Inferring Population Genetic Structure in Widely and Continuously Distributed Carnivores: The Stone Marten (Martes foina) as a Case Study

The stone marten is a widely distributed mustelid in the Palaearctic region that exhibits variable habitat preferences in different parts of its range. The species is a Holocene immigrant from southwest Asia which, according to fossil remains, followed the expansion of the Neolithic farming cultures into Europe and possibly colonized the Iberian Peninsula during the Early Neolithic (ca. 7,000 years BP). However, the population genetic structure and historical biogeography of this generalist carnivore remains essentially unknown. In this study we have combined mitochondrial DNA (mtDNA) sequencing (621 bp) and microsatellite genotyping (23 polymorphic markers) to infer the population genetic structure of the stone marten within the Iberian Peninsula. The mtDNA data revealed low haplotype and nucleotide diversities and a lack of phylogeographic structure, most likely due to a recent colonization of the Iberian Peninsula by a few mtDNA lineages during the Early Neolithic. The microsatellite data set was analysed with a) spatial and non-spatial Bayesian individual-based clustering (IBC) approaches (STRUCTURE, TESS, BAPS and GENELAND), and b) multivariate methods [discriminant analysis of principal components (DAPC) and spatial principal component analysis (sPCA)]. Additionally, because isolation by distance (IBD) is a common spatial genetic pattern in mobile and continuously distributed species and it may represent a challenge to the performance of the above methods, the microsatellite data set was tested for its presence. Overall, the genetic structure of the stone marten in the Iberian Peninsula was characterized by a NE-SW spatial pattern of IBD, and this may explain the observed disagreement between clustering solutions obtained by the different IBC methods. However, there was significant indication for contemporary genetic structuring, albeit weak, into at least three different subpopulations. The detected subdivision could be attributed to the influence of the rivers Ebro, Tagus and Guadiana, suggesting that main watercourses in the Iberian Peninsula may act as semi-permeable barriers to gene flow in stone martens. To our knowledge, this is the first phylogeographic and population genetic study of the species at a broad regional scale. We also wanted to make the case for the importance and benefits of using and comparing multiple different clustering and multivariate methods in spatial genetic analyses of mobile and continuously distributed species.

New Nuclear SNP Markers Unravel the Genetic Structure and Effective Population Size of Albacore Tuna (Thunnus alalunga)

In the present study we have investigated the population genetic structure of albacore (Thunnus alalunga, Bonnaterre 1788) and assessed the loss of genetic diversity, likely due to overfishing, of albacore population in the North Atlantic Ocean. For this purpose, 1,331 individuals from 26 worldwide locations were analyzed by genotyping 75 novel nuclear SNPs. Our results indicated the existence of four genetically homogeneous populations delimited within the Mediterranean Sea, the Atlantic Ocean, the Indian Ocean and the Pacific Ocean. Current definition of stocks allows the sustainable management of albacore since no stock includes more than one genetic entity. In addition, short-and long-term effective population sizes were estimated for the North Atlantic Ocean albacore population, and results showed no historical decline for this population. Therefore, the genetic diversity and, consequently, the adaptive potential of this population have not been significantly affected by overfishing.

A production modeling approach to the assessment of the horseshoe crab (Limulus polyphemus) population in Delaware Bay

Horseshoe crab (Limulus polyphemus) is harvested commercially, used by the biomedical industry, and provides food for migrating shorebirds, particularly in Delaware Bay. Recently, decreasing crab population trends in this region have raised concerns that the stock may be insufficient to fulfill the needs of these diverse user groups. To assess the Delaware Bay horseshoe crab population, we used surplus production models (programmed in ASPIC), which incorporated data from fishery-independent surveys, fishery-dependent catch-per-unit-of-effort data, and regional harvest. Results showed a depleted population (B2003/=0.03−0.71) BMSY and high relative fishing mortality /FMSY=0.9−9.5). Future harvest (F2002strategies for a 15-year period were evaluated by using population projections with ASPICP software. Under 2003 harvest levels (1356 t), population recovery to BMSY would take at least four years, and four of the seven models predicted that the population would not reach BMSY within the 15year period. Production models for horseshoe crab assessment provided management benchmarks for a species with limited data and no prior stock assessment

A comparison of two fishery-independent survey programs used to define the population structure of American lobster (Homarus americanus) in the Gulf of Maine

The population structure and abundance of the American lobster (Homarus americanus) stock in the Gulf of Maine are defined by data derived from a fishery-independent trawl survey program conducted by the National Marine Fisheries Service (NMFS). Few sampling stations in the survey area are located inshore, in particular along coastal Maine. According to statistics, however, more than two thirds of the lobster landings come from inshore waters within three miles off the coast of Maine. In order to include an inshore survey program, complementary to the NMFS survey, the Maine Department of Marine Resources (DMR) initialized an inshore survey program in 2000. The survey was modeled on the NMFS survey program, making these two survey programs comparable. Using data from both survey programs, we evaluated the population structure of the American lobster in the Gulf of Maine. Our findings indicate that lobsters in the Gulf of Maine tend to have a size-dependent inshore-off-shore distribution; smaller lobsters are more likely to stay inshore and larger lobsters are more likely to stay offshore. The DMR inshore and NMFS survey programs focused on different areas in the Gulf of Maine and likely targeted different segments of the stock. We suggest that data from both survey programs be used to assess the lobster stock and to describe the dynamics of the stock in the Gulf of Maine.

Population structure and variance effective size of red snapper (Lutjanus campechanus) in the northern Gulf of Mexico*

We assayed allelic variation at 19 nuclear-encoded microsatellites among 1622 Gulf red snapper (Lutjanus campechanus) sampled from the 1995 and 1997 cohorts at each of three offshore localities in the northern Gulf of Mexico (Gulf). Localities represented western, central, and eastern subregions within the northern Gulf. Number of alleles per microsatellite per sample ranged from four to 23, and gene diversity ranged from 0.170 to 0.917. Tests of conformity to Hardy-Weinberg equilibrium expectations and of genotypic equilibrium between pairs of micro-satellites were generally nonsignificant following Bonferroni correction. Significant genic or genotypic heterogeneity (or both) among samples was detected at four microsatellites and over all microsatellites. Levels of divergence among samples were low (FST ≤0.001). Pairwise exact tests revealed that six of seven “significant” comparisons involved temporal rather than spatial heterogeneity. Contemporaneous or variance effective size (NeV) was estimated from the temporal variance in allele frequencies by using a maximum-likelihood method. Estimates of NeV ranged between 1098 and >75,000 and differed significantly among localities; the NeV estimate for the sample from the northcentral Gulf was >60 times as large as the estimates for the other two localities. The differences in variance effective size could ref lect differences in number of individuals successfully reproducing, differences in patterns and intensity of immigration, or both, and are consistent with the hypothesis, supported by life-history data, that different “demographic stocks” of red snapper are found in the northern Gulf. Estimates of NeV for red snapper in the northern Gulf were at least three orders of magnitude lower than current estimates of census size (N). The ratio of effective to census size (Ne/N) is far below that expected in an ideal population and may reflect high variance in individual reproductive success, high temporal and spatial variance in productivity among subregions or a combination of the two.

Population parameters of small pelagic fishes caught off Tawi-Tawi, Philippines

Growth and mortality parameters, exploitation rates and annual recruitment patterns were estimated from monthly length-frequency samples for Sardinella longiceps, S. fimbriata, S. Albella, Decapterus macrosoma, Dipterygonatus balteatus, Rastrelliger faughni and Encrasicolina heteroloba. These results provide the first sets of stock parameter estimates for these species off Tawi-Tawi, Philippines. The growth parameters derived were found comparable with previous estimates available for the same species from other localities. Recruitment was noted to be year-round and bimodal. Estimates of fishing mortality and exploitation rate were found to be presently above appropriate levels.

Population parameters of Penaeus californiensis in the Gulf of Guayaquil, Ecuador

The growth, mortality, and recruitment pattern of Penaeus californiensis were investigated using tail length (TL)-frequency data obtained from the Gulf of Guayaquil shrimp population. Computer-based methods of tail-frequency analysis Compleat ELEFAN software were used. Results obtained gave relatively high growth and mortality estimates for both males and females. The recruitment pattern indicated two pulses annually, one significantly larger than the other.

Zooplankton population periodicity in a tropical pond

Results of a study on periodicity of zooplankton in small tropical pond are presented. This study was conducted in order to facilitate the design of a pond-based zooplankton production system.

Population parameters of 'corvina' (Plagioscion squamosissimus) in the Barra Bonita Reservoir, Brazil

Estimates for the growth parameters (L sub( infinity ) and K) mortality coefficients (Z,M and F) and exploitation rate (E) for the sciaenid Plagioscion squamosissimus are presented. The following results were obtained: 1) for male: L sub( arrow right )=44.2 cm, K=0.30 yr super(1), Z=0.82 yr super(1), M=0.66 yr super(1), F=0.16 yr super(1), and E=0.20; and 2) for females: L sub( arrow right )=68.4, K=0.22 yr super(1), Z=0.91 yr super(1), M=0.47 yr super(1), F=0.44 yr super(1) and E=0.49. Females are more heavily fished than males. Artisanal fishing carried out with gillnets, is mainly directed toward the young section of the population and individuals reproducing for the first time.

Efficacy of a cognitive and behavioural psychotherapy applied by primary care psychologists in patients with mixed anxiety-depressive disorder: a research protocol

Background: In contrast with the recommendations of clinical practice guidelines, the most common treatment for anxiety and depressive disorders in primary care is pharmacological. The aim of this study is to assess the efficacy of a cognitive-behavioural psychological intervention, delivered by primary care psychologists in patients with mixed anxiety-depressive disorder compared to usual care. Methods/Design: This is an open-label, multicentre, randomized, and controlled study with two parallel groups. A random sample of 246 patients will be recruited with mild-to-moderate mixed anxiety-depressive disorder, from the target population on the lists of 41 primary care doctors. Patients will be randomly assigned to the intervention group, who will receive standardised cognitive-behavioural therapy delivered by psychologists together with usual care, or to a control group, who will receive usual care alone. The cognitive-behavioural therapy intervention is composed of eight individual 60-minute face-to face sessions conducted in eight consecutive weeks. A follow-up session will be conducted over the telephone, for reinforcement or referral as appropriate, 6 months after the intervention, as required. The primary outcome variable will be the change in scores on the Short Form-36 General Health Survey. We will also measure the change in the frequency and intensity of anxiety symptoms (State-Trait Anxiety Inventory) and depression (Beck Depression Inventory) at baseline, and 3, 6 and 12 months later. Additionally, we will collect information on the use of drugs and health care services. Discussion: The aim of this study is to assess the efficacy of a primary care-based cognitive-behavioural psychological intervention in patients with mixed anxiety-depressive disorder. The international scientific evidence has demonstrated the need for psychologists in primary care. However, given the differences between health policies and health services, it is important to test the effect of these psychological interventions in our geographical setting.

Population parameters of Pennahia anea and Nibea maculata in the Palk Bay/Gulf of Mannar area, India

The population parameters of the two most abundant sciaenids comprising the trawl catch in the Palk Bay/Gulf of Mannar area are presented. The following parameters were estimated: 233 mm (L sub( infinity )), 1.26 yr super(1) (K), -0.08 yr (t sub(0)), 4.24 yr super(1) (Z) and 2.24 yr super(1)(M) for Pennahia anear, 284 mm (L sub( infinity )), 1.08 yr super(1) (K), -0.05 yr (t sub(0)), 4.41 yr super(1) (Z) and 1.92 yr super(1) for Nibea maculata. Length at first capture was 97 mm for P. anea and 124 mm for N. maculata. These lengths were noted to be less than the corresponding length at first maturity for both species. The exploitation rates (E) derived indicate that the two species are heavily fished, which may account for the decline in sciaenid catches from 1988 to 1992.

Population control in farmed tilapias

Under the majority of culture practices, the reduction or elimination of reproduction in culture ponds results in significantly improved yields of marketable fish. An examination is made of existing methods for the control of reproduction in tilapias (Oreochromis spp.). The generation of all-male tilapia by hormonal sex reversal and genetic manipulation is discussed in detail, indicating the various advantages and disadvantages of both techniques.