Browsing by Author "Castilho, Rita"
Now showing 1 - 10 of 66
Results Per Page
Sort Options
- Against all odds: a tale of marine range expansion with maintenance of extremely high genetic diversityPublication . Robalo, Joana I.; Francisco, Sara M.; Vendrell, Catarina; Lima, Cristina S.; Pereira, Ana; Brunner, Benedikt; Dia, Mamadou; Gordo, Leonel; Castilho, RitaThe displacement of species from equatorial latitudes to temperate locations following the increase in sea surface temperatures is among the significant reported consequences of climate change. Shifts in the distributional ranges of species result in fish communities tropicalisation, i.e., high latitude colonisations by typically low latitude distribution species. These movements create new interactions between species and new trophic assemblages. The Senegal seabream, Diplodus bellottii, may be used as a model to understand the population genetics of these invasions. In the last decades, this species has undergone an outstanding range expansion from its African area of origin to the Atlantic coast of the Iberian Peninsula, where now occurs abundantly. Mitochondrial and nuclear markers revealed a striking high haplotypic nucleotide and genetic diversity values, along with significant population differentiation throughout the present-day geographical range of the Senegal seabream. These results are not consistent with the central-marginal hypothesis, nor with the expectations of a leptokurtic distribution of individuals, as D. bellottii seems to be able to retain exceptional levels of diversity in marginal and recently colonised areas. We discuss possible causes for hyperdiversity and lack of geographical structure and subsequent implications for fisheries.
- Age and growth of megrim, Lepidorhombus boscii, Risso of the portuguese continental coastPublication . Castilho, Rita; Dinis, Maria Teresa; Erzini, KarimThe first study of age and growth of four-spotted scaldfish, more commonly known as megrim (Lepidorhombus boscii, Risso), an important (by catch ) species of the Portuguese trawl fishery from the Atlantic coast is presented. The analysis was based on data obtained from a total of 609 specimens sampled between 1985 and 1986. Otoliths were used for age determination. The Von Bertalanf~, growth parameters were estimated using the non-linear fitting method: Lt (females)=440[ 1 -e -°-14(t+ 1.32) ] and Lt= 375 [ 1 -e -°~4(t+ 1.93) ] for males. L~ and to values are significantly different. The megrim grows allometrically (slope of length-weight regressions > 3 ). Females live longer and gain weight at a faster rate than males. Differences in growth between sexes become more apparent from the second year onwards.
- Ancient divergence in the trans-oceanic deep-sea shark Centroscymnus crepidaterPublication . Cunha, R. L.; Coscia, I.; Madeira, C.; Mariani, S.; Stefanni, S.; Castilho, RitaUnravelling the genetic structure and phylogeographic patterns of deep-sea sharks is particularly challenging given the inherent difficulty in obtaining samples. The deep-sea shark Centroscymnus crepidater is a medium-sized benthopelagic species that exhibits a circumglobal distribution occurring both in the Atlantic and Indo-Pacific Oceans. Contrary to the wealth of phylogeographic studies focused on coastal sharks, the genetic structure of bathyal species remains largely unexplored. We used a fragment of the mitochondrial DNA control region, and microsatellite data, to examine genetic structure in C. crepidater collected from the Atlantic Ocean, Tasman Sea, and southern Pacific Ocean (Chatham Rise). Two deeply divergent (3.1%) mtDNA clades were recovered, with one clade including both Atlantic and Pacific specimens, and the other composed of Atlantic samples with a single specimen from the Pacific (Chatham Rise). Bayesian analyses estimated this splitting in the Miocene at about 15 million years ago. The ancestral C. crepidater lineage was probably widely distributed in the Atlantic and Indo-Pacific Oceans. The oceanic cooling observed during the Miocene due to an Antarctic glaciation and the Tethys closure caused changes in environmental conditions that presumably restricted gene flow between basins. Fluctuations in food resources in the Southern Ocean might have promoted the dispersal of C. crepidater throughout the northern Atlantic where habitat conditions were more suitable during the Miocene. The significant genetic structure revealed by microsatellite data suggests the existence of present-day barriers to gene flow between the Atlantic and Pacific populations most likely due to the influence of the Agulhas Current retroflection on prey movements.
- Asymmetrical dispersal and putative isolation-by-distance of an intertidal blenniid across the Atlantic-Mediterranean dividePublication . Castilho, Rita; Lopes Da Cunha, Regina; Faria, Claudia; Velasco, Eva M.; Robalo, Joana I.Transition zones are of high evolutionary interest because unique patterns of spatial variation are often retained. Here, we investigated the phylogeography of the peacock blenny, Salaria pavo, a small marine intertidal fish that inhabits rocky habitats of the Mediterranean and the adjacent Atlantic Ocean. We screened 170 individuals using mitochondrial and nuclear sequence data from eight locations. Four models of genetic structure were tested: panmixia, isolation-by-distance, secondary contact and phylogeographic break. Results indicated clear asymmetric migration from the Mediterranean to the Atlantic but only marginally supported the isolation-by-distance model. Additionally, the species displays an imprint of demographic expansion compatible with the last glacial maximum. Although the existence of a refugium in the Mediterranean cannot be discarded, the ancestral lineage most likely originated in the Atlantic, where most of the genetic diversity occurs.
- Behind the mask: cryptic genetic diversity of Mytilus galloprovincialis along southern European and northern African shoresPublication . Lourenço, Carla R.; Nicastro, Katy; Serrao, Ester A.; Castilho, Rita; Zardi, GerardoMorphological uniformity in geographically widespread species may cause genetically distinct entities to pass unnoticed if they can only be detected by molecular approaches. The importance of uncovering such cryptic diversity is prompted by the need to understand the putative adaptive potential of populations along species ranges and to manage biodiversity conservation efforts. In this study, we aim to assess cryptic intraspecific genetic diversity and taxonomic status of the widely distributed intertidal mussel Mytilus galloprovincialis, along Atlantic southwestern (SW) Iberian, Atlantic northwestern (NW) Moroccan and Mediterranean Tunisian shores. By using mitochondrial (16S restriction-fragment length polymorphism) and nuclear (polyphenolic adhesive protein gene, Glu-5') markers, we discovered a more complex taxonomic diversity of M. galloprovincialis than previously known. Both Atlantic and Mediterranean haplogroups of M. galloprovincialis were detected along Atlantic SW Iberian shores along with M. galloprovincialis/edulis hybrids (92.2% Atlantic, 3.9% Mediterranean and 3.9% hybrids). In contrast, NW Moroccan populations consisted solely of Atlantic M. galloprovincialis. The Mediterranean populations did not include M. galloprovincialis/ edulis hybrids, but both Atlantic (58%) and Mediterranean (42%) lineages were detected. Divergent selection between coastlines and/or indirect larval dispersal by human activities may be the drivers of this geographically structured genetic diversity.
- Comparative mitogenomic analyses and gene rearrangements reject the alleged polyphyly of a bivalve genusPublication . Cunha, Regina L.; Nicastro, Katy; Zardi, Gerardo I.; Madeira, Celine; McQuaid, Christopher D.; J. Cox, Cymon; Castilho, RitaBackground: The order and orientation of genes encoded by animal mitogenomes are typically conserved, although there is increasing evidence of multiple rearrangements among mollusks. The mitogenome from a Brazilian brown mussel (hereafter named B1) classified as Perna perna Linnaeus, 1758 and assembled from Illumina short-length reads revealed an unusual gene order very different from other congeneric species. Previous mitogenomic analyses based on the Brazilian specimen and other Mytilidae suggested the polyphyly of the genus Perna. Methods: To confirm the proposed gene rearrangements, we sequenced a second Brazilian P. perna specimen using the "primer-walking" method and performed the assembly using as reference Perna canaliculus. This time-consuming sequencing method is highly effective when assessing gene order because it relies on sequentially-determined, overlapping fragments. We also sequenced the mitogenomes of eastern and southwestern South African P. perna lineages to analyze the existence of putative intraspecific gene order changes as the two lineages show overlapping distributions but do not exhibit a sister relationship. Results: The three P. perna mitogenomes sequenced in this study exhibit the same gene order as the reference. CREx, a software that heuristically determines rearrangement scenarios, identified numerous gene order changes between B1 and our P. perna mitogenomes, rejecting the previously proposed gene order for the species. Our results validate the monophyly of the genus Perna and indicate a misidentification of B1.
- Comparative phylogeography of northwest African Natrix maura (Serpentes: Colubridae) inferred from mtDNA sequencesPublication . Barata, M.; Harris, D. J.; Castilho, RitaWhile the comparative phylogeography of European fauna is relatively well understood, with Pleistocene climatic oscillations leading to ‘southern refugia’ for many species, the equivalent pattern has not been determined for North Africa. In this context variation within North African populations of the riverine snake Natrix maura were assessed using mitochondrial DNA sequences. Recent literature regarding North African phylogeographic studies of reptiles was compiled, and several surprising patterns emerged. The most interesting was the extensive movement of species across the Strait of Gibraltar during the Pleistocene. Another is the general pattern of deep genetic divergences between Tunisian and Moroccan populations, often at a level implying the existence of cryptic species. Natrix maura has three distinct lineages in North Africa, however, it apparently did not cross the Strait of Gibraltar during the Pleistocene, but probably did so during the Messinian salinity crisis.
- Congruence between starch gel and polyacrylamide gel electrophoresis in detecting allozyme variation in pulmonate land slugsPublication . Geenen, S.; Jordaens, Kurt; Castilho, Rita; Backeljau, T.The predominantly selfing slug species Arion (Carinarion) fasciatus, A. (C.) silvaticus and A. (C.) circumscriptus are native in Europe and have been introduced into North America, where each species consists of a single, homozygous multilocus genotype (strain), as defined by starch gel electrophoresis (SGE) of allozymes. In Europe, the “one strain per species” hypothesis does not hold since polyacrylamide gel electrophoresis (PAGE) of allozymes uncovered 46 strains divided over the three species. However, electrophoretic techniques may differ in their ability to detect allozyme variation. Therefore, several Carinarion populations from both continents were screened by applying the two techniques simultaneously on the same individual slugs and enzyme loci. SGE and PAGE yielded exactly the same results, so that the different degree of variation in North American and European populations cannot be attributed to differences in resolving power between SGE and PAGE. We found four A. (C.) silvaticus strains in North America indicating that in this region the “one strain per species” hypothesis also cannot be maintained. Hence, the discrepancies between previous electrophoretic studies on Carinarion are most likely due to sampling artefacts and possible founder effects.
- Different diversity-dependent declines in speciation rate unbalances species richness in terrestrial slugsPublication . Lopes Da Cunha, Regina; Patrao, Claudia; Castilho, RitaTwo genera of terrestrial slugs (Arion and Geomalacus) display a striking disproportion in species richness in the Iberian Peninsula. While there are 17 Iberian endemic species in Arion, morphological criteria only recognize four species within Geomalacus. Sequence data were used to test whether these differences could result from: (1) cryptic diversity within Geomalacus; (2) an earlier origin for Arion (older clades are expected to accumulate more species); (3) distinct patterns of diversification rates (higher initial speciation rates in Arion), and (4) some combination of the above factors (e.g., an older clade with higher speciation rates). Species delimitation tests based on mitochondrial and nuclear data revealed eight cryptic lineages within Geomalacus that lessened the asymmetry; nevertheless, the disparity required further investigation. No meaningful differences in crown group ages of each recovered clade were found. Regardless the different premises of the two equally plausible diversification models (similar initial speciation rates vs. higher initial speciation rates in Geomalacus), both coincide on diversity-dependent diversification for the two groups but weaker rate declines in Arion best explains the observed asymmetry in species richness. Also, the broader environmental tolerance combined with a faster dispersal and wider distribution may have represented an evolutionary advantage for Arion.
- Differential population structuring of two closely related fish species, the mackerel (Scomber scombrus) and the chub mackerel (Scomber japonicus), in the Mediterranean SeaPublication . Zardoya, R.; Castilho, Rita; Grande, Cristina; Favre-Krey, L.; Caetano, Sandra; Marcato, S.; Krey, G.; Patarnello, T.Population genetic structures of the mackerel (Scomber scombrus) and chub mackerel (Scomber japonicus) were studied in the Mediterranean Sea. Fragments of 272 bp (S. scomber) and 387 bp (S. japonicus) of the 5′ -end of the mitochondrial control region were sequenced from spawning individuals collected off the coasts of Greece, Italy, Spain, and Portugal. High levels of mitochondrial control region haplotypic diversity (> 0.98) were found for both Scomber species. Nucleotide diversity was higher in the mackerel (0.022) than in the chub mackerel (0.017). Global F ST values were also higher and significant in the mackerel (0.024, P < 0.0001) as opposed to the chub mackerel (0.003, P > 0.05). Molecular variance analyses showed differential genetic structuring for these two closely related species. There is extensive gene flow between Mediterranean Sea and Atlantic Ocean populations of chub mackerel, which are organized into a larger panmictic unit. In contrast, Mediterranean Sea populations of mackerel show some degree of genetic differentiation and are structured along an east–west axis. The analysed eastern Mediterranean Sea mackerel populations (Greece, Italy) are clearly separated from that of the western Mediterranean Sea (Barcelona), which forms a panmictic unit with eastern Atlantic Ocean populations. The genetic structures of both species showed asymmetric migration patterns and indicated population expansion.