scholarly journals Phenotypic evolution of an Atlantic Forest passerine (Xiphorhynchus fuscus): biogeographic and systematic implications

2014 ◽  
Vol 113 (4) ◽  
pp. 1047-1066 ◽  
Author(s):  
Gustavo S. Cabanne ◽  
Natalia Trujillo-Arias ◽  
Luciano Calderón ◽  
Fernando M. d'Horta ◽  
Cristina Y. Miyaki

Abstract We studied the phenotypic variation of the Atlantic Forest passerine Xiphorhynchus fuscus (Aves: Dendrocolaptidae) with the broad aim of addressing whether the history and type of forest affected the evolution of endemic taxa. We also tested whether the different subspecies and genetic lineages of X. fuscus could be considered full species. We collected plumage and body size measurements and, in combination with genetic data, used multivariate tests to evaluate the working hypotheses. Our results, combined with previous biogeographic analyses, indicate that vicariant events have been important determinants in the evolution of phenotypic characters of X. fuscus, once genetic isolation was complete. Our analysis also suggests that forest heterogeneity and ecotones are important factors in the early evolution of Atlantic Forest taxa, perhaps via divergent selection. Forest instability during the Pleistocene was critical in the evolution of phenotypic traits. We confirm that the subspecies atlanticus should be considered a full species. Other lineages or populations are also phenotypically differentiated but we do not suggest considering them as full species. They share high levels of gene flow and are part of a continuous latitudinal cline of phenotypic variation. Our study suggests that not all the historic events in the Atlantic Forest that affected the evolution of genetic lineages also influenced the evolution of phenotypic characters in the same direction and intensity. Undoubtedly, natural selection played a major role in the evolution of Atlantic Forest organisms.

2020 ◽  
Author(s):  
Hong-Liang Lu ◽  
Yan-Fu Qu ◽  
Hong Li ◽  
Xiang Ji

Abstract Phenotypic plasticity and local adaptation are viewed as the main factors that result in between-population variation in phenotypic traits, but contributions of these factors to phenotypic variation vary between traits and between species and have only been explored in a few species of reptiles. Here, we incubated eggs of the Chinese skink (Plestiodon chinensis) from 7 geographically separated populations in Southeast China at 3 constant temperatures (24, 28, and 32 °C) to evaluate the combined effects of clutch origin, source population, and incubation temperature on hatchling traits. The relative importance of these factors varied between traits. Nearly all examined hatchling traits, including body mass, snout–vent length (SVL), tail length, head size, limb length, tympanum diameter, and locomotor speed, varied among populations and were affected by incubation temperature. Measures for hatchling size (body mass and SVL) varied considerably among clutches. Source population explained much of the variation in hatchling body mass, whereas incubation temperature explained much of the variation in other examined traits. Our results indicate that between-population variation in hatchling traits of P. chinensis likely reflects the difference in natural incubation conditions and genetic divergence.


PeerJ ◽  
2016 ◽  
Vol 4 ◽  
pp. e1633 ◽  
Author(s):  
Suzanna M. Evans ◽  
Elizabeth A. Sinclair ◽  
Alistair G.B. Poore ◽  
Keryn F. Bain ◽  
Adriana Vergés

Declines in genetic diversity within a species can affect the stability and functioning of populations. The conservation of genetic diversity is thus a priority, especially for threatened or endangered species. The importance of genetic variation, however, is dependent on the degree to which it translates into phenotypic variation for traits that affect individual performance and ecological processes. This is especially important for predominantly clonal species, as no single clone is likely to maximise all aspects of performance. Here we show that intraspecific genotypic diversity as measured using microsatellites is a strong predictor of phenotypic variation in morphological traits and shoot productivity of the threatened, predominantly clonal seagrassPosidonia australis, on the east coast of Australia. Biomass and surface area variation was most strongly predicted by genotypic richness, while variation in leaf chemistry (phenolics and nitrogen) was unrelated to genotypic richness. Genotypic richness did not predict tissue loss to herbivores or epiphyte load, however we did find that increased herbivore damage was positively correlated with allelic richness. Although there was no clear relationship between higher primary productivity and genotypic richness, variation in shoot productivity within a meadow was significantly greater in more genotypically diverse meadows. The proportion of phenotypic variation explained by environmental conditions varied among different genotypes, and there was generally no variation in phenotypic traits among genotypes present in the same meadows. Our results show that genotypic richness as measured through the use of presumably neutral DNA markers does covary with phenotypic variation in functionally relevant traits such as leaf morphology and shoot productivity. The remarkably long lifespan of individualPosidoniaplants suggests that plasticity within genotypes has played an important role in the longevity of the species. However, the strong link between genotypic and phenotypic variation suggests that a range of genotypes is still the best case scenario for adaptation to and recovery from predicted environmental change.


2020 ◽  
Vol 21 (7) ◽  
Author(s):  
Zulfahmi Zulfahmi ◽  
Edi Purwanto ◽  
Parjanto ◽  
Ahmad Yunus

Abstract. Zulfahmi, Purwanto E, Parjanto, Yunus A. 2020. Phenotypic diversity and plasticity index of Eurycoma apiculata populations in Eastern Sumatra, Indonesia based on leaves morphology. Biodiversitas 21: 2923-2934. Eurycoma apiculata A.W. Benn. is a protected species in Indonesia, but diversity information of this species is limited. The objective of this study was to assess the phenotypic diversity, phenotypic plasticity index, and phenotypic differentiation among populations of E. apiculata in Eastern Sumatra, Indonesia based on leaves morphology. A total of 45 traits were measured on leaves from six populations studied. The result of this found that the phenotypic variation coefficient (CV) of the characters was ranged from 7.41% to 36.97%, revealed the abundant phenotypic variation in the species. The phenotypic CV values of the population varied from 13.95% to 24.10%. The CV values of all populations from the mainland Sumatra (17.75%) were lower than that from the Riau archipelago (23.61%), which revealed that phenotypic traits in mainland Sumatra were more stable compared to populations in the Riau archipelago. The population phenotypic plasticity index value of populations ranged from 0.41 to 0.51, and it was classified as a moderate level. The phenotypic differentiation coefficient among populations in this study was relatively low (VST = 21.06%), indicating a lower phenotypic variation among populations than within populations. The scatter plot of principal component analysis and UPGMA dendrogram divided the six populations studies into two groups. The findings of this study recommend that the in-situ conservation method is an effective protection strategy for E. apiculata while ex-situ conservation method can be implemented as a supplementary method.


2019 ◽  
Vol 15 (10) ◽  
pp. 20190504 ◽  
Author(s):  
Chong Chen ◽  
Hiromi Kayama Watanabe ◽  
Yukiko Nagai ◽  
Takashi Toyofuku ◽  
Ting Xu ◽  
...  

Pectinodontid limpets are important members of deep-sea hot vents and cold seeps as can be seen by their conspicuous presence in both extant and extinct systems. They have traditionally been classified into different genera and species based on shell and radula characteristics; the reliability of these characters has been questioned but not tested thoroughly. Here, for the first time in taxa endemic to deep-sea chemosynthetic ecosystems, we combine substrate translocation with molecular data to assess the plasticity and variability of key phenotypic characters. Molecular data revealed that several ‘species’ of extant vent/seep pectinodontids actually represent intergrading morphotypes of a single, highly plastic, evolutionary lineage, with each morphological trait being possibly influenced differently by environmental and genetic factors. Our results challenge previous interpretations of paleoecology at fossil chemosynthetic ecosystems and highlight the importance of modern analogues in understanding fossil systems.


2014 ◽  
Vol 44 (4) ◽  
pp. 326-339 ◽  
Author(s):  
Qingzhang Du ◽  
Baohua Xu ◽  
Chenrui Gong ◽  
Xiaohui Yang ◽  
Wei Pan ◽  
...  

The natural phenotypic variation in Chinese white poplar (Populus tomentosa Carr.), which is distributed across a wide geographical area of northern China (30°N–40°N, 105°E–125°E), is a potential source of beneficial variation for poplar breeding. Thirteen traits related to growth, leaf, and wood properties were quantified in 460 P. tomentosa individuals grown in a common garden plot. There was considerable range-wide phenotypic variation in all traits across individuals according to the patterns of ANOVA among hierarchical groups (populations and regions, respectively). A clear sexual dimorphism for seven traits was examined. In total, 32 trait–trait phenotypic correlations (P ≤ 0.05), 10 trait–geographical factor correlations (P ≤ 0.05), and a highly interrelated structure network were identified, which was further supported by principal component analysis (PCA). These associations can be used in multiple-trait selective breeding programs for advantageous phenotypic traits. A hierarchical cluster analysis was used to classify four groups (southeastern, central, northeastern, and southwestern populations) among the natural populations using these 13 phenotypic traits. This study provides important perspectives into the use of direct breeding to potentially improve economic traits and provides a starting point for genome-wide association studies in P. tomentosa in the near future.


2010 ◽  
Vol 77 (3) ◽  
pp. 1009-1020 ◽  
Author(s):  
A. Lanois ◽  
S. Pages ◽  
S. Bourot ◽  
A.-S. Canoy ◽  
A. Givaudan ◽  
...  

ABSTRACTPhotorhabdus luminescenslives in a mutualistic association with entomopathogenic nematodes and is pathogenic for insects. Variants ofPhotorhabdusfrequently arise irreversibly and are studied because they have altered phenotypic traits that are potentially important for the host interaction. VAR* is a colonial and phenotypic variant displaying delayed pathogenicity when directly injected into the insect,Spodoptera littoralis. In this study, we evaluated the role of transcriptomic modulation in determining the phenotypic variation and delayed pathogenicity of VAR* with respect to the corresponding wild-type form, TT01α. AP. luminescensmicroarray identified 148 genes as differentially transcribed between VAR* and TT01α. The net regulator status of VAR* was found to be significantly modified. We also observed in VAR* a decrease in the transcription of genes supporting certain phenotypic traits, such as pigmentation, crystalline inclusion, antibiosis, and protease and lipase activities. Three genes encoding insecticidal toxins (pitandpirB) or putative insecticidal toxins (xnp2) were less transcribed in VAR* than in the TT01α. The overexpression of these genes was not sufficient to restore the virulence of VAR* to the levels of ΤΤ01α, which suggests that the lower virulence of VAR* does not result from impaired toxemia in insects. Three loci involved in oxidative stress responses (sodA,katE, and thehcaoperon) were found to be downregulated in VAR*. This is consistent with the greater sensitivity of VAR* to H2O2and may account for the impaired bacteremia in the hemolymph ofS. littoralislarvae observed with VAR*. In conclusion, we demonstrate here that some phenotypic traits of VAR* are regulated transcriptionally and highlight the multifactorial nature of pathogenicity in insects.


2010 ◽  
Vol 278 (1713) ◽  
pp. 1903-1912 ◽  
Author(s):  
Mihaela Pavlicev ◽  
James M. Cheverud ◽  
Günter P. Wagner

A basic assumption of the Darwinian theory of evolution is that heritable variation arises randomly. In this context, randomness means that mutations arise irrespective of the current adaptive needs imposed by the environment. It is broadly accepted, however, that phenotypic variation is not uniformly distributed among phenotypic traits, some traits tend to covary, while others vary independently, and again others barely vary at all. Furthermore, it is well established that patterns of trait variation differ among species. Specifically, traits that serve different functions tend to be less correlated, as for instance forelimbs and hind limbs in bats and humans, compared with the limbs of quadrupedal mammals. Recently, a novel class of genetic elements has been identified in mouse gene-mapping studies that modify correlations among quantitative traits. These loci are called relationship loci, or relationship Quantitative Trait Loci (rQTL), and affect trait correlations by changing the expression of the existing genetic variation through gene interaction. Here, we present a population genetic model of how natural selection acts on rQTL. Contrary to the usual neo-Darwinian theory, in this model, new heritable phenotypic variation is produced along the selected dimension in response to directional selection. The results predict that selection on rQTL leads to higher correlations among traits that are simultaneously under directional selection. On the other hand, traits that are not simultaneously under directional selection are predicted to evolve lower correlations. These results and the previously demonstrated existence of rQTL variation, show a mechanism by which natural selection can directly enhance the evolvability of complex organisms along lines of adaptive change.


Diversity ◽  
2021 ◽  
Vol 13 (6) ◽  
pp. 273
Author(s):  
Dominique L. Hellmich ◽  
Andre B. S. Saidenberg ◽  
Timothy F. Wright

The presence of unidentified cryptic species within a species complex can obscure demographic trends of vulnerable species, impacting potential species conservation and management decisions. Previous work identified a taxonomic split between Central and South American populations of the mealy amazon (Amazona farinosa) that subsequently resulted in the elevation of these two populations to full species status (Amazona guatemalae and A. farinosa, respectively). In that study, however, a third, geographically disjunct population from the Brazilian Atlantic Forest was insufficiently sampled, limiting the ability of researchers to fully evaluate its genetic distinctiveness. Given that significant levels of biodiversity and endemism are found in this region, we aimed to use genetic and behavioral data to determine if the Atlantic Forest population of A. f. farinosa represents a third cryptic species within the complex. We sequenced 6 genes (4 mitochondrial and 2 nuclear introns) from the Atlantic Forest population of A. f. farinosa to measure the genetic relationships between this population and all other recognized species and subspecies of the mealy amazon. In addition, we use spectrographic cross-correlation and an analysis of 29 acoustic parameters to determine whether the taxa diverge in their learned contact call structure and if the degree of vocal differentiation correlates to genetic structure. We found that the Atlantic Forest population of A. f. farinosa was genetically distinct from that of the greater Amazon basin, but the degree of differentiation was less than that separating the Central and South American taxa. Acoustic analysis revealed substantial variation in contact call structure within each clade. This variation created substantial overlap in acoustic space between the clades. In all, the degree of call divergence between clades did not correspond to the degree of genetic divergence between the same clades. The results suggest that in taxa with substantial geographic variation in learned calls, such as the mealy amazon, vocalizations may not be a useful tool in the identification of cryptic species that are lifelong vocal learners. While these results do not support the elevation of the Brazilian Atlantic Forest population of the mealy amazon to full species status, given current trends of habitat loss in the Atlantic Forest as well as the imperiled status of large parrot species globally, we argue that this population nonetheless warrants special conservation and management consideration as a pool of unique genetic diversity within the southern mealy amazon species.


2021 ◽  
Author(s):  
◽  
Conor Stewart Bruce Neilson

<p>A primary goal of ecology is to identify the factors underlying recruitment variability, and how they may shape population dynamics. Recruitment is driven by the input of new individuals into a population. However, these individuals often show high diversity in phenotypic traits and life histories, and the consequences of this variation are poorly understood. Phenotypic variation is widespread among the early life stages of fish, and this variation may be influenced by events occurring across multiple life stages. While many studies have investigated phenotypic variation and its effect on population dynamics, comparatively few studies use an integrated approach that evaluates patterns and processes across multiple life history stages. Here I focus on a native amphidromous fish, Galaxias maculatus, and I explore patterns and consequences of phenotypic variation during larval stages, migratory stages, and post-settlement stages of this fish.  I explore variability in phenotypes and early life history traits of G. maculatus through both space and time. I use metrics derived from body size and otolith-based demographic reconstructions to quantify potentially important early life history traits. I found that cohorts of juvenile fish sampled later in the year were comprised of individuals that were older, smaller, and grew more slowly relative to fish sampled earlier in the year. I also found that two sampled sites (the Hutt River and the Wainuiomata River) showed different temporal trends, despite their close geographical proximity.  I then investigated whether phenotype was related to mortality. I used otolith-based traits to characterise larval ‘quality’ for individual fish. I then calculated the average larval quality for discrete cohorts of fish, and used catch-curve analysis to estimate mortality rates for these cohorts. I investigated the overall relationship between quality and mortality, and compared the trend between two sites. My results indicate that phenotype and mortality were not significantly correlated. However, this inference may be limited by low statistical power; the non-significant trends suggest that the relationship might be negative (i.e., larvae of higher quality tend to have lower rates of mortality). This trend is typical of systems where population expansion is limited by food rather than predators.  I then investigated whether phenotypic traits in the juvenile cohorts were correlated with traits in adult cohorts. I resampled the focal populations ~6 months after sampling the juvenile stages (i.e., targeting fish from sampled cohorts that had survived to adulthood), and I used data from otoliths to reconstruct life history traits (hatch dates and growth histories). I compared adult life history traits to the traits of discrete juvenile cohorts.  My results suggest that fish that survived to adulthood had comparatively slower growth rates (reconstructed for a period of larval/juvenile growth) relative to the sampled juvenile cohorts (where growth rate was estimated for the same period in their life history). I also found that the distributions of hatch dates varied between sites. Fish that survived to adulthood at one site hatched later in the breeding season, while adult stages from the other site had hatch dates that were distributed across the entire breeding season. Both hatch date and growth rate are likely linked to fitness, and their interaction may have influenced patterns of survival to adulthood. These results provide evidence for carry-over effects of larval phenotype on juvenile success  Collectively my thesis emphasises the importance of phenotype and life history variability in studies of recruitment. It also highlights the importance of spatial scale, and how biological patterns may differ between geographically close systems. Some of the general inferences from my study may extend to other migratory Galaxiid species, and perhaps more generally, to many species with extensive larval dispersal. Finally, my work highlights potentially important interactions between phenotypes, life histories, and mortality, which can ultimately shape recruitment, and the dynamics of populations.</p>


2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Justin A. Varholick ◽  
Alice Pontiggia ◽  
Eimear Murphy ◽  
Vanessa Daniele ◽  
Rupert Palme ◽  
...  

Abstract A tacit assumption in laboratory animal research is that animals housed within the same cage or pen are phenotypically more similar than animals from different cages or pens, due to their shared housing environment. This assumption drives experimental design, randomization schemes, and statistical analysis plans, while neglecting social context. Here, we examined whether a domain of social context—social dominance—accounted for more phenotypic variation in mice than cage-identity. First, we determined that cages of mice could be categorized into one of three dominance hierarchies with varying degrees of dominance behavior between cage-mates, and low levels of agonistic behavior in the home-cage. Most groups formed dynamic hierarchies with unclear ranks, contrasting with recent accounts of stable transitive hierarchies in groups of mice. Next, we measured some phenotypic traits, and found that social dominance (i.e. dominance hierarchy type and degree of dominance behavior) consistently accounted for some phenotypic variation in all outcome measures, while cage-identity accounted for phenotypic variation in some measures but virtually no variation in others. These findings highlight the importance of considering biologically relevant factors, such as social dominance, in experimental designs and statistical plans.


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