Caste‐biases in gene expression are specific to developmental stage in the ant Formica exsecta

Understanding how a single genome creates and maintains distinct phenotypes is a central goal in evolutionary biology. Social insects are a striking example of co‐opted genetic backgrounds giving rise to dramatically different phenotypes, such as queen and worker castes. A conserved set of molecular pathways, previously envisioned as a set of ‘toolkit’ genes, has been hypothesized to underlie queen and worker phenotypes in independently evolved social insect lineages. Here, we investigated the toolkit from a developmental point of view, using RNA‐Seq to compare caste‐biased gene expression patterns across three life stages (pupae, emerging adult and old adult) and two female castes (queens and workers) in the ant Formica exsecta. We found that the number of genes with caste‐biased expression increases dramatically from pupal to old adult stages. This result suggests that phenotypic differences between queens and workers at the pupal stage may derive from a relatively low number of caste‐biased genes, compared to higher number of genes required to maintain caste differences at the adult stage. Gene expression patterns were more similar among castes within developmental stages than within castes despite the extensive phenotypic differences between queens and workers. Caste‐biased expression was highly variable among life stages at the level of single genes, but more consistent when gene functions (gene ontology terms) were investigated. Finally, we found that a large part of putative toolkit genes were caste‐biased at least in some life stages in F. exsecta, and the caste‐biases, but not their direction, were more often shared between F. exsecta and other ant species than between F. exsecta and bees. Our results indicate that gene expression should be examined across several developmental stages to fully reveal the genetic basis of polyphenisms.     

刺芹侧耳不同发育时期的转录组差异分析

为了探讨刺芹侧耳子实体生长发育时期的基因表达变化,本文利用高通量测序技术对刺芹侧耳不同发育时期（菌丝期、原基期、子实体时期）进行RNA-Seq分析,在转录水平上解析差异表达基因在刺芹侧耳生长发育过程中的作用和功能。KEGG功能富集显示,菌丝期差异表达基因主要富集在碳代谢和氨基酸代谢中,其中三羧酸循环中编码柠檬酸合酶、乌头酸水合酶、异柠檬酸脱氢酶、琥珀酰辅酶A合成酶、琥珀酸脱氢酶、苹果酸脱氢酶的基因表达量均上调,说明碳代谢和氨基酸代谢是菌丝时期的主要能量来源;原基期上调的差异表达基因主要富集在脂肪酸代谢,其中RT-PCR定量结果显示原基期编码脂肪酸合酶的基因和编码脂酰辅酶A合成酶的基因下调,编码超氧化物酶的基因和编码过氧化氢酶的基因上调,表明脂肪酸代谢和抗氧化酶对刺芹侧耳原基期维持机体的稳定和生物应激方面起着重要作用。子实体时期上调的差异表达基因主要富集在剪接体、类固醇的生物合成以及AMPK信号通路中,说明环境因子对子实体时期有一定的影响。     

Phylogenetic relationships between the slave‐making ants Rossomyrmex and their Proformica hosts in relation to other genera of the ant tribe Formicini (Hymenoptera: Formicidae)

The ant genus Proformica is very common to Eurasian semi‐deserts, and a few species are parasitized by the slave‐making ants Rossomyrmex. However, the phylogenetic relationship between Proformica (host) and Rossomyrmex (parasite) remains unclear as another closely related genus (Cataglyphis) could be a sister group of Rossomyrmex. This work has two main goals: (i) to study the phylogenetic relationships among Proformica, Rossomyrmex, and other genera of the tribe Formicini, with a special focus on the highly diverse genus Cataglyphis; and (ii) to reconstruct the biogeographical distribution of parasite and host genera. We perform a phylogenetic study for the first time including several species of the genera Rossomyrmex, Proformica, and Cataglyphis. Our results indicate that Proformica and Rossomyrmex are reciprocally monophyletic and that Rossomyrmex is nested within Cataglyphis, rendering the latter paraphyletic. Finally, the ancestral distribution range of the host genus could be situated in Central Asia and subsequently dispersed to Western Europe, whereas additional studies are required to clarify the range of the parasite.     

Embryonic stages and eye‐specific gene expression of the local cyprinoid fish Anabarilius grahami in Fuxian Lake,China

Anabarilius grahami is a cyprinoid fish endemic to Fuxian Lake, Yunnan, China. In this study, a comprehensive staging series of A. grahami was produced. The embryonic development of A. grahami was divided into six main periods: zygote period, cleavage period, blastula period, gastrula period, segmentation period and hatching period. Its embryonic development is essentially similar to that of zebrafish Danio rerio but relatively slower. The expression patterns of A. grahami sox2, pax6a, six3a and rx2 genes were also cloned and checked during eye development. The four genes showed similar expression patterns to their D. rerio homologues, suggesting the evolutionary conservation of the regulatory network of eye development.     

Whole‐body heat exposure causes developmental stage‐specific apoptosis of male germ cells

Humans are occasionally exposed to extreme environmental heat for a prolonged period of time. Here, we investigated testicular responses to whole‐body heat exposure by placing mice in a warm chamber. Among the examined tissues, the testis was found to be most susceptible to heat stress. Heat stress induces direct responses within germ cells, such as eukaryotic initiation factor 2α phosphorylation and stress granule (SG) formation. Prolonged heat stress (42°C for 6 hr) also disturbed tissue organization, such as through blood‐testis barrier (BTB) leakage. Germ cell apoptosis was induced by heat stress for 6 hr in a cell type‐ and developmental stage‐specific manner. We previously showed that spermatocytes in the early tubular stages (I–VI) form SGs for protection against heat stress. In the mid‐tubular stages (VII–VIII), BTB leakage synergistically enhances the adverse effects of heat stress on pachytene spermatocyte apoptosis. In the late tubular stages (IX–XII), SGs are not formed and severe leakage of the BTB does not occur, resulting in mild apoptosis of late‐pachytene spermatocytes near meiosis. Our results revealed that multiple stress responses are involved in germ cell damage resulting from prolonged heat stress (42°C for 6 hr).     

The chick optic tectum developmental stages. A dynamic table based on temporal‐ and spatial‐dependent histogenetic changes: A structural,morphometric and immunocytochemical analysis

Development is often described as temporal sequences of developmental stages (DSs). When tables of DS are defined exclusively in the time domain they cannot discriminate histogenetic differences between different positions along a spatial reference axis. We introduce a table of DSs for the developing chick optic tectum (OT) based on time‐ and space‐dependent changes in quantitative morphometric parameters, qualitative histogenetic features and immunocytochemical pattern of several developmentally active molecules (Notch1, Hes5, NeuroD1, β‐III‐Tubulin, synaptotagmin‐I and neurofilament‐M). Seven DSs and four transitional stages were defined from ED2 to ED12, when the basic OT cortical organization is established, along a spatial developmental gradient axis extending between a zone of maximal and a zone of minimal development. The table of DSs reveals that DSs do not only progress as a function of time but also display a spatially organized propagation along the developmental gradient axis. The complex and dynamic character of the OT development is documented by the fact that several DSs are simultaneously present at any ED or any embryonic stage. The table of DSs allows interpreting how developmental cell behaviors are temporally and spatially organized and explains how different DSs appear as a function of both time and space. The table of DSs provides a reference system to characterize the OT corticogenesis and to reliably compare observations made in different specimens. J. Morphol. 2011. © 2011 Wiley‐Liss, Inc.     

The fungal cultivar of leaf‐cutter ants produces specific enzymes in response to different plant substrates

Herbivores use symbiotic microbes to help derive energy and nutrients from plant material. Leaf‐cutter ants are a paradigmatic example, cultivating their mutualistic fungus Leucoagaricus gongylophorus on plant biomass that workers forage from a diverse collection of plant species. Here, we investigate the metabolic flexibility of the ants’ fungal cultivar for utilizing different plant biomass. Using feeding experiments and a novel approach in metaproteomics, we examine the enzymatic response of L. gongylophorus to leaves, flowers, oats or a mixture of all three. Across all treatments, our analysis identified and quantified 1766 different fungal proteins, including 161 putative biomass‐degrading enzymes. We found significant differences in the protein profiles in the fungus gardens of subcolonies fed different plant substrates. When provided with leaves or flowers, which contain the majority of their energy as recalcitrant plant polymers, the fungus gardens produced more proteins predicted to break down cellulose: endoglucanase, exoglucanase and β‐glucosidase. Further, the complete metaproteomes for the leaves and flowers treatments were very similar, while the mixed substrate treatment closely resembled the treatment with oats alone. This indicates that when provided a mixture of plant substrates, fungus gardens preferentially break down the simpler, more digestible substrates. This flexible, substrate‐specific enzymatic response of the fungal cultivar allows leaf‐cutter ants to derive energy from a wide range of substrates, which likely contributes to their ability to be dominant generalist herbivores.     

The importance of individual developmental variation in stage‐structured population models

Population stage structure is fundamental to ecology, and models of this structure have proven useful in many different systems. Many ecological variables other than stage, such as habitat type, site occupancy and metapopulation status are also modelled using transitions among discrete states. Transitions among life stages can be characterised by the distribution of time spent in each stage, including the mean and variance of each stage duration and within‐individual correlations among multiple stage durations. Three modelling traditions represent stage durations differently. Matrix models can be derived as a long‐run approximation from any distribution of stage durations, but they are often interpreted directly as a Markov model for stage transitions. Statistical stage‐duration distribution models accommodate the variation typical of cohort development data, but such realism has rarely been incorporated in population theory or statistical population models. Delay‐differential equation models include lags but no variation, except in limited cases. We synthesise these models in one framework and illustrate how individual variation and correlations in development can impact population growth. Furthermore, different development models can yield the same long‐term matrix transition rates but different sensitivities and elasticities. Finally, we discuss future directions for estimating realistic stage duration models from data.     

An assessment of gene‐by‐environment interactions in developmental dyslexia‐related phenotypes

While the genetic and environmental contributions to developmental dyslexia (DD) have been studied extensively, the effects of identified genetic risk susceptibility and of specified environmental hazardous factors have usually been investigated separately. We assessed potential gene‐by‐environment (GxE) interactions on DD‐related reading, spelling and memory phenotypes. The presence of GxE effects were investigated for the DYX1C1, DCDC2, KIAA0319 and ROBO1 genes, and for seven specified environmental moderators in 165 nuclear families in which at least one member had DD, by implementing a general test for GxE interaction in sib‐pair‐based association analysis of quantitative traits. Our results support a diathesis‐stress model for both reading and memory composites: GxE effects were found between some specified environmental moderators (i.e. maternal smoke during pregnancy, birth weight and socio‐economic status) and the DYX1C1‐1259C/G marker. We have provided initial evidence that the joint analysis of identified genetic risk susceptibility and measured putative risk factors can be exploited in the study of the etiology of DD and reading‐related neuropsychological phenotypes, and may assist in identifying/preventing the occurrence of DD.     

Comparative analyses of the proteomes of leaves and flowers at various stages of development reveal organ‐specific functional differentiation of proteins in soybean

The functional differentiation of protein networks in individual organs and tissues of soybean at various developmental stages was investigated by proteomic approach. Protein extraction by Mg/NP‐40 buffer followed by alkaline phenol‐based method was optimized for proteomic analysis. Proteome analyses of leaves at various developmental stages showed 26 differentially expressed proteins, wherein proteins in translocon at the outer/inner envelope membrane of chloroplast protein‐transport machineries increased significantly at the first trifoliate. Immunoblot analysis showed chaperonin‐60 expressed abundantly in young leaves, whereas HSP 70 and ATP‐synthase β were constitutively expressed in all tissues. The net photosynthesis rate and chlorophyll content showed an age‐dependent correlation in leaves. These results suggest that proteins involved in carbon assimilation, folding and assembly, and energy may work synchronously and show a linear correlation to photosynthesis at developmental stages of leaves. Comparison of flower bud and flower proteome reveals 29 differentially expressed proteins, wherein proteins involved in mitochondrial protein transport and assembly, secondary metabolism, and pollen‐tube growth were up‐regulated during flower development. Together, these results suggest that during developmental stages, each type of tissue is associated with a specific group of proteins; wherein proteins involved in energy, sugar metabolism, and folding, assembly, and destination may play pivotal roles in the maturation process of each organ or tissue.     

Interactions between ants and seeds of two myrmecochorous plant species in recently burnt and long‐unburnt forest sites

Myrmecochory (seed dispersal by ants) is a common seed dispersal strategy of plants in fire‐prone sclerophyll vegetation of Australia, yet there is little understanding of how fire history may influence this seed dispersal mutualism. We investigated the initial fate of seeds of two myrmecochorous plant species, the small‐seeded Pultenaea daphnoides J.C. Wendl. and the large‐seeded Acacia pycnantha Benth., in replicated burnt (3.25 years since fire) and unburnt (53 years since fire) forest plots in the Mount Lofty Ranges, South Australia. Specifically we measured (i) seed removal rates; (ii) the frequency of three ant–seed interactions (seed removal, elaiosome robbery and seed ignoring); (iii) the relative contribution of different ant species to ant–seed interactions; and (iv) the abundance of common interacting ant species. Rates of seed removal from depots and the proportion of seeds removed were higher in recently burnt vegetation and the magnitude of these effects was greater for the smaller‐seeded P. daphnoides. The overall proportion of elaiosomes robbed was higher in unburnt vegetation; however, the decrease in elaiosome robbery in burnt vegetation was greater for P. daphnoides than for A. pycnantha. Ants ignored seeds more frequently in burnt vegetation and at similar rates for both seed species. In total, 20 ant species were observed interacting with seeds; however, three common ant species accounted for 66.3% of ant–seed interactions. Monomorium sydneyense almost exclusively robbed elaiosomes, Rhytidoponera metallica typically removed seeds and Anonychomyrma nr. nitidiceps showed a mix of the three behaviours towards seeds. Differences in the proportions of seeds removed, elaiosomes robbed and seeds ignored appeared to be largely driven by an increase in abundance of A. nr. nitidiceps and a decrease in abundance of M. sydneyense in burnt vegetation. Understanding how these fire‐driven changes in the initial fate of myrmecochorous seeds affect plant fitness requires further investigation.