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Briones C, Nuñez JJ, Pérez M, Garrido O, Campos B, Godoy K, Hartley R, Oyarzún PA, Guiñez R. Linking Acrosome Size and Genetic Divergence in an Inter-Oceanic Mussel from the Pacific and Atlantic Coasts: A Case of Incipient Speciation? Animals (Basel) 2024; 14:674. [PMID: 38473058 DOI: 10.3390/ani14050674] [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: 01/11/2024] [Revised: 02/14/2024] [Accepted: 02/19/2024] [Indexed: 03/14/2024] Open
Abstract
In recent years, advances in analyses of the sperm morphology and genetics of Perumytilus purpuratus have allowed to two evolutionary scenarios for this mussel to be suggested: (1) the scenario of cryptic species and (2) the scenario of incipient or in progress speciation. For a better understanding of the evolutionary history of P. purpuratus, we performed extensive sampling along a latitudinal gradient of ca. 7180 km of coastline-from the Southern Pacific Ocean to the Atlantic Ocean-and we delved deeper into the sperm morphology of P. purpuratus, exploring its association with the phylogeny and population genetics to determine whether the variability in sperm traits between the northern and southern regions was a signal of cryptic or incipient species. Overall, our results showed that sperm sizes were strongly correlated with the genetic structure in males of P. purpuratus. We identified at 37° S on the Pacific coast a coincident break of both sperm size and genetic disruption that can be explained by historical events and postglacial recolonization as causal phenomena for the observed divergences. Furthermore, evidence of genetic admixture between lineages was found at 38° S, suggesting the presence of an introgressive hybridization zone and incomplete reproductive isolation in an in fraganti or incipient speciation process.
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Affiliation(s)
- Carolina Briones
- Instituto de Ciencias Naturales Alexander von Humbodt, Facultad de Ciencias del Mar y de Recursos Biológicos, Universidad de Antofagasta, Angamos 601, Antofagasta 1270300, Chile
| | - José J Nuñez
- Instituto de Ciencias Marinas y Limnológicas, Facultad de Ciencias, Universidad Austral de Chile, Casilla 567, Valdivia 5090000, Chile
| | - Montse Pérez
- AquaCOV, Centro Oceanográfico de Vigo, Instituto Español de Oceanografía, Consejo Superior de Investigaciones Científicas (IEO, CSIC), 36390 Vigo, Spain
| | - Orlando Garrido
- Instituto de Ciencias Marinas y Limnológicas, Facultad de Ciencias, Universidad Austral de Chile, Casilla 567, Valdivia 5090000, Chile
| | | | - Karina Godoy
- Núcleo Científico y Tecnológico de Biorecursos (BIOREN), Universidad de La Frontera, Temuco 4811230, Chile
| | - Ricardo Hartley
- Instituto de Investigación y Postgrado, Facultad de Medicina y Ciencias de la Salud, Universidad Central de Chile, Santiago 8330507, Chile
| | - Pablo A Oyarzún
- Centro de Investigación Marina Quintay (CIMARQ), Universidad Andrés Bello, Quintay 2340000, Chile
| | - Ricardo Guiñez
- Instituto de Ciencias Naturales Alexander von Humbodt, Facultad de Ciencias del Mar y de Recursos Biológicos, Universidad de Antofagasta, Angamos 601, Antofagasta 1270300, Chile
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2
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Cheng R, Luo A, Orr M, Ge D, Hou Z, Qu Y, Guo B, Zhang F, Sha Z, Zhao Z, Wang M, Shi X, Han H, Zhou Q, Li Y, Liu X, Shao C, Zhang A, Zhou X, Zhu C. Cryptic diversity begets challenges and opportunities in biodiversity research. Integr Zool 2024. [PMID: 38263700 DOI: 10.1111/1749-4877.12809] [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] [Indexed: 01/25/2024]
Abstract
How many species of life are there on Earth? This is a question that we want to know but cannot yet answer. Some scholars speculate that the number of species may reach 2.2 billion when considering cryptic diversity and that each morphology-based insect species may contain an average of 3.1 cryptic species. With nearly two million described species, such high estimates of cryptic diversity would suggest that cryptic species are widespread. The development of molecular species delimitation has led to the discovery of a large number of cryptic species, and cryptic biodiversity has gradually entered our field of vision and attracted more attention. This paper introduces the concept of cryptic species, how they evolve, and methods by which they may be discovered and confirmed, and provides theoretical and methodological guidance for the study of hidden species. A workflow of how to confirm cryptic species is provided. In addition, the importance and reliability of multi-evidence-based integrated taxonomy are reaffirmed as a way to better standardize decision-making processes. Special focus on cryptic diversity and increased funding for taxonomy is needed to ensure that cryptic species in hyperdiverse groups are discoverable and described. An increased focus on cryptic species in the future will naturally arise as more difficult groups are studied, and thereby, we may finally better understand the rules governing the evolution and maintenance of cryptic biodiversity.
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Affiliation(s)
- Rui Cheng
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Arong Luo
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Michael Orr
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- Entomologie, Staatliches Museum für Naturkunde Stuttgart, Stuttgart, Germany
| | - Deyan Ge
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Zhong'e Hou
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Yanhua Qu
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Baocheng Guo
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Feng Zhang
- College of Plant Protection, Nanjing Agricultural University, Nanjing, China
| | - Zhongli Sha
- Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China
| | - Zhe Zhao
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Mingqiang Wang
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- Chengdu Institute of Biology, Chinese Academy of Sciences, Chengdu, China
| | - Xiaoyu Shi
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Hongxiang Han
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Qingsong Zhou
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Yuanning Li
- Institute of Oceanography, Shandong University, Qingdao, China
| | - Xingyue Liu
- Department of Entomology, China Agricultural University, Beijing, China
| | - Chen Shao
- College of Life Sciences, Shaanxi Normal University, Xi'an, China
| | - Aibing Zhang
- College of Life Science, Capital Normal University, Beijing, China
| | - Xin Zhou
- Department of Entomology, China Agricultural University, Beijing, China
| | - Chaodong Zhu
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- State Key Laboratory of Integrated Pest Management, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- College of Life Sciences/International College, University of Chinese Academy of Sciences, Beijing, China
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3
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Carter JE, Sporre MA, Eytan RI. Phylogenetic review of the comb-tooth blenny genus Hypleurochilus in the northwest Atlantic and Gulf of Mexico. Mol Phylogenet Evol 2023; 189:107933. [PMID: 37769827 DOI: 10.1016/j.ympev.2023.107933] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 09/25/2023] [Accepted: 09/25/2023] [Indexed: 10/03/2023]
Abstract
As some of the smallest vertebrates, yet largest producers of consumed reef biomass, cryptobenthic reef fishes serve a disproportionate role in reef ecosystems and are one of the most poorly understood groups of fish. The blenny genera Hypleurochilus and Parablennius are currently considered paraphyletic and the interrelationships of Parablennius have been the focus of recent phylogenetic studies. However, the interrelationships of Hypleurochilus remain understudied. This genus is transatlantically distributed and comprises 11 species with a convoluted taxonomic history. In this study, relationships for ten Hypleurochilus species are resolved using multi-locus nuclear and mtDNA sequence data, morphological data, and mined COI barcode data. Mitochondrial and nuclear sequence data from 61 individuals collected from the western Atlantic and northern Gulf of Mexico (N. GoM) delimit seven species into a temperate clade, a tropical clade, and a third distinct lineage. This lineage, herein referred to as H. cf. aequipinnis, may represent a species of Hypleurochilus whose range has expanded into the N. GoM. Inclusion of publicly available COI sequence for an additional three species provides further phylogenetic resolution. H. bananensis forms a new eastern Atlantic clade with H. cf. aequipinnis, providing further evidence for a western Atlantic range expansion. Single marker COI delimitation was unable to elucidate the relationships between H. springeri/H. pseudoaequipinnis and between H. multifilis/H. caudovittatus due to incomplete lineage sorting. Mitochondrial data are also unable to accurately resolve the placement of H. bermudensis. However, a comprehensive approach using multi-locus phylogenetic and species delimitation methods was able to resolve these relationships. While mining publicly available sequence data allowed for the inclusion of an increased number of species in the analysis and a more comprehensive phylogeny, it was not without drawbacks, as a handful of sequences are potentially mis-identified. Overall, we find that the recent divergence of some species within this genus and potential introgression events confound the results of single locus delimitation methods, yet a combination of single and multi-locus analyses has allowed for insights into the biogeography of this genus and uncovered a potential transatlantic range expansion.
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Affiliation(s)
- Joshua E Carter
- Department of Marine Biology, Texas A&M University at Galveston, 1001 Texas Clipper Road, Galveston, TX 77554, United States.
| | - Megan A Sporre
- Department of Marine Biology, Texas A&M University at Galveston, 1001 Texas Clipper Road, Galveston, TX 77554, United States
| | - Ron I Eytan
- Department of Marine Biology, Texas A&M University at Galveston, 1001 Texas Clipper Road, Galveston, TX 77554, United States
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Lubośny M, Śmietanka B, Arculeo M, Burzyński A. No evidence of DUI in the Mediterranean alien species Brachidontes pharaonis (P. Fisher, 1870) despite mitochondrial heteroplasmy. Sci Rep 2022; 12:8569. [PMID: 35595866 PMCID: PMC9122905 DOI: 10.1038/s41598-022-12606-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2021] [Accepted: 05/13/2022] [Indexed: 01/05/2023] Open
Abstract
Two genetically different mitochondrial haplogroups of Brachidontes pharaonis (p-distance 6.8%) have been identified in the Mediterranean Sea. This hinted at a possible presence of doubly uniparental inheritance in this species. To ascertain this possibility, we sequenced two complete mitogenomes of Brachidontes pharaonis mussels and performed a qPCR analysis to measure the relative mitogenome copy numbers of both mtDNAs. Despite the presence of two very similar regions composed entirely of repetitive sequences in the two haplogroups, no recombination between mitogenomes was detected. In heteroplasmic individuals, both mitogenomes were present in the generative tissues of both sexes, which argues against the presence of doubly uniparental inheritance in this species.
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Affiliation(s)
- Marek Lubośny
- Department of Genetics and Marine Biotechnology, Institute of Oceanology Polish Academy of Sciences, Sopot, Poland.
| | - Beata Śmietanka
- Department of Genetics and Marine Biotechnology, Institute of Oceanology Polish Academy of Sciences, Sopot, Poland
| | - Marco Arculeo
- Department of Biological, Chemical and Pharmaceutical Sciences and Technologies, University of Palermo, Palermo, Italy
| | - Artur Burzyński
- Department of Genetics and Marine Biotechnology, Institute of Oceanology Polish Academy of Sciences, Sopot, Poland
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Quintanilha DB, Fernandes FC, Guerra CR, Campos SHC, Weber LI. Molecular and morphometric analysis of nominal Brachidontes exustus (Mollusca, Mytilidae) in Brazilian waters. Genet Mol Biol 2022; 45:e20210247. [PMID: 35499273 PMCID: PMC9059129 DOI: 10.1590/1678-4685-gmb-2021-0247] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2021] [Accepted: 03/05/2022] [Indexed: 11/21/2022] Open
Abstract
Brachidontes exustus (Mollusca, Mytilidae) is mainly distributed in Central America, where it has been recognized as a _lataforma species. This study aimed to determine whether B. exustus extends beyond the Amazon Barrier and southward along the Brazilian West Atlantic coast. Mitochondrial genes coding for cytochrome-c oxidase, subunit I (COI) and 16S subunit of ribosomal _lataforma__ cid (16S rRNA) were analyzed with _lata parameters on Brazilian populations (Salvador, Arraial do Cabo and Fernando de Noronha) of scorched mussels previously recorded as B. exustus. Multivariate morphometric _latafor showed partial discrimination of species. Molecular _latafor confirmed B. exustus at Salvador, a population highly similar to Cartagena (Colombia), both belonging to the Atlantic Clade of the B. exustus complex. This fact adds evidence to the idea of the Amazon outflow as a semipermeable barrier. In the southeast of Brazil, B. exustus was not found; instead, B. darwinianus is the species represented at Arraial do Cabo (state of Rio de Janeiro), associated with brackish _lataf. Scorched mussels from Fernando de Noronha are most closely related to B. puniceus from Cape Verde with 4.4% differentiation. Demonstrating an independent evolutionary history since at least the beginning of the Pleistocene, its proposed new name is B. noronhensis.
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Druciarek T, Lewandowski M, Tzanetakis I. Molecular phylogeny of Phyllocoptes associated with roses discloses the presence of a new species. INFECTION GENETICS AND EVOLUTION 2021; 95:105051. [PMID: 34450295 DOI: 10.1016/j.meegid.2021.105051] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2021] [Revised: 08/16/2021] [Accepted: 08/22/2021] [Indexed: 11/17/2022]
Abstract
There are few plant maladies as devastating as rose rosette, a disease caused by an eriophyoid -transmitted virus. Rosette annihilates roses across North America, and to date, there is a single verified vector of the virus, Phyllocoptes fructiphilus Keifer. In direct contrast to the importance of rose for the ornamental industry there is limited knowledge on the eriophyoids that inhabit roses in North America and even less information on their vectoring capacities. This study dissects the genetic diversity of the eriophyoid fauna in rosette-affected hotspots and provides evidence of the existence of an undescribed species named Phyllocoptes arcani sp. nov., that could potentially be a second vector of the rosette virus.
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Affiliation(s)
- Tobiasz Druciarek
- Entomology and Plant Pathology, Division of Agriculture, University of Arkansas System Fayetteville, AR 72701, United States.
| | - Mariusz Lewandowski
- Section of Applied Entomology, Department of Plant Protection, Institute of Horticultural Sciences, Warsaw University of Life Sciences-SGGW, Nowoursynowska 159, 02-776 Warsaw, Poland
| | - Ioannis Tzanetakis
- Entomology and Plant Pathology, Division of Agriculture, University of Arkansas System Fayetteville, AR 72701, United States.
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7
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Phylogeography and genetic diversity of the commercially-collected Caribbean blue-legged hermit crab (Clibanarius tricolor). CONSERV GENET 2021. [DOI: 10.1007/s10592-021-01348-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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8
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Duarte ME, de Mendonça RS, Skoracka A, Silva ES, Navia D. Integrative taxonomy of Abacarus mites (Eriophyidae) associated with hybrid sugarcane plants, including description of a new species. EXPERIMENTAL & APPLIED ACAROLOGY 2019; 78:373-401. [PMID: 31278610 DOI: 10.1007/s10493-019-00388-y] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Accepted: 05/30/2019] [Indexed: 06/09/2023]
Abstract
Phytophagous mites belonging to the Eriophyoidea are extremely diverse and highly host-specific. Their accurate morphological identification is hampered by their reduced size and simplified bodies and by the existence of cryptic species complexes. Previous studies have demonstrated the urgency of applying multisource methods to accurate taxonomic identification of eriophyoid mites, especially species belonging to the genus Abacarus. This genus comprises 65 species, of which 37 are associated with grasses and four with sugarcane Saccharum (Poaceae). Recently, Abacarus specimens very similar to Abacarus sacchari were collected from the sugarcane crop in Brazil; however, their taxonomic placement was uncertain. In this study, we used an integrative approach to determine whether A. aff. sacchari specimens belong to A. sacchari or constitute a cryptic species. Morphological data were combined with molecular phylogeny based on the nucleotide sequences of three markers, one mitochondrial (COI) and two nuclear (D2 region of 28S and ITS). Morphological differences were observed between A. aff. sacchari, A. sacchari and A. doctus. The phylogenetic relationships among these three taxa and the genetic distances separating them revealed an interspecific divergence. The results of the morphological and molecular methods were congruent and supported the existence of a new species: Abacarus neosacchari n. sp. Duarte and Navia, herein described. This species belongs to the Abacarus cryptic species complex associated with sugarcane in the Americas. The results of this study, presenting the occurrence of multiple Abacarus species associated with sugarcane, contribute to the knowledge on plants and mites diversity by adding up one more clue highlighting that plant hybridization can be an important mechanism contributing to the speciation of plant-feeding arthropods.
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Affiliation(s)
- Mércia Elias Duarte
- Embrapa Recursos Genéticos e Biotecnologia, Brasilia, Distrito Federal, 70770-900, Brazil
| | - Renata Santos de Mendonça
- Faculdade de Agronomia e Medicina Veterinária, Universidade de Brasília, Campus Darcy Ribeiro, Brasília, DF, 70297-400, Brazil
| | - Anna Skoracka
- Population Ecology Lab, Faculty of Biology, Institute of Environmental Biology, Adam Mickiewicz University, Uniwersytetu Poznańskiego 6, Poznań, 61-614, Poland
| | - Edmilson Santos Silva
- Universidade Federal de Alagoas, Campus Arapiraca, Arapiraca, 57309-005, Brazil
- Universidade Federal de Alagoas, Centro de Ciências Agrárias (CECA), Alagoas, 57100-000, Brazil
| | - Denise Navia
- Embrapa Recursos Genéticos e Biotecnologia, Brasilia, Distrito Federal, 70770-900, Brazil.
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Baeza JA, Prakash S. An integrative taxonomic and phylogenetic approach reveals a complex of cryptic species in the ‘peppermint’ shrimp Lysmata wurdemanni sensu stricto. Zool J Linn Soc 2019. [DOI: 10.1093/zoolinnean/zly084] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
Affiliation(s)
- J Antonio Baeza
- Department of Biological Sciences, Clemson University, Clemson, SC, USA
- Smithsonian Marine Station at Fort Pierce, Fort Pierce, FL, USA
- Departamento de Biología Marina, Facultad de Ciencias del Mar, Universidad Católica del Norte, Larrondo, Coquimbo, Chile
| | - Sanjeevi Prakash
- Department of Biological Sciences, Clemson University, Clemson, SC, USA
- Centre for Climate Change Studies, Sathyabama Institute of Science and Technology, Rajiv Gandhi Salai, Chennai, Tamil Nadu, India
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10
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Bijak AL, van Dijk KJ, Waycott M. Population structure and gene flow of the tropical seagrass, Syringodium filiforme, in the Florida Keys and subtropical Atlantic region. PLoS One 2018; 13:e0203644. [PMID: 30183774 PMCID: PMC6124813 DOI: 10.1371/journal.pone.0203644] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2018] [Accepted: 08/26/2018] [Indexed: 11/28/2022] Open
Abstract
Evaluating genetic diversity of seagrasses provides insight into reproductive mode and adaptation potential, and is therefore integral to broader conservation strategies for coastal ecosystems. In this study, we assessed genetic diversity, population structure and gene flow in an opportunistic seagrass, Syringodium filiforme, in the Florida Keys and subtropical Atlantic region. We used microsatellite markers to analyze 20 populations throughout the Florida Keys, South Florida, Bermuda and the Bahamas primarily to understand how genetic diversity of S. filiforme partitions across the Florida Keys archipelago. We found low allelic diversity within populations, detecting 35–106 alleles across all populations, and in some instances moderately high clonal diversity (R = 0.04–0.62). There was significant genetic differentiation between Atlantic and Gulf of Mexico (Gulf) populations (FST = 0.109 ± 0.027, p-value = 0.001) and evidence of population structure based on cluster assignment, dividing the region into two major genetic demes. We observed asymmetric patterns in gene flow, with a few instances in which there was higher than expected gene flow from Atlantic to Gulf populations. In South Florida, clustering into Gulf and Atlantic groups indicate dispersal in S. filiforme may be limited by historical or contemporary geographic and hydrologic barriers, though genetic admixture between populations suggests exchange may occur between narrow channels in the Florida Keys, or has occurred through other mechanisms in recent evolutionary history, maintaining regional connectivity. The variable genotypic diversity, low genetic diversity and evidence of population structure observed in populations of S. filiforme resemble the population genetics expected for a colonizer species.
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Affiliation(s)
- Alexandra L. Bijak
- Department of Environmental Sciences, University of Virginia, Charlottesville, Virginia, United States of America
- * E-mail:
| | - Kor-jent van Dijk
- School of Biological Sciences, Environment Institute, Australian Centre for Evolutionary Biology and Biodiversity, University of Adelaide, Adelaide, South Australia, Australia
| | - Michelle Waycott
- School of Biological Sciences, Environment Institute, Australian Centre for Evolutionary Biology and Biodiversity, University of Adelaide, Adelaide, South Australia, Australia
- State Herbarium of South Australia, Department of Environment, Water and Natural Resources, Adelaide, South Australia, Australia
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Fontanella FM, Garner Y, Starnes J, Whitaker M. Evidence for panmixia despite barriers to gene flow in the hooked mussel, Ischadium recurvum (Mytilidae; Brachidontinae) along the North American coastline. Mitochondrial DNA A DNA Mapp Seq Anal 2018; 30:75-81. [PMID: 29580117 DOI: 10.1080/24701394.2018.1455191] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
Abstract
The discovery of phylogeographic patterns within broadly distributed marine species can be particularly challenging because absolute physical barriers to dispersal can be inconspicuous. Genetic boundaries often lie where ocean currents meet, forming sharp physical and ecological gradients, which may act as barriers to successful migrants. In eastern North America, coastal species often show phylogeographic differentiation associated with two recognized genetic barriers: the Gulf/Atlantic and the Virginia/Carolina discontinuities. We examined 185 specimens of the intertidal hooked mussel Ischadium recurvum collected from 15 locations along the eastern coastline of North America to examine phylogeographic, migration and historical demographic patterns associated climate change associated with Pleistocene glacial patterns. Hypothesis testing using Bayes factors in Migrate-n rejected the presence of phylogeographic breaks consistent with either maritime discontinuity and favoured a panmictic population model. The migration rate from the Gulf to the Atlantic was approximately three times higher than the migration from the Atlantic to the Gulf whereas the Carolina-Virginia migration rates were nearly equal. The summary statistics (Tajima's D, Fu's Fs) were significant and the demographic analyses (mismatch distributions, Bayesian skyline plot) were consistent with patterns of population expansion following glacial retreat during the Pleistocene epoch.
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Affiliation(s)
- Frank M Fontanella
- a Department of Biology , University of West Georgia , Carrollton , GA , USA
| | - Yvette Garner
- a Department of Biology , University of West Georgia , Carrollton , GA , USA
| | - Jasmine Starnes
- a Department of Biology , University of West Georgia , Carrollton , GA , USA
| | - Megan Whitaker
- a Department of Biology , University of West Georgia , Carrollton , GA , USA
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12
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Lim JY, Tay TS, Lim CS, Lee SSC, Teo SLM, Tan KS. Mytella strigata (Bivalvia: Mytilidae): an alien mussel recently introduced to Singapore and spreading rapidly. MOLLUSCAN RESEARCH 2018. [DOI: 10.1080/13235818.2018.1423858] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Affiliation(s)
- J. Y. Lim
- St John’s Island National Marine Laboratory, Tropical Marine Science Institute, National University of Singapore, Singapore, 119227
| | - T. S. Tay
- St John’s Island National Marine Laboratory, Tropical Marine Science Institute, National University of Singapore, Singapore, 119227
| | - C. S. Lim
- St John’s Island National Marine Laboratory, Tropical Marine Science Institute, National University of Singapore, Singapore, 119227
| | - S. S. C. Lee
- St John’s Island National Marine Laboratory, Tropical Marine Science Institute, National University of Singapore, Singapore, 119227
| | - S. L.-M. Teo
- St John’s Island National Marine Laboratory, Tropical Marine Science Institute, National University of Singapore, Singapore, 119227
| | - K. S. Tan
- St John’s Island National Marine Laboratory, Tropical Marine Science Institute, National University of Singapore, Singapore, 119227
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13
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Cleary DFR, Polónia ARM. Bacterial and archaeal communities inhabiting mussels, sediment and water in Indonesian anchialine lakes. Antonie Van Leeuwenhoek 2017; 111:237-257. [PMID: 29027059 DOI: 10.1007/s10482-017-0944-1] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2017] [Accepted: 09/13/2017] [Indexed: 11/24/2022]
Abstract
Anchialine lakes are a globally rare and unique ecosystem consisting of saline lakes surrounded by land and isolated from the surrounding marine environment. These lakes host a unique flora and fauna including numerous endemic species. Relatively few studies have, however, studied the prokaryote communities present in these lakes and compared them with the surrounding 'open water' marine environment. In the present study, we used a 16S rRNA gene barcoded pyrosequencing approach to examine prokaryote (Bacteria and Archaea) composition in three distinct biotopes (sediment, water and the mussel Brachidontes sp.) inhabiting four habitats, namely, three marine lakes and the surrounding marine environment of Berau, Indonesia. Biotope and habitat proved significant predictors of variation in bacterial and archaeal composition and higher taxon abundance. Most bacterial sequences belonged to OTUs assigned to the Proteobacteria. Compared to sediment and water, mussels had relatively high abundances of the classes Mollicutes and Epsilonproteobacteria. Most archaeal sequences, in turn, belonged to OTUs assigned to the Crenarchaeota with the relative abundance of crenarchaeotes highest in mussel samples. For both Bacteria and Archaea, the main variation in composition was between water samples on the one hand and sediment and mussel samples on the other. Sediment and mussels also shared much more OTUs than either shared with water. Abundant bacterial OTUs in mussels were related to organisms previously obtained from corals, oysters and the deepsea mussel Bathymodiolus manusensis. Abundant archaeal OTUs in mussels, in contrast, were closely related to organisms previously obtained from sediment.
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Affiliation(s)
- D F R Cleary
- CESAM and Department of Biology, Universidade de Aveiro, Campus Universitário de Santiago, 3810-193, Aveiro, Portugal.
| | - A R M Polónia
- CESAM and Department of Biology, Universidade de Aveiro, Campus Universitário de Santiago, 3810-193, Aveiro, Portugal
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Furfaro G, Salvi D, Mancini E, Mariottini P. A multilocus view on Mediterranean aeolid nudibranchs (Mollusca): Systematics and cryptic diversity of Flabellinidae and Piseinotecidae. Mol Phylogenet Evol 2017; 118:13-22. [PMID: 28888791 DOI: 10.1016/j.ympev.2017.09.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2017] [Revised: 06/16/2017] [Accepted: 09/04/2017] [Indexed: 01/10/2023]
Abstract
Recent molecular studies revealed high level of endemism and numerous cryptic species within opisthobranchs, with Mediterranean taxa clearly understudied. Here we used genetic data from both mitochondrial and nuclear gene fragments as well as morphological data from taxonomically relevant characters to investigate the phylogenetic relationships and systematics of Mediterranean taxa of the Flabellinidae and Piseinotecidae families. Phylogenetic analyses based on Bayesian and Maximum-Likelihood methods indicate that Flabellinidae and Pisenotecidae taxa and species within the genera Flabellina, Calmella and Piseinotecus do not form monophyletic clades. These results are supported by our morphological analyses which allowed the re-evaluation of the triseriate radula condition in Pisenotecidae and Calmella taxa and their inclusion in the genus Flabellina as Flabellina gaditanacomb. nov. (synonym of F. confusa), Flabellina gabiniereicomb. nov. and Flabellina cavolinicomb. nov. Species delimitation and barcoding gap analyses allowed uncovering cryptic species within Flabellina gracilis (Alder and Hancock, 1844), F. trophina (Bergh, 1890), F. verrucosa (M. Sars, 1829) and F. ischitana Hirano and Thompson, 1990, the latter with an Atlantic form which is under description. This study corroborates the relevance of combining molecular and morphological data from multiple populations and species in the assessment of nudibranch diversity and classification.
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Affiliation(s)
- Giulia Furfaro
- Department of Sciences, University "Roma Tre", Viale G. Marconi 446, I-00146 Rome, Italy.
| | - Daniele Salvi
- Department of Health, Life and Environmental Sciences, University of L'Aquila, 67100 Coppito, L'Aquila, Italy; CIBIO-InBIO, Centro de Investigação em Biodiversidade e Recursos Genéticos, Campus Agrário de Vairão, 4485-661 Vairão, Portugal
| | - Emiliano Mancini
- Department of Sciences, University "Roma Tre", Viale G. Marconi 446, I-00146 Rome, Italy
| | - Paolo Mariottini
- Department of Sciences, University "Roma Tre", Viale G. Marconi 446, I-00146 Rome, Italy
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15
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García-Souto D, Sumner-Hempel A, Fervenza S, Pérez-García C, Torreiro A, González-Romero R, Eirín-López JM, Morán P, Pasantes JJ. Detection of invasive and cryptic species in marine mussels (Bivalvia, Mytilidae): A chromosomal perspective. J Nat Conserv 2017. [DOI: 10.1016/j.jnc.2017.07.005] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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16
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Riesgo A, Burke EA, Laumer C, Giribet G. Genetic variation and geographic differentiation in the marine triclad Bdelloura candida (Platyhelminthes, Tricladida, Maricola), ectocommensal on the American horseshoe crab Limulus polyphemus. MARINE BIOLOGY 2017; 164:111. [PMID: 28479611 PMCID: PMC5397438 DOI: 10.1007/s00227-017-3132-y] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 09/17/2016] [Accepted: 03/30/2017] [Indexed: 06/07/2023]
Abstract
Bdelloura candida (Platyhelminthes, Tricladida, Maricola) is an ectocommensal symbiont on the American horseshoe crab Limulus polyphemus, living on the book gills and appendages, where it spends its entire life. Given its limited dispersal capabilities and its inability to live outside of the host, we hypothesized a genetic structure that parallels that of its host. We obtained 84 planarian individuals from 19 horseshoe crabs collected from 10 sites from Massachusetts to Florida. We amplified the mitochondrial 16S rRNA and the nuclear internal transcribed spacer 2 and conducted phylogeographic and population genetic analyses, which show a clear and strong genetic break between the populations in the Atlantic and the Gulf coasts. Among the Atlantic populations, two additional, weaker barriers located along Cape Hatteras and Cape Cod restrict gene flow. Even though previous studies have suggested that the populations of the host may be in decline, those of B. candida remain stable, and some even shows signatures of expansion. Our results indicate that the phylogeography of these marine ectocommensal triclads closely mirrors that of its Limulus host, and highlight the challenges to both host and symbiont to genetically connect populations across their distribution.
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Affiliation(s)
- Ana Riesgo
- Department of Life Sciences (Invertebrate Division), The Natural History Museum of London, Cromwell Road, London, SW7 5BD UK
| | - Emily A. Burke
- Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, 26 Oxford Street, Cambridge, MA 02138 USA
| | - Christopher Laumer
- EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SD UK
- Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA UK
| | - Gonzalo Giribet
- Department of Organismic and Evolutionary Biology, Museum of Comparative Zoology, Harvard University, 26 Oxford Street, Cambridge, MA 02138 USA
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17
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Gusman A, Lecomte S, Stewart DT, Passamonti M, Breton S. Pursuing the quest for better understanding the taxonomic distribution of the system of doubly uniparental inheritance of mtDNA. PeerJ 2016; 4:e2760. [PMID: 27994972 PMCID: PMC5157197 DOI: 10.7717/peerj.2760] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2016] [Accepted: 11/05/2016] [Indexed: 11/20/2022] Open
Abstract
There is only one exception to strict maternal inheritance of mitochondrial DNA (mtDNA) in the animal kingdom: a system named doubly uniparental inheritance (DUI), which is found in several bivalve species. Why and how such a radically different system of mitochondrial transmission evolved in bivalve remains obscure. Obtaining a more complete taxonomic distribution of DUI in the Bivalvia may help to better understand its origin and function. In this study we provide evidence for the presence of sex-linked heteroplasmy (thus the possible presence of DUI) in two bivalve species, i.e., the nuculanoid Yoldia hyperborea(Gould, 1841)and the veneroid Scrobicularia plana(Da Costa,1778), increasing the number of families in which DUI has been found by two. An update on the taxonomic distribution of DUI in the Bivalvia is also presented.
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Affiliation(s)
- Arthur Gusman
- Department of Biological Sciences, Université de Montréal , Montréal , Québec , Canada
| | - Sophia Lecomte
- Department of Biological Sciences, Université de Strasbourg , Strasbourg , France
| | - Donald T Stewart
- Department of Biology, Acadia University , Wolfville , Nova Scotia , Canada
| | - Marco Passamonti
- Department of Biological Geological and Environmental Sciences, University of Bologna , Bologna , Italy
| | - Sophie Breton
- Department of Biological Sciences, Université de Montréal , Montréal , Québec , Canada
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18
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Becking LE, de Leeuw CA, Knegt B, Maas DL, de Voogd NJ, Abdunnur, Suyatna I, Peijnenburg KTCA. Highly divergent mussel lineages in isolated Indonesian marine lakes. PeerJ 2016; 4:e2496. [PMID: 27761314 PMCID: PMC5068364 DOI: 10.7717/peerj.2496] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2015] [Accepted: 08/27/2016] [Indexed: 11/20/2022] Open
Abstract
Marine lakes, with populations in landlocked seawater and clearly delineated contours, have the potential to provide a unique model to study early stages of evolution in coastal marine taxa. Here we ask whether populations of the mussel Brachidontes from marine lakes in Berau, East Kalimantan (Indonesia) are isolated from each other and from the coastal mangrove systems. We analyzed sequence data of one mitochondrial marker (Cytochrome Oxidase I (COI)), and two nuclear markers (18S and 28S). In addition, we examined shell shape using a geometric morphometric approach. The Indonesian populations of Brachidontes spp. harbored four deeply diverged lineages (14–75% COI corrected net sequence divergence), two of which correspond to previously recorded lineages from marine lakes in Palau, 1,900 km away. These four lineages also showed significant differences in shell shape and constitute a species complex of at least four undescribed species. Each lake harbored a different lineage despite the fact that the lakes are separated from each other by only 2–6 km, while the two mangrove populations, at 20 km distance from each other, harbored the same lineage and shared haplotypes. Marine lakes thus represent isolated habitats. As each lake contained unique within lineage diversity (0.1–0.2%), we suggest that this may have resulted from in situdivergence due to isolation of founder populations after the formation of the lakes (6,000–12,000 years before present). Combined effects of stochastic processes, local adaptation and increased evolutionary rates could produce high levels of differentiation in small populations such as in marine lake environments. Such short-term isolation at small spatial scales may be an important contributing factor to the high marine biodiversity that is found in the Indo-Australian Archipelago.
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Affiliation(s)
- Leontine E Becking
- Department of Environmental Science, Policy, and Management, University of California, Berkeley, CA, USA; Department of Marine Animal Ecology, Wageningen University & Research, Wageningen, The Netherlands; Department of Marine Biodiversity, Naturalis Biodiversity Center, Leiden, The Netherlands
| | - Christiaan A de Leeuw
- Department of Marine Animal Ecology, Wageningen University & Research, Wageningen, The Netherlands; Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
| | - Bram Knegt
- Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam , Amsterdam , The Netherlands
| | - Diede L Maas
- Department of Marine Animal Ecology, Wageningen University & Research , Wageningen , The Netherlands
| | - Nicole J de Voogd
- Department of Marine Biodiversity, Naturalis Biodiversity Center , Leiden , The Netherlands
| | - Abdunnur
- Faculty of Fisheries and Marine Sciences, Mulawarman University , Samarinda , East Kalimantan , Indonesia
| | - Iwan Suyatna
- Faculty of Fisheries and Marine Sciences, Mulawarman University , Samarinda , East Kalimantan , Indonesia
| | - Katja T C A Peijnenburg
- Department of Marine Biodiversity, Naturalis Biodiversity Center, Leiden, The Netherlands; Institute for Biodiversity and Ecosystem Dynamics, University of Amsterdam, Amsterdam, The Netherlands
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19
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Trovant B, Basso NG, Orensanz JM, Lessa EP, Dincao F, Ruzzante DE. Scorched mussels (Brachidontes spp., Bivalvia: Mytilidae) from the tropical and warm-temperate southwestern Atlantic: the role of the Amazon River in their speciation. Ecol Evol 2016; 6:1778-98. [PMID: 26929816 PMCID: PMC4758806 DOI: 10.1002/ece3.2016] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2015] [Revised: 01/21/2016] [Accepted: 01/27/2016] [Indexed: 11/16/2022] Open
Abstract
Antitropicality is a distribution pattern where closely related taxa are separated by an intertropical latitudinal gap. Two potential examples include Brachidontes darwinianus (south eastern Brazil to Uruguay), considered by some authors as a synonym of B. exustus (Gulf of Mexico and the Caribbean), and B. solisianus, distributed along the Brazilian coast with dubious records north of the intertropical zone. Using two nuclear (18S and 28S rDNA) and one mitochondrial gene (mtDNA COI), we aimed to elucidate the phylogeographic and phylogenetic relationships among the scorched mussels present in the warm-temperate region of the southwest Atlantic. We evaluated a divergence process mediated by the tropical zone over alternative phylogeographic hypotheses. Brachidontes solisianus was closely related to B. exustus I, a species with which it exhibits an antitropical distribution. Their divergence time was approximately 2.6 Ma, consistent with the intensification of Amazon River flow. Brachidontes darwinianus, an estuarine species is shown here not to be related to this B. exustus complex. We suspect ancestral forms may have dispersed from the Caribbean to the Atlantic coast via the Trans-Amazonian seaway (Miocene). The third species, B rodriguezii is presumed to have a long history in the region with related fossil forms going back to the Miocene. Although scorched mussels are very similar in appearance, their evolutionary histories are very different, involving major historical contingencies as the formation of the Amazon River, the Panama Isthmus, and the last marine transgression.
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Affiliation(s)
- Berenice Trovant
- Instituto de Diversidad y Evolución (IDEAus‐CONICET)Boulevard Brown 2915U9120ACFPuerto MadrynChubutArgentina
| | - Néstor G. Basso
- Instituto de Diversidad y Evolución (IDEAus‐CONICET)Boulevard Brown 2915U9120ACFPuerto MadrynChubutArgentina
| | - José María Orensanz
- Instituto de Diversidad y Evolución (IDEAus‐CONICET)Boulevard Brown 2915U9120ACFPuerto MadrynChubutArgentina
| | - Enrique P. Lessa
- Departamento de Ecología y EvoluciónFacultad de CienciasUniversidad de la RepúblicaIguá 4225C.P. 11400MontevideoUruguay
| | - Fernando Dincao
- Universidade Federal do Rio Grande – FURGAv. Itália km 8 Bairro Carreiros96203‐900Rio GrandeBrazil
| | - Daniel E. Ruzzante
- Department of BiologyDalhousie University1355 Oxford St.HalifaxNova ScotiaB3H 4R2Canada
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20
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Simone LRL, Mikkelsen PM, Bieler R. Comparative Anatomy of Selected Marine Bivalves from the Florida Keys, with Notes on Brazilian Congeners (Mollusca: Bivalvia). MALACOLOGIA 2015. [DOI: 10.4002/040.058.0201] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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21
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Composition and predicted functional ecology of mussel-associated bacteria in Indonesian marine lakes. Antonie van Leeuwenhoek 2015; 107:821-34. [PMID: 25563637 DOI: 10.1007/s10482-014-0375-1] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/22/2014] [Accepted: 12/30/2014] [Indexed: 10/24/2022]
Abstract
In the present study, we sampled bacterial communities associated with mussels inhabiting two distinct coastal marine ecosystems in Kalimantan, Indonesia, namely, marine lakes and coastal mangroves. We used 16S rRNA gene pyrosequencing and predicted metagenomic analysis to compare microbial composition and function. Marine lakes are small landlocked bodies of seawater isolated to varying degrees from the open sea environment. They contain numerous endemic taxa and represent natural laboratories of speciation. Our primary goals were to (1) use BLAST search to identify closely related organisms to dominant bacterial OTUs in our mussel dataset and (2) to compare bacterial communities and enrichment in the predicted bacterial metagenome among lakes. Our sequencing effort yielded 3553 OTUs belonging to 44 phyla, 99 classes and 121 orders. Mussels in the largest marine lake (Kakaban) and the coastal mangrove habitat were dominated by bacteria belonging to the phylum Proteobacteria whereas smaller lakes, located on the island of Maratua, were dominated by bacteria belonging to the phyla Firmicutes and Tenericutes. The single most abundant OTU overall was assigned to the genus Mycoplasma. There were several significant differences among locations with respect to metabolic pathways. These included enrichment of xenobiotic biodegradation pathways in the largest marine lake and coastal mangrove. These locations were also the most enriched with respect to nitrogen metabolism. The presence of genes related to isoquinoline alkaloids, polyketides, hydrolases, mono and dioxygenases in the predicted analysis of functional pathways is an indication that the bacterial communities of Brachidontes mussels may be potentially important sources of new marine medicines and enzymes of industrial interest. Future work should focus on measuring how mussel microbial communities influence nutrient dynamics within the marine lake environment and isolating microbes with potential biotechnological applications.
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22
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Scorched mussels (BIVALVIA: MYTILIDAE: BRACHIDONTINAE) from the temperate coasts of South America: phylogenetic relationships, trans-Pacific connections and the footprints of Quaternary glaciations. Mol Phylogenet Evol 2014; 82 Pt A:60-74. [PMID: 25451805 DOI: 10.1016/j.ympev.2014.10.002] [Citation(s) in RCA: 52] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2014] [Revised: 08/26/2014] [Accepted: 10/03/2014] [Indexed: 11/22/2022]
Abstract
This study addresses aspects of the phylogeny and phylogeography of scorched mussels (BIVALVIA: MYTILIDAE: BRACHIDONTINAE) from southern South America (Argentina and Chile), as well as their ecophylogenetic implications. Relationships were inferred from sequences of two nuclear (28S and 18S) and one mitochondrial (COI) genes, using Bayesian and maximum likelihood analyses. Our results indicate that the monophyletic BRACHIDONTINAE include three well supported clades: [i] Brachidontes Swainson (=Hormomya Mörch), [ii] Ischadium Jukes-Browne+Geukensia van de Poel, and [iii] Austromytilus Laseron+Mytilisepta Habe (usually considered a member of the SEPTIFERINAE)+Perumytilus Olsson. Species of clade [iii] are distributed along the temperate coasts of the Pacific Ocean. Available evidence supports divergence between Austromytilus (Australia) and Perumytilus (South American) following the breakup of Australian, Antarctic and South American shelves. Four brachidontins occur in southern South America: Brachidontes rodriguezii (d'Orbigny), B. granulatus (Hanley), and two genetically distinct clades of Perumytilus. The latter are confined to the Chile-Peru (North Clade) and Magellanic (South Clade) Biogeographic Provinces, respectively warm- and cold-temperate. The South Clade is the only brachidontin restricted to cold-temperate waters. Biogeographic considerations and the fossil record prompted the hypothesis that the South Clade originated from the North Clade by incipient peripatric differentiation, followed by isolation during the Quaternary glaciations, genetic differentiation in the non-glaciated coasts of eastern Patagonia, back-expansion over southern Chile following post-LGM de-glaciation, and development of a secondary contact zone between the two clades in south-central Chile. Evidence of upper Pleistocene expansion of the South Clade parallels similar results on other organisms that have colonized coastal ecosystems from eastern Patagonia since the LGM, apparently occupying free ecological space. We emphasize that the assembly of communities cannot be explained solely in terms of environmental drivers, as history also matters.
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Bennett KF, Bailey AW, Brambert DJ, Ferhati EW, Karson CA, Nafasat U, Wadleigh JK, Wright AH. The F type mitochondrial genome of the scorched mussel:Brachidontes exustus, (Mytiloida, Mytilidae). ACTA ACUST UNITED AC 2014; 27:1501-2. [DOI: 10.3109/19401736.2014.953111] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
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24
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Lewandowski M, Skoracka A, Szydło W, Kozak M, Druciarek T, Griffiths DA. Genetic and morphological diversity of Trisetacus species (Eriophyoidea: Phytoptidae) associated with coniferous trees in Poland: phylogeny, barcoding, host and habitat specialization. EXPERIMENTAL & APPLIED ACAROLOGY 2014; 63:497-520. [PMID: 24711065 PMCID: PMC4053603 DOI: 10.1007/s10493-014-9805-z] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2013] [Accepted: 03/15/2014] [Indexed: 05/10/2023]
Abstract
Eriophyoid species belonging to the genus Trisetacus are economically important as pests of conifers. A narrow host specialization to conifers and some unique morphological characteristics have made these mites interesting subjects for scientific inquiry. In this study, we assessed morphological and genetic variation of seven Trisetacus species originating from six coniferous hosts in Poland by morphometric analysis and molecular sequencing of the mitochondrial cytochrome oxidase subunit I gene and the nuclear D2 region of 28S rDNA. The results confirmed the monophyly of the genus Trisetacus as well as the monophyly of five of the seven species studied. Both DNA sequences were effective in discriminating between six of the seven species tested. Host-dependent genetic and morphological variation in T. silvestris and T. relocatus, and habitat-dependent genetic and morphological variation in T. juniperinus were detected, suggesting the existence of races or even distinct species within these Trisetacus taxa. This is the first molecular phylogenetic analysis of the Trisetacus species. The findings presented here will stimulate further investigations on the evolutionary relationships of Trisetacus as well as the entire Phytoptidae family.
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Affiliation(s)
- Mariusz Lewandowski
- Department of Applied Entomology, Faculty of Horticulture, Biotechnology and Landscape Architecture, Warsaw University of Life Sciences (SGGW), Nowoursynowska 159, 02-776 Warsaw, Poland
| | - Anna Skoracka
- Department of Animal Taxonomy and Ecology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614 Poznan, Poland
| | - Wiktoria Szydło
- Department of Animal Taxonomy and Ecology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614 Poznan, Poland
| | - Marcin Kozak
- Department of Botany, Faculty of Agriculture and Biology, Warsaw University of Life Sciences (SGGW), Nowoursynowska 159, 02-776 Warsaw, Poland
| | - Tobiasz Druciarek
- Department of Applied Entomology, Faculty of Horticulture, Biotechnology and Landscape Architecture, Warsaw University of Life Sciences (SGGW), Nowoursynowska 159, 02-776 Warsaw, Poland
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25
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Jackson AM, Semmens BX, Sadovy de Mitcheson Y, Nemeth RS, Heppell SA, Bush PG, Aguilar-Perera A, Claydon JAB, Calosso MC, Sealey KS, Schärer MT, Bernardi G. Population structure and phylogeography in Nassau grouper (Epinephelus striatus), a mass-aggregating marine fish. PLoS One 2014; 9:e97508. [PMID: 24830641 PMCID: PMC4022523 DOI: 10.1371/journal.pone.0097508] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2013] [Accepted: 04/18/2014] [Indexed: 11/19/2022] Open
Abstract
To address patterns of genetic connectivity in a mass-aggregating marine fish, we analyzed genetic variation in mitochondrial DNA (mtDNA), microsatellites, and single nucleotide polymorphisms (SNPs) for Nassau grouper (Epinephelus striatus). We expected Nassau grouper to exhibit genetic differentiation among its subpopulations due to its reproductive behavior and retentive oceanographic conditions experienced across the Caribbean basin. All samples were genotyped for two mitochondrial markers and 9 microsatellite loci, and a subset of samples were genotyped for 4,234 SNPs. We found evidence of genetic differentiation in a Caribbean-wide study of this mass-aggregating marine fish using mtDNA (FST = 0.206, p<0.001), microsatellites (FST = 0.002, p = 0.004) and SNPs (FST = 0.002, p = 0.014), and identified three potential barriers to larval dispersal. Genetically isolated regions identified in our work mirror those seen for other invertebrate and fish species in the Caribbean basin. Oceanographic regimes in the Caribbean may largely explain patterns of genetic differentiation among Nassau grouper subpopulations. Regional patterns observed warrant standardization of fisheries management and conservation initiatives among countries within genetically isolated regions.
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Affiliation(s)
- Alexis M. Jackson
- Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, California, United States of America
- * E-mail:
| | - Brice X. Semmens
- Scripps Institution of Oceanography, University of California San Diego, La Jolla, California, United States of America
| | | | - Richard S. Nemeth
- Department of Zoology/Marine Biology, University of the Virgin Islands, St. Thomas, Virgin Islands, United States of America
| | - Scott A. Heppell
- Department of Fisheries and Wildlife, Oregon State University, Corvallis, Oregon, United States of America
| | - Phillippe G. Bush
- Protection and Conservation Unit, Cayman Islands Department of the Environment, Grand Cayman, British West Indies
| | - Alfonso Aguilar-Perera
- Departmento de Biología Marina, Universidad Autónoma de Yucatán, Mérida, Yucatán, México
| | - John A. B. Claydon
- The School for Field Studies, Center for Marine Resource Studies, South Caicos, Turks and Caicos Islands
| | - Marta C. Calosso
- The School for Field Studies, Center for Marine Resource Studies, South Caicos, Turks and Caicos Islands
| | - Kathleen S. Sealey
- Department of Biology, University of Miami, Coral Gables, Florida, United States of America
| | | | - Giacomo Bernardi
- Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, California, United States of America
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26
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Toscano BJ, Newsome B, Griffen BD. Parasite modification of predator functional response. Oecologia 2014; 175:345-52. [DOI: 10.1007/s00442-014-2905-y] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2013] [Accepted: 02/03/2014] [Indexed: 11/24/2022]
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27
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Skoracka A, Kuczyński L, Szydło W, Rector B. The wheat curl miteAceria tosichella(Acari: Eriophyoidea) is a complex of cryptic lineages with divergent host ranges: evidence from molecular and plant bioassay data. Biol J Linn Soc Lond 2013. [DOI: 10.1111/bij.12024] [Citation(s) in RCA: 57] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Anna Skoracka
- Department of Animal Taxonomy and Ecology; Institute of Environmental Biology; Faculty of Biology; Adam Mickiewicz University; Umultowska 89; 61-614; Poznań; Poland
| | - Lechosław Kuczyński
- Department of Avian Biology and Ecology; Institute of Environmental Biology; Faculty of Biology; Adam Mickiewicz University; Umultowska 89; 61-614; Poznań; Poland
| | - Wiktoria Szydło
- Department of Animal Taxonomy and Ecology; Institute of Environmental Biology; Faculty of Biology; Adam Mickiewicz University; Umultowska 89; 61-614; Poznań; Poland
| | - Brian Rector
- USDA-ARS; Great Basin Rangelands Research Unit; Reno; NV; 89512; USA
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28
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González VL, Giribet G. A New Cryptic Species of Carditid Bivalve from the Gulf of California (Mollusca, Bivalvia, Archiheterodonta, Carditidae). MALACOLOGIA 2012. [DOI: 10.4002/040.055.0205] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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29
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Biparental Inheritance Through Uniparental Transmission: The Doubly Uniparental Inheritance (DUI) of Mitochondrial DNA. Evol Biol 2012. [DOI: 10.1007/s11692-012-9195-2] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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30
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Skoracka A, Kuczyński L, Santos de Mendonça R, Dabert M, Szydło W, Knihinicki D, Truol G, Navia D. Cryptic species within the wheat curl mite Aceria tosichella (Keifer) (Acari : Eriophyoidea), revealed by mitochondrial, nuclear and morphometric data. INVERTEBR SYST 2012. [DOI: 10.1071/is11037] [Citation(s) in RCA: 60] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
The wheat curl mite (WCM), Aceria tosichella (Keifer, 1969), is one of the primary pests of wheat and other cereals throughout the world. Traditional taxonomy recognises WCM as a single eriophyoid species; however, a recent study suggested that two genetic lineages of WCM in Australia might represent putative species. Here, we investigate WCM populations from different host plants in Australia, South America and Europe and test the hypothesis that WCM is, in fact, a complex of cryptic species. We used morphological data in combination with nucleotide sequences of the mitochondrial cytochromec oxidase subunitI (COI) and nuclear D2 region of 28S rDNA and internal transcribed spacer region (ITS1, ITS2) sequences. The molecular analyses did not support the monophyly of A. tosichella because the outgroup A. tulipae (Keifer, 1938) is grouped within WCM. The molecular datasets indicated the existence of distinct lineages within WCM, with the distances between lineages corresponding to interspecific divergence. Morphological analyses failed to clearly separate WCM populations and lineages, but completely separated A. tulipae from A. tosichella. The results suggest that what has been recognised historically as a single species is, in fact, a complex of several genetically isolated evolutionary lineages that demonstrate potential as cryptic species. Hence, their discrimination using solely morphological criteria may be misleading. These findings are particularly significant because of the economic importance of WCM as a direct pest and vector of plant viruses.
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Kruse I, Hare MP, Hines AH. Genetic relationships of the marine invasive crab parasite Loxothylacus panopaei: an analysis of DNA sequence variation, host specificity, and distributional range. Biol Invasions 2011. [DOI: 10.1007/s10530-011-0111-y] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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LIU JUN, LI QI, KONG LINGFENG, ZHENG XIAODONG. Cryptic diversity in the pen shell Atrina pectinata (Bivalvia: Pinnidae): high divergence and hybridization revealed by molecular and morphological data. Mol Ecol 2011; 20:4332-45. [DOI: 10.1111/j.1365-294x.2011.05275.x] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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Goto TV, Tamate HB, Hanzawa N. Phylogenetic Characterization of Three Morphs of Mussels (Bivalvia, Mytilidae) Inhabiting Isolated Marine Environments in Palau Islands. Zoolog Sci 2011; 28:568-79. [DOI: 10.2108/zsj.28.568] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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Soroka M, Burzyński A. Complete sequences of maternally inherited mitochondrial genomes in mussels Unio pictorum (Bivalvia, Unionidae). J Appl Genet 2011; 51:469-76. [PMID: 21063064 DOI: 10.1007/bf03208876] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Mitochondrial genomes are frequently used to infer phylogenetic relationships. Some taxa are, however, poorly represented. To facilitate better understanding of the potential of mitochondrial genome data in freshwater mussels, we present here, for the first time, the mitochondrial sequences of 4 complete F-type mitochondrial genomes from the European freshwater bivalve Unio pictorum (Unionidae). These genomes are very compact (15,761 bp) but have a typical gene complement for bilaterian mitochondrial genomes and a very similar organization to other unionid genomes available in databases. Very low nucleotide diversity within the species suggests a small effective population size of Polish U. pictorum, a phenomenon of potential importance for environmental management policies.
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Affiliation(s)
- M Soroka
- University of Szczecin, Department of Genetics, Felczaka 3c, 71-412 Szczecin, Poland.
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Characteristics of mitochondrial DNA of unionid bivalves (Mollusca: Bivalvia: Unionidae). I. Detection and characteristics of doubly uniparental inheritance (DUI) of unionid mitochondrial DNA. FOLIA MALACOLOGICA 2011. [DOI: 10.2478/v10125-010-0015-y] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
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New insights into diversity and evolution of deep-sea Mytilidae (Mollusca: Bivalvia). Mol Phylogenet Evol 2010; 57:71-83. [PMID: 20558305 DOI: 10.1016/j.ympev.2010.05.027] [Citation(s) in RCA: 67] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2009] [Revised: 05/26/2010] [Accepted: 05/29/2010] [Indexed: 11/22/2022]
Abstract
Bathymodiolinae mussels have been used as a biological model to better understand the evolutionary origin of faunas associated with deep-sea hydrothermal vents and cold seeps. Most studies to date, however, have sampled with a strong bias towards vent and seep species, mainly because of a lack of knowledge of closely related species from organic falls. Here we reassess the species diversity of deep-sea mussels using two genes and a large taxon sample from the South-Western Pacific. This new taxonomic framework serves as a basis for a phylogenetic investigation of their evolutionary history. We first highlight an unexpected allopatric pattern and suggest that mussels usually reported from organic falls are in fact poorly specialized with regard to their environment. This challenges the adaptive scenarios proposed to explain the diversification of the group. Second, we confirm that deep-sea mussels arose from organic falls and then colonized hydrothermal vents and cold seeps in multiple events. Overall, this study constitutes a new basis for further phylogenetic investigations and a global systematic revision of deep-sea mussels.
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Skoracka A, Dabert M. The cereal rust mite Abacarus hystrix (Acari: Eriophyoidea) is a complex of species: evidence from mitochondrial and nuclear DNA sequences. BULLETIN OF ENTOMOLOGICAL RESEARCH 2010; 100:263-72. [PMID: 19671206 DOI: 10.1017/s0007485309990216] [Citation(s) in RCA: 44] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/08/2023]
Abstract
The cereal rust mite Abacarus hystrix (Nalepa), a significant pest of grasses, has been regarded as one of a few exceptions among eriophyoid mites with reference to the pattern of host plant utilization. At least 60 grass species have been recorded as its hosts. Thus, the mite has long been considered as a host generalist in which host specialization would not be likely to evolve. However, recent studies have revealed that host-associated specialization is possible in A. hystrix. Here, we aimed to discriminate between the three populations of A. hystrix associated with the different hosts (namely quackgrass, ryegrass and smooth brome) on the basis of mitochondrial (COI) and nuclear (D2 region of 28S rDNA) DNA sequences. The phylogenetic trees obtained with the maximum likelihood analysis of both COI and D2 region data sets showed that host-adapted strains of A. hystrix form distinct clades. Furthermore, on the COI nucleotide tree, the quackgrass- and brome-associated strains were internally divided each into two well-supported monophyletic clusters. The nucleotide D2 region data set tree showed that brome-associated strain is polyphyletic in origin. There is clear co-variation of DNA results with earlier morphological and ecological traits, as well as the results of crossing experiments. We showed that reproductively incompatible strains of A. hystrix exhibit more than 20% sequence divergence in the COI gene and 0.2% sequence divergence in the D2 28S rDNA. Our results did not confirm the placement of three host-associated strains of A. hystrix within one, ostensibly generalist, species.
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Affiliation(s)
- A Skoracka
- Department of Animal Taxonomy and Ecology, Institute of Environmental Biology, Faculty of Biology, Adam Mickiewicz University, Umultowska 89, 61-614 Poznan, Poland.
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LARA ARIAGNA, PONCE de LEÓN JOSÉLUIS, RODRÍGUEZ RODET, CASANE DIDIER, CÔTÉ GUILLAUME, BERNATCHEZ LOUIS, GARCÍA‐MACHADO ERIK. DNA barcoding of Cuban freshwater fishes: evidence for cryptic species and taxonomic conflicts. Mol Ecol Resour 2010; 10:421-30. [DOI: 10.1111/j.1755-0998.2009.02785.x] [Citation(s) in RCA: 111] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- ARIAGNA LARA
- Centro de Investigaciones Marinas, Universidad de La Habana, Calle 16, No. 114 Entre 1ra y 3ra, Miramar, Playa, Ciudad Habana 11300, Cuba
| | - JOSÉ LUIS PONCE de LEÓN
- Facultad de Biología, Universidad de La Habana, Calle 25, No. 455 Entre J e I, Vedado, Ciudad Habana 10400, Cuba
| | - RODET RODRÍGUEZ
- Facultad de Biología, Universidad de La Habana, Calle 25, No. 455 Entre J e I, Vedado, Ciudad Habana 10400, Cuba
| | - DIDIER CASANE
- Laboratoire Evolution Génomes et Spéciation (UPR9034), CNRS, 91198 Gif‐sur‐Yvette Cedex, France
| | - GUILLAUME CÔTÉ
- Institut de Biologie Intégrative et des Systèmes (IBIS), Pavillon Charles‐Eugène Marchand, Université Laval, Quebec, QC, Canada G1V 0A6
| | - LOUIS BERNATCHEZ
- Institut de Biologie Intégrative et des Systèmes (IBIS), Pavillon Charles‐Eugène Marchand, Université Laval, Quebec, QC, Canada G1V 0A6
| | - ERIK GARCÍA‐MACHADO
- Centro de Investigaciones Marinas, Universidad de La Habana, Calle 16, No. 114 Entre 1ra y 3ra, Miramar, Playa, Ciudad Habana 11300, Cuba
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CALVO MARTA, TEMPLADO JOSÉ, OLIVERIO MARCO, MACHORDOM ANNIE. Hidden Mediterranean biodiversity: molecular evidence for a cryptic species complex within the reef building vermetid gastropod Dendropoma petraeum (Mollusca: Caenogastropoda). Biol J Linn Soc Lond 2009. [DOI: 10.1111/j.1095-8312.2008.01167.x] [Citation(s) in RCA: 76] [Impact Index Per Article: 5.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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40
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Soroka M. Identification of gender-associated mitochondrial haplotypes in Anodonta anatina (Bivalvia: Unionidae). FOLIA MALACOLOGICA 2009. [DOI: 10.12657/folmal.016.003] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
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41
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Mathews LM, Anker A. Molecular phylogeny reveals extensive ancient and ongoing radiations in a snapping shrimp species complex (Crustacea, Alpheidae, Alpheus armillatus). Mol Phylogenet Evol 2009; 50:268-81. [DOI: 10.1016/j.ympev.2008.10.026] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2008] [Revised: 10/18/2008] [Accepted: 10/30/2008] [Indexed: 11/26/2022]
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42
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Hunter RL, Halanych KM. Evaluating connectivity in the brooding brittle star Astrotoma agassizii across the drake passage in the Southern Ocean. ACTA ACUST UNITED AC 2008; 99:137-48. [PMID: 18245798 DOI: 10.1093/jhered/esm119] [Citation(s) in RCA: 142] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Studies examining population structure and genetic diversity of benthic marine invertebrates in the Southern Ocean have emerged in recent years. However, many taxonomic groups remain largely unstudied, echinoderms being one conspicuous example. The brittle star Astrotoma agassizii is distributed widely throughout Antarctica and southern South America. This species is a brooding echinoderm and therefore may have limited dispersal capacity. In order to determine the effect of hypothesized isolating barriers in the Southern Ocean, such as depth, geographic distance, and the polar front, 2 mitochondrial DNA markers were used to compare populations from the South American and Antarctic continental shelves. Astrotoma agassizii was shown to be genetically discontinuous across the polar front. In fact, populations previously assumed to be panmictic instead represent 3 separate lineages that lack morphological distinction. However, within lineages, genetic continuity was displayed across a large geographic range (>500 km). Therefore, despite lacking a pelagic larval stage, A. agassizii can disperse across substantial geographic distance within continental shelf regions. These results indicate that geographic distance alone may not be a barrier to dispersal, but rather the combined effects of distance, depth, and the polar front act to prevent gene flow between A. agassizii populations in the Southern Ocean.
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Affiliation(s)
- Rebecca L Hunter
- Department of Biological Sciences, Auburn University, 101 Rouse Life Sciences Building, Auburn, AL 36849, USA.
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43
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Theologidis I, Fodelianakis S, Gaspar MB, Zouros E. Doubly uniparental inheritance (DUI) of mitochondrial DNA in Donax trunculus (Bivalvia: Donacidae) and the problem of its sporadic detection in Bivalvia. Evolution 2008; 62:959-70. [PMID: 18208565 DOI: 10.1111/j.1558-5646.2008.00329.x] [Citation(s) in RCA: 74] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022]
Abstract
Mitochondrial DNA is transmitted maternally in metazoan species. This rule does not hold in several species of bivalves that have two mtDNA types, one that is transmitted maternally and the other paternally. This system of mitochondrial DNA transmission is known as doubly uniparental inheritance (DUI). Here we present evidence of DUI in the clam Donax trunculus making Donacidae the sixth bivalve family in which the phenomenon has been found. In addition, we present the taxonomic affiliation of all species in which DUI is currently known to occur and construct a phylogeny of the maternal and paternal genomes of these species. We use this information to address the question of a single or multiple origins of DUI and to discuss whether failed attempts to demonstrate the presence of DUI in several bivalve species might be due to problems of detection or to genuine absence of the phenomenon.
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44
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Terranova MS, Lo Brutto S, Arculeo M, Mitton JB. A mitochondrial phylogeography of Brachidontes variabilis (Bivalvia: Mytilidae) reveals three cryptic species. J ZOOL SYST EVOL RES 2007. [DOI: 10.1111/j.1439-0469.2007.00421.x] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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45
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Richards VP, Thomas JD, Stanhope MJ, Shivji MS. Genetic connectivity in the Florida reef system: comparative phylogeography of commensal invertebrates with contrasting reproductive strategies. Mol Ecol 2006; 16:139-57. [PMID: 17181727 DOI: 10.1111/j.1365-294x.2006.03145.x] [Citation(s) in RCA: 48] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
Effective spatial management of coral reefs including design of marine protected areas requires an understanding of interpopulation genetic connectivity. We assessed gene flow along 355 km of the Florida reef system and between Florida and Belize in three commensal invertebrates occupying the same host sponge (Callyspongia vaginalis) but displaying contrasting reproductive dispersal strategies: the broadcast-spawning brittle star Ophiothrix lineata and two brooding amphipods Leucothoe kensleyi and Leucothoe ashleyae. Multiple analytical approaches to sequence variation in the mitochondrial COI gene demonstrated a high degree of overall connectivity for all three species along the Florida reef system. Ophiothrix lineata showed significant genetic structuring between Florida and Belize, and a pattern of isolation by distance but no significant genetic structuring along the Florida coastline. Bayesian estimates of migration detected a strong southerly dispersal bias for O. lineata along the Florida reef system, contrary to the general assumption of northerly gene flow in this region based on the direction of the Florida Current. Both amphipods, despite direct development, also showed high gene flow along the Florida reef system. Multiple inferences of long-distance dispersal from a nested clade analysis support the hypothesis that amphipod transport, possibly in detached sponge fragments, could generate the high levels of overall gene flow observed. However, this transport mechanism appears much less effective across deep water as connectivity between Florida and Belize (1072 km) is highly restricted.
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Affiliation(s)
- Vincent P Richards
- National Coral Reef Institute, Oceanographic Center, Nova Southeastern University, 8000 North Ocean Drive, Dania Beach, FL 33004 USA
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46
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Soltis DE, Morris AB, McLachlan JS, Manos PS, Soltis PS. Comparative phylogeography of unglaciated eastern North America. Mol Ecol 2006; 15:4261-93. [PMID: 17107465 DOI: 10.1111/j.1365-294x.2006.03061.x] [Citation(s) in RCA: 510] [Impact Index Per Article: 28.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
Regional phylogeographical studies involving co-distributed animal and plant species have been conducted for several areas, most notably for Europe and the Pacific Northwest of North America. Until recently, phylogeographical studies in unglaciated eastern North America have been largely limited to animals. As more studies emerge for diverse lineages (including plants), it seems timely to assess the phylogeography across this region: (i) comparing and contrasting the patterns seen in plants and animals; (ii) assessing the extent of pseudocongruence; and (iii) discussing the potential applications of regional phylogeography to issues in ecology, such as response to climatic change. Unglaciated eastern North America is a large, geologically and topographically complex area with the species examined having diverse distributions. Nonetheless, some recurrent patterns emerge: (i) maritime - Atlantic vs. Gulf Coast; (ii) Apalachicola River discontinuity; (iii) Tombigbee River discontinuity; (iv) the Appalachian Mountain discontinuity; (v) the Mississippi River discontinuity; and (vi) the Apalachicola River and Mississippi River discontinuities. Although initially documented in animals, most of these patterns are also apparent in plants, providing support for phylogeographical generalizations. These patterns may generally be attributable to isolation and differentiation during Pleistocene glaciation, but in some cases may be older (Pliocene). Molecular studies sometimes agree with longstanding hypotheses of glacial refugia, but also suggest additional possible refugia, such as the southern Appalachian Mountains and areas close to the Laurentide Ice Sheet. Many species exhibit distinct patterns that reflect the unique, rather than the shared, aspects of species' phylogeographical histories. Furthermore, similar modern phylogeographical patterns can result from different underlying causal factors operating at different times (i.e. pseudocongruence). One underemphasized component of pseudocongruence may result from the efforts of researchers to categorize patterns visually - similar patterns may, in fact, not fully coincide, and inferring agreement may obscure the actual patterns and lead to erroneous conclusions. Our modelling analyses indicate no clear spatial patterning and support the hypothesis that phylogeographical structure in diverse temperate taxa is complex and was not shaped by just a few barriers.
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Affiliation(s)
- Douglas E Soltis
- Department of Botany, University of Florida, Gainesville, FL 32611, USA.
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Ellingson RA, Krug PJ. EVOLUTION OF POECILOGONY FROM PLANKTOTROPHY: CRYPTIC SPECIATION, PHYLOGEOGRAPHY, AND LARVAL DEVELOPMENT IN THE GASTROPOD GENUS ALDERIA. Evolution 2006. [DOI: 10.1111/j.0014-3820.2006.tb01866.x] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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48
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Haney RA, Silliman BR, Fry AJ, Layman CA, Rand DM. The Pleistocene history of the sheepshead minnow (Cyprinodon variegatus): Non-equilibrium evolutionary dynamics within a diversifying species complex. Mol Phylogenet Evol 2006; 43:743-54. [PMID: 17081774 DOI: 10.1016/j.ympev.2006.08.022] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2006] [Revised: 08/24/2006] [Accepted: 08/31/2006] [Indexed: 10/24/2022]
Abstract
The sheepshead minnow, Cyprinodon variegatus, is a widespread fish species that typically inhabits coastal tidal marsh and mangrove swamp environments, ranging from Cape Cod, Massaschusetts to northern Mexico and into the Caribbean. This wide range crosses several biogeographic boundaries which are coincident with genetic structuring within numerous species originating in the Pleistocene. In addition, the more northerly reaches of this species range have been further subject to the evolutionary consequences of Pleistocene glaciation due to local extinction and recolonization of formerly glaciated sites. C. variegatus thus provides an excellent vertebrate model system within which to test the extent of genetic differentiation among populations in a dominant coastal ecosystem and examine patterns of historical demography in populations distributed along a latitudinal gradient. Using mitochondrial control region and ND2 sequence data, we discovered monophyletic clades within C. variegatus with divergence times within the Pleistocene, and very low gene flow between most sites. Intraspecific genetic breaks appear to correspond broadly to biogeographic or oceanic boundaries. Pleistocene climate change appears to have had dramatic impacts on the size and distribution of populations within and near the glacial margins, but has also affected populations far from formerly glaciated regions.
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Affiliation(s)
- Robert A Haney
- Department of Ecology and Evolutionary Biology, Box G-W, Brown University, Providence, RI 02912, USA.
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49
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Derycke S, Backeljau T, Vlaeminck C, Vierstraete A, Vanfleteren J, Vincx M, Moens T. Seasonal dynamics of population genetic structure in cryptic taxa of the Pellioditis marina complex (Nematoda: Rhabditida). Genetica 2006; 128:307-21. [PMID: 17028960 DOI: 10.1007/s10709-006-6944-0] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2005] [Accepted: 01/23/2006] [Indexed: 10/24/2022]
Abstract
The distribution patterns and genetic structure of the Pellioditis marina species complex in Belgium and The Netherlands were compared between four consecutive seasons. Different types of habitats (coast, estuary, semi-estuary and lake) with different degrees of connectivity were sampled. In addition, each habitat type was characterised by either temporal or permanent algal deposits. We screened 426 bp of the mitochondrial cytochrome oxidase c (COI) gene with the single-strand conformation polymorphism (SSCP) method in 1615 individuals of Pellioditis marina. The 51 haplotypes were divided into four (sympatric) lineages, with divergences ranging from 0.25 to 10.6%. Our results show that the lineages have different temporal dynamics, which may be linked to abiotic factors. Analysis of Molecular Variance (AMOVA) indicated a significant structuring in the PmI lineage, which correlated with habitat characteristics and which changed over time (Mantel, r = 0.51; p = 0.126). Intrapopulational diversity was similar in all locations, and temporal changes in haplotype frequencies were not higher in temporary than in permanent algal deposits. Instead, the results of the temporal survey indicated that (some) P. marina populations are characterised by a metapopulation structure. It is emphasized that a complete and correct interpretation of processes causing genetic structuring within species and of the genetic structure itself can only be done when analyses are performed at several time points.
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Affiliation(s)
- S Derycke
- Department of Biology, Marine Biology Section, Ghent University, Krijgslaan 281 (S8), 9000, Ghent, Belgium.
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50
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Murray MC, Hare MP. A genomic scan for divergent selection in a secondary contact zone between Atlantic and Gulf of Mexico oysters,Crassostrea virginica. Mol Ecol 2006; 15:4229-42. [PMID: 17054515 DOI: 10.1111/j.1365-294x.2006.03060.x] [Citation(s) in RCA: 72] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The degree of population structure within species often varies considerably among loci. This makes it difficult to determine whether observed variance reflects neutral-drift stochasticity or locus-specific selection at one or more loci. This uncertainty is exacerbated when evolutionary equilibrium cannot be assumed and/or admixture potentially inflates genomic variance. Thus, the value of a 'genome scan', where locus-specific summary statistics are compared with a simulated neutral distribution among loci, may be limited in secondary contact zones if the null distribution is sensitive to the timing of secondary contact. Of particular interest here is the wide variance previously observed in locus-specific patterns of population structure between Atlantic and Gulf of Mexico populations of eastern oyster, Crassostrea virginica. To test the robustness of an equilibrium null model, we compared among-locus distributions of F(ST) simulated under migration-drift equilibrium and several nonequilibrium secondary contact histories. We then tested for evidence of divergent selection between two oyster populations on either side of a secondary contact zone using 215 amplified fragment length polymorphism (AFLP) loci. Constant-migration equilibrium and nonequilibrium secondary-contact simulations produced equivalent distributions of F(ST) when anchored by the global mean F(ST) observed in oysters, 0.0917. The 99th quantile of simulated neutral F(ST) encompassed most of the variation among oyster loci. Three AFLP loci exhibited F(ST) values higher than this threshold. Although no locus was significant after correcting for multiple tests, our results show in geographically clinal organisms: AFLPs can efficiently characterize the genomic distribution of F(ST); equilibrium models can be used to evaluate outliers; these procedures help focus research on genomic regions of interest.
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Affiliation(s)
- Maria C Murray
- Department of Biology, University of Maryland, College Park, MD 20742, USA
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