Jonathan B. Losos

Bio: Jonathan B. Losos is an academic researcher from Washington University in St. Louis. The author has contributed to research in topics: Anolis & Adaptive radiation. The author has an hindex of 89, co-authored 274 publications receiving 28673 citations. Previous affiliations of Jonathan B. Losos include University of California, Davis & Avila University.

Phenotypic Convergence Is Not Mirrored at the Protein Level in a Lizard Adaptive Radiation

Abstract: There are many compelling examples of molecular convergence at individual genes. However, the prevalence and the relative importance of adaptive genome-wide convergence remain largely unknown. Many recent works have reported striking examples of excess genome-wide convergence, but some of these studies have been called into question because of the use of inappropriate null models. Here, we sequenced and compared the genomes of 12 species of anole lizards that have independently converged on suites of adaptive behavioral and morphological traits. Despite extensive searches for a genome-wide signature of molecular convergence, we found no evidence supporting molecular convergence at specific amino acids either at individual genes or at genome-wide comparisons; we also uncovered no evidence supporting an excess of adaptive convergence in the rates of amino acid substitutions within genes. Our findings indicate that comprehensive phenotypic convergence is not mirrored at genome-wide protein-coding levels in anoles, and therefore, that adaptive phenotypic convergence is likely not constrained by the evolution of many specific protein sequences or structures.

Ontogenetic scaling patterns of lizard skin surface structure as revealed by gel-based stereo-profilometry

Abstract: The skin surface structure of squamate reptiles varies greatly among species, likely because it plays a key role in a range of tasks, such as camouflage, locomotion, self-cleaning, mitigation of water loss and protection from physical damage. Although we have foundational knowledge about squamate skin morphology, we still know remarkably little about how intraspecific variation in skin surface structure translates to functional variation. This gap in our understanding can be in part traced back to: (i) our lack of knowledge on how body size determines skin surface structure; and (ii) the lack of means to perform high-throughput and detailed analysis of the three-dimensional (3D) anatomy of reptilian skin surfaces in a non-destructive manner. To fill this gap, we explored the possibilities of a new imaging technique, termed gel-based stereo-profilometry, to visualize and quantify the 3D topography of reptilian skin surface structure. Using this novel approach, we investigated intra-specific and intra-individual variation in the skin surface morphology of a focal lizard species, Anolis cristatellus. We assessed how various characteristics of surface topography (roughness, skew and kurtosis) and scale morphology (area, height, width and shape) scale with body size across different body regions. Based on an ontogenetic series of A. cristatellus males, we show that skin roughness increases with body size. Skin patches on the ventral body region of lizards were rougher than on the dorsum, but this was a consequence of ventral scales being larger than dorsal scales. Dorsal surface skew and kurtosis varied with body size, but surfaces on the ventral skin showed no such relationship. Scale size scaled isometrically with body size, and while ventral scales differed in shape from dorsal scales, scale shape did not change with ontogeny. Overall, this study demonstrates that gel-based stereo-profilometry is a promising method to rapidly assess the 3D surface structure of reptilian skin at the microscopic level. Additionally, our findings of the explanatory power of body size on skin surface diversity provide a foundation for future studies to disentangle the relationships among morphological, functional and ecological diversity in squamate reptile skin surfaces.

An incipient invasion of brown anole lizards (Anolis sagrei) into their own native range in the Cayman Islands: a case of cryptic back-introduction

Abstract: Human-mediated dispersal has reshaped distribution patterns and biogeographic relationships for many taxa. Long-distance and over-water dispersal were historically rare events for most species, but now human activities can move organisms quickly over long distances to new places. A potential consequence of human-mediated dispersal is the eventual reintroduction of individuals from an invasive population back into their native range; a dimension of biological invasion termed “cryptic back-introduction.” We investigated whether this phenomenon was occurring in the Cayman Islands where brown anole lizards (Anolis sagrei) with red dewlaps (i.e., throat fans), either native to Little Cayman or invasive on Grand Cayman, have been found on Cayman Brac where the native A. sagrei have yellow dewlaps. Our analysis of microsatellite data shows strong population-genetic structure among the three Cayman Islands, but also evidence for non-equilibrium. We found some instances of intermediate multilocus genotypes (possibly 3–9% of individuals), particularly between Grand Cayman and Cayman Brac. Furthermore, analysis of dewlap reflectance data classified six males sampled on Cayman Brac as having red dewlaps similar to lizards from Grand Cayman and Little Cayman. Lastly, one individual from Cayman Brac had an intermediate microsatellite genotype, a red dewlap, and a mtDNA haplotype from Grand Cayman. This mismatch among genetic and phenotypic data strongly suggests that invasive A. sagrei from Grand Cayman are interbreeding with native A. sagrei on Cayman Brac. To our knowledge, this is the first evidence of cryptic back-introduction. Although we demonstrate this phenomenon is occurring in the Cayman Islands, assessing its frequency there and prevalence in other systems may prove difficult due to the need for genetic data in most instances. Cryptic back-introductions may eventually provide some insight into how lineages are changed by the invasion process and may be an underappreciated way in which invasive species impact native biodiversity.

Competition, predation and natural selection in island lizards.

Abstract: Arising from R. Calsbeek & R. M. Cox , 613–616 (2010)10.1038/nature09020 ; Calsbeek and Cox reply Discerning the relative influence of competition and predation as selective forces is an important goal of evolutionary ecology. Calsbeek and Cox1 argue that intraspecific competition outweighs predation as an agent of natural selection on island populations of the lizard Anolis sagrei. However, we identify several problems with the design and analysis of the Calsbeek and Cox1 study that we believe render its results uninterpretable.

Conservation genetics of the endangered coachella valley fringe-toed lizard (uma inornata)

Abstract: We used microsatellite loci to examine rangewide population structure and interpopulation gene flow in the federally threatened Coachella Valley fringe-toed lizar d( Uma inornata). Our results indicate low population differentiation consistent with high gene flow, recent colonization and range expansion, and/ or frequent local extirpation/recolonization events. Given high historical gene flow among populations and current isolation of remaining populations, conservation planning for this species should include monitoring of potential deleterious effects that may result from reduction in gene flow, such as inbreeding and loss of genetic variation, to ensure maintenance of ecological and evolutionary population processes adequate for long-term survival of the species.

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

Abstract: 抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

The Theory of Island Biogeography

Abstract: Preface to the Princeton Landmarks in Biology Edition vii Preface xi Symbols Used xiii 1. The Importance of Islands 3 2. Area and Number of Speicies 8 3. Further Explanations of the Area-Diversity Pattern 19 4. The Strategy of Colonization 68 5. Invasibility and the Variable Niche 94 6. Stepping Stones and Biotic Exchange 123 7. Evolutionary Changes Following Colonization 145 8. Prospect 181 Glossary 185 References 193 Index 201

Human biochemical genetics

Abstract: So far in this course we have dealt entirely with the evolution of characters that are controlled by simple Mendelian inheritance at a single locus. There are notes on the course website about gametic disequilibrium and how allele frequencies change at two loci simultaneously, but we didn’t discuss them. In every example we’ve considered we’ve imagined that we could understand something about evolution by examining the evolution of a single gene. That’s the domain of classical population genetics. For the next few weeks we’re going to be exploring a field that’s actually older than classical population genetics, although the approach we’ll be taking to it involves the use of population genetic machinery. If you know a little about the history of evolutionary biology, you may know that after the rediscovery of Mendel’s work in 1900 there was a heated debate between the “biometricians” (e.g., Galton and Pearson) and the “Mendelians” (e.g., de Vries, Correns, Bateson, and Morgan). Biometricians asserted that the really important variation in evolution didn’t follow Mendelian rules. Height, weight, skin color, and similar traits seemed to

phytools: an R package for phylogenetic comparative biology (and other things)

Abstract: Summary 1. Here, I present a new, multifunctional phylogenetics package, phytools, for the R statistical computing environment. 2. The focus of the package is on methods for phylogenetic comparative biology; however, it also includes tools for tree inference, phylogeny input/output, plotting, manipulation and several other tasks. 3. I describe and tabulate the major methods implemented in phytools, and in addition provide some demonstration of its use in the form of two illustrative examples. 4. Finally, I conclude by briefly describing an active web-log that I use to document present and future developments for phytools. I also note other web resources for phylogenetics in the R computational environment.

Testing for phylogenetic signal in comparative data: behavioral traits are more labile.

Abstract: The primary rationale for the use of phylogenetically based statistical methods is that phylogenetic signal, the tendency for related species to resemble each other, is ubiquitous. Whether this assertion is true for a given trait in a given lineage is an empirical question, but general tools for detecting and quantifying phylogenetic signal are inadequately developed. We present new methods for continuous-valued characters that can be implemented with either phylogenetically independent contrasts or generalized least-squares models. First, a simple randomization procedure allows one to test the null hypothesis of no pattern of similarity among relatives. The test demonstrates correct Type I error rate at a nominal α = 0.05 and good power (0.8) for simulated datasets with 20 or more species. Second, we derive a descriptive statistic, K, which allows valid comparisons of the amount of phylogenetic signal across traits and trees. Third, we provide two biologically motivated branch-length transformat...