The Complex Demographic History and Evolutionary Origin of the Western Honey Bee, Apis Mellifera.

The western honey bee, Apis mellifera, provides critical pollination services to agricultural crops worldwide. However, despite substantial interest and prior investigation, the early evolution and subsequent diversification of this important pollinator remain uncertain. The primary hypotheses place the origin of A. mellifera in either Asia or Africa, with subsequent radiations proceeding from one of these regions. Here, we use two publicly available whole-genome data sets plus newly sequenced genomes and apply multiple population genetic analysis methods to investigate the patterns of ancestry and admixture in native honey bee populations from Europe, Africa, and the Middle East. The combination of these data sets is critical to the analyses, as each contributes samples from geographic locations lacking in the other, thereby producing the most complete set of honey bee populations available to date. We find evidence supporting an origin of A. mellifera in the Middle East or North Eastern Africa, with the A and Y lineages representing the earliest branching lineages. This finding has similarities with multiple contradictory hypotheses and represents a disentangling of genetic relationships, geographic proximity, and secondary contact to produce a more accurate picture of the origins of A. mellifera. We also investigate how previous studies came to their various conclusions based on incomplete sampling of populations, and illustrate the importance of complete sampling in understanding evolutionary processes. These results provide fundamental knowledge about genetic diversity within Old World honey bee populations and offer insight into the complex history of an important pollinator

Nestmate recognition in social insects: overcoming physiological constraints with collective decision making.

Social insects rank among the most abundant and influential terrestrial organisms. The key to their success is their ability to form tightly knit social groups that perform work cooperatively, and effectively exclude non-members from the colony. An extensive body of research, both empirical and theoretical, has explored how optimal acceptance thresholds could evolve in individuals, driven by the twin costs of inappropriately rejecting true nestmates and erroneously accepting individuals from foreign colonies. Here, in contrast, we use agent-based modeling to show that strong nestmate recognition by individuals is often unnecessary. Instead, highly effective nestmate recognition can arise as a colony-level property from a collective of individually poor recognizers. Essentially, although an intruder can get by one defender when their odor cues are similar, it is nearly impossible to get past many defenders if there is the slightest difference in cues. The results of our models match observed rejection rates in studies of ants, wasps, and bees. We also show that previous research in support of the optimal threshold theory approach to the problem of nestmate recognition can be alternatively viewed as evidence in favor of the collective formation of a selectively permeable barrier that allows in nestmates (at a significant cost) while rejecting non-nestmates. Finally, this work shows that nestmate recognition has a stronger task allocation component than previously thought, as colonies can nearly always achieve perfect nestmate recognition if it is cost effective for them to do so at the colony level. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s00265-010-1094-x) contains supplementary material, which is available to authorized users

Theoretical study of angle-resolved two-photon photoemission in two-dimensional insulating cuprates

We propose angle-resolved two-photon photoemission spectroscopy (AR-2PPES) as a technique to detect the location of the bottom of the upper Hubbard band (UHB) in two-dimensional insulating cuprates. The AR-2PPES spectra are numerically calculated for small Hubbard clusters. When the pump photon excites an electron from the lower Hubbard band, the bottom of the UHB is less clear, but when an electron in the nonbonding oxygen band is excited, the bottom of the UHB can be identified clearly, accompanied with additional spectra originated from the spin-wave excitation at half filling.Comment: 5 pages, 4 figure

Taxonomically restricted genes are associated with the evolution of sociality in the honey bee

<p>Abstract</p> <p>Background</p> <p>Studies have shown that taxonomically restricted genes are significant in number and important for the evolution of lineage specific traits. Social insects have gained many novel morphological and behavioral traits relative to their solitary ancestors. The task repertoire of an advanced social insect, for example, can be 40-50 tasks, about twice that of a solitary wasp or bee. The genetic basis of this expansion in behavioral repertoire is still poorly understood, and a role for taxonomically restricted genes has not been explored at the whole genome level.</p> <p>Results</p> <p>Here we present comparative genomics results suggesting that taxonomically restricted genes may have played an important role in generating the expansion of behavioral repertoire associated with the evolution of eusociality. First, we show that the current honey bee official gene set contains about 700 taxonomically restricted genes. These are split between orphans, genes found only in the Hymenoptera, and genes found only in insects. Few of the orphans or genes restricted to the Hymenoptera have been the focus of experimental work, but several of those that have are associated with novel eusocial traits or traits thought to have changed radically as a consequence of eusociality. Second, we predicted that if taxonomically restricted genes are important for generating novel eusocial traits, then they should be expressed with greater frequency in workers relative to the queen, as the workers exhibit most of the novel behavior of the honey bee relative to their solitary ancestors. We found support for this prediction. Twice as many taxonomically restricted genes were found amongst the genes with higher expression in workers compared to those with higher expression in queens. Finally, we compiled an extensive list of candidate taxonomically restricted genes involved in eusocial evolution by analyzing several caste specific gene expression data sets.</p> <p>Conclusions</p> <p>This work identifies a large number of candidate taxonomically restricted genes that may have played a role in eusocial evolution. This work thus lays the foundation for future functional genomics work on the evolution of novelty in the context of social behavior. We also present preliminary evidence, based on biased patterns of gene expression, that taxonomically restricted genes may have played a role in the evolution of caste systems, a characteristic lineage specific social trait.</p

Resonant inelastic X-ray scattering study of overdoped La2−x_{2-x}Srx_{x}CuO4_{4}

Resonant inelastic x-ray scattering (RIXS) at the copper K absorption edge has been performed for heavily overdoped samples of La$_{2-x}$Sr$_{x}$CuO$_{4}$ with $x= 0.25$ and 0.30. We have observed the charge transfer and molecular-orbital excitations which exhibit resonances at incident energies of $E_i= 8.992$ and 8.998 keV, respectively. From a comparison with previous results on undoped and optimally-doped samples, we determine that the charge-transfer excitation energy increases monotonically as doping increases. In addition, the $E_i$-dependences of the RIXS spectral weight and absorption spectrum exhibit no clear peak at $E_i = 8.998$ keV in contrast to results in the underdoped samples. The low-energy ($\leq 3$ eV) continuum excitation intensity has been studied utilizing the high energy resolution of 0.13 eV (FWHM). A comparison of the RIXS profiles at $(\pi ~0)$ and $(\pi ~\pi)$ indicates that the continuum intensity exists even at $(\pi ~\pi)$ in the overdoped samples, whereas it has been reported only at $(0 ~0)$ and $(\pi ~0)$ for the $x=0.17$ sample. Furthermore, we also found an additional excitation on top of the continuum intensity at the $(\pi ~\pi)$ and $(\pi ~0)$ positions.Comment: 7 pages, 7 figure

Resonant inelastic x-ray scattering in one-dimensional copper oxides

The Cu K-edge resonant inelastic x-ray scattering (RIXS) spectrum in one-dimensional insulating cuprates is theoretically examined by using the exact diagonalization technique for the extended one-dimensional Hubbard model with nearest neighbor Coulomb interaction. We find the following characteristic features that can be detectable by RIXS experiments: (i) The spectrum with large momentum transfer indicates the formation of excitons, i.e., bound states of holon and doublon. (ii) The spectrum with small momentum transfer depends on the incident photon energy. We propose that the RIXS provides a unique opportunity to study the upper Hubbard band in one-dimensional cuprates.Comment: 3 pages with 4 figures, minor changes, to appear in Phys.Rev.