Application of proteomics to ecology and population biology.

Proteomics is a relatively new scientific discipline that merges protein biochemistry, genome biology and bioinformatics to determine the spatial and temporal expression of proteins in cells, tissues and whole organisms. There has been very little application of proteomics to the fields of behavioral genetics, evolution, ecology and population dynamics, and has only recently been effectively applied to the closely allied fields of molecular evolution and genetics. However, there exists considerable potential for proteomics to impact in areas related to functional ecology; this review will introduce the general concepts and methodologies that define the field of proteomics and compare and contrast the advantages and disadvantages with other methods. Examples of how proteomics can aid, complement and indeed extend the study of functional ecology will be discussed including the main tool of ecological studies, population genetics with an emphasis on metapopulation structure analysis. Because proteomic analyses provide a direct measure of gene expression, it obviates some of the limitations associated with other genomic approaches, such as microarray and EST analyses. Likewise, in conjunction with associated bioinformatics and molecular evolutionary tools, proteomics can provide the foundation of a systems-level integration approach that can enhance ecological studies. It can be envisioned that proteomics will provide important new information on issues specific to metapopulation biology and adaptive processes in nature. A specific example of the application of proteomics to sperm ageing is provided to illustrate the potential utility of the approach.

Wolbachia: evolutionary novelty in a rickettsial bacteria.

BACKGROUND: Although closely related, the alpha-proteobacteria Wolbachia and the Rickettsiaceae (Rickettsia and Ehrlichia), employ different evolutionary life history strategies. Wolbachia are obligate endocellular symbionts that infect an extraordinary host range and, in contrast to the infectious and pathogenic Rickettsia and Ehrlichia, profoundly influence host reproductive biology. RESULTS: Phylogenies of the Rickettsia, Ehrlichia, and Wolbachia were independently inferred from 16S rDNA sequences and GroEL amino acid sequences. Topologies inferred from both sets of sequence data were consistent with one another, and both indicate the genus Wolbachia shared a common ancestor most recently with Ehrlichia. These two genera are a sister group to the genus Rickettsia. Mapping biological properties onto this phylogeny reveals that manipulation of host reproduction, characteristic of Wolbachia strains, is a derived characteristic. This evolutionary novelty is accompanied by the loss of the ability to infect vertebrate hosts. CONCLUSIONS: Because of the contrasting transmission strategies employed by each, Wolbachia is expected to maximize efficiency of vertical transmission, while Ehrlichia and Rickettsia will optimize horizontal transfer of infection. Wolbachia manipulation of host reproduction could thus be viewed as strategy employed by this bacterium to foster its own propagation via vertical transmission.

A newly discovered bacterium associated with parthenogenesis and a change in host selection behavior in parasitoid wasps.

The symbiotic bacterium Wolbachia pipientis has been considered unique in its ability to cause multiple reproductive anomalies in its arthropod hosts. Here we report that an undescribed bacterium is vertically transmitted and associated with thelytokous parthenogenetic reproduction in Encarsia, a genus of parasitoid wasps. Although Wolbachia was found in only one of seven parthenogenetic Encarsia populations examined, the "Encarsia bacterium" (EB) was found in the other six. Among seven sexually reproducing populations screened, EB was present in one, and none harbored Wolbachia. Antibiotic treatment did not induce male production in Encarsia pergandiella but changed the oviposition behavior of females. Cured females accepted one host type at the same rate as control females but parasitized significantly fewer of the other host type. Phylogenetic analysis based on the 16S rDNA gene sequence places the EB in a unique clade within the Cytophaga-Flexibacter-Bacteroid group and shows EB is unrelated to the Proteobacteria, where Wolbachia and most other insect symbionts are found. These results imply evolution of the induction of parthenogenesis in a lineage other than Wolbachia. Importantly, these results also suggest that EB may modify the behavior of its wasp carrier in a way that enhances its transmission.

Gametic incompatibilities between races of Drosophila melanogaster.

Reproductive-isolating mechanisms between nascent species may involve sperm-egg recognition and have been best described in externally fertilizing organisms where such recognition is essential in preventing undesirable fertilizations. However, reproductive barriers in internally fertilizing species differ in significant ways, and a direct role for sperm-egg interactions has yet to be demonstrated. Females of many strains of Drosophila melanogaster from Zimbabwe, Africa, do not mate readily with cosmopolitan males. This polymorphism in mate choice is postulated to represent incipient speciation. We now report that, in one direction, crosses between the above populations produce far fewer offspring than reciprocal crosses due to a lower rate of egg hatch. We established that egg inviability in these crosses was due to defects in fertilization. Thus, even in taxa with internal fertilization, gametic incompatibility may be a mechanism relevant to reproductive isolation during incipient speciation.

Centrosome inheritance: a central 'in-egg-ma' solved?

The mechanism of centrosome inheritance during parthenogenetic development has long been an outstanding mystery of cell biology. New observations of centrosome inheritance in hymenopterans have provided our first direct insights into this enigmatic process.

Offsetting effects of Wolbachia infection and heat shock on sperm production in Drosophila simulans: analyses of fecundity, fertility and accessory gland proteins.

Infection in Drosophila simulans with the endocellular symbiont Wolbachia pipientis results in egg lethality caused by failure to properly initiate diploid development (cytoplasmic incompatibility, CI). The relationship between Wolbachia infection and reproductive factors influencing male fitness has not been well examined. Here we compare infected and uninfected strains of D. simulans for (1) sperm production, (2) male fertility, and (3) the transfer and processing of two accessory gland proteins, Acp26Aa or Acp36De. Infected males produced significantly fewer sperm cysts than uninfected males over the first 10 days of adult life, and infected males, under varied mating conditions, had lower fertility compared to uninfected males. This fertility effect was due to neither differences between infected and uninfected males in the transfer and subsequent processing of accessory gland proteins by females nor to the presence of Wolbachia in mature sperm. We found that heat shock, which is known to decrease CI expression, increases sperm production to a greater extent in infected compared to uninfected males, suggesting a possible link between sperm production and heat shock. Given these results, the roles Wolbachia and heat shock play in mediating male gamete production may be important parameters for understanding the dynamics of infection in natural populations.

Sperm competition: defining the rules of engagement.

Genetic and cell biological analyses of sperm behavior in the female reproductive tract are providing important clues to the mechanisms of sperm competition, a form of sexual selection that is an important force that shapes reproductive behavior, physiology and morphology in a wide range of species.

Genetic analysis of viable Hsp90 alleles reveals a critical role in Drosophila spermatogenesis.

The Hsp90 chaperone protein maintains the activities of a remarkable variety of signal transducers, but its most critical functions in the context of the whole organism are unknown. Point mutations of Hsp83 (the Drosophila Hsp90 gene) obtained in two different screens are lethal as homozygotes. We report that eight transheterozygous mutant combinations produce viable adults. All exhibit the same developmental defects: sterile males and sterile or weakly fertile females. We also report that scratch, a previously identified male-sterile mutation, is an allele of Hsp82 with a P-element insertion in the intron that reduces expression. Thus, it is a simple reduction in Hsp90 function, rather than possible altered functions in the point mutants, that leads to male sterility. As shown by light and electron microscopy, all stages of spermatogenesis involving microtubule function are affected, from early mitotic divisions to later stages of sperm maturation, individualization, and motility. Aberrant microtubules are prominent in yeast cells carrying mutations in HSP82 (the yeast Hsp90 gene), confirming that Hsp90 function is connected to microtubule dynamics and that this connection is highly conserved. A small fraction of Hsp90 copurifies with taxol-stabilized microtubule proteins in Drosophila embryo extracts, but Hsp90 does not remain associated with microtubules through repeated temperature-induced assembly and disassembly reactions. If the spermatogenesis phenotypes are due to defects in microtubule dynamics, we suggest these are indirect, reflecting a role for Hsp90 in maintaining critical signal transduction pathways and microtubule effectors, rather than a direct role in the assembly and disassembly of microtubules themselves.

Paternal products and by-products in Drosophila development.

Tails of fertilizing spermatozoa persist throughout embryogenesis in Drosophila species and can be observed within the midguts of larvae after hatching. Throughout development, sperm proteins slowly diffuse or are stripped from the giant sperm tail residing within the embryo's anterior end. The shape and position of the sperm within the embryo are regulated such that, during organ formation, the unused portion of the sperm is enveloped by the developing midgut. This persistent, paternally derived structure is composed of the sperm's mitochondrial derivatives and appears to be defecated by the larva soon after hatching. These complex sperm-egg interactions may represent mechanisms to avoid intragenomic conflict by ensuring strictly maternal inheritance of mitochondrial DNA (mtDNA).

Only long sperm are fertilization-competent in six sperm-heteromorphic Drosophila species.

Males of many species exhibit sperm heteromorphism, in which multiple morphologies of sperm are produced in a common testis (see references in [1]). Polymegaly, a form of sperm heteromorphism, is found in the Drosophila obscura group and is characterized by the production of two size classes of nucleated sperm that differ only in head and tail lengths [1,2]. Both the length and the ratio of sperm types produced is species-specific [1,3-5], and each sperm type develops in its own bundle deriving from a single stem cell [4]. Previous studies suggested that both types of sperm are fertilization-competent on the basis of similar ultrastructure [6], DNA content [6], nuclear protein transition during spermatogenesis [7], and storage in females [3-5]. However, a previous study demonstrated that only long sperm fertilize eggs [3]. Here, we extend this study to examine fertilization in six obscura group species using anti-sperm antibodies and digital deconvolution microscopy. Consistent with the previous study, we found that all eggs were fertilized by only the long sperm type, even in polyspermic eggs. Moreover, sperm entry and position during and following fertilization were similar to other Drosophila groups [3,8-10]. Thus, polymegaly and its maintenance appear to have arisen independently of fertilization processes per se.

Overcoming cytoplasmic incompatibility in Drosophila.

The endocellular microbe Wolbachia pipientis infects a wide variety of invertebrate species, in which its presence is closely linked to a form of reproductive failure termed cytoplasmic incompatibility (CI). CI renders infected males unable to father offspring when mated to uninfected females. Because CI can dramatically affect fitness in natural populations, mechanisms that abate CI can have equally large impacts on fitness. We have discovered that repeated copulation by Wolbachia-infected male Drosophila simulans significantly diminishes CI. Repeated copulation does not prevent Wolbachia from populating developing spermatids, but may reduce the time during spermatogenesis when Wolbachia can express CI. This restoration of fertility in premated infected males could have important implications for Wolbachia transmission and persistence in nature and for its exploitation as an agent of biological pest control.

Reduced variation in Drosophila simulans mitochondrial DNA.

We investigated the evolutionary dynamics of infection of a Drosophila simulans population by a maternally inherited insect bacterial parasite, Wolbachia, by analyzing nucleotide variability in three regions of the mitochondrial genome in four infected and 35 uninfected lines. Mitochondrial variability is significantly reduced compared to a noncoding region of a nuclear-encoded gene in both uninfected and pooled samples of flies, indicating a sweep of genetic variation. The selective sweep of mitochondrial DNA may have been generated by the fixation of an advantageous mitochondrial gene mutation in the mitochondrial genome. Alternatively, the dramatic reduction in mitochondrial diversity may be related to Wolbachia.

Cytological analysis of fertilization and early embryonic development in incompatible crosses of Drosophila simulans.

Cytoplasmic incompatibility (CI) is a unique form of male sterility found in numerous insect species that harbor a bacterial endosymbiont Wolbachia. CI is characterized by severe reduction in the progeny produced when infected males are crossed to uninfected females. The reduction in progeny correlates with developmental defects that arise during and immediately following fertilization, suggesting that sperm function is disrupted. To investigate the nature of the cellular defects associated with CI, fertilization and early embryonic development were examined in normal and incompatible crosses of Drosophila simulans using anti-sperm, anti-tubulin and anti-chromatin antibodies. Although pleiotropic, defects associated with CI can be classified into five broad categories: (1) sperm defects in the egg; (2) aberrant morphology of the mitotic apparatus; (3) defects in chromatin structure; (4) proliferation of centrosomes in the absence of nuclear division; and (5) loss of mitotic synchrony. Although mitosis and chromosome behavior are severely disrupted in CI crosses during early development, centrosome duplication and migration appear to continue unabated. The available cytological data suggest that the primary defects observed in incompatible crosses are due to defects in chromosome replication/segregation and in associated centrosome/microtubule-based processes.

Biochemical characterization of related microtubule proteins in Drosophila melanogaster and adult rat brain.

We describe the biochemical characteristics of three proteins isolated from Drosophila embryos and the rat brain. We refer to these proteins as DMAPs (Drosophila microtubule-associated proteins) since they were identified by monoclonal antibodies generated against microtubule protein (MTP) purified from Drosophila melanogaster embryos. DMAP-45 is a 45 kDa protein that binds microtubules in an ATP dependent manner. Preliminary biochemical evidence suggests that DMAP-45 may be an actin-related protein. DMAP-55 is a 55 kDa protein and based on its molecular weight and isoelectric point, may be a novel isoform of tubulin. DMAP-66 is a 66 kDa protein that binds strongly to microtubules in vitro and has multiple isoforms. Analyses of proteins in rat brain tissue extracts and purified rat brain MTP identified proteins of similar molecular weight and isoelectric points and are designated DMAP-45R, -55R and -66R. The presence of proteins with common biochemical properties in these widely divergent animal species suggests that they are related proteins.

Antibodies directed against microtubule proteins from Drosophila melanogaster cross react with similar proteins in the rat brain.

Monoclonal antibodies (Mabs) were used to delineate the localization of three proteins in rat cerebral cortex, hippocampus and cerebellum. The proteins were identified by Mabs directed against Drosophila melanogaster microtubule proteins (MTP). We have provisionally designated these proteins as Drosophila microtubule-associated proteins (DMAPs). The corresponding monoclonal antibodies are designated Mab DMAP-45, -55 and -66 indicating the molecular weights of each protein. All three Mabs cross-react with proteins of similar molecular weights in the rat brain. Correspondingly, these rat proteins are designated DMAPRs. DMAP-45 binds microtubules in an ATP-dependent manner. The molecular weight and subcellular localization of DMAP-45R differs significantly from previously described mammalian brain MAPs suggesting that it represents a novel MAP. Biochemical evidence suggests it may be an actin-related protein. DMAP-55R co-purifies stoichiometrically with rat brain microtubules and appears to be a previously undescribed isoform of tubulin. DMAP-66, which co-purifies stoichiometrically with Drosophila microtubules, does not do so in the rat brain. Immunohistochemistry performed with all three Mabs revealed a general pattern of staining of cell somata and dendrites in the cortex, hippocampus and cerebellum. Mab DMAP-55 also stained axons. In cerebral cortex all three Mabs preferentially, but not exclusively, stained layer V neuronal somata and dendrites. In hippocampus, Mabs DMAP-45 and -66 stained cell somata and dendrites in all hippocampal subfields, particularly the subiculum and CA3, whereas Mab DMAP-55 was most prevalent in mossy fibers. All three Mabs stain Purkinje cells in cerebellum with additional staining of cerebellar basket cells and Golgi cells observed with Mab DMAP-66.

Expression of DMAP-45R in the rat visual cortex is modulated by visual experience.

Effects of visual experience upon expression of a developmentally regulated microtubule-associated protein (MAP) were studied in the visual cortex of monocularly deprived rats. The antibody Drosophila MAP-45 (DMAP-45) recognizes proteins in the developing ventral nerve cord of Drosophila and in rat brain. Monocular deprivation from day 12, before eye opening, to day 80 reduced the number of DMAP-45 immunoreactive layer V pyramidal cell apical dendrites in the monocular segment (Oc1M) of the visual cortex contralateral to the deprived eye. No significant visual deprivation effects were seen in the binocular segment (Oc1B). Immunoreactivity was restored to control levels in Oc1M of rats in which the monocular sutures were removed at day 75, subsequently allowing 5 days of exposure to light. These results indicate potential involvement of this MAP in experience-dependent structural plasticity.