Length–weight relationships of three fish species from Trasimeno Lake,Italy

Length–weight relationships for Alburnus arborella, Esox cisalpinus and Scardinius hesperidicus from Trasimeno Lake are provided. A total of 4,205 specimens were collected for examination from 2008 to 2014 throughout the lake by means of electrofishing and nets. For all species the value of b ranged from 2.887 for Esox cisalpinus males to 3.115 for Scardinius hesperidicus. The study provides the first reference of length–weight relationships for the three species. A new maximum total length is also reported for E. cisalpinus.     

Molecular insights into the taxonomy of Hypanis (Bivalvia, Cardiidae, Lymnocardiinae) in the Black Sea lagoons

In this study, we used data from morphology and three DNA markers to assess the taxonomic status of the putative bivalve species Hypanis colorata and Hypanis angusticostata in a Black Sea lagoon, the Razelm Lake in Romania. The morphological data (the shape of shell ribs and the multivariate analysis of morphometric variance of three variables constructed as the ratios between the main dimensions of the shell) confirmed that the two analyzed species are distinct morphological entities. Three molecular markers, one from the nuclear genome (18S rRNA) and two from the mitochondrial genome (16S rRNA and COI), showed extremely reduced sequence divergence (0?C0.1%) between the two putative species. Based on these results, we suggest that H. angusticostata and H. colorata are morphotypes of a single species.     

Phylogenetic position of Acanthobothrium cleofanus (Cestoda: Onchoproteocephalidea) using molecular evidence

Despite the large number of species described to date for the onchoprotepcephalid genus Acanthobothrium (207), only 16 named species have a genetic sequence. With this background, specimens of adult cestodes of the stingray Hypanus longus were collected off San Blas, Nayarit, and onchoproteocephalid larvae in the carangid fish Trachinotus rhodopus from Puerto Ángel, Oaxaca, both located on the Pacific coast of Mexico. The objective of this work is to investigate the phylogenetic position of these adults and larvae using nuclear ribosomal markers (18S rDNA and 28S rDNA). Morphologically, adult specimens were identified as Acanthobothrium cleofanus; larvae were identified only to family level. The phylogenetic position of both taxa was investigated based on the information of two nuclear molecular markers analyzed under Parsimony (PA) and Bayesian Inference (BI) methods. The newly generated sequences of A. cleofanus from Nayarit are identical to the sequences of several samples of Acanthobothrium sp. collected in the Mexican Pacific, which sequence are available in GenBank; DNA sequences obtained from onchoproteocephalid larva clearly place this taxon within Acanthobothrium but representing an independent lineage. In the resulting phylogenetic trees, Uncibilocularis okei was found nested within Acanthobothrium with an unstable position depending on the optimality criteria, indicating the need for more molecular analyzes with a greater number of species of both genera prior to define its phylogenetic relationships.     

Length–weight relationships of three fish species from Piediluco Lake,Italy

Length–weight relationships for Leucos aula, Scardinius hesperidicus, and Squalius squalus from the Piediluco Lake were provided. Data were collected by means of electrofishing, gill‐nets (mesh sizes varying from 5 to 55 mm) and fyke‐nets (mesh size 16 mm, total length 8 m, mouth width 1.5 m). The monitoring campaigns were carried out seasonally in the years 2004 and 2011, and in autumn 2012. A total of 5,198 specimens were analyzed. For all the species the value of b ranged between 3.163 for Leucos aula and 3.297 for S. hesperidicus. For L. aula a new maximum total length was also reported.     

RAPD, SCAR and conserved 18S rDNA markers for a red-listed and endemic medicinal plant species, Knema andamanica (Myristicaceae)

Knema andamanica is a red-listed endemic medicinal species of Myristicaceae restricted to Andaman and Nicobar (A&N) Islands, India. This species is used in tribal medicines and has immense bioprospective potential. With a view to generate suitable genomic markers for classification and identification, we have generated RAPD, SCAR and conserved 18S rDNA markers from K. andamanica. A unique 585 bp fragment, that distinguished it from seven other related species of Myristicaceae was first amplified using the random primer OPE 06 and converted to SCAR marker (GenBank accession # JN228256). The conserved sequences of 18S rDNA loci from K. andamanica were also amplified and sequenced (GenBank accession #JN228265). The sequence revealed deviations including 18 variable regions and 15 indels that were unique to K. andamanica. These markers can help in definite identification of K. andamanica even at the juvenile stages.     

Multiple nuclear and mitochondrial genotyping identifies emperors and large-eye breams (Teleostei: Lethrinidae) from New Caledonia and reveals new large-eye bream species

Species identification is fundamental to address questions about community ecology, biodiversity, conservation and resource management, at any life history stage. Current studies on fish larval ecology of tropical species are hampered by the lack of reliable and effective tools for identifying larvae at the species level. Emperors and large-eye breams comprise fish species from the perciform fish family Lethrinidae. They inhabit coastal and coral-reef habitats of the tropical Indo-Pacific, and they are important fishery resources. Their taxonomy is considered difficult and identification to species is often problematic. Lethrinidae larvae and juveniles can be identified on the basis of meristic counts at the sub-family level, but no further. In this study, we developed a set of polymorphic PCR markers (size polymorphisms at the intron regions from 4/5 nuclear protein-coding genes and single-strand conformation polymorphism of a 205-bp fragment at the mitochondrial 16S rRNA locus), to characterize 341 specimens from 21 Lethrinidae species from New Caledonia (southwestern tropical Pacific). A genetic data-bank was constructed using the genotypes screened from the multiple gene loci of adult or sub-adult specimens used as references for these species. The 16S rRNA gene fragment was able to differentiate species for the genus Lethrinus, but it provided little diagnostic resolution among different species within the genus Gymnocranius. A combination of the 16S rRNA marker and 4 nuclear markers developed herein allowed to sort out species within Gymnocranius spp. from New Caledonia. Using genotype distributions at nuclear loci to test for reproductive isolation, we found that three apparently undescribed large-eye bream species may exist, provisionally referred to as Gymnocranius sp. A, sp. B and sp. C. Subsequent genotyping of 137 Lethrinidae larvae collected from the bays of the Noumea peninsula, New Caledonia, found a total of three species (Lethrinus genivittatus, Lethrinus olivaceus and Gymnocranius sp. A).     

Fine-Scale Ecological and Genetic Population Structure of Two Whitefish (Coregoninae) Species in the Vicinity of Industrial Thermal Emissions

Thermal pollution from industrial processes can have negative impacts on the spawning and development of cold-water fish. Point sources of thermal effluent may need to be managed to avoid affecting discrete populations. Correspondingly, we examined fine-scale ecological and genetic population structure of two whitefish species (Coregonus clupeaformis and Prosopium cylindraceum) on Lake Huron, Canada, in the immediate vicinity of thermal effluent from nuclear power generation. Niche metrics using δ¹³C and δ¹⁵N stable isotopes showed high levels of overlap (48.6 to 94.5%) in resource use by adult fish captured in areas affected by thermal effluent compared to nearby reference locations. Isotopic niche size, a metric of resource use diversity, was 1.3- to 2.8-fold higher than reference values in some thermally affected areas, indicative of fish mixing. Microsatellite analyses of genetic population structure (F_st, STRUCTURE and DAPC) indicated that fish captured at all locations in the vicinity of the power plant were part of a larger population extending beyond the study area. In concert, ecological and genetic markers do not support the presence of an evolutionarily significant unit in the vicinity of the power plant. Thus, future research should focus on the potential impacts of thermal emissions on development and recruitment.     

Desmophyllum dianthus (Esper, 1794) in the Scleractinian Phylogeny and Its Intraspecific Diversity

The cosmopolitan solitary deep-water scleractinian coral Desmophyllum dianthus (Esper, 1794) was selected as a representative model species of the polyphyletic Caryophylliidae family to (1) examine phylogenetic relationships with respect to the principal Scleractinia taxa, (2) check population structure, (3) test the widespread connectivity hypothesis and (4) assess the utility of different nuclear and mitochondrial markers currently in use. To carry out these goals, DNA sequence data from nuclear (ITS and 28S) and mitochondrial (16S and COI) markers were analyzed for several coral species and for Mediterranean populations of D. dianthus. Three phylogenetic methodologies (ML, MP and BI), based on data from the four molecular markers, all supported D. dianthus as clearly belonging to the “robust” clade, in which the species Lophelia pertusa and D. dianthus not only grouped together, but also shared haplotypes for some DNA markers. Molecular results also showed shared haplotypes among D. dianthus populations distributed in regions separated by several thousands of kilometers and by clear geographic barriers. These results could reflect limited molecular and morphological taxonomic resolution rather than real widespread connectivity. Additional studies are needed in order to find molecular markers and morphological features able to disentangle the complex phylogenetic relationship in the Order Scleractinia and to differentiate isolated populations, thus avoiding the homoplasy found in some morphological characters that are still considered in the literature.     

Development and characterization of 24 polymorphic microsatellite markers for bluegill sunfish, <Emphasis Type="Italic">Lepomis macrochirus</Emphasis>

The bluegill sunfish (Lepomis macrochirus) is a notorious exotic fish, which causes serious damages to freshwater ecosystems in the world. Therefore, it is a matter of urgency to control this species for the conservation of ecosystem. New microsatellite loci were developed for L. macrochirus using high throughput 454 GS-FLX+ pyrosequencing. We selected 24 primer pairs that were tested on 47 individuals from Lake Biwa, which encompasses the oldest and largest population of L. macrochirus in Japan. Allele per locus varied 2–17. Expected and observed heterozygosities ranged from 0.185 to 0.888 and 0.120 to 0.872, respectively. Applied to L. macrochirus in Lake Biwa, these markers could detect genetic differentiation among populations, which showed a pattern of isolation by distance. These markers are expected to be useful in the estimation of population structure and ecology of L. macrochirus.     

One known and an unknown species of the genus Thaparocleidus Jain, 1952, infecting Sperata aor (Hamilton, 1822): comparison with species from China,on molecular basis

Sperata aor commonly called as long- whiskered cat fish or “Bada Tengan” in local fish markets harboured one new and one previously known species of genus Thaparocleidus Jain, 1952, along with two species of Cornudiscoides Kulkarni, 1969, infesting gills. Thaparocleidus aori (Rizvi, 1971) Lim, 1996, was earlier described by Rizvi therefore was briefly recorded in the present study, except the egg. The newly found species Thaparocleidus susanae n.sp was characterized by the structure of its peculiar copulatory organ. Phylogenetic relationship of the two species under study, along with 14, reterived from GenBank was established using the sequences of 28S rDNA region (Dactylogyrus Diesing, 1850 taken as an out group).     

Novel and known myxobolids (Cnidaria,Myxozoa) infecting Chondrostoma angorense (Cypriniformes: Leuciscidae) in Turkey

Turkey has more than 200 endemic freshwater fish species, one of which is the Ankara nase, Chondrostoma angorense Elvira, 1987 (Cypriniformes: Leuciscidae), a food fish in northern Turkey. Like most endemic fish species in Turkey, its myxosporean parasite fauna (Cnidaria: Myxosporea) are not yet described. We surveyed twenty C. angorense from Lâdik Lake in northern Turkey, and identified two myxosporean parasites from gills of these fish: Myxobolus arrabonensis Cech, Borzák, Molnár, Székely, 2015, and a co-infection of a novel species, Myxobolus polati sp. nov. We characterized both infections based on myxospore morphology, morphometry, tissue tropism, small subunit ribosomal DNA sequence and phylogenetic analysis. Plasmodia of both species were observed in gills, but had distinct tropism: M. arrabonensis is an intrafilamental vascular type, and M. polati sp. nov. is an intralamellar vascular type. We identified M. arrabonensis on the basis of myxospore characters and 100% similarity to the type DNA sequence from the closely-related host C. nasus. The small subunit ribosomal DNA sequence of M. polati sp. nov. (1946 base pairs; GenBank Accession number MH392318) had a maximum similarity of 98% with any Myxobolus sp. from other Eurasian cypriniforms. Phylogenetic analysis revealed that M. polati sp. nov. is most closely related to gill-infecting Myxobolus diversicapsularis from Rutilus rutilus (L.). The present study is the first record of myxosporean species infecting C. angorense comprising a novel species, M. polati sp. nov. and a known species M. arrabonensis.     

Case study of microsatellite polymorphism of European perch in selected commercially important lakes of Latvia

Polymorphism of selected microsatellite markers was described for European perch populations of inland Lake Kala and costal Lake Babites in Latvia. The data consisted of ten microsatellite loci analysed for 90 individuals from the Lake Babites (n?=?45) and the Lake Kala (n?=?45). Both lakes differ in water area, connection with the Gulf of Riga (Baltic Sea), lake type, and fish species. In the Lake Kala population, the average number of alleles per locus varied from 4 to 15 and in the population of Lake Babites from 4 to 12. Low but significant genetic differentiation was detected between populations (F_ST?=?0.046). Observed and expected heterozygosity in both lakes was similar (Kala: H_o?=?0.680 and H_e?=?0.816; Babites: H_o?=?0.693 and H_e?=?0.815). The number of unique alleles per locus was 2.3 in Lake Kala and 0.6 in Lake Babites. The present study showed relatively high polymorphism of analysed microsatellite markers.     

Hidden Diversity in Sardines: Genetic and Morphological Evidence for Cryptic Species in the Goldstripe Sardinella,Sardinella gibbosa (Bleeker, 1849)

Cryptic species continue to be uncovered in many fish taxa, posing challenges for fisheries conservation and management. In Sardinella gibbosa, previous investigations revealed subtle intra-species variations, resulting in numerous synonyms and a controversial taxonomy for this sardine. Here, we tested for cryptic diversity within S. gibbosa using genetic data from two mitochondrial and one nuclear gene regions of 248 individuals of S. gibbosa, collected from eight locations across the Philippine archipelago. Deep genetic divergence and subsequent clustering was consistent across both mitochondrial and nuclear markers. Clade distribution is geographically limited: Clade 1 is widely distributed in the central Philippines, while Clade 2 is limited to the northernmost sampling site. In addition, morphometric analyses revealed a unique head shape that characterized each genetic clade. Hence, both genetic and morphological evidence strongly suggests a hidden diversity within this common and commercially-important sardine.     

Response of the cladoceran community to eutrophication, fish introductions and degradation of the macrophyte vegetation in Lake Dianchi, a large, shallow plateau lake in southwestern China

A paleolimnological evaluation was made in order to analyze the effects of increasing nutrient load, macrophyte degradation and fish introductions on the cladoceran community of a large, shallow plateau lake in southwestern China. The trophic state of Lake Dianchi has increased rapidly during recent decades, its macrophyte vegetation has suffered severe degradation, and fish introductions in the late 1950s and early 1980s have had a marked effect on the structure of the fish community. Our results show an increase in abundance of cladoceran species with a preference for eutrophic conditions over the last few decades, while species preferring oligotrophic conditions have decreased or disappeared. These changes correspond to the eutrophication in Lake Dianchi. The loss of the cladocerans Kurzia latissima and Disparalona rostrata is likely to be a reflection of the degradation of the macrophyte community. An increase in Daphnia body size indicated by the ephippia length since the early 1990s is associated with the decline of planktivorous species.     

Molecular phylogeny and speciation patterns in host-specific monogeneans (Cichlidogyrus,Dactylogyridae) parasitizing cichlid fishes (Cichliformes,Cichlidae) in Lake Tanganyika

Cichlidogyrus (including Scutogyrus) is the most speciose dactylogyridean monogenean genus known from African and Levantine cichlid fishes (Cichlidae). While its taxonomy is well established, little is known about the phylogenetic relationships and evolutionary history of this ectoparasite, especially from hosts belonging to one of the most impressive vertebrate radiations, the cichlid fishes from the East African Great Lakes and surrounding hydrological systems. Phylogenetic inference based on DNA sequences of the nuclear 18S, internal transcribed spacer 1 and 28S rDNA genes revealed that Cichlidogyrus parasitizing mainly West African cichlid tribes is paraphyletic with respect to species parasitizing hosts belonging to the East African cichlid radiation, which constitute a well-supported monophylum. Members of Cichlidogyrus from tylochromine and oreochromine hosts that colonised Lake Tanganyika only recently, cluster with their non-Lake Tanganyika relatives, indicating that they colonised Lake Tanganyika with their current host species, and did not jump over from any of the many cichlid species already present in the lake. The diversification of Cichlidogyrus in Lake Tanganyika seems to be driven by failure to diverge in old lineages of cichlids, cospeciation in more recently evolved ones, and host switching followed by parasite duplication at the level of the various host tribes. Evaluation of host specificity and structural evolution of haptoral and reproductive organs in Lake Tanganyika Cichlidogyrus revealed that strict specialist species together with larval hook size represent the ancestral state of haptor configuration, suggesting that members of Cichlidogyrus in this system evolved from a very simple form to a more complex one similarly to their West African congeners. Generalist species among Cichlidogyrus with a sclerotized vagina parasitizing ancient Lake Tanganyika lineages seem to have developed a different hook configuration, most probably to ensure successful colonisation of new, phylogenetically unrelated hosts.     

Narrow endemics to Mediterranean islands: Moderate genetic diversity but narrow climatic niche of the ancient,critically endangered Naufraga (Apiaceae)

Narrow endemics constitute the cornerstone of Mediterranean plant diversity. Naufraga balearica (Apiaceae) is a critically endangered, extremely narrow endemic plant from the western Mediterranean island of Majorca. Because the species belongs to a monotypic genus, N. balearica was hypothesized to be a palaeoendemism. Here we conducted phylogenetic dating, population genetic and climatic niche analyses in order to understand the evolutionary history and conservation perspectives of this flagship species. Phylogenetic dating analysis of nuclear and plastid DNA sequences revealed a late Miocene to early Pliocene divergence between Naufraga and its sister genus Apium, supporting the palaeoendemic status of the former. Amplified fragment length polymorphism (AFLP) markers and plastid DNA sequences of the five Naufraga populations revealed moderate genetic diversity. This diversity is in line with that of other palaeoendemisms from western Mediterranean islands, as revealed by a comparison with 22 other narrow endemic species from this region. Despite the fact that all Naufraga populations are located at a maximum distance of 10 km in a straight line, a strikingly strong population differentiation was found for AFLP markers, which is explained by long-term isolation likely related to short-range pollination and dispersal strategies of the species. While the species is not genetically impoverished, species distribution modelling and microclimatic monitoring revealed that narrow ecological requirements underlie the current extreme rarity of Naufraga and may jeopardize its long-term survival. Our results indicate that a multidisciplinary approach provides powerful tools to develop conservation strategies for evolutionarily singular lineages.     

Genetic and morphometric evidence that the jacks (Carangidae) fished off the coast of Rio de Janeiro (Brazil) comprise four different species

Individuals of jacks that were captured off the Rio de Janeiro coast were characterized using multivariate morphometrics and allozymes molecular markers. The main objectives were to determine the number of fish captured and their species. Classical taxonomic classification and multivariate morphometry indicated the existence of three species in the landings from Rio de Janeiro State (Caranx crysos, Carangoides bartholomaei and Caranx latus). The results of the genetic analyses performed were consistent with these results. However, Bayesian analysis revealed the possible presence of a fourth species, which could not be discriminated by classical taxonomy. Caranx crysos possibly comprises two different species. Other population indexes, such as unique alleles, degree of structuring and genetic identity, also pointed to different species. Therefore, based on evidences from classical taxonomy, geometric morphometric analyses together with genetic data from allozymes molecular markers it is possible to support that at least four different Carangidae species are present in fish landings from Niterói, Rio de Janeiro State, Brazil, whereas fish capture records for the same location have recorded only two species. These results are important for not only developing fisheries management strategies but also providing general information regarding the ecology and evolution of the genus.     

Hybridisation,paternal leakage and mitochondrial DNA linearization in three anomalous fish (Scombridae)

Using mitochondrial DNA for species identification and population studies assumes that the genome is maternally inherited, circular, located in the cytoplasm and lacks recombination. This study explores the mitochondrial genomes of three anomalous mackerel. Complete mitochondrial genome sequencing plus nuclear microsatellite genotyping of these fish identified them as Scomberomorus munroi (spotted mackerel). Unlike normal S. munroi, these three fish also contained different linear, mitochondrial genomes of Scomberomorus semifasciatus (grey mackerel). The results are best explained by hybridisation, paternal leakage and mitochondrial DNA linearization. This unusual observation may provide an explanation for mtDNA outliers in animal population studies.     

Follower fish of the goldspotted eel <Emphasis Type="Italic">Myrichthys ocellatus</Emphasis> with a review on anguilliform fish as nuclear species

In a nuclear-follower fish foraging association, the follower benefits from food uncovered or flushed out when the nuclear fish disturbs the bottom, while nuclear species generally do not seem to be benefiting. Among nuclear species, eels (anguilliform fish) are known to be one of the most represented groups. Here we investigated the frequency and time duration of foraging associations among the goldspotted eel Myrichthys ocellatus and reef fish in a subtropical marginal reef. In addition, we reviewed nuclear eel species and their followers described in the literature. From a total of 211 goldspotted eels observed, seven follower species were recorded in 19% of the samples. The average time of the following associations per species ranged from 40 to 190 s. Four species were reported for the first time as M. ocellatus followers (Bodianus rufus, B. pulchellus, Stephanolepis hispidus, and Serranus baldwini) and three of them have never been reported in the literature as eel followers (B. pulchellus, S. hispidus, and S. baldwini). The literature describes 13 eel species acting as nuclear for 66 fish species, represented mainly by groupers and sea basses. The size of the eel was not correlated with the size of its follower and neither with the number of described follower species. The nuclear role of eels is likely to be an important component of the trophic ecology of small and medium-sized macrocarnivore fish.     

Acoustic Telemetry Reveals Large-Scale Migration Patterns of Walleye in Lake Huron

Fish migration in large freshwater lacustrine systems such as the Laurentian Great Lakes is not well understood. The walleye (Sander vitreus) is an economically and ecologically important native fish species throughout the Great Lakes. In Lake Huron walleye has recently undergone a population expansion as a result of recovery of the primary stock, stemming from changing food web dynamics. During 2011 and 2012, we used acoustic telemetry to document the timing and spatial scale of walleye migration in Lake Huron and Saginaw Bay. Spawning walleye (n = 199) collected from a tributary of Saginaw Bay were implanted with acoustic tags and their migrations were documented using acoustic receivers (n = 140) deployed throughout U.S. nearshore waters of Lake Huron. Three migration pathways were described using multistate mark-recapture models. Models were evaluated using the Akaike Information Criterion. Fish sex did not influence migratory behavior but did affect migration rate and walleye were detected on all acoustic receiver lines. Most (95%) tagged fish migrated downstream from the riverine tagging and release location to Saginaw Bay, and 37% of these fish emigrated from Saginaw Bay into Lake Huron. Remarkably, 8% of walleye that emigrated from Saginaw Bay were detected at the acoustic receiver line located farthest from the release location more than 350 km away. Most (64%) walleye returned to the Saginaw River in 2012, presumably for spawning. Our findings reveal that fish from this stock use virtually the entirety of U.S. nearshore waters of Lake Huron.