Relationships Between Population Growth and Population Density in Monocultures of Larix leptolepis

One year-old Japanese larch (Larix leptolepis) seedlings were planted in a nursery from 1984 to 1986 at four density levels with four replicates in order to investigate the relationships between plant growth and density of survivors. As the results shown, self-thinning occurred severely in populations growing at high densities. The rate of the self-thinning followed a trajectory defined by the 3/2 power law. The relationship between mean dry weight per tree and population density at a given stage of growth followed the reciprocal equation and power equation at early experimental stages, but changed gradually to follow the 3/2 power law as plants grew further. Shch a change was mainly caused by the constant basal area per ms and decreased growth of tree height along a gradient of the density. The relationship between tree height (h) and density (p) also be discussed and in the 3/2 power law system it could be described by an equation consisting of h=αp（-1/2） where α is a constant.     

The evolution of reciprocity in sizable human groups

The scale and complexity of human cooperation is an important and unresolved evolutionary puzzle. This article uses the finitely repeated n person Prisoners’ Dilemma game to illustrate how sapience can greatly enhance group-selection effects and lead to the evolutionary stability of cooperation in large groups. This affords a simple and direct explanation of the human “exception.”     

Environmentally-induced functional specialization for locally abundant resources in the stoloniferous herb Duchesnea indica

Reciprocally patchy environments, where the availability of two resources are patchily distributed and negatively correlated in each patch, are common in many ecosystems. Interconnected ramets of clonal plants can specialize in the uptake of locally abundant resources. Ramet pairs of the stoloniferous herb Duchesnea indica were grown in reciprocally patchy environments i.e., one ramet of a pair was grown in the high light but low water patch (high light patch) and the other in the low light but high water patch (high water patch). Biomass allocation pattern (root-shoot ratio), morphological traits (leaf area and root length) and physiological traits (photosynthetic rate and chlorophyll content) were altered in a way that potentially enables ramets to enhance the capture of the locally abundant resource (i.e., increase the capture of light resource in the high light patch and of water in the high water patch). As a result,biomass and number of ramets in the connected ramet pairs were greatly improved. Functional specialization of ramets, modified by clonal integration, may have contributed greatly to the growth increase of D. indica in the reciprocally patchy environment.     

Microevolution in biological control: Mechanisms, patterns, and processes

Microevolution may determine both the safety and efficacy of classical biological control. Despite a growing body of literature, there are several key unanswered questions regarding the role of evolution in biological control: (1) How common is local adaptation of natural enemies to their hosts or the environment in the native range? How critical is it for success of biological control to find locally adapted agents for importation? (2) Does adaptive evolution following introductions play an important role in biological control? (3) Do introductions of biological control agents impose bottlenecks in population size that reduce genetic variation, and is reduced genetic variation associated with low fitness and poor performance? (4) How great is the risk of evolution of host range of biological control agents? (5) What is the risk of target pests evolving resistance to biological control agents? If pests evolve increased resistance, will biological control agents evolve mechanisms to overcome that resistance? Here, we review the four fundamental processes of microevolution, and discuss how they interact in the context of biological control. We discuss our current state of knowledge regarding the outstanding questions, highlight the types of experiments that can address them, and suggest ways to use microevolution to define risks, and enhance efficacy and safety of biological control.     

Germination behaviour of annual plants under changing climatic conditions: separating local and regional environmental effects

The role of local adaptation and factors other than climate in determining extinction probabilities of species under climate change has not been yet explicitly studied. Here we performed a field experiment with annual plants growing along a steep climatic gradient in Israel to isolate climatic effects for local trait expression. The focus trait was seed dormancy, for which many theoretical predictions exist regarding climate-driven optimal germination behaviour. We evaluated how germination is consistent with theory, indicating local adaptation to current and changing climatic conditions, and how it varies among species and between natural and standardised soil conditions. We reciprocally sowed seeds from three or four origins for each of three annual species, Biscutella didyma, Bromus fasciculatus and Hymenocarpos circinnatus, in their home and neighbouring sowing locations along an aridity gradient. Our predictions were: lower germination fraction for seeds from more arid origins, and higher germination at wetter sowing locations for all seed origins. By sowing seeds in both local and standard soil, we separated climatic effects from local conditions. At the arid sowing location, two species supported the prediction of low germination of drier seed origins, but differences between seed origins at the other sites were not substantial. There were no clear rainfall effects on germination. Germination fractions were consistently lower on local soil than on standard soil, indicating the important role of soil type and neighbour conditions for trait expression. Local environmental conditions may override effects of climate and so should be carefully addressed in future studies testing for the potential of species to adapt or plastically respond to climate change.     

Hermaphroditism: What's not to like?

Hermaphroditism is rare and phylogenically in decline among animal species. The evolutionary basis for this development is not well understood. This paper focusses on self-incompatible simultaneous hermaphroditism in animals. It proposes that such hermaphroditism is not stable in sufficiently heterogeneous populations, suggesting a possible reason for why hermaphroditism is rare among evolved animal species. The argument turns on the Bateman principle, namely that male reproductive success (RS) is limited by partner availability, while female RS is not. We show that: low-quality individuals do better if female; secondary sexual differentiation may be important for understanding the existence of males; and that hermaphroditic mating is reciprocal. Reciprocity may be key to understanding promiscuity and attendant phenomena such as cryptic female choice, sperm competition and love darts-common features of hermaphroditic mating. We also argue that hermaphrodites are especially vulnerable to male violence, suggesting a reason for the rarity of trioecy. Finally, we propose that external fertilization, and the scope for streaking, may be one reason fish are the only simultaneously hermaphroditic vertebrates.     

Standing on wedges modifies side-specific postural control in the presence of lateral external perturbations

Standing on wedges changes the position in the ankle joints and affects postural stability in the medial-lateral direction. The objective of the study was to investigate the role of wedges and external lateral perturbations on anticipatory (APA) and compensatory postural adjustments (CPA). Ten healthy young participants were exposed to perturbations applied to the lateral part of their right shoulder when standing on a planar surface, on a medial or lateral wedges. Bilateral electromyographic activity of dorsal and ventral postural muscles and the center of pressure (COP) displacement were recorded and analyzed during the APA and CPA phases. When exposed to the lateral perturbation, reciprocal activation of shank muscles was seen on the side of the perturbation while co-contraction of shank muscles was seen on the contralateral side during the APA and CPA phases. Standing on a wedge was associated with decreased magnitudes of co-contraction and reciprocal activation of shank muscles. The COP displacements were smaller in the APA phase and larger in the CPA phase while standing on wedges compared to standing on the planar surface. The outcome of the study provides a basis for future investigations of incorporating wedges in balance re-training paradigms for the elderly or individuals with neurological impairment.     

QTLs influencing panicle size detected in two reciprocal introgressive line (IL) populations in rice (Oryza sativa L.)

Two sets of reciprocal introgression line (IL) populations, i.e., ILs with Lemont as recurrent parent (IL_LT) and ILs with Teqing as recurrent parent (IL_TQ), were developed and evaluated for traits representing panicle size, including primary branch number (PBN), secondary branch number (SBN), and spikelet number per panicle (SNP). Together with the regression to recurrent parent by advanced backcross, transgressive segregations were observed for all traits. Correlation and regression analysis showed that SBN had much higher contribution to SNP than PBN. It was confirmed by the QTL analysis that many common loci were detected between SBN and SNP, in comparison with single common locus between PBN and SNP. One and three main effect QTLs (M-QTLs) were detected for PBN in IL_LT and IL_TQ, respectively. Six M-QTLs per trait per populations were associated with SBN and SNP. Less number and lower contribution of epistasis were detected in IL populations in comparison with mapping result from F ₂ or RI population. There were only four QTLs in fourteen loci (near 30%) commonly detected in both reciprocal IL populations implying the large impact of genetic background on QTLs expression. H. W. Mei and J. L. Xu contributed equally to this work.     

morFeus: a web-based program to detect remotely conserved orthologs using symmetrical best hits and orthology network scoring

Background

Searching the orthologs of a given protein or DNA sequence is one of the most important and most commonly used Bioinformatics methods in Biology. Programs like BLAST or the orthology search engine Inparanoid can be used to find orthologs when the similarity between two sequences is sufficiently high. They however fail when the level of conservation is low. The detection of remotely conserved proteins oftentimes involves sophisticated manual intervention that is difficult to automate.

Results

Here, we introduce morFeus, a search program to find remotely conserved orthologs. Based on relaxed sequence similarity searches, morFeus selects sequences based on the similarity of their alignments to the query, tests for orthology by iterative reciprocal BLAST searches and calculates a network score for the resulting network of orthologs that is a measure of orthology independent of the E-value. Detecting remotely conserved orthologs of a protein using morFeus thus requires no manual intervention. We demonstrate the performance of morFeus by comparing it to state-of-the-art orthology resources and methods. We provide an example of remotely conserved orthologs, which were experimentally shown to be functionally equivalent in the respective organisms and therefore meet the criteria of the orthology-function conjecture.

Conclusions

Based on our results, we conclude that morFeus is a powerful and specific search method for detecting remotely conserved orthologs. morFeus is freely available at http://bio.biochem.mpg.de/morfeus/. Its source code is available from Sourceforge.net (https://sourceforge.net/p/morfeus/).

Electronic supplementary material

The online version of this article (doi:10.1186/1471-2105-15-263) contains supplementary material, which is available to authorized users.     

Kin selection may inhibit the evolution of reciprocation

Kin selection and reciprocal cooperation provide two candidate explanations for the evolution of cooperation. Models of the evolution of cooperation have typically focussed on one or the other mechanism, despite claims that kin selection could pave the way for the evolution of reciprocal cooperation. We describe a computer simulation model that explicitly supports both kin selection and reciprocal cooperation. The model simulates a viscous population of discrete individuals with social interaction taking the form of the Prisoner's Dilemma and selection acting on performance in these interactions. We recount how the analytical and empirical study of this model led to the conclusion that kin selection may actually inhibit the evolution of effective strategies for establishing reciprocal cooperation.