetic signatures, if ever existed, in high dispersers. Of the four species with structure across the break, only two had significant albeit very low levels of asymmetric migration across the transition zone. Historic processes have led to the current biogeographic and phylogeographic structure of marine species with limited dispersal along the north-central coast of Chile, with a strong lasting impact in their genetic structure.
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Affiliation(s)
- Pilar A. Haye
- Laboratorio de Diversidad Molecular, Departamento de Biología Marina, Facultad de Ciencias del Mar, Universidad Católica del Norte & Centro de Estudios Avanzados en Zonas Áridas (CEAZA), Coquimbo, Chile
- Interdisciplinary Center for Aquaculture Research (INCAR), Universidad de Concepción, Concepción, Chile
| | - Nicolás I. Segovia
- Laboratorio de Diversidad Molecular, Departamento de Biología Marina, Facultad de Ciencias del Mar, Universidad Católica del Norte & Centro de Estudios Avanzados en Zonas Áridas (CEAZA), Coquimbo, Chile
- Instituto de Ecología y Biodiversidad, Departamento de Ciencias Ecológicas, Universidad de Chile, Santiago, Chile
| | - Natalia C. Muñoz-Herrera
- Laboratorio de Diversidad Molecular, Departamento de Biología Marina, Facultad de Ciencias del Mar, Universidad Católica del Norte & Centro de Estudios Avanzados en Zonas Áridas (CEAZA), Coquimbo, Chile
- Interdisciplinary Center for Aquaculture Research (INCAR), Universidad de Concepción, Concepción, Chile
| | - Francisca E. Gálvez
- Laboratorio de Diversidad Molecular, Departamento de Biología Marina, Facultad de Ciencias del Mar, Universidad Católica del Norte & Centro de Estudios Avanzados en Zonas Áridas (CEAZA), Coquimbo, Chile
| | - Andrea Martínez
- Instituto de Ecología y Biodiversidad, Departamento de Ciencias Ecológicas, Universidad de Chile, Santiago, Chile
| | - Andrés Meynard
- Centro de Conservación Marina, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - María C. Pardo-Gandarillas
- Instituto de Ecología y Biodiversidad, Departamento de Ciencias Ecológicas, Universidad de Chile, Santiago, Chile
- Centro de Conservación Marina, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile
| | - Elie Poulin
- Instituto de Ecología y Biodiversidad, Departamento de Ciencias Ecológicas, Universidad de Chile, Santiago, Chile
| | - Sylvain Faugeron
- Centro de Conservación Marina, Facultad de Ciencias Biológicas, Pontificia Universidad Católica de Chile, Santiago, Chile
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Miller AD, Versace VL, Matthews TG, Montgomery S, Bowie KC. Ocean currents influence the genetic structure of an intertidal mollusc in southeastern Australia - implications for predicting the movement of passive dispersers across a marine biogeographic barrier. Ecol Evol 2013; 3:1248-61. [PMID: 23762511 PMCID: PMC3678479 DOI: 10.1002/ece3.535] [Citation(s) in RCA: 45] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2013] [Accepted: 02/14/2013] [Indexed: 12/04/2022] Open
Abstract
Major disjunctions among marine communities in southeastern Australia have been well documented, although explanations for biogeographic structuring remain uncertain. Converging ocean currents, environmental gradients, and habitat discontinuities have been hypothesized as likely drivers of structuring in many species, although the extent to which species are affected appears largely dependent on specific life histories and ecologies. Understanding these relationships is critical to the management of native and invasive species, and the preservation of evolutionary processes that shape biodiversity in this region. In this study we test the direct influence of ocean currents on the genetic structure of a passive disperser across a major biogeographic barrier. Donax deltoides (Veneroida: Donacidae) is an intertidal, soft-sediment mollusc and an ideal surrogate for testing this relationship, given its lack of habitat constraints in this region, and its immense dispersal potential driven by year-long spawning and long-lived planktonic larvae. We assessed allele frequencies at 10 polymorphic microsatellite loci across 11 sample locations spanning the barrier region and identified genetic structure consistent with the major ocean currents of southeastern Australia. Analysis of mitochondrial DNA sequence data indicated no evidence of genetic structuring, but signatures of a species range expansion corresponding with historical inundations of the Bassian Isthmus. Our results indicate that ocean currents are likely to be the most influential factor affecting the genetic structure of D. deltoides and a likely physical barrier for passive dispersing marine fauna generally in southeastern Australia.
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Affiliation(s)
- Adam D Miller
- Department of Zoology, The University of Melbourne Parkville, Melbourne, Victoria, 3010, Australia ; School of Life and Environmental Sciences, Deakin University Warrnambool, Victoria, 3280, Australia
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17
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Li J, Foighil DO, Park JK. Triton's trident: cryptic Neogene divergences in a marine clam (Lasaea australis) correspond to Australia's three temperate biogeographic provinces. Mol Ecol 2013; 22:1933-46. [PMID: 23379611 DOI: 10.1111/mec.12220] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/22/2012] [Revised: 12/14/2012] [Accepted: 12/18/2012] [Indexed: 11/27/2022]
Abstract
The southern coast of Australia is composed of three distinct biogeographic provinces distinguished primarily by intertidal community composition. Several ecological mechanisms have been proposed to explain their formation and persistence, but no consensus has been reached. The marine clam Lasaea australis is arguably the most common bivalve on southern Australian rocky shores and occurs in all three provinces. Here, we tested if this species exhibits cryptic genetic structuring corresponding to the provinces and if so, what mechanisms potentially drove its divergence. Variation in two mitochondrial genes (16S and COIII) and one nuclear gene (ITS2) was assayed to test for genetic structuring and to reconstruct the clam's phylogenetic history. Our results showed that L. australis is comprised of three cryptic mitochondrial clades, each corresponding almost perfectly to one of the three biogeographic provinces. Divergence time estimates place their cladogenesis in the Neogene. The trident-like topology and Neogene time frame of L. australis cladogenesis are incongruent with Quaternary vicariance predictions: a two-clade topology produced by Pleistocene Bass Strait land bridge formation. We hypothesize that the interaction of the Middle Miocene Climate Transition with the specific geography of the southern coastline of Australia was the primary cladogenic driver in this clam lineage. Additional in-depth studies of the endemic southern Australian marine biota across all three provinces are needed to establish the generality of this proposed older framework for regional cladogenesis.
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Affiliation(s)
- Jingchun Li
- Museum of Zoology, Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI 48109, USA.
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18
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Waters JM, Fraser CI, Hewitt GM. Founder takes all: density-dependent processes structure biodiversity. Trends Ecol Evol 2013; 28:78-85. [PMID: 23000431 DOI: 10.1016/j.tree.2012.08.024] [Citation(s) in RCA: 223] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2012] [Revised: 08/23/2012] [Accepted: 08/24/2012] [Indexed: 01/01/2023]
Abstract
Density-dependent processes play a key role in the spatial structuring of biodiversity. Specifically, interrelated demographic processes, such as gene surfing, high-density blocking, and competitive exclusion, can generate striking geographic contrasts in the distributions of genes and species. Here, we propose that well-studied evolutionary and ecological biogeographic patterns of postglacial recolonization, progressive island colonization, microbial sectoring, and even the 'Out of Africa' pattern of human expansion, are fundamentally similar, underpinned by a 'founder takes all' density-dependent principle. Additionally, we hypothesize that older historic constraints of density-dependent processes are seen today in the dramatic biogeographic shifts that occur in response to human-mediated extinction events, whereby surviving lineages rapidly expand their ranges to replace extinct sister taxa.
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Affiliation(s)
- Jonathan M Waters
- Allan Wilson Centre for Molecular Ecology and Evolution, Department of Zoology, University of Otago, 340 Great King Street, Dunedin 9016, New Zealand.
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19
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Madeira C, Alves MJ, Mesquita N, Silva SE, Paula J. Tracing geographical patterns of population differentiation in a widespread mangrove gastropod: genetic and geometric morphometrics surveys along the eastern African coast. Biol J Linn Soc Lond 2012. [DOI: 10.1111/j.1095-8312.2012.01967.x] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Carolina Madeira
- Centro de Oceanografia; Laboratório Marítimo da Guia; Faculdade de Ciências da Universidade de Lisboa; Avenida Nossa Senhora do Cabo 939 2750-374 Cascais Portugal
- Museu Nacional de História Natural e da Ciência; Universidade de Lisboa; Rua da Escola Politécnica 56/58 1250-102 Lisboa Portugal
| | - Maria Judite Alves
- Museu Nacional de História Natural e da Ciência; Universidade de Lisboa; Rua da Escola Politécnica 56/58 1250-102 Lisboa Portugal
- Centro de Biologia Ambiental; Faculdade de Ciências da Universidade de Lisboa; Campo Grande 1749-016 Lisboa Portugal
| | - Natacha Mesquita
- Museu Nacional de História Natural e da Ciência; Universidade de Lisboa; Rua da Escola Politécnica 56/58 1250-102 Lisboa Portugal
- Centro de Biologia Ambiental; Faculdade de Ciências da Universidade de Lisboa; Campo Grande 1749-016 Lisboa Portugal
| | - Sara Ema Silva
- Centro de Biologia Ambiental; Faculdade de Ciências da Universidade de Lisboa; Campo Grande 1749-016 Lisboa Portugal
| | - José Paula
- Centro de Oceanografia; Laboratório Marítimo da Guia; Faculdade de Ciências da Universidade de Lisboa; Avenida Nossa Senhora do Cabo 939 2750-374 Cascais Portugal
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Isolation and characterization of microsatellite markers for the marine black nerite Nerita atramentosa: tools for assessment and design of marine protected areas. CONSERV GENET RESOUR 2012. [DOI: 10.1007/s12686-012-9608-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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21
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Abstract
Present-day phylogeographic patterns have been shaped by the dual histories of lineages and places, producing a diversity of relationships that may challenge discovery of general rules. For example, the predicted positive correlation between dispersal ability and gene flow has been supported inconsistently, suggesting unaccounted complexity in theory or the comparative framework. Here, I extend the sympatric sister-species approach, in which variance between lineages and places is minimized, to sister clades and test a fundamental assumption of comparative genetic studies of dispersal: that taxa which evolved at the same time and in the same place will, if they have similar life histories and ecologies, have essentially the same phylogeographic structure. Phylogenetic analyses of 197 Stigmatopora pipefishes using two nuclear (creatine kinase intron 6, α-tropomyosin) and two mitochondrial (16S, noncoding region) loci revealed largely synchronous parallel diversification of sister clades that are codistributed from Western Australia to New Zealand, supporting the null hypothesis. Only one comparison, however, yielded a sympatric sister-species pair (the two stem species), so I also explored the potential for extant species sharing a substantial proportion of their evolutionary histories in sympatry to substitute for sister taxon comparisons. In eastern Australia, where strong environmental structure is lacking, phylogeographic differences between species that have been codistributed for ~85% of their evolutionary histories were consistent with tendencies favoured by their modest life-history differences, that is the larger, rarer species had lower genetic diversity. In contrast, in New Zealand, two species codistributed for ~70% of their evolutionary histories were both structured similarly by a strong biogeographic filter despite differences in life history. Rigorously quantifying the influence of intrinsic and extrinsic factors on phylogeographic structure may advance most efficiently through meta-analyses of contemporaneously codistributed taxa, including but not limited to sympatric sister species.
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Affiliation(s)
- Michael N Dawson
- School of Natural Sciences, University of California at Merced, Merced, CA 95343, USA.
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22
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Long-distance dispersal: a framework for hypothesis testing. Trends Ecol Evol 2012; 27:47-56. [DOI: 10.1016/j.tree.2011.08.009] [Citation(s) in RCA: 386] [Impact Index Per Article: 32.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2011] [Revised: 08/29/2011] [Accepted: 08/30/2011] [Indexed: 11/20/2022]
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23
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Shaddick K, Burridge CP, Jerry DR, Schwartz TS, Truong K, Gilligan DM, Beheregaray LB. A hybrid zone and bidirectional introgression between two catadromous species: Australian bass Macquaria novemaculeata and estuary perch Macquaria colonorum. JOURNAL OF FISH BIOLOGY 2011; 79:1214-1235. [PMID: 22026603 DOI: 10.1111/j.1095-8649.2011.03105.x] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
The presence and distribution of hybrid individuals and the existence of a hybrid zone between the catadromous Australian bass Macquaria novemaculeata and estuary perch Macquaria colonorum were investigated throughout the range of both species in Australia. Bayesian analyses and genotypic simulations identified 140 putative hybrids (11·5% of the total sample) with varying levels of introgression. Most hybrids were observed in an area extending from the Snowy River to the Albert River suggesting a hybrid zone in the eastern Bass Strait region. Sixteen hybrids, however, were found outside this zone, possibly reflecting the movement of hybrid offspring between estuaries or their inadvertent release during fish stocking programmes. Biparental backcrossing was found to occur suggesting that hybrids were fertile. These results have implications for the management of the extensive stocking programme in M. novemaculeata and for understanding the potential role of habitat degradation and reduced water flow in facilitating hybridization in species with migratory life histories.
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Affiliation(s)
- K Shaddick
- Molecular Ecology Lab., Department of Biological Sciences, Macquarie University, Sydney, NSW 2109, Australia
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24
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Teske PR, Papadopoulos I, Mmonwa KL, Matumba TG, McQuaid CD, Barker NP, Beheregaray LB. Climate-driven genetic divergence of limpets with different life histories across a southeast African marine biogeographic disjunction: different processes, same outcome. Mol Ecol 2011; 20:5025-41. [PMID: 22017655 DOI: 10.1111/j.1365-294x.2011.05307.x] [Citation(s) in RCA: 36] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Genetic divergence among populations of marine broadcast spawners in the absence of past geological barriers presents an intriguing challenge to understanding speciation in the sea. To determine how differences in life history affect genetic divergence and demographic histories across incomplete dispersal barriers, we conducted a comparative phylogeographic study of three intertidal limpets (Siphonaria spp.) represented on either side of a biogeographic disjunction separating tropical and subtropical marine provinces in southeastern Africa. Using a combination of mitochondrial and nuclear sequence data, we identified two distinct evolutionary lineages each in both Siphonaria concinna (a planktonic disperser) and S. nigerrima (a direct developer), and panmixia in a second planktonic disperser, S. capensis. Although phylogeographic breaks were present in two species, how these became established differed depending on their life histories. In the direct developer, lack of gene flow following divergence, and demographic expansion from a small initial size in the species' subtropical population, point to a single colonisation event. In contrast, the evolutionary lineages of the planktonic disperser split into two genetic lineages with much larger initial population sizes and southward gene flow continued at least periodically, indicating that divergence in this species may have been driven by a combination of reduced larval dispersal and divergent selection. These findings help explain why the presence or absence of phylogeographic breaks often appears to be independent of species' dispersal potential.
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Affiliation(s)
- Peter R Teske
- Department of Zoology and Entomology, Rhodes University, Grahamstown 6140, South Africa.
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25
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26
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COULSON LAURAA, PERRIN CECILE, ROBERTS DAVIDG, MINCHINTON TODDE, AYRE DAVIDJ. Can limited dispersal or biotic interaction explain the declining abundance of the whelk, Morula marginalba, at the edge of its range? Biol J Linn Soc Lond 2011. [DOI: 10.1111/j.1095-8312.2011.01676.x] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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Chapple DG, Hoskin CJ, Chapple SNJ, Thompson MB. Phylogeographic divergence in the widespread delicate skink (Lampropholis delicata) corresponds to dry habitat barriers in eastern Australia. BMC Evol Biol 2011; 11:191. [PMID: 21726459 PMCID: PMC3141439 DOI: 10.1186/1471-2148-11-191] [Citation(s) in RCA: 78] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2011] [Accepted: 07/04/2011] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND The mesic habitats of eastern Australia harbour a highly diverse fauna. We examined the impact of climatic oscillations and recognised biogeographic barriers on the evolutionary history of the delicate skink (Lampropholis delicata), a species that occurs in moist habitats throughout eastern Australia. The delicate skink is a common and widespread species whose distribution spans 26° of latitude and nine major biogeographic barriers in eastern Australia. Sequence data were obtained from four mitochondrial genes (ND2, ND4, 12SrRNA, 16SrRNA) for 238 individuals from 120 populations across the entire native distribution of the species. The evolutionary history and diversification of the delicate skink was investigated using a range of phylogenetic (Maximum Likelihood, Bayesian) and phylogeographic analyses (genetic diversity, ΦST, AMOVA, Tajima's D, Fu's F statistic). RESULTS Nine geographically structured, genetically divergent clades were identified within the delicate skink. The main clades diverged during the late Miocene-Pliocene, coinciding with the decline and fragmentation of rainforest and other wet forest habitats in eastern Australia. Most of the phylogeographic breaks within the delicate skink were concordant with dry habitat or high elevation barriers, including several recognised biogeographic barriers in eastern Australia (Burdekin Gap, St Lawrence Gap, McPherson Range, Hunter Valley, southern New South Wales). Genetically divergent populations were also located in high elevation topographic isolates inland from the main range of L. delicata (Kroombit Tops, Blackdown Tablelands, Coolah Tops). The species colonised South Australia from southern New South Wales via an inland route, possibly along the Murray River system. There is evidence for recent expansion of the species range across eastern Victoria and into Tasmania, via the Bassian Isthmus, during the late Pleistocene. CONCLUSIONS The delicate skink is a single widespread, but genetically variable, species. This study provides the first detailed phylogeographic investigation of a widespread species whose distribution spans virtually all of the major biogeographic barriers in eastern Australia.
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Affiliation(s)
- David G Chapple
- School of Biological Sciences, Monash University, Clayton, Victoria 3800, Australia.
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28
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Williams S, Apte D, Ozawa T, Kaligis F, Nakano T. SPECIATION AND DISPERSAL ALONG CONTINENTAL COASTLINES AND ISLAND ARCS IN THE INDO-WEST PACIFIC TURBINID GASTROPOD GENUSLUNELLA. Evolution 2011; 65:1752-71. [DOI: 10.1111/j.1558-5646.2011.01255.x] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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29
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Stelbrink B, von Rintelen T, Cliff G, Kriwet J. Molecular systematics and global phylogeography of angel sharks (genus Squatina). Mol Phylogenet Evol 2010; 54:395-404. [DOI: 10.1016/j.ympev.2009.07.029] [Citation(s) in RCA: 33] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2009] [Accepted: 07/20/2009] [Indexed: 10/20/2022]
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30
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Roberts DG, Gray CA, West RJ, Ayre DJ. Marine genetic swamping: hybrids replace an obligately estuarine fish. Mol Ecol 2010; 19:508-20. [PMID: 20070520 DOI: 10.1111/j.1365-294x.2009.04501.x] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- David G Roberts
- School of Biological Sciences, Institute for Conservation Biology and Environmental Management, University of Wollongong, Wollongong, NSW 2522, Australia.
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31
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Lancaster ML, Arnould JPY, Kirkwood R. Genetic status of an endemic marine mammal, the Australian fur seal, following historical harvesting. Anim Conserv 2009. [DOI: 10.1111/j.1469-1795.2009.00325.x] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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32
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SILVA INÊSC, MESQUITA NATACHA, PAULA JOSÉ. Genetic and morphological differentiation of the mangrove crab Perisesarma guttatum (Brachyura: Sesarmidae) along an East African latitudinal gradient. Biol J Linn Soc Lond 2009. [DOI: 10.1111/j.1095-8312.2009.01338.x] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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33
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Environmental and social influences on the genetic structure of bottlenose dolphins (Tursiops aduncus) in Southeastern Australia. CONSERV GENET 2009. [DOI: 10.1007/s10592-009-9968-z] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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35
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Fraser CI, Spencer HG, Waters JM. Glacial oceanographic contrasts explain phylogeography of Australian bull kelp. Mol Ecol 2009; 18:2287-96. [PMID: 19389161 DOI: 10.1111/j.1365-294x.2009.04201.x] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2024]
Abstract
The evolutionary effects of Southern Hemisphere Pleistocene oceanographic conditions - marked by fluctuations in sea levels and water temperatures, and redirected currents - are poorly understood. The southeastern tip of Australia presents an intriguing model system for studying the biological impacts of palaeoceanography. In particular, contrasting oceanographic conditions that existed on eastern vs. western sides of the Bassian Isthmus during Pleistocene glacial periods allow for natural comparisons between putative refugial vs. re-invading populations. Whereas many western Tasmanian marine taxa were likely eliminated by cold subantarctic water during the last glacial period, eastern Tasmanian populations would have persisted in relatively warm temperatures mediated by the ongoing influence of the East Australian Current (EAC). Here we test for the effects of contrasting palaeoceanographic conditions on endemic bull kelp, Durvillaea potatorum, using DNA sequence analysis (COI; rbcL) of more than 100 individuals from 14 localities in southeastern Australia. Phylogenetic reconstructions reveal a deep (maximum divergence 4.7%) genetic split within D. potatorum, corresponding to the 'eastern' and 'western' geographical regions delimited by the Bassian Isthmus, a vicariant barrier during low Pleistocene sea levels. Concordant with the western region's cold glacial conditions, samples from western Tasmania and western Victoria are genetically monomorphic, suggesting postglacial expansion from a mainland refugium. Eastern samples, in contrast, comprise distinct regional haplogroups, suggesting the species persisted in eastern Tasmania throughout recent glacial periods. The deep east-west divergence seems consistent with earlier reports of morphological differences between 'western' and 'eastern' D. potatorum, and it seems likely that these forms represent reproductively isolated species.
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Affiliation(s)
- Ceridwen I Fraser
- Allan Wilson Centre for Molecular Ecology and Evolution, Department of Zoology, University of Otago, Dunedin, New Zealand.
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36
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Ayre DJ, Minchinton TE, Perrin C. Does life history predict past and current connectivity for rocky intertidal invertebrates across a marine biogeographic barrier? Mol Ecol 2009; 18:1887-1903. [PMID: 19434808 DOI: 10.1111/j.1365-294x.2009.04127.x] [Citation(s) in RCA: 94] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- D J Ayre
- Institute for Conservation Biology and School of Biological Sciences, University of Wollongong, NSW, Australia
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Halt MN, Kupriyanova EK, Cooper SJB, Rouse GW. Naming species with no morphological indicators: species status of Galeolaria caespitosa (Annelida:Serpulidae) inferred from nuclear and mitochondrial gene sequences and morphology. INVERTEBR SYST 2009. [DOI: 10.1071/is09003] [Citation(s) in RCA: 43] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Galeolaria caespitosa Lamarck, 1818 is an endemic, gregarious serpulid annelid, ubiquitous along the intertidal zone of southern Australia, occurring from Queensland to Western Australia. We sampled specimens across this range and utilised morphological features and sequences of mitochondrial (cytochrome-b) and nuclear (ITS2) markers to assess the taxonomic status of this morphospecies. No taxonomically significant morphological differences were observed across the range of G. caespitosa. However, the molecular data revealed the existence of the following two well supported clades that were also geographically concordant for the two markers: an eastern clade, consisting of New South Wales and southern Queensland samples, and a south-western group that encompassed samples from the rest of its range. The minimum pairwise distance between members of the two groups was more than 24% for cytochrome-b, with a maximum of 1% within-group variation. In addition, analysis of molecular variation showed a high proportion (97%) of the total variation distributed among the two groups, indicative of long-term isolation of the two clades. These results suggest that G. caespitosa comprises at least two cryptic species. Here, we discuss the merits of naming new Galeolaria species, given there were no consistent morphological differences detectable and the absence of details on the type locality for G. caespitosa. We conclude that a new species of Galeolaria is warranted and describe it here as G. gemineoa.
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BARROSO CRISTIANEXEREZ, MATTHEWS-CASCON HELENA. Spawning and intra-capsular development of Neritina zebra(Bruguière, 1792) (Mollusca: Gastropoda: Neritidae) under laboratory conditions. INVERTEBR REPROD DEV 2009. [DOI: 10.1080/07924259.2009.9652299] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Teske PR, Papadopoulos I, Newman BK, Dworschak PC, McQuaid CD, Barker NP. Oceanic dispersal barriers, adaptation and larval retention: an interdisciplinary assessment of potential factors maintaining a phylogeographic break between sister lineages of an African prawn. BMC Evol Biol 2008; 8:341. [PMID: 19108720 PMCID: PMC2628387 DOI: 10.1186/1471-2148-8-341] [Citation(s) in RCA: 60] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2008] [Accepted: 12/24/2008] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Genetic breaks separating regional lineages of marine organisms with potentially high broadcasting abilities are generally attributed either to dispersal barriers such as currents or upwelling, or to behavioural strategies promoting self-recruitment. We investigated whether such patterns could potentially also be explained by adaptations to different environmental conditions by studying two morphologically distinguishable genetic lineages of the estuarine mudprawn Upogebia africana across a biogeographic disjunction in south-eastern Africa. The study area encompasses a transition between temperate and subtropical biotas, where the warm, southward-flowing Agulhas Current is deflected away from the coast, and its inshore edge is characterised by intermittent upwelling. To determine how this phylogeographic break is maintained, we estimated gene flow among populations in the region, tested for isolation by distance as an indication of larval retention, and reared larvae of the temperate and subtropical lineages at a range of different temperatures. RESULTS Of four populations sampled, the two northernmost exclusively included the subtropical lineage, a central population had a mixture of both lineages, and the southernmost estuary had only haplotypes of the temperate lineage. No evidence was found for isolation by distance, and gene flow was bidirectional and of similar magnitude among adjacent populations. In both lineages, the optimum temperature for larval development was at about 23 degrees C, but a clear difference was found at lower temperatures. While larvae of the temperate lineage could complete development at temperatures as low as 12 degrees C, those of the subtropical lineage did not complete development below 17 degrees C. CONCLUSION The results indicate that both southward dispersal of the subtropical lineage inshore of the Agulhas Current, and its establishment in the temperate province, may be limited primarily by low water temperatures. There is no evidence that the larvae of the temperate lineage would survive less well in the subtropical province than in their native habitat, and their exclusion from this region may be due to a combination of upwelling, short larval duration with limited dispersal potential near the coast, plus transport away from the coast of larvae that become entrained in the Agulhas Current. This study shows how methods from different fields of research (genetics, physiology, oceanography and morphology) can be combined to study phylogeographic patterns.
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Affiliation(s)
- Peter R Teske
- Molecular Ecology and Systematics Group, Botany Department, Rhodes University, 6140 Grahamstown, South Africa.
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Styan CA, Kupriyanova E, Havenhand JN. BARRIERS TO CROSS-FERTILIZATION BETWEEN POPULATIONS OF A WIDELY DISPERSED POLYCHAETE SPECIES ARE UNLIKELY TO HAVE ARISEN THROUGH GAMETIC COMPATIBILITY ARMS-RACES. Evolution 2008; 62:3041-55. [DOI: 10.1111/j.1558-5646.2008.00521.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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Möller LM, Bilgmann K, Charlton-Robb K, Beheregaray L. Multi-gene evidence for a new bottlenose dolphin species in southern Australia. Mol Phylogenet Evol 2008; 49:674-81. [DOI: 10.1016/j.ympev.2008.08.011] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2008] [Accepted: 08/20/2008] [Indexed: 11/16/2022]
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SHERMAN CRAIGDH, HUNT ALISON, AYRE DAVIDJ. Is life history a barrier to dispersal? Contrasting patterns of genetic differentiation along an oceanographically complex coast. Biol J Linn Soc Lond 2008. [DOI: 10.1111/j.1095-8312.2008.01044.x] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Frey MA, Vermeij GJ. Molecular phylogenies and historical biogeography of a circumtropical group of gastropods (Genus: Nerita): Implications for regional diversity patterns in the marine tropics. Mol Phylogenet Evol 2008; 48:1067-86. [DOI: 10.1016/j.ympev.2008.05.009] [Citation(s) in RCA: 84] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/05/2008] [Revised: 04/08/2008] [Accepted: 05/08/2008] [Indexed: 11/25/2022]
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York KL, Blacket MJ, Appleton BR. The Bassian Isthmus and the major ocean currents of southeast Australia influence the phylogeography and population structure of a southern Australian intertidal barnacle Catomerus polymerus (Darwin). Mol Ecol 2008; 17:1948-61. [PMID: 18363669 DOI: 10.1111/j.1365-294x.2008.03735.x] [Citation(s) in RCA: 41] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Southern Australia is currently divided into three marine biogeographical provinces based on faunal distributions and physical parameters. These regions indicate eastern and western distributions, with an overlap occurring in the Bass Strait in Victoria. However, studies indicate that the boundaries of these provinces vary depending on the species being examined, and in particular on the mode of development employed by that species, be they direct developers or planktonic larvae dispersers. Mitochondrial DNA sequence analysis of the surf barnacle Catomerus polymerus in southern Australia revealed an east-west phylogeographical split involving two highly divergent clades (cytochrome oxidase I 3.5 +/- 0.76%, control region 6.7 +/- 0.65%), with almost no geographical overlap. Spatial genetic structure was not detected within either clade, indicative of a relatively long-lived planktonic larval phase. Five microsatellite loci indicated that C. polymerus populations exhibit relatively high levels of genetic divergence, and fall into four subregions: eastern Australia, central Victoria, western Victoria and Tasmania, and South Australia. F(ST) values between eastern Australia (from the eastern mitochondrial DNA clade) and the remaining three subregions ranged from 0.038 to 0.159, with other analyses indicating isolation by distance between the subregions of western mitochondrial origin. We suggest that the east-west division is indicative of allopatric divergence resulting from the emergence of the Bassian land-bridge during glacial maxima, preventing gene flow between these two lineages. Subsequently, contemporary ecological conditions, namely the East Australian, Leeuwin, and Zeehan currents and the geographical disjunctions at the Coorong and Ninety Mile Beach are most likely responsible for the four subregions indicated by the microsatellite data.
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Affiliation(s)
- Katherine L York
- Department of Genetics, University of Melbourne, Parkville, Victoria 3010, Australia.
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Waters JM. Marine biogeographical disjunction in temperate Australia: historical landbridge, contemporary currents, or both? DIVERS DISTRIB 2008. [DOI: 10.1111/j.1472-4642.2008.00481.x] [Citation(s) in RCA: 75] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022] Open
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Banks SC, Piggott LMP, Williamson JE, Bové U, Holbrook NJ, Beheregaray LB. Oceanic variability and coastal topography shape genetic structure in a long-dispersing sea urchin. Ecology 2008; 88:3055-64. [PMID: 18229840 DOI: 10.1890/07-0091.1] [Citation(s) in RCA: 145] [Impact Index Per Article: 9.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
Abstract
Understanding the scale of marine population connectivity is critical for the conservation and sustainable management of marine resources. For many marine species adults are benthic and relatively immobile, so patterns of larval dispersal and recruitment provide the key to understanding marine population connectivity. Contrary to previous expectations, recent studies have often detected unexpectedly low dispersal and fine-scale population structure in the sea, leading to a paradigm shift in how marine systems are viewed. Nonetheless, the link between fine-scale marine population structure and the underlying physical and biological processes has not been made. Here we show that patterns of genetic structure and population connectivity in the broadcast-spawning and long-distance dispersing sea urchin Centrostephanus rodgersii are influenced by physical oceanographic and geographic variables. Despite weak genetic differentiation and no isolation-by-distance over thousands of kilometers among samples from eastern Australia and northern New Zealand, fine-scale genetic structure was associated with sea surface temperature (SST) variability and geography along the southeastern Australian coast. The zone of high SST variability is characterized by periodic shedding of eddies from the East Australian Current, and we suggest that ocean current circulation may, through its influence on larval transport and recruitment, interact with the genetic consequences of large variance in individual reproductive success to generate patterns of fine-scale patchy genetic structure. If proven consistent across species, our findings suggest that the optimal scale for fisheries management and reserve design should vary among localities in relation to regional oceanographic variability and coastal geography.
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Affiliation(s)
- Sam C Banks
- Department of Biological Sciences, Macquarie University, Sydney, New South Wales 2109, Australia.
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Marlowe K, Hufford L. Evolution of Synthyris sect. Dissecta (Plantaginaceae) on sky islands in the Northern Rocky Mountains. AMERICAN JOURNAL OF BOTANY 2008; 95:381-392. [PMID: 21632362 DOI: 10.3732/ajb.95.3.381] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/30/2023]
Abstract
We examined the phylogeography of Synthyris sect. Dissecta (Plantaginaceae), which is restricted to the Olympic (S. lanuginosa) and Northern Rocky Mountains (S. dissecta and S. canbyi), to infer effects of sky islands and modes of speciation. Sequences of cpDNA trnT-trnL and psbA-trnH intergenic spacers resolved 22 haplotypes among 185 individuals sampled from 16 populations of the three species. Gene flow in the ancestral lineage and random capture of haplotypes in species lineages of sect. Dissecta have resulted in haplotype clades that are not exclusive to species. Nested clade analysis (NCA) indicates that allopatric fragmentation separated Olympic and Northern Rocky Mountain populations, giving rise to the Olympic endemic S. lanuginosa, which is characterized by unique haplotypes consistent with long temporal isolation. Low haplotype and nucleotide diversity in S. canbyi are consistent with newly founded populations experiencing a bottleneck. Furthermore, we infer S. canbyi evolved as a peripheral isolate of S. dissecta. NCA indicated limited migration in S. dissecta with possible isolation by distance. Both isolation on interglacial sky islands and valley glaciers during at least the last glaciation limited gene flow among populations of S. dissecta in different ranges of the Northern Rocky Mountains.
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Affiliation(s)
- K Marlowe
- School of Biological Sciences, Washington State University, Pullman, Washington 99164-4236 USA
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Crandall ED, Frey MA, Grosberg RK, Barber PH. Contrasting demographic history and phylogeographical patterns in two Indo-Pacific gastropods. Mol Ecol 2007; 17:611-26. [PMID: 18179436 DOI: 10.1111/j.1365-294x.2007.03600.x] [Citation(s) in RCA: 143] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Marine species with ranges that span the Indo-Australian Archipelago (IAA) exhibit a range of phylogeographical patterns, most of which are interpreted in the context of vicariance between Indian and Pacific Ocean populations during Pliocene and Pleistocene low sea-level stands. However, patterns often vary among ecologically similar taxa, sometimes even within genera. This study compares phylogeographical patterns in two species of highly dispersive neritid gastropod, Nerita albicilla and Nerita plicata, with nearly sympatric ranges that span the Indo-Pacific. Mitochondrial COI sequences from >1000 individuals from 97 sites reveal similar phylogenies in both species (two divergent clades differing by 3.2% and 2.3%, for N. albicilla and N. plicata, respectively). However, despite ecological similarity and congeneric status, the two species exhibit phylogeographical discordance. N. albicilla has maintained reciprocal monophyly of Indian and Pacific Ocean populations, while N. plicata is panmictic between oceans, but displays a genetic cline in the Central Pacific. Although this difference might be explained by qualitatively different demographic histories, parameter estimates from three coalescent models indicate that both species have high levels of gene flow between demes (2Nem>75), and share a common history of population expansion that is likely associated with cyclical flooding of continental shelves and island lagoons following low sea-level stands. Results indicate that ecologically similar, codistributed species may respond very differently to shared environmental processes, suggesting that relatively minor differences in traits such as pelagic larval duration or microhabitat association may profoundly impact phylogeographical structure.
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Affiliation(s)
- Eric D Crandall
- Boston University Marine Program, Department of Biology, 5 Cummington Street, Boston, MA 02215, USA.
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Overeem RL, Peucker (nee Mitchelson) AJ, Austin CM, Dann P, Burridge CP. Contrasting genetic structuring between colonies of the World’s smallest penguin, Eudyptula minor (Aves: Spheniscidae). CONSERV GENET 2007. [DOI: 10.1007/s10592-007-9414-z] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
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Spencer HG, Waters JM, Eichhorst TE. Taxonomy and nomenclature of black nerites (Gastropoda:Neritimorpha:Nerita) from the South Pacific. INVERTEBR SYST 2007. [DOI: 10.1071/is06038] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Members of the genus Nerita are abundant components of the intertidal fauna in many parts of the world and yet Nerita taxonomy remains unsettled. Here, the relationships among black-shelled Nerita populations from Australia, New Zealand, Norfolk Island, Lord Howe Island, the Kermadec Islands and Easter Island are discussed. Four species are recognised: N. atramentosa Reeve, 1855 from the southern half of Australia; N. melanotragus E.A. Smith, 1884 from eastern Australia, northern New Zealand, Lord Howe Island, Norfolk Island and the Kermadec Islands; N. morio (G. B. Sowerby I, 1833) from Easter Island and the Austral Islands; and N. lirellata Rehder, 1980 from Easter Island alone. These species are of great importance in studies of intertidal community structure and yet two of them have been consistently confused in the ecological and taxonomic literature. Moreover, the relationships among the species are not at all as implied by recent subgeneric classifications; it is argued that all four species should be placed in the subgenus Lisanerita Krijnen, 2002. The superficially similar N. picea Récluz, 1841 is not closely related. An accurate taxonomy of the genus will almost certainly require considerable genetic analysis. The nomenclature for each species is herein established by complete synonymies, and lectotypes for both N. atramentosa and N. melanotragus are selected.
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