1. Microbiome sequencing data often need to be normalized due to differences in read depths, and recommendations for microbiome analyses generally warn against using proportions or rarefying to normalize data and instead advocate alternatives, such as upper quartile, CSS, edgeR-TMM, or DESeq-VS. Those recommendations are, however, based on studies that focused on differential abundance testing and variance standardization, rather than community-level comparisons (i.e., beta diversity). Also, standardizing the within-sample variance across samples may suppress differences in species evenness, potentially distorting communitylevel patterns. Furthermore, the recommended methods use log transformations, which we expect to exaggerate the importance of differences among rare OTUs, while suppressing the importance of differences among common OTUs.2. We tested these theoretical predictions via simulations and a real-world dataset.3. Proportions and rarefying produced more accurate comparisons among communities and were the only methods that fully normalized read depths across samples. Additionally, upper quartile, CSS, edgeR-TMM, and DESeq-VS often masked differences among communities when common OTUs differed, and they produced false positives when rare OTUs differed. 4. Based on our simulations, normalizing via proportions may be superior to other commonly used methods for comparing ecological communities.
During a biological invasion, we expect that the expanding front will increasingly become dominated by individuals with better dispersal abilities. Over many generations, selection at the invasion front thus will favour traits that increase dispersal rates. As a result of this process, cane toads (Bufo marinus) are now spreading through tropical Australia about 5-fold faster than in the early years of toad invasion; but how have toads changed to make this happen? Here we present data from radio-tracking of free-ranging cane toads from three populations (spanning a 15-year period of the toads’ Australian invasion, and across 1800 km). Our data reveal dramatic shifts in behavioural traits (proportion of nights when toads move from their existing retreat-site to a new one, and distance between those successive retreat-sites) associated with the rapid acceleration of toad invasion. Over a maximum period of 70 years (~50 generations), cane toads at the invasion front in Australia apparently have evolved such that populations include a higher proportion of individuals that make long, straight moves.
The classic cost-benefit model of ectothermic thermoregulation compares energetic costs and benefits, providing a critical framework for understanding this process (Huey and Slatkin 1976 ). It considers the case where environmental temperature (T(e)) is less than the selected temperature of the organism (T(sel)), and it predicts that, to minimize increasing energetic costs of thermoregulation as habitat thermal quality declines, thermoregulatory effort should decrease until the lizard thermoconforms. We extended this model to include the case where T(e) exceeds T(sel), and we redefine costs and benefits in terms of fitness to include effects of body temperature (T(b)) on performance and survival. Our extended model predicts that lizards will increase thermoregulatory effort as habitat thermal quality declines, gaining the fitness benefits of optimal T(b) and maximizing the net benefit of activity. Further, to offset the disproportionately high fitness costs of high T(e) compared with low T(e), we predicted that lizards would thermoregulate more effectively at high values of T(e) than at low ones. We tested our predictions on three sympatric skink species (Carlia rostralis, Carlia rubrigularis, and Carlia storri) in hot savanna woodlands and found that thermoregulatory effort increased as thermal quality declined and that lizards thermoregulated most effectively at high values of T(e).
Cane toads (Bufo marinus) are now moving about 5 times faster through tropical Australia than they did a half-century ago, during the early phases of toad invasion. Radio-tracking has revealed higher daily rates of displacement by toads at the invasion front compared to those from long-colonised areas: toads from frontal populations follow straighter paths, move more often, and move further per displacement than do toads from older (long-established) populations. Are these higher movement rates of invasion-front toads associated with modified locomotor performance (e.g. speed, endurance)? In an outdoor raceway, toads collected from the invasion front had similar speeds, but threefold greater endurance, compared to conspecifics collected from a long-established population. Thus, increased daily displacement in invasion-front toads does not appear to be driven by changes in locomotor speed. Instead, increased dispersal is associated with higher endurance, suggesting that invasion-front toads tend to spend more time moving than do their less dispersive conspecifics. Whether this increased endurance is a cause or consequence of behavioural shifts associated with rapid dispersal is unclear. Nonetheless, shifts in endurance between frontal and core populations of this invasive species point to the complex panoply of traits affected by selection for increased dispersal ability on expanding population fronts.
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