Ania Pino-Querido

Ania Pino-Querido
AllGenetics

PhD Molecular Genetics

About

57
Publications
6,398
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524
Citations
Citations since 2017
34 Research Items
204 Citations
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2017201820192020202120222023010203040
2017201820192020202120222023010203040
Additional affiliations
January 2013 - August 2014
Instituto Gulbenkian de Ciência (IGC)
Position
  • PostDoc Position

Publications

Publications (57)
Article
Full-text available
Genetic assimilation—the evolutionary process by which an environmentally induced phenotype is made constitutive—represents a fundamental concept in evolutionary biology. Thought to reflect adaptive phenotypic plasticity, matricidal hatching in nematodes is triggered by maternal nutrient deprivation to allow for protection or resource provisioning...
Preprint
Full-text available
Genetic assimilation - the evolutionary process by which an ancestral environmentally sensitive phenotype is made constitutive - is a fundamental concept in biology. Its evolutionary relevance is debated, and our understanding of its prevalence, and underlying genetics and molecular mechanisms, is poor. Matricidal hatching is an extreme form of mat...
Article
Full-text available
Partial selfing, whereby self- and cross- fertilization occur in populations at intermediate frequencies, is generally thought to be evolutionarily unstable. Yet, it is found in natural populations. This could be explained if populations with partial selfing are able to reduce genetic loads and the possibility for inbreeding depression while keepin...
Article
Full-text available
Evolutionary responses to environmental change depend on the time available for adaptation before environmental degradation leads to extinction. Explicit tests of this relationship are limited to microbes where adaptation usually depends on the sequential fixation of de novo mutations, excluding standing variation for genotype-by-environment fitnes...
Data
Pre-processing of the RWH data to be used for inference of the lineage fitness reaction norms. (A) Shown is the number of RWHs classified as major and minor as a function of the number of top RWHs selected per sample. (B) Shown is the maximum observed frequency for the minor RWHs as a function of number of top RWHs selected per sample. For the sele...
Data
Number of possible lineages segregating in the ancestral population. Number of lineages obtained as a function of the number of top RWHs selected as primary RWHs within each replicate population, and the number of secondary lineages sampled per replicate population. (PNG)
Data
Main lineage frequency trajectories. Shown are the predicted frequencies of the main lineages from generation 0 to generation 100 in each of the regimes (as in Fig 5B). Each colored line corresponds to the predicted frequencies for a given sampled ancestral population. For each sampled ancestral population, the lineages within each treatment were r...
Data
Expected population fitness with linear reaction norms. The average population fitness and variance in fitness for 20 samples of the ancestral population, under the sudden or the gradual regimes, when modeling linear reaction norms for each segregating lineage. Lines indicate the mean with shaded areas the 95% credible interval. (PNG)
Data
Differentiating L28 with pool genotyping. Impact of a subset of SNPs in terms of the ability to distinguish all possible segregating lineages (S4 Fig), contrasting the effect of considering the 29 target SNPs that were assayed in the pooled genotyping data (Fig 6D and Fig 7) with the full set of 761 SNPs used in the first set of evolution experimen...
Data
Discrepancy L28 function. Shown are the discrepancy values for each ancestral population used to seed the continued experimental evolution under each of the experimental evolution regimes (large or small population size); (A) for populations where L28 was lost before continued experimental evolution, (B) for the population where L28 swept in large...
Data
Experimental evolution populations analyzed in the present study. (TXT)
Data
Detailed RWH frequency trajectories in region 2 with linear fitness reaction norms. As in S5 Fig, but for RWHs in region 2 (chromosomes III and IV). (PNG)
Data
RWH frequency trajectories when considering quadratic fitness reaction norms. (A-C) Left columns show that the majority of haplotypes are quickly selected against in all experimental evolution regimes (as in Fig 3, background haplotypes H0#)). Middle and right columns show the two specific haplotypes in region 1 (A), region 2 (B) or region 3 (C) sh...
Data
Quadratic fitness reaction norms of the two lineages explaining population genetic dynamics. (A) Predicted fitness reaction norms of the L28 (red) and L11 (blue), as in Fig 5A, but modeling quadratic functions. Each line corresponds to one sample done of the ancestral population. (B) Expected L28 and L11 frequency trajectories for 100 generations (...
Data
Observed RWH frequencies. (A) Most of the RWHs observed across all time points and population sampled are relative rare. Each panel shows the histogram with number of RWH relative to all those observed for each sub-genomic region (left to right). (B) Outline of the approach for defining the major and minor RWHs in a given replicate population; data...
Data
Detailed RWH frequency trajectories in region 3 with linear fitness reaction norms. As in S5 Fig, but for RWHs in region 3 (chromosomes V and X). (PNG)
Data
Expected population fitness with quadratic reaction norms. The average population fitness and variance in fitness for 20 samples of the ancestral population, under the sudden or the gradual regimes, when modeling quadratic reaction norms for each segregating lineage. Lines indicate the mean with shaded areas the 95% credible interval. (PNG)
Data
Probability of a sweep involving lineage L28. Estimated probability of a L28 sweep for each ancestral population used to seed the continued experimental evolution under each of the evolutionary regime (large or small population size); (A) for populations where L28 was lost before continued experimental evolution, (B) for the population where L28 sw...
Data
Detailed description of materials and methods. (PDF)
Data
Overview of the genotyping data for analysis. (A) Histograms showing the distance between consecutive SNPs in each of the six chromosomes after quality control. Top figure shows physical distance (in kbp, see [53] for gene sizes and densities in C. elegans), and bottom figure shows genetic distances (in cM, based on C. elegans genetic map of [24],...
Data
Detailed RWH frequency trajectories in region 1 with linear fitness reaction norms. The observed (in part from Fig 3) and predicted frequencies of selected RWHs are shown as a function of the number of generations, in each of the replicate populations. RWHs are shown for region 1 (chromosomes I and II). Predicted frequencies when modeling linear fr...
Data
Statistics on the RWHs observed on the lines derived from replicate populations GM1 and GM3 in generation 50. (A) 100 lines were derived from gradual populations (GM1 and GM3) at generation 50 and whole-genome sequenced in [21]. Most of the CWHs and RWHs observed in the present study are observed as well in the lines of [21]. Shown are the number o...
Data
Calibration curves for the pooled sequencing data. Pooled sequencing data was used to estimate lineage frequencies in the head-to-head competition assays (Fig 6D) and in the second set of evolution experiments (Fig 7). Each entry corresponds to a single SNP analyzed, with the symbols corresponding to the observed values, while the curves correspond...
Data
Lineage identification among the 100 lines of ref. [21]. (PDF)
Preprint
Full-text available
Classical theory on the origin and evolution of selfing and outcrossing relies on the role of inbreeding depression created by unlinked partially-deleterious recessive alleles to predict that individuals from natural populations predominantly self or outcross. Comparative data indicates, however, that maintenance of partial selfing and outcrossing...
Article
Full-text available
Using a new experimentally evolved multiparent mapping resource for C. elegans, Noble et al. have outlined the genetic architecture of worm fertility.. Understanding the genetic basis of complex traits remains a major challenge in biology. Polygenicity, phenotypic plasticity, and epistasis contribute to phenotypic variance in ways that are rarely c...
Article
Full-text available
Evolutionary responses to environmental change depend on the time available for adaptation before environmental degradation leads to extinction. Explicit tests of this relationship are limited to microbes where adaptation depends on the order of mutation accumulation, excluding standing genetic variation which is key for most natural species. When...
Preprint
Full-text available
Understanding the genetic basis of complex traits remains a major challenge in biology. Polygenicity, phenotypic plasticity and epistasis contribute to phenotypic variance in ways that are rarely clear. This uncertainty is problematic for estimating heritability, for predicting individual phenotypes from genomic data, and for parameterizing models...
Article
Mediterranean mussel (Mytilus galloprovincialis) is one of the main species of the European aquaculture, Galicia being (NW Spain) the main productive region (~ 200,000 t/year). The main problem for mussel production is the accumulation of toxins coming from microalgae blooms, which have even increased in recent years determining the banning of comm...
Article
Estimation of selection response and genealogical tracing in family mixtures require an appropriate tool for parentage analysis. In this study, we tested 19 marker loci for parentage analysis allocation in Mediterranean mussel (Mytilus galloprovincialis). To this aim, we reared families in tanks isolated from wild mussel seed, analysed them using t...
Article
Full-text available
The Senegalese sole, Solea senegalensis, is an important commercial flatfish species with major fisheries located off the Atlantic coast of the SW Iberian Peninsula. Past information about the genetic structure and connectivity among natural populations of this species has been restricted to mitochondrial DNA analysis. The present analysis of eight...
Article
The Senegalese sole, Solea senegalensis, is an important commercial flatfish species with major fisheries located off the Atlantic coast of the SW Iberian Peninsula. Past information about the genetic structure and connectivity among natural populations of this species has been restricted to mitochondrial DNA analysis. The present analysis of eight...
Article
Production of triploid individuals is a relevant goal for the aquaculture industry due to the benefits associ-ated with their sterility and growth. Thus, methods for assessing triploidy have been developed based on genome, chromosome or gene triploid-associated properties. In this study, we developed a new cheap, tech-nically simple and accurate me...
Article
Full-text available
Parentage of a stock of mixed milt produced progeny in current artificial breeding protocol of endangered Caspian brown trout, Salmo trutta caspius, was determined using three microsatellite loci chosen after a primary analysis of genetic diversity at nine microsatellite loci in the eight used breeder individuals. Overall, 98.8% of progeny were ass...
Article
This article documents the addition of 238 microsatellite marker loci to the Molecular Ecology Resources Database. Loci were developed for the following species: Alytes dickhilleni, Arapaima gigas, Austropotamobius italicus, Blumeria graminis f. sp. tritici, Cobitis lutheri, Dendroctonus ponderosae, Glossina morsitans morsitans, Haplophilus subterr...
Data
Figure S1. Neighbor-Joining tree among the haplotypes found in Iranian Rivers. The numbers indicate the robustness of the branches using Neighbor-Joining (NJ above branch, bootstrap value >50) and Bayesian inference (BI, below branch, Posterior probability >50)
Article
The Mediterranean mussel, Mytilus galloprovincialis, is one of the most important aquaculture species in Europe. Appropriate molecular markers are required to evaluate genetic resources and to trace genealogies in breeding programmes for improving mussel culture. Microsatellites have been commonly applied to this purpose in other species. However,...
Article
Full-text available
The Caspian Sea, the largest inland closed water body in the world, has numerous endemic species. The Caspian brown trout (Salmo trutta caspius) is considered as endangered according to IUCNcriteria. Information on phylogeography and genetic structure is crucial for appropriate management of genetic resources. In spite of the huge number of studies...
Article
The statistical properties and performance of four estimators of pairwise relatedness were evaluated in several scenarios using the microsatellite genotype data from a set of large known full-sibships of turbot. All estimators showed a significant negative bias for the four kinships commonly used in these studies (unrelated: UR, half-sibs, full-sib...
Article
Body abnormalities constitute an important problem to fish aquaculture. Pigmentation, scale and skeleton abnormalities have been reported in different cultured fish species. Environmental and genetic factors or their interaction have been suggested to explain their origin. Gilthead seabream (Sparus aurata) is one of the most important European cult...
Article
Eleven microsatellite loci previously described in Sparid species were evaluated for their suitability in paternity assignment of gilthead seabream (Sparus aurata). Nine hundred and ninety six offspring obtained by natural spawning from 159 potential breeders maintained in 8 different tanks were genotyped for this set of 11 loci. Given their high p...
Article
A set of 50 potential microsatellite loci previously described in several flatfish species was evaluated for designing a suitable tool for parentage assessment in Senegal sole (Solea senegalensis). Low cross-amplification within Pleuronectiformes, even between congeneric species, was achieved. This suggests a low conservation of microsatellite flan...
Article
We evaluated essential parameters (mutation rate, null alleles and Mendelian inheritance) as well as theoretical vs. empirical power of 12 microsatellite loci for parentage determination in turbot (Scophthalmus maximus) by analysing the actual broodstock of a turbot farm and 176 full-sib families. In accordance with their high polymorphism, the the...

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