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Anthropogenic-induced climate change is having profound impacts on aquatic ecosystems, and the resilience of fish populations will be determined by their response to these impacts. The northern Namibian coast is an ocean warming hotspot, with temperatures rising faster than the global average. The rapid warming in Namibia has had considerable impacts on marine fauna, such as the southern extension of the distribution of Argyrosomus coronus from southern Angola into northern Namibian waters, where it now overlaps and hybridizes with the closely related Namibian species, A. inodorus. Understanding how these species (and their hybrids) perform at current and future temperatures is vital to optimize adaptive management for Argyrosomus species. Intermittent flow-through respirometry was used to quantify standard and maximum metabolic rates for Argyrosomus individuals across a range of temperatures. The modelled aerobic scope (AS) of A. inodorus was notably higher at cooler temperatures (12, 15, 18 and 21°C) compared with that of A. coronus, whereas the AS was similar at 24°C. Although only five hybrids were detected and three modelled, their AS was in the upper bounds of the models at 15, 18 and 24°C. These findings suggest that the warming conditions in northern Namibia may increasingly favour A. coronus and promote the poleward movement of the leading edge of their southern distribution. In contrast, the poor aerobic performance of both species at cold temperatures (12°C) suggests that the cold water associated with the permanent Lüderitz Upwelling Cell in the south may constrain both species to central Namibia. This is most concerning for A. inodorus because it may be subjected to a considerable coastal squeeze.

This study used RAD-seq-derived SNPs to explore population connectivity, local adaptation, and individual assignment in European sprat (Sprattus sprattus) and inform the alignment of management units with biological processes. FST, clustering, and outlier analyses support a genetically cohesive population spanning the Celtic Sea-English Channel-North Sea-Kattegat (NE Atlantic) region. The lack of structure among the NE Atlantic samples indicates connectivity across current management boundaries. However, the assumption of demographic panmixia is cautioned against unless verified by a multidisciplinary approach. The data confirm high genetic divergence of a Baltic population (average FST vs. NE Atlantic samples = 0.051) with signatures compatible with local adaptation in the form of outlier loci, some of which are shown to occur within exonic regions. The outliers permit diagnostic assignment of individuals between the NE Atlantic and Baltic populations and thus represent a “reduced panel” of markers for monitoring a potential mixed stock fishery within the western Baltic. Overall, this study provides information that may help refine spatial management boundaries of sprat and resources for genetic-assisted management.

Two sister species of horse mackerel (Trachurus trachurus and T. capensis) are described that are intensively harvested in East Atlantic waters. To address long‐standing uncertainties as to their respective geographical ranges, overlap and intraspecific population structure this study combined genetic (mitochondrial DNA and microsatellite) analysis and targeted sampling of the hitherto understudied West African coast. mtDNA revealed two reciprocally monophyletic clades corresponding to each species with interspecies nuclear differentiation supported by F ST values. The T. trachurus clade was found across the north‐east Atlantic down to Ghana but was absent from Angolan and South African samples. The T. capensis clade was found only in South Africa, Angola and a single Ghanaian individual. This pattern suggests that both species may overlap in the waters around Ghana. The potential for cryptic hybridization and/or indiscriminate harvesting of both species in the region is discussed. For T. capensis mtDNA supports high gene flow across the Benguela upwelling system, which fits with the species' ecology. The data add to evidence of a lack of significant genetic structure throughout the range of T. trachurus though the assumption of demographic panmixia is cautioned against. For both species, resolution of stock recruitment heterogeneity relevant to fishery management, as well as potential hybridization, will require more powerful genomic analyses.

The Patagonian toothfish, Dissostichus eleginoides, is one of the largest predatory fishes inhabiting Southern Ocean waters spanning the Antarctic Polar Front (APF), a prominent biogeographic boundary restricting gene flow and driving species divergence between Antarctic and sub-Antarctic waters. In the light of emerging threats to toothfish conservation and sustainability, this study investigated genetic [mtDNA sequences and genome wide nuclear single nucleotide polymorphisms (SNPs)] and morphological data to critically evaluate the taxonomic status of toothfish north (Chile and Patagonian shelf) and south (South Georgia and South Sandwich Islands) of the APF. mtDNA revealed reciprocally monophyletic lineages on either side of the APF with coalescent analysis indicating these diverged during the Pleistocene. Integration with data from other sources suggests the Chilean/Patagonian lineage is endemic. SNP analysis confirmed restricted nuclear gene flow between both groups and revealed a consensus suite of positive outlier SNPs compatible with adaptive divergence between these groups. Finally, several morphological features permit unequivocal assignment of individuals to either of the clades. Based on the genetic, phenotypic and ecological divergence, the authors propose that toothfish on either side of the APF be recognised as distinct species, with the name D. eleginoides used for toothfish occurring in South American waters north of the APF and toothfish south of the APF being classified using the new name D. australis reflecting their southern distribution.

The Osprey (Pandion haliaetus) experienced severe declines in Europe over the past centuries, including extirpations from large parts of its range. After Ospreys began naturally recolonizing Wales, United Kingdom (UK), in 2004, the Dyfi Osprey Project initiated an extensive ecological (ringing, satellite tracking, and nest video recordings) and genetic (microsatellite genotyping) monitoring program alongside artificial nest platform construction. From 2004 to 2019 there were 40 reproductive events (i.e., eggs laid in a nest) across six nests, resulting in a total of 95 fledglings and a yearly average of 2.35 ± 0.8 (SD) fledglings per nest-with-eggs. Video recording at one nest documented high hatching success and survival to the fledging and dispersal phases, as well as mate- and nest-fidelity across multiple years. Collectively these breeding parameters suggest high productivity associated with artificial nest structures and limited density-dependent effects for the Welsh population due to its small size and low density at this stage of recovery. Satellite tracking of four migrating individuals revealed that Ospreys used a western European migratory flyway and wintered in sub-Saharan western Africa. Genetic analysis of nestlings from five nests indicated single paternity in all cases, in agreement with evidence of social monogamy. Genetic analysis of geographical outgroups (Scottish, Swedish, and Latvian) provided preliminary evidence of cryptic population structure among UK (Welsh and Scottish) populations. The novel combination of loci show Welsh Osprey retain high levels of variation and more broadly direct reconsideration of the hitherto inferred genetic poverty of the species compared to other raptors. We recommend implementation of similar long-term ecological and genetic monitoring programs for other populations.

In polygamous species, the mode of sperm storage in females influences evolution of sperm quantitative and qualitative traits because it provides the arena for sperm competition, cryptic female choice and fertilization processes. In this study, we compared ejaculate traits of two squid species, Heterololigo bleekeri and Loligo reynaudii. Both species show dimorphic sperm traits associated with alternative reproductive tactics where consort and sneaker males transfer sperm to different storage sites within a female (on the oviduct and near the mouth, respectively). Due to differences in reproductive behaviours and sperm placement, sperm competition risk is expected to be higher in sneakers than in consorts of both species and higher overall in L. reynaudii. Our results demonstrate that the instantaneous number of released sperm is adjusted to the expected sperm competition risk via an elaborate sperm package. Consort sperm are similar in size; however, sneaker sperm have a significantly longer flagellum in H. bleekeri than in L. reynaudii, most likely due to intra-tactic conflicts associated with sperm storage conditions. From consideration of the different mating tactics, we suggest that while levels of sperm competition determine quantitative traits, sperm quality traits are determined more by the mode of sperm storage and fertilization.

Population genetic structure of the Patagonian longfin squid Doryteuthis gahi was assessed across the Falkland Islands, central-southern Chile, and Peru. Microsatellite and mtDNA data partitioned samples into two groups: one consisting of the Peruvian samples, the other comprised the Chilean and Falklands samples, with no sub-structuring within either group. Recurrent demographic independence between groups can be linked to abrupt changes in continental shelf features between the Peruvian and central Chilean sites restricting adult dispersal. Phylogeographic analyses indicate a prolonged period of isolation between the Peruvian and Chilean–Falkland groups which may include divergence in allopatric glacial refugia. Both groups have experienced dissimilar historical population size dynamics with the Peruvian population exhibiting signals of size fluctuations, similar to other species in the area, that align with postglacial changes in the productivity of the Humboldt Current system. Genetic cohesion among central-southern Chilean and Falklands samples supports connectivity across current management boundaries and indicates that phenotypic differences between D. gahi from these areas reflect plastic responses to environmental heterogeneity. The study adds to evidence that loliginid squids typically display connected populations over large geographical areas unless specific oceanographic features restrict gene flow. Recognition of the Peruvian and Chilean–Falklands groups as distinct evolutionary significant units is recommended.

Background The Barotse floodplains of the upper Zambezi River and its tributaries are a highly dynamic environment, with seasonal flooding and transhumance presenting a shifting mosaic of potential larval habitat and human and livestock blood meals for malaria vector mosquitoes. However, limited entomological surveillance has been undertaken to characterize the vector community in these floodplains and their environs. Such information is necessary as, despite substantial deployment of insecticide-treated nets (ITNs) and indoor residual spraying (IRS) against Anopheles vectors, malaria transmission persists across Barotseland in Zambia’s Western Province. Methods Geographically extensive larval surveys were undertaken in two health districts along 102 km of transects, at fine spatial resolution, during a dry season and following the peak of the successive wet season. Larvae were sampled within typical Anopheles flight range of human settlements and identified through genetic sequencing of cytochrome c oxidase I and internal transcribed spacer two regions of mitochondrial and nuclear DNA. This facilitated detailed comparison of taxon-specific abundance patterns between ecological zones differentiated by hydrological controls. Results An unexpected paucity of primary vectors was revealed, with An. gambiae s.l. and An. funestus representing < 2% of 995 sequenced anophelines. Potential secondary vectors predominated in the vector community, primarily An. coustani group species and An. squamosus. While the distribution of An. gambiae s.l. in the study area was highly clustered, secondary vector species were ubiquitous across the landscape in both dry and wet seasons, with some taxon-specific relationships between abundance and ecological zones by season. Conclusions The diversity of candidate vector species and their high relative abundance observed across diverse hydro-ecosystems indicate a highly adaptable transmission system, resilient to environmental variation and, potentially, interventions that target only part of the vector community. Larval survey results imply that residual transmission of malaria in Barotseland is being mediated predominantly by secondary vector species, whose known tendencies for crepuscular and outdoor biting renders them largely insensitive to prevalent vector control methods. Graphical Abstract

The genus Diplodus presents multiple cases of taxonomic conjecture. Among these the D. cervinus complex was previously described as comprising three subspecies that are now regarded as separate species: Diplodus cervinus, Diplodus hottentotus and Diplodus omanensis. Diplodus hottentotus exhibits a clear break in its distribution around the Benguela Current system, prompting speculation that Angolan and South African populations flanking this area may be isolated and warrant formal taxonomic distinction. This study reports the first integrated genetic [mitochondrial (mt)DNA and nuclear microsatellite] and morphological (morphometric, meristic and colouration) study to assess patterns of divergence between populations in the two regions. High levels of cytonuclear divergence between the populations support a prolonged period of genetic isolation, with the sharing of only one mtDNA haplotype (12 haplotypes were fully sorted between regions) attributed to retention of ancestral polymorphism. Fish from the two regions were significantly differentiated at a number of morphometric (69·5%) and meristic (46%) characters. In addition, Angolan and South African fish exhibited reciprocally diagnostic colouration patterns that were more similar to Mediterranean and Indian Ocean congeners, respectively. Based on the congruent genetic and phenotypic diversity we suggest that the use of hottentotus, whether for full species or subspecies status, should be restricted to South African D. cervinus to reflect their status as a distinct species-like unit, while the relationship between Angolan and Atlantic-Mediterranean D. cervinus will require further demo-genetic analysis. This study highlights the utility of integrated genetic and morphological approaches to assess taxonomic diversity within the biogeographically dynamic Benguela Current region.

Patella candei d’Orbigny is an exploited limpet endemic to the archipelagos of the Azores, Madeira, Selvagens and Canaries (Macaronesia). Marked declines reported for the species likely reflect overexploitation and inadequacy of current management measures with biodiversity further threatened by illegal harvesting and anthropogenic movement of limpets among archipelagos. Previous phylogeographic analyses of mtDNA COI sequence variation revealed that the (i) Azores, (ii) Madeira and (iii) Canaries and Selvagens represent three reciprocally monophyletic genetic stocks. The objective of this research was to identify diagnostic DNA sequence polymorphisms among the stocks that could be assayed by PCR-RFLP, thus permitting cost effective high throughput stock assignment. PCR-RFLP analysis of a COI fragment with two restriction enzymes (TaqI and AvaI) was sufficient to define diagnostic stock genotypes for the three stocks and permitted unambiguous stock assignment of a large sample of individuals (n = 952). This PCR-RFLP approach can be readily extended to discriminate other Patella stocks, through judicious selection of restriction enzymes and similar protocols and offers great potential for eco-certification associated practises.

This study initially aimed to investigate the genetic population/stock structuring of Lethrinus nebulosus in the Southwest Indian Ocean (SWIO) to inform management practices in light of emerging evidence of overharvesting of this species throughout its distribution. Adult samples were genotyped for 14 nuclear microsatellites and by sequencing fragments of the mtDNA control region and COI gene. A salient feature of the data was the congruent cyto-nuclear partitioning of samples into two high divergent, reciprocally monophyletic groups. This indicates that despite no a priori evidence, hitherto described L. nebulosus in the SWIO comprises two cryptic species that co-occur among southern samples. This intermingling indicates that, at least in southern samples, both species are being indiscriminately harvested, which may severely compromise sustainability. Limited microsatellite differentiation was detected within both species, though there was some evidence of isolation in the Mauritian population. In contrast, mtDNA revealed a pattern consistent with chaotic genetic patchiness, likely promoted by stochastic recruitment, which may necessitate a spatial bet-hedging approach to management to satisfy fishery management and conservation goals.

The West Coast dusky kob Argyrosomus coronus is a commercially exploited fish with a distribution confined to the Angola–Benguela Frontal Zone (ABFZ) of the southeastern Atlantic Ocean. A previous study revealed that during a recent period of local warming the species extended its distribution into Namibian waters, where it hybridised with the resident and congeneric Argyrosomus inodorus. Environmental changes are a major threat to marine biodiversity and when combined with overfishing have the potential to accelerate the decline of species. However, little is known regarding the evolutionary history and population structure of A. coronus across the ABFZ. We investigated genetic diversity, population structure and historical demographic changes using mtDNA control region sequences and genotypes at six nuclear microsatellite loci, from 180 individuals. A single, genetically homogeneous population was indicated across the distributional range of A. coronus (φST = 0.041, FST = 0.000, D = 0.000; p > 0.05). Th...

Accurate species identification and biogeographic characterisation are fundamental for appropriate management of expanding cephalopod fisheries. This study addresses this topic within the common cuttlefish Sepia officinalis species complex (S. officinalis, S. hierredda and S. vermiculata), with an emphasis on occurrence in African waters. Tissue samples from the currently presumed distributions of S. vermiculata and S. hierredda (from South Africa and Ghana/Angola, respectively) were sequenced for the cytochrome c oxidase subunit I (COI) and the cytochrome b (cytb) genes of the mitochondrial genome and then compared to existing S. officinalis sequences. Three highly divergent and reciprocally monophyletic clades, corresponding to S. officinalis, S. hierredda and S. vermiculata, were resolved, representing the first molecular confirmation of the distinct species status of S. hierredda and S. vermiculata. The sequences also revealed that, contrary to expectations based on presently published information, al...

Southern blue whiting Micromesistus australis support a substantial commercial fishery in South America. There is growing evidence of a high level of demographic independence between stocks associated with the two main spawning grounds, one in the SW Atlantic (SWA) and one in the SE Pacific (SEP), but the potential genetic structuring of these stocks is unknown. In this study adults collected from sites throughout SWA and SEP waters were genotyped at hypervariable microsatellite markers to investigate genetic structuring between and within regions. Allele frequency-based analyses reported highly significant genetic differentiation between regions, indicating low levels of allo-recruitment. Ancillary data on migratory behaviours support natal homing as a prominent stock isolating mechanism. Genetic differentiation was also detected among samples from around the Falkland Islands: kinship analyses indicated that this was due to non-random genetic relatedness within samples. Despite a general pattern of genetic homogeneity among SEP samples, the northernmost sample exhibited significantly high mean relatedness. The data indicate the occurrence of a further level of structuring within both regions that prevents complete mixing, specifically that schools may be hierarchically structured (from putative subpopulations down to kin-containing groups) and exhibit some degree of ontogenetic cohesion, which may also be a component of homing. The importance of homing and group cohesion as factors influencing resilience to, and recovery from, overexploitation is discussed. This study represents an important baseline for future genetic monitoring and assessment of M. australis. The need for such studies is emphasised by the observation of significantly lower levels of genetic variation among SWA samples, which may reflect genetic erosion, and the subsequent collapse of the SWA stock.

Loliginid squids provide a unique model system to explore male alternative reproductive tactics (ARTs) and their linkage to size, behavioral decision making, and possibly age. Large individuals fight one another and the winners form temporary consortships with females, while smaller individuals do not engage in male-male agonistic bouts but use various sneaker tactics to obtain matings, each with varying mating and fertilization success. There is substantial behavioral flexibility in most species, as smaller males can facultatively switch to the alternative consort behaviors as the behavioral context changes. These forms of ARTs can involve different: mating posture; site of spermatophore deposition; fertilization success; and sperm traits. Most of the traits of male dimorphism (both anatomical and behavioral) are consistent with traditional sexual selection theory, while others have unique features that may have evolved in response to the fertilization environment faced by each temporary or permanent male morph.

Two geographically nonoverlapping species are currently described within the sparid genus Spondyliosoma: Spondyliosoma cantharus (Black Seabream) occurring across Mediterranean and eastern Atlantic waters from NW Europe to Angola and S. emarginatum (Steentjie) considered endemic to southern Africa. To address prominent knowledge gaps this study investigated range-wide phylogeographic structure across both species. Mitochondrial DNA sequences revealed deep phylogeographic structuring with four regionally partitioned reciprocally monophyletic clades, a Mediterranean clade and three more closely related Atlantic clades [NE Atlantic, Angola and South Africa (corresponding to S. emarginatum)]. Divergence and distribution of the lineages reflects survival in, and expansion from, disjunct glacial refuge areas. Cytonuclear differentiation of S. emarginatum supports its validity as a distinct species endemic to South African waters. However, the results also indicate that S. cantharus may be a cryptic species complex wherein the various regional lineages represent established/incipient species. A robust multilocus genetic assessment combining morphological data and detailing interactions among lineages is needed to determine the full diversity within Spondyliosoma and the most adequate biological and taxonomic status.

The spatial distribution of organisms is maintained by a combination of in situ reproduction and dispersal of conspecifics from elsewhere within its habitable range. The determination of dispersal origin and sub-population connectivity has a vital role to play in forming effective management policies. The common roach (Rutilus rutilus) is an important component of the economically and socially valuable recreational fishery and represents a well-studied member of the Cyprinidae. Microsatellite allele data were used to investigate hypothetically variant levels of microevolutionary structuring and isolation-by-distance (IBD) in in the Rivers Stour and Thames. A strong signal of IBD was found in the Stour, probably due to the limited capacity for unrestricted bidirectional dispersal in this river compared with the Thames. A weak inference of IBD in the Thames is likely erroneous and effected by a strong localised genetic signal from a recent stocking event. Whilst we found significantly genetically divergent upstream areas in the River Stour, a strong signal of IBD remained when the headwater sub-population was removed, suggesting that that the signal is not biased by non-equilibrium conditions in upstream reaches. We discuss these results with reference to the management of aquatic bioresources and emphasise the idiosyncrasy that aquatic biota and hydrological complexity may imprint upon patterns of biodiversity within any given system. Electronic supplementary material The online version of this article (doi:10.1007/s10592-016-0828-3) contains supplementary material, which is available to authorized users.

The big blue octopus, Octopus cyanea, occurs on coral reefs throughout the Indo-Pacific region from East Africa to the Hawaiian Islands, wherein it is of great ecological and socio-economic importance. However, many components of its intraspecific biodiversity, such as population structure, are unresolved due to a lack of informative genetic markers. To address this issue, which may compromise conservation and sustainability efforts, the development and characterisation of the first species-specific microsatellite loci for O. cyanea are described here. The eight loci were characterised by the genotyping of 40 adults from Madagascar, which revealed an average of 13.5 alleles per locus (range 9-18). The observed and expected heterozygosity per locus ranged from 0.432 to 0.949 and from 0.481 to 0.989, respectively. No evidence of linkage disequilibrium was detected between pairs of loci. Genotype proportions at six loci conformed to Hardy-Weinberg equilibrium expectations, with two loci exhibiting significant heterozygote deficits. These loci are applicable to multiple areas of eco-evolutionary research and, thus, represent a valuable resource for future studies of O. cyanea.

The analysis of mitochondrial DNA (mtDNA) base composition, codon usage, and genome arrangement patterns can provide insight into metabolic pathways and evolutionary history. Here, we report on the...

Accurate taxonomy, population demography, and habitat descriptors inform species threat assessments and the design of effective conservation measures. Here we combine published studies with new genetic, morphological and habitat data that were collected from seahorse populations located along the European and North African coastlines to help inform management decisions for European seahorses. This study confirms the presence of only two native seahorse species (Hippocampus guttulatus and H. hippocampus) across Europe, with sporadic occurrence of non-native seahorse species in European waters. For the two native species, our findings demonstrate that highly variable morphological characteristics, such as size and presence or number of cirri, are unreliable for distinguishing species. Both species exhibit sex dimorphism with females being significantly larger. Across its range, H. guttulatus were larger and found at higher densities in cooler waters, and individuals in the Black Sea were significantly smaller than in other populations. H. hippocampus were significantly larger in Senegal. Hippocampus guttulatus tends to have higher density populations than H. hippocampus when they occur sympatrically. Although these species are often associated with seagrass beds, data show both species inhabit a wide variety of shallow habitats and use a mixture of holdfasts. We suggest an international mosaic of protected areas focused on multiple habitat types as the first step to successful assessment, monitoring and conservation management of these Data Deficient species. Natural Environment Research Council Industrial Case studentship [NER/S/C/2005/13461]; Chocolaterie Guylian; European Commission (ASSEMBLE project) [227799] info:eu-repo/semantics/publishedVersion

The effective design of species conservation programs is reliant on information such as extant geographic distribution, taxon-specific life-history characteristics, and the relative influence of historic processes and contemporary environmental parameters in shaping population genetic diversity. Seahorses are weak swimmers and have a brooded young, limiting their dispersal potential. They live in sheltered locations, which are physically isolated from each other. Therefore panmixia across their geographic range is unlikely. Hippocampus guttulatus, a seahorse inhabiting European waters, has a geographic range spanning a number of contemporary oceanographic features that are proposed barriers to gene flow. Thus this fish is well-placed to test the contributions of environment and life-history factors in shaping population structuring. This study found that mitochondrial DNA and nuclear DNA (microsatellite) genotype data are concordant in suggesting that, like many other small fishes in European waters, H. guttulatus extant populations expanded from at least one southern European refugial population. Subsequent population differentiation of four geographic lineages reflects contemporary oceanographic barriers to gene flow. Demographic analyses suggest a northward, and long-term isolation between Black Sea and Mediterranean Sea populations. Moreover H. guttulatus contemporary population distribution and population structure are predominately explained by historic and oceanographic influences. These findings suggest that conservation of genetic diversity in H. guttulatus may be aided by a network of marine protected areas (MPAs), implemented to conserve coastal habitats, but the species’ unusual life history and gamete retaining behaviours should be considered as part of management decisions including MPA design and fisheries management plans.

Information from genetic (microsatellites and mtDNA Control Region) and previously collected otolith (trace element fingerprinting of otolith core and edge) markers was jointly interpreted to describe dispersal and gene flow in the Patagonian hoki (Macruronus magellanicus), an intensively harvested marine fish with seasonal migrations between spawning and feeding grounds. Spawning adults from a Chilean (Pacific) spawning site and three feeding ground samples (one from Chile and two temporal samples from the Falkland Islands (Atlantic)) were analysed. The data indicated a high level of Atlantic/Pacific connectivity by means of non-natal homing of individuals to spawning aggregations. Against this background of regional connectivity however, genetic data support the existence of a reproductively isolated population within the overwintering stock. Otolith core results are compatible with reproductive isolation being effected by natal homing to an Atlantic spawning site and/or local adaptation. The discordance between geopolitically defined Atlantic and Pacific management stocks and underlying biocomplexity, and implications for sustainability, are discussed. The study highlights the importance of intraspecific variation in homing behaviours in shaping population structure and the merit of employing complementary analytical approaches.

Combined analysis of genetic and morphological variation can provide synergistic insights into eco-evolutionary forces shaping biodiversity, as well as tools for conservation and management. Macaronesian limpets are undergoing severe declines due to overexploitation which calls for an evaluation of the evolutionary significance and taxonomic status of populations. This study details the analysis of genetic (mtDNA sequencing) and morphological (geometric analysis of shell shape) variation among Macaronesian populations of Patella aspera, P. rustica, and P. candei. In the case of P. aspera and P. rustica, this also included analysis of mainland conspecifics. mtDNA revealed distinct phylogeographic patterns for the three species. For both P. aspera and P. rustica Macaronesian and continental samples were reciprocally monophyletic, with shallower, and distinct, phylogeographic structure within both clades. For P. candei, the Macaronesian endemic, three reciprocally monophyletic groups corresponding to (i) the Azores, (ii) Madeira and (iii) Selvagens and Canary Islands were resolved. The different patterns for each species are compatible with independent processes of colonization and demographic processes. Morphological differentiation matched the major phylogeographic groupings (i.e., Macaronesian v Continent for P. aspera and P. rustica; Azores/Madeira/Selvagens and Canary Islands for P. candei) compatible with such variation being shaped by genetic drift associated with distinct demographic histories of lineages as well as historical/recurrent selection pressures. The genetic/morphological congruence supports the formal recognition of at least three described P. candei subspecies. Moreover, the data prompt recommendation of the separate management of limpets from each archipelago. At present management efforts are hampered by illegal harvesting of limpets. From an applied viewpoint, this study confirms that morphology retains useful information on genetic status and thus represents a potentially cheap method applicable to limpet conservation.

The Benguela Current is considered to be a major biogeographic barrier for tropical and warm-temperate marine fish, but there is limited knowledge regarding its influence on population sub-structuring of in more cold-tolerant species. Employing genetic variation within the mitochondrial DNA Control Region and six cross-specific nuclear microsatellite markers, a preliminary study was conducted to investigate population sub-structuring in Argyrosomus inodorus, a highly exploited, cold-temperate migratory species, across the Benguela Current region. Results revealed evidence of incipient genetic differentiation (mtDNA ϕST = 0.092; nuclear FST = 0.036 and DST = 0.104, P < 0.05) between the two sampling sites, suggesting the presence of two regional populations. Estimates of contemporary migration rates between populations were low, and similar in range to those reported in tagging surveys. Although preliminary, these results suggest that the oceanographic features of the Benguela Current may have infl...

Animal species usually have a single sperm-storage site in the female body, but females of the squid Heterololigo bleekeri possess two distinct sperm-storage sites simultaneously. Use of two sperm-storage sites correlates with alternative male mating behaviours: large consorts guard females and place spermatophores inside the oviduct just before spawning, whereas small ‘sneaker’ males place spermatophores on the membrane around the female’s mouth within the arm crown, where a seminal receptacle is present. Previous work showed that spermatophore and sperm morphology diverge between consort and sneaker males. Here we show novel dichotomous adaptations in the sperm-transfer strategy of males of this squid, associated with the use of two distinct sperm-storage sites on females. The spermatangia ejaculated from spermatophores were clearly dimorphic: all spermatangia ejaculated from spermatophores smaller than 12 mm from small sneaker males were drop-shaped, whereas all spermatangia from spermatophores longer than 12 mm from larger consort males were rope-shaped. In addition, the dropshaped spermatangia were distinct in having a spine on their base, which might reduce the risk of it being shed from the female’s body surface. Our findings suggest that existence of alternative spermstorage sites, and related biological and environmental factors, lead to the evolution of divergent spermtransfer strategies.

The Atlantic rock crab Cancer irroratus is native along the east coast of North America. The species was first recorded in Iceland in 2006 and has since rapidly spread throughout the country's southwestern and western coastal waters. The transport of larvae in ballast water is the most probable route by which introduction into Iceland occurred. As this species is commercially valuable, it may be possible to establish a viable industry harvesting rock crabs in Iceland; however, to do this, more information on species-wide genetic diversity and demography is required. In this study, genetic variation at 7 microsatellite markers was analyzed in samples from Iceland and 5 sites in North America, capturing most of the known range of this species. Our results divided samples from the native range into 2 groups, divided by a previously proposed barrier to gene flow, compatible with local hydrographic factors restricting larval-mediated gene flow. The Icelandic population was markedly differentiated from all other samples, but exhibited comparable levels of genetic diversity with no evidence of small population effects or genetic bottlenecks. No single population could be identified as a source for the Icelandic population, though the likely origin could be attributed to the 'northern group' in the native range. Genetic data indicate that the number of founders of the Icelandic population was sufficient to retain genetic variation. As the Icelandic population shows evidence of self-recruitment and population expansion, it may represent a potential harvestable resource in Iceland.

The family Loliginidae Lesueur, 1821, is currently considered to include seven genera and approximately 50 species of neritic and coastal squids. These commercially important species occur in tropical and temperate coastal waters around the world. The taxonomy of the family has been revised a number of times in recent years, focusing in particular on genera such as Doryteuthis, Sepioteuthis, Alloteuthis, and Uroteuthis, which are represented by populations in the New World, Oceania, Europe/Africa, and Asia. However, no detailed phylogenetic analysis is available for the loliginids of the southern Atlantic, in particular the genus Doryteuthis. The present molecular study analyzed 81 loliginid taxa from around the world. The partial sequencing of the mitochondrial 16S and Cytochrome Oxidase I genes, and the nuclear rhodopsin gene revealed a number of important patterns, recovering the monophyletic status of the majority of the genera and revealing possible cryptic species in Doryteuthis plei D. pealei, Uroteuthis duvauceli and Sepioteuthis lessoniana.

Lichia amia is an important coastal recreational fishery species with a cosmopolitan distribution in the eastern Atlantic. In southern Africa, it is distributed from southern Angola to northern KwaZulu-Natal in South Africa. A recent biological survey revealed differences between Angolan and South African individuals suggesting that they may represent separate stocks. As fishery management decisions should be based on accurate knowledge of population structure, an initial survey of the genetic substructuring of L. amia was conducted on samples collected in southern Angola and South Africa. Assessment of genetic diversity and population structure was conducted using a fragment of the mitochondrial Control Region. Obtained genetic diversity levels were within the expected range for marine teleosts (h = 0.867, π = 0.007), and two deeply divergent (southern Angolan and South African) populations were identified (average φ ST = 0.78) across the Benguela Current system. These results suggest that Angolan and So...

Although recent years have seen an increase in genetic analyses that identify new species of cephalopods and phylogeographic patterns, the loliginid squid of South America remain one of the least studied groups. The suggestion that Doryteuthis plei may represent distinct lineages within its extensive distribution along the western Atlantic coasts from Cape Hatteras, USA (36°N) to northern Argentina (35°S) is consistent with significant variation in a number of environmental variables along this range including in both temperature and salinity. In the present study D. plei samples were obtained from a large number of localities along the western Atlantic coasts to investigate the distribution of these possible species in a phylogeographic context. Phylogeographic analyses were performed using the mitochondrial Cytochrome Oxidase I gene and nuclear Rhodopsin gene. Divergence times were estimated using Bayesian strict clock dating with calibrations based on fossil records for divergence from the lineage containing Vampyroteuthis infernalis (162 mya), the probable origins of the North American loliginids (45 mya), and the European loliginids (20 mya) and fossil statolith from Doryteuthis opalescens (3 mya). Our results suggest a deep genetic divergence within Doryteuthis plei. The currently described specie consists of two genetically distinct clades (pair-wise genetic divergence of between 7.7 and 9.1%). One clade composed of individuals collected in northwestern Atlantic and Central Caribbean Atlantic waters and the other from southwestern Atlantic waters. The divergence time and sampling locations suggest the speciation process at approximately 16 Mya, which is in full agreement with the middle Miocene orogeny of the Caribbean plate, ending up with the formation of the Lesser Antilles and the adjacent subduction zone, coinciding with a particularly low global sea level, resulting in the practical absence of continental shelves at the area, and therefore an effective geographic barrier for D. plei. Furthermore, this study also provides evidence of previously undocumented sub-population structuring in the Gulf of Mexico.

The big blue octopus, Octopus cyanea, occurs on coral reefs throughout the Indo-Pacific region from East Africa to the Hawaiian Islands, wherein it is of great ecological and socio-economic importance. However, many components of its intraspecific biodiversity, such as population structure, are unresolved due to a lack of informative genetic markers. To address this issue, which may compromise conservation and sustainability efforts, the development and characterisation of the first species-specific microsatellite loci for O. cyanea are described here. The eight loci were characterised by the genotyping of 40 adults from Madagascar, which revealed an average of 13.5 alleles per locus (range 9–18). The observed and expected heterozygosity per locus ranged from 0.432 to 0.949 and from 0.481 to 0.989, respectively. No evidence of linkage disequilibrium was detected between pairs of loci. Genotype proportions at six loci conformed to Hardy–Weinberg equilibrium expectations, with two loci exhibiting significant heterozygote deficits. These loci are applicable to multiple areas of eco-evolutionary research and, thus, represent a valuable resource for future studies of O. cyanea.

The last glaciation was a dynamic period with strong impact on the demography of many species and populations. In recent years, mitochondrial DNA sequences retrieved from radiocarbon-dated remains have provided novel insights into the history of Late Pleistocene populations. However, genotyping of loci from the nuclear genome may provide enhanced resolution of population-level changes. Here, we use four autosomal microsatellite DNA markers to investigate the demographic history of woolly mammoths (Mammuthus primigenius) in north-eastern Siberia from before 60 000 years ago up until the species' final disappearance c.4000 years ago. We identified two genetic groups, implying a marked temporal genetic differentiation between samples with radiocarbon ages older than 12 thousand radiocarbon years before present (ka) and those younger than 9ka. Simulation-based analysis indicates that this dramatic change in genetic composition, which included a decrease in individual heterozygosity of approximately 30%, was due to a multifold reduction in effective population size. A corresponding reduction in genetic variation was also detected in the mitochondrial DNA, where about 65% of the diversity was lost. We observed no further loss in genetic variation during the Holocene, which suggests a rapid final extinction event.

Seahorses (Hippocampus spp.) are non-sex-role-reversed members of the Syngnathidae family that provide extensive brood care. Previous studies of seahorses have revealed monogamy within a single brood, but their longer term mating system had not been comprehensively evaluated. The parental contribution to 29 wild-born broods of Hippocampus guttulatus, sampled from six Portuguese populations with differing seahorse densities and sex ratios, was assessed using microsatellite DNA markers. To assess the longer term genetic mating system of this species parentage was determined in eleven broods sampled from a captive population over two breeding seasons. Genetic data suggest that this socially polygamous seahorse is serially monogamous across breeding seasons, i.e. monogamous within a season but may switch mates between seasons, and that differing population densities and sex ratios do not affect the mating system.

The common cuttlefish, Sepia officinalis, represents a model mobile marine species for studies of evolutionary processes occurring across a range of spatial and temporal scales. Such studies are relevant to sustainable fishery management and biodiversity conservation as the species is intensely exploited and an important component of inshore marine ecosystems. The isolation and preliminary characterisation of 10 dinucleotide repeat microsatellite loci is described. Genotyping of 48 adults from Agon Coutainville (France) revealed polymorphism at 9 of the loci. Among the polymorphic loci there was an average of 8.8 alleles per locus (range 3–14) with observed and expected heterozygosity per locus ranging from 0.104 to 0.792 and from 0.101 to 0.806, respectively. No evidence of linkage disequilibrium was detected between any locus pair. The loci described here represent a valuable addition to the suite of genetic markers applicable to S. officinalis research.

We present the first data collected on the genetic mating system of the hawksbill turtle Eretmochelys imbricata, the only marine turtle not studied to date. We examined paternity within 12 egg clutches from ten female hawksbill turtles from Sabah Turtle Islands, Malaysia. A total of 375 hatchlings were analysed using five microsatellite markers. Results demonstrated that clutches from two out of ten females were sired by multiple males (maximum of two). Although at a low frequency, observation of multiple paternity indicates that hawksbill turtles exhibit the same genetic mating system (polyandry) as observed for other species of marine turtles. Consistent paternity across multiple clutches laid by individual females in one breeding season supports the hypothesis that sperm are stored from mating prior to nesting and are then used to fertilize all subsequent clutches of eggs that season.

The West Coast dusky kob Argyrosomus coronus is an understudied yet important fishery species in Angola. During a five-year study (2005–2009), the species was recorded in all fishery sectors, but was most important in the inshore recreational fishery in southern Angola (Cunene Estuary to Namibe). Early juveniles ( 870 mm TL) were captured in all fisheries as far north as Namibe, and shoals of large adult fish (>1 000 mm TL) were occasionally captured in the offshore purse-seine commercial fishery between the Cunene Estuary and Lucira. Because some Argyrosomus species are morphologically cryptic, a DNA barcoding method was used to confirm the taxonomic status of the biological samples used in this study. The male:female sex ratio of examined samples was 1:1.4 (n = 225). The length-at-50% maturity was 823 mm and 904 mm TL for males and females res...

Shaw, P. W., Hendrickson, L., McKeown, N., Stonier, T., Naud, M. . J., Sauer, W. H. H. (2010). Discrete spawning aggregations of loliginid squid do not represent genetically distinct populations. Marine Ecology Progress Series, 408, 117-127.

Aim Free-ranging benthopelagic fishes often have large population sizes and high rates of dispersal. These traits can act to homogenize population structure across the distributional range of a species and to reduce the likelihood of allopatric speciation. The apparent absence of any barriers to gene flow among populations, together with prior molecular evidence for panmixia across the ranges of three species, has resulted in Diplotaxodon, a genus of benthopelagic cichlid fishes of Lake Malawi, being proposed as a candidate case of sympatric speciation. Our aim was to further investigate this possibility by testing for intraspecific genetic subdivision among breeding populations, and intraspecific differences in breeding habitat. Location Lake Malawi, central-east Africa. Methods We analysed eight microsatellite DNA loci to test for spatial genetic differences among populations on breeding grounds of eight Diplotaxodon species. We also tested for temporal population genetic differences within breeding grounds of three species. Records of ripe Diplotaxodon encountered during sampling were analysed to test if spatial variation in assemblage structure was linked to nearshore water depth and geographic proximity of sampling sites. Results Consistent with previous molecular evidence, within four of the eight species tested we found no evidence of spatial genetic structuring among breeding populations. However, within the other four species we found slight yet significant spatial genetic differences, indicating restricted gene flow among breeding grounds. There was no evidence of temporal genetic differences within sites. Analyses of the distributions of ripe Diplotaxodon revealed differences in assemblage structure linked to nearshore water depth. Main conclusions Together, these results demonstrate both the evolution of fidelity to deep-water breeding locations in some Diplotaxodon species, and differences in breeding habitat among species. These findings are consistent with a role for divergence of breeding habitat in speciation of these cichlids, possibly promoted by dispersal limitation among geographically segregated spawning aggregations.

In the absence of distinct morphological characteristics, knowledge of genetic relationships within and between protist parasite species is important for determining reservoir hosts and understanding the biology of the causative agents of emerging diseases. The genus Hematodinium is a member of Syndinea, an ubiquitous alveolate group found in all oceanic environments. Hematodinium parasites cause epizootics in crustaceans, yet their life cycle, genotypic variety and their phylogeny is poorly understood. By combining phylogenetic methods with analyses of secondary structures of variable ribosomal RNA genes we show that Hematodinium from the east and west North-Atlantic is comprised of distinct ribotypes or clades. These did not correspond to a specific area, but varied in host specificity. For example, a Hematodinium 'Langoustine' clade was only found in Nephrops norvegicus langoustines, whereas other clades were specific to crabs or seem to be generalist parasites.