scholarly journals Genetic mechanisms and correlational selection structure trait variation in a coral snake mimic

2021 ◽  
Vol 288 (1947) ◽  
Author(s):  
John David Curlis ◽  
Alison R. Davis Rabosky ◽  
Iris A. Holmes ◽  
Timothy J. Renney ◽  
Christian L. Cox

Covariation among traits shapes both phenotypic evolution and ecological interactions across space and time. However, rampant geographical variation in the strength and direction of such correlations can be particularly difficult to explain through generalized mechanisms. By integrating population genomics, surveys of natural history collections and spatially explicit analyses, we tested multiple drivers of trait correlations in a coral snake mimic that exhibits remarkable polymorphism in mimetic and non-mimetic colour traits. We found that although such traits co-occur extensively across space, correlations were best explained by a mixture of genetic architecture and correlational selection, rather than by any single mechanism. Our findings suggest that spatially complex trait distributions may be driven more by the simple interaction between multiple processes than by complex variation in one mechanism alone. These interactions are particularly important in mimicry systems, which frequently generate striking geographical variation and genetic correlations among colour pattern traits.

2013 ◽  
Author(s):  
Nicola Nadeau ◽  
Mayte Ruiz ◽  
Patricio Salazar ◽  
Brian Counterman ◽  
Jose Alejandro Medina ◽  
...  

Hybrid zones can be valuable tools for studying evolution and identifying genomic regions responsible for adaptive divergence and underlying phenotypic variation. Hybrid zones between subspecies of Heliconius butterflies can be very narrow and are maintained by strong selection acting on colour pattern. The co-mimetic species H. erato and H. melpomene have parallel hybrid zones where both species undergo a change from one colour pattern form to another. We use restriction associated DNA sequencing to obtain several thousand genome wide sequence markers and use these to analyse patterns of population divergence across two pairs of parallel hybrid zones in Peru and Ecuador. We compare two approaches for analysis of this type of data; alignment to a reference genome and de novo assembly, and find that alignment gives the best results for species both closely (H. melpomene) and distantly (H. erato, ~15% divergent) related to the reference sequence. Our results confirm that the colour pattern controlling loci account for the majority of divergent regions across the genome, but we also detect other divergent regions apparently unlinked to colour pattern differences. We also use association mapping to identify previously unmapped colour pattern loci, in particular the Ro locus. Finally, we identify within our sample a new cryptic population of H. timareta in Ecuador, which occurs at relatively low altitude and is mimetic with H. melpomene malleti.


2017 ◽  
Vol 4 (2) ◽  
pp. 161008 ◽  
Author(s):  
Michael J. Sheehan ◽  
Juanita Choo ◽  
Elizabeth A. Tibbetts

Understanding the developmental and evolutionary processes that generate and maintain variation in natural populations remains a major challenge for modern biology. Populations of Polistes fuscatus paper wasps have highly variable colour patterns that mediate individual recognition. Previous experimental and comparative studies have provided evidence that colour pattern diversity is the result of selection for individuals to advertise their identity. Distinctive identity-signalling phenotypes facilitate recognition, which reduces aggression between familiar individuals in P. fuscatus wasps. Selection for identity signals may increase phenotypic diversity via two distinct modes of selection that have different effects on genetic diversity. Directional selection for increased plasticity would greatly increase phenotypic diversity but decrease genetic diversity at associated loci. Alternatively, heritable identity signals under balancing selection would maintain genetic diversity at associated loci. Here, we assess whether there is heritable variation underlying colour pattern diversity used for facial recognition in a wild population of P. fuscatus wasps. We find that colour patterns are heritable and not Mendelian, suggesting that multiple loci are involved. Additionally, patterns of genetic correlations among traits indicated that many of the loci underlying colour pattern variation are unlinked and independently segregating. Our results support a model where the benefits of being recognizable maintain genetic variation at multiple unlinked loci that code for phenotypic diversity used for recognition.


A protected and warningly coloured butterfly can become a muellerian mimic of another species in two steps: (i) a major mutation converts the pattern of the less protected species to an approximate resemblance of the better protected (one-way convergence); (ii) after the spread of this mutant, the species, which now resemble each other sufficiently to be mistaken one for the other by predators, undergo mutual convergence, using whatever major or minor genetic variation is available to them. Although sometimes one or other step might occur alone, in general early theorists were mistaken in attributing muellerian mimicry to only one of these processes. By hybridizing races of Heliconius melpomene and races of H. erato (a pair of parallel mimetic species from the neotropics, held in mutual muellerian mimicry across wide inter-racial variations in colour pattern) we have shown that, as expected from the two-step theory, the races differ at a number (two to nine) of genetic loci, usually unlinked or loosely linked, including at least one mutant of major effect in each case. We describe the genetic constitution of eight races of H. melpomene (for 11 loci affecting colour pattern) and of eight races of H. erato (for up to 15 loci), and have started to identify the linkage groups. Map distances for those loci that are linked range from around 0.3 to zero in males, with no recombination in females. Muellerian mimicry is expected to produce total uniformity of pattern: universal exceptions to this are the existence of distinct mimicry rings flying within the same habitat, geographical variation within nearly all the more widespread species (divergence in the face of normalizing selection), and, in a few species, polymorphism or sexual dimorphism. Sympatric mimicry rings will, according to the two-step model of evolution, persist indefinitely if their patterns are so distinct that under no circumstances do predators mistake one for the other. Gradual mutual convergence is then impossible, although members of a weakly protected mimicry ring that can produce a mutation giving sufficient initial resemblance to a better protected ring can still be captured by it. Batesian mimics promote this by lowering the protection of the ring that they belong to, but their models can escape only in this way as normalizing selection prevents their gradual evolution away from the batesian mimic. If the rings are too distinct in pattern even this capture of species becomes impossible as no single mutant is able to bridge the gap between the two patterns, and the necessary two mutations will be extremely unlikely to occur together. The five principal sympatric mimicry rings of the mature neotropical rain forests are very distinct in their appearance The capture of a species by another ring can produce geographical variation both in the species captured and in the capturing ring, whose pattern is somewhat altered by mutual convergence with the captured species in the second step of the evolution of the muellerian resemblance. We suggest that the striking differences between the races within H. melpomene, H. erato and other Heliconius species resulted from these effects of inter-ring capture. Distributional evidence suggests that this chiefly occurred in refuges formed by the contraction of the neotropical rain forests during the cool dry periods in the Quaternary; these, by differential extinction of elements of the flora and fauna of different refuges, could have produced long-term changes in the relative abundances of the mimicry rings, and hence (as the protection given to a ring is proportional to its abundance) somewhat different capture events in each refuge. Several existing species confirm that this mode of evolution occurs, by retaining a distinctive pattern in the absence of any other remotely similar species, but becoming mimetic in areas where they encounter a pattern somewhat like their own. The isolated populations of Heliconius hermathena show this particularly clearly; the effect can be discerned also in H. melpomene and H. erato . Although polymorphism in muellerian mimics is largely unexplained, in two species of Heliconius it may result from the existence of two or more similar but slightly differing ‘sub-rings’ among their comimics in the family Ithomiidae, which show both spatial and temporal heterogeneity in their local distribution, which apparently is able to maintain a polymorphic equilibrium in the more uniformly distributed Heliconius . We have tentatively reconstructed the ancestral patterns of H. melpomene and erato by two independent methods: first, as dominant genes are much more likely to be incorporated than recessive ones during changes of pattern, the phenotype produced by the recessive alleles at all the known loci will be close to the ancestral pattern; secondly, species that are becoming mimics evolve more than those that are not, so that non-mimetic relatives of melpomene and erato will have a pattern close to ancestral. Both methods suggest, for both species, that the ancestor was a black butterfly with yellow (or possibly white) bars, and it may be that melpomene and erato have been comimics for a very long time. Previous climatic cycles in the Quaternary have apparently caused full speciation within two mutually mimetic evolving lineages, producing pairs of parallel mimetic species within the genus, of which melpomene and erato constitute one pair.


2021 ◽  
Author(s):  
Meijing An ◽  
Guangliang Zhou ◽  
Yang Li ◽  
Tao Xiang ◽  
Yunlong Ma ◽  
...  

Abstract Background Piglet mortality is an economically important complex trait that impacts sow prolificacy in the pig industry. The genetic parameters estimations and genome-wide association studies will help us to better understand the genetic fundamentals of piglet mortality. However, compared with other economically important traits, a little breakthrough in the genetic analyses of the trait has been achieved. Results In this study, we used multi-breed data sets from Yorkshire, Landrace, and Duroc sows and characterized the genetic and genomic properties of mortality rate at birth by treating each parity as a different trait. The heritability of mortality rate from parity I to III were estimated to be 0.0630, 0.1031, and 0.1140, respectively. The phenotypic and genetic correlations with its component traits were all positive with ranges from 0.0897 to 0.9054, and 0.2388 to 0.9999, respectively. Integrating the results, we identified 21 loci that were detected at least by two tools from standard MLM, FarmCPU, BLINK and mrMLM, and these loci were annotated to 22 genes. The annotations revealed that the gene expressions were associated with the reproductive system, nervous system, digestive system, and embryonic development, which are reasonably related to the piglet mortality. Conclusions In brief, the genetic properties of piglet mortality at birth were reported. These findings are expected to provide much information for understanding the genetic and genomic fundamentals of farrowing mortality and also identify candidate molecular markers for breeding practice.


2018 ◽  
Author(s):  
Saskia Selzam ◽  
Jonathan R. I. Coleman ◽  
Avshalom Caspi ◽  
Terrie E. Moffitt ◽  
Robert Plomin

AbstractIt has recently been proposed that a single dimension, called the p factor, can capture a person’s liability to mental disorder. Relevant to the p hypothesis, recent genetic research has found surprisingly high genetic correlations between pairs of psychiatric disorders. Here, for the first time we compare genetic correlations from different methods and examine their support for a genetic p factor. We tested the hypothesis of a genetic p factor by using principal component analysis on matrices of genetic correlations between major psychiatric disorders estimated by three methods – family study, Genome-wide Complex Trait Analysis, and Linkage-Disequilibrium Score Regression – and on a matrix of polygenic score correlations constructed for each individual in a UK-representative sample of 7,026 unrelated individuals. All disorders loaded on a first unrotated principal component, which accounted for 57%, 43%, 34% and 19% of the variance respectively for each method. Our results showed that all four methods provided strong support for a genetic p factor that represents the pinnacle of the hierarchical genetic architecture of psychopathology.


2019 ◽  
Vol 28 (3) ◽  
pp. 358-366 ◽  
Author(s):  
Weihua Meng ◽  
Mark J. Adams ◽  
Parminder Reel ◽  
Aravind Rajendrakumar ◽  
Yu Huang ◽  
...  

Abstract Correlations between pain phenotypes and psychiatric traits such as depression and the personality trait of neuroticism are not fully understood. In this study, we estimated the genetic correlations of eight pain phenotypes (defined by the UK Biobank, n = 151,922–226,683) with depressive symptoms, major depressive disorders and neuroticism using the the cross-trait linkage disequilibrium score regression (LDSC) method integrated in the LD Hub. We also used the LDSC software to calculate the genetic correlations among pain phenotypes. All pain phenotypes, except hip pain and knee pain, had significant and positive genetic correlations with depressive symptoms, major depressive disorders and neuroticism. All pain phenotypes were heritable, with pain all over the body showing the highest heritability (h2 = 0.31, standard error = 0.072). Many pain phenotypes had positive and significant genetic correlations with each other indicating shared genetic mechanisms. Our results suggest that pain, neuroticism and depression share partially overlapping genetic risk factors.


2009 ◽  
Vol 49 (1) ◽  
pp. 56 ◽  
Author(s):  
N. M. Edwards ◽  
M. Hebart ◽  
P. I. Hynd

The potential for adopting a genetic solution to protect sheep from blowfly strike on the breech was investigated in a flock of sheep that contained several animals expressing a trait characterised by low wool coverage over the breech and through a wide channel from the anus to the udder or scrotum. A scoring system (1, bare to 5, woolly) was developed and used to determine the heritability of the trait and its phenotypic and genetic correlations with other traits of importance in a sheep enterprise. In comparison to animals with woolly breeches, the skin in the breech of animals with a low bareness score was characterised by a low density of follicles producing short, medullated fibres, with histological evidence of immune rejection and follicular atrophy. The bareness score of progeny was influenced by the score of their respective sires suggesting a strong genetic component. The heritability of bareness score was moderate to high (h2 = 0.45 ± 0.02, 0.53 ± 0.01 and 0.38 ± 0.02 at lamb, hogget and adult ages, respectively). The lactation status and age of ewes influenced their bareness score, resulting in a low repeatability (0.42) of the trait between ages in females. Genetic correlations between bareness score and most other economically important traits were low. The weight of belly wool and the weight of skirtings was genetically related to bareness score (rg = +0.52 and +0.48 respectively), indicating that animals with barer breeches tend genetically towards lighter belly wool weights and lower weight of skirtings at wool classing. Selection and breeding for bareness score should achieve relatively rapid progress towards fixing the trait in a flock and without adverse effects on other important traits. Caution should be exercised in extrapolating these results to other bloodlines and environments where genetic mechanisms or environmental influences may be different.


2012 ◽  
Vol 52 (7) ◽  
pp. 463 ◽  
Author(s):  
S. Hatcher ◽  
A. L. King ◽  
K. R. Millington

Genetic parameters (heritability, phenotypic and genetic correlations) were estimated for sulfur (S), calcium (Ca), magnesium (Mg), manganese (Mn) and trace metal content (i.e. Cu, copper; Fe, iron; Zn, zinc) of yearling (11 months, n = 387) and adult (23 months, n = 274) fleeces from the 2007 and 2008 cohorts of Merino progeny (including both ewes and wethers) born into the Sheep CRC Information Nucleus. There was significant genetic variation in S and all metals. Ninety percent of the variation in S and Zn content of yearling wool was genetic, while heritability estimates for the remaining metals were all higher than 0.28 except for Cu (h2 = 0.17 ± 0.11) and Mn (h2 = 0.03 ± 0.12) in yearling fleeces and Cu (h2 = 0.14 ± 0.18) in adult fleeces. Ca and Mg were very highly correlated both phenotypically (0.95 ± 0.01 as yearlings and adults) and genetically (0.95 ± 0.07 as yearlings). There were also strong genetic correlations between yearling and adult Ca and adult Mn (0.85 ± 0.22 and 0.88 ± 0.10), Mg and Mn (0.92 ± 0.10) and between yearling S and adult Zn (0.67 ± 0.22) and adult S and adult Zn (0.60 ± 0.22) suggesting similar genetic mechanisms controlling the biochemical pathways of incorporation of each pair of elements into the fibre. There were significant phenotypic correlations between certain elements and the brightness, yellowness and photostability of wool. Taken together across the yearling and adult measurements, the phenotypic and genetic correlations suggest that wool with higher concentrations of Ca and Mg would tend to be less bright, yellower and less photostable than wool with lower concentrations of these metals. Wool with higher concentrations of Mn would tend to have a similar impact to Ca and Mg on brightness, clean colour and photostability. Fe was also associated with less bright wool, however wool with a high Fe content would tend to be whiter but with a propensity to yellow following UVB exposure.


Zootaxa ◽  
2012 ◽  
Vol 3407 (1) ◽  
pp. 1 ◽  
Author(s):  
PAULO PASSOS ◽  
ANA L. C. PRUDENTE

The taxonomic status of Atractus torquatus is revised on the basis of concordance between quantitative and qualitativeanalyses of morphological characters (meristic, morphometric, colour pattern, and hemipenis) throughout its geographicaldistribution. We propose the synonymy of Atractus davidhardi, A. janethae, and A. lucilae based on wide overlap of mor-phological characters (qualitative and quantitative). Despite some differences in the frequency of the number of suprala-bials, infralabials and maxillary teeth among A. torquatus populations, we find that these characters exhibit a high levelof polymorphism and therefore cannot unambiguously diagnose Guiana Shield and Amazon Basin populations. Addition-ally, we discuss the polymorphism and geographical variation in A. torquatus and its appropriateness for hypotheses of landscape evolution in Amazonia.


2020 ◽  
pp. PHYTO-08-20-035
Author(s):  
Michael J. McLeish ◽  
Aurora Fraile ◽  
Fernando García-Arenal

The genomics era has revolutionized studies of adaptive evolution by monitoring large numbers of loci throughout the genomes of many individuals. Ideally, the investigation of emergence in plant viruses requires examining the population dynamics of both virus and host, their interactions with each other, with other organisms and the abiotic environment. Genetic mechanisms that affect demographic processes are now being studied with high-throughput technologies, traditional genetics methods, and new computational tools for big-data. In this review, we discuss the utility of these approaches to monitor and detect changes in virus populations within cells and individuals, and over wider areas across species and communities of ecosystems. The advent of genomics in virology has fostered a multidisciplinary approach to tackling disease risk. The ability to make sense of the information now generated in this integrated setting is by far the most substantial obstacle to the ultimate goal of plant virology to minimize the threats to food security posed by disease. To achieve this goal, it is imperative to understand and forecast how populations respond to future changes in complex natural systems.


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