Molecular evolution of cytochrome c oxidase subunit I in primates: is there coevolution between mitochondrial and nuclear genomes?

Phylogenetic analyses carried out on cytochrome c oxidase (COX) subunit I mitochondrial genes from 14 primates representing the major branches of the order and four outgroup nonprimate eutherians revealed that transversions and amino acid replacements (i.e., the more slowly occurring sequence changes) contained lower levels of homoplasy and thus provided more accurate information on cladistic relationships than transitions (i.e., the more rapidly occurring sequence changes). Several amino acids, each with a high likelihood of functionality involving the binding of cytochrome c or interaction with COX VIII, have changed in Anthropoidea, the primate suborder grouping New World monkey, Old World monkey, ape, and human lineages. They are conserved in other mammalian lineages and in nonanthropoid primates. Maximum-likelihood ancestral COX I nucleotide sequences were determined utilizing a near most parsimonious branching arrangement for the primate sequences that was consistent with previously hypothesized primate cladistic relationships based on larger and more diverse data sets. Relative rate tests of COX I mitochondrial sequences showed an elevated nonsynonymous (N) substitution rate for anthropoid-nonanthropoid comparisons. This finding for the largest mitochondrial (mt) DNA-encoded subunit is consistent with previous observations of elevated nonsynonymous substitution/synonymous substitution (S) rates in primates for mt-encoded COX II and for the nuclear-encoded COX IV and COX VIIa-H. Other COX-related proteins, including cytochrome c and cytochrome b, also show elevated amino acid replacement rates or N/S during similar time frames, suggesting that this group of interacting genes is likely to have coevolved during primate evolution.     

Thrips (Thysanoptera: Thripidae, Phlaeothripidae) damaging peach in Paranapanema, São Paulo State, Brazil

Seeking to identify thrips species associated to peach and the injuries they cause, plants of Aurora and Tropic Beauty cultivars were weekly monitored, from May to August of 2005, in Holambra II district, in Paranapanema, SP. Flowers and fruits from six plants per hectare were sampled by the hitting technique. Frankliniella occidentalis (Pergande), F. schultzei (Trybom), F. gardenia (Moulton), F. condei John, F. insularis (Franklin) and Thrips tabaci Lindeman, in Thripidae, and Haplothrips gowdeyi (Franklin), in Phlaeothripidae were identified. F. occidentalis was dominant, comprising 55.7% of the total specimens sampled. Slight and severe injuries were registered in fruits.     

Thrips (Insecta,Thysanoptera) of Iran: a revised and?updated checklist

In Iran, as a result of recent changes in nomenclature 201 species and one species group of the insect Order Thysanoptera, are here listed in 70 genera and five families. In considering species listed previously from this country, the presence of 7 species is considered not confirmed, and 12 species are excluded from the Iranian list. Problems in the study of Iranian Thysanoptera are discussed briefly.     

The inheritance of mitochondrial DNA heteroplasmy: random drift, selection or both?

The mammalian mitochondrial genome (mtDNA) is a small double-stranded DNA molecule that is exclusively transmitted down the maternal line. Pathogenic mtDNA mutations are usually heteroplasmic, with a mixture of mutant and wild-type mtDNA within the same organism. A woman harbouring one of these mutations transmits a variable amount of mutant mtDNA to each offspring. This can result in a healthy child or an infant with a devastating and fatal neurological disorder. Understanding the biological basis of this uncertainty is one of the principal challenges facing scientists and clinicians in the field of mitochondrial genetics.     

Ultrastructure of the accessory gland in the parthenogenetic thrips heliothrips haemorrhoidalis (Bouché) (Thysanoptera : Thripidae)

The fine structure of the reproductive accessory gland of the parthenogenetic thrips Heliothrips haemorrhoidalis (Thysanoptera : Thripidae) is reported. It consists of an apical bulb and a fine gland duct. The former consists of an epithelium with secretory and duct-forming cells surrounding a large gland lumen lined with a thin cuticle and filled with dense secretion. Spent secretory cells degenerate and are eliminated from the epithelium. The gland duct is characterized by an irregular, branched lumen surrounded by a very flat epithelium. A valve controls the opening of the duct lumen. The proximal gland duct runs through a cuticular papilla that opens between the dorsal ovipositor valves. The secretions may serve for ovipositor valve lubrication and possibly to protect laid eggs. Observations of serial sections through the vagina exclude the presence of a spermatheca in this species.     

Evidence for cytochrome oxidase subunit I and a cytochrome c--subunit II fused protein in the cytochrome 'c1aa3' of Thermus thermophilus. How old is cytochrome oxidase?

The terminal cytochrome c1aa3 of the respiratory chain of Thermus thermophilus has been isolated and purified to homogeneity by a novel procedure. The two subunit proteins (55 and 33 kDa) have been characterized chemically. Computer searches with partial amino acid sequences obtained from both subunits show that the larger subunit belongs to the cytochrome oxidase subunit I protein family while the smaller covalently heme-binding subunit is not a cytochrome c1 but appears to be a fused protein between cytochrome c and cytochrome oxidase subunit II. With respect to the 16-S rRNA-derived phylogeny of procaryotes, the results show that the genetic information for an O2-reacting cytochrome oxidase (EC 1.9.3.1) existed already in early eubacteria.     

Is Xysticus kochi (Araneae: Thomisidae) an efficient indigenous biocontrol agent of Frankliniella occidentalis (Thysanoptera: Thripidae)?

According to the present practice of Hungarian greenhouse sweet pepper production, only exotic agents are used for biological control purposes against thrips pests. The suitability for biological control of the second instars of an indigenous species, the common crab spider, Xysticus kochi Thorell (Araneae: Thomisidae) was tested on thrips species, Frankliniella occidentalis (Pergande) and Frankliniella intonsa (Trybom) (Thysanoptera: Thripidae) using a cage set-up on greenhouse sweet pepper plants. Effects of introducing second instars of X. kochi on thrips infested plants were judged by assessing the degree of aesthetical damage, the commercial value of the fruits (degree of economic loss) and the quality composition of the harvested peppers. The estimated damaged surface unit was significantly lower in control plants than in plants infested by F. occidentalis. A significant effect of the spider introduction was observed in all of the pepper quality indicators applied. We suspect that direct Xysticus predation or any other predator-induced effect resulted in reduced levels of damage on harvested peppers. However, further investigation is needed to detect the origin (e.g., predation and non-predation effects) of the suppression of thrips damage. Our results suggest that X. kochi could be an effective component of greenhouse antagonistic fauna and the application of mulch may encourage the effectiveness of spiderlings. An erratum to this article can be found at     

Dissemination of the entomopathogenic fungus verticillium lecanii (Zimmermann) Viégas (Hyphomycetales: Moniliaceae) in a population of Frankliniella occidentalis (Pergande, 1895) (Thysanoptera: Thripidae)

Tests were carried out to investigate the dissemination of the entomopathogenic fungus Verticillium lecanii (Zimmermann) Viégas in a population of Frankliniella occidentalis. The tested factors, which influence the efficacy of the fungus against the pest insect, have been the population density of the thrips at the application moment as well as the temperature. The population density influenced the dissemination of the fungal spores in the population. The higher the density has been, the higher the insetting control effect has been as well. The temperature influenced the speed of the fungal effect, too. The higher the temperature has been, the earlier the control effect started. However, an increase of the natural mortality was found as well.     

Olfactory responses of Neoseiulus cucumeris (Acari: Phytoseiidae) to odors of host plants and Frankliniella occidentalis (Thysanoptera: Thripidae)�Cplant complexes

We studied the olfactory responses of Neoseiulus cucumeris (Acari: Phytoseiidae) to odors from eggplant (Solanum melongena L.), pepper (Capsicum aunuum), and tomato (Solanum lycopersicum), three host plants, and their complexes with different treatments (undamaged, mechanically damaged, infested, pre-infested) in an olfactometer. The results showed that N. cucumeris preferred the odors of undamaged eggplant, pepper, and tomato to clean air. N. cucumeris preferred the volatiles from eggplant infested with Frankliniella occidentalis (Thysanoptera: Thripidae) over undamaged, mechanically damaged, and pre-infested with F. occidentalis eggplant volatiles. The same results were observed with pepper and tomato. N. cucumeris adults preferred the odors of undamaged eggplant and tomato to undamaged pepper. Similarly, same results were observed with mechanically damaged eggplant, pepper, tomato, and same plants pre-infested with F. occidentalis. Compared with odors of tomato infested with F. occidentalis, N. cucumeris adults significantly responded to odors of eggplant and pepper infested with F. occidentalis. There was no significant difference of N. cucumeris in making choice between eggplant infested with F. occidentalis and pepper infested with F. occidentalis.     

Latitudinal variation in litter size of polar bears: ecology or methodology?

I used data reported in the scientific literature to examine latitudinal variation in litter size of polar bears in 18 different populations. No relationship was found between litter size and latitude using non-weighted regression. Regression weighted by sample size indicated a negative relationship with latitude. However, sampling biases caused by latitudinal differences in the timing of sampling and cub mortality after den emergence could produce a latitudinal cline. Stratifying analyses by sampling area, at dens or away from dens, revealed no latitudinal trend in litter size. Observed differences in litter size among populations may result from variation in demography and ecosystem productivity that is not simply related to latitude. I conclude that available data do not provide support for a biologically significant latitudinal cline in polar bear litter size. Accepted: 25 May 1999     

Extreme phenotypic variation in Cetraria aculeata (lichenized Ascomycota): adaptation or incidental modification?

Background and Aims

Phenotypic variability is a successful strategy in lichens for colonizing different habitats. Vagrancy has been reported as a specific adaptation for lichens living in steppe habitats around the world. Among the facultatively vagrant species, the cosmopolitan Cetraria aculeata apparently forms extremely modified vagrant thalli in steppe habitats of Central Spain. The aim of this study was to investigate whether these changes are phenotypic plasticity (a single genotype producing different phenotypes), by characterizing the anatomical and ultrastructural changes observed in vagrant morphs, and measuring differences in ecophysiological performance.

Methods

Specimens of vagrant and attached populations of C. aculeata were collected on the steppes of Central Spain. The fungal internal transcribed spacer (ITS), glyceraldehyde-3-phosphate dehydrogenase (GPD) and the large sub-unit of the mitochondrial ribosomal DNA (mtLSUm), and the algal ITS and actin were studied within a population genetics framework. Semi-thin and ultrathin sections were analysed by means of optical, scanning electron and transmission electron microscopy. Gas exchange and chlorophyll fluorescence were used to compare the physiological performance of both morphs.

Key Results and Conclusions

Vagrant and attached morphs share multilocus haplotypes which may indicate that they belong to the same species in spite of their completely different anatomy. However, differentiation tests suggested that vagrant specimens do not represent a random sub-set of the surrounding population. The morphological differences were related to anatomical and ultrastructural differences. Large intercalary growth rates of thalli after the loss of the basal–apical thallus polarity may be the cause of the increased growth shown by vagrant specimens. The anatomical and morphological changes lead to greater duration of ecophysiological activity in vagrant specimens. Although the anatomical and physiological changes could be chance effects, the genetic differentiation between vagrant and attached sub-populations and the higher biomass of the former show fitness effects and adaptation to dry environmental conditions in steppe habitats.     

Comparison of DNA extraction methods for PCR amplification of mitochondrial cytochrome c oxidase subunit II (COII) DNA from primate fecal samples

Mitochondrial COII DNA was amplified by PCR from total DNA extracted from field collected primate fecal samples (n=24) which had been stored without refrigeration for over 30 days. High molecular weight DNA total DNA was obtained from samples stored in 70% (v/v) ethanol, SDS lysis buffer (LB) and guanidine isothiocyanate buffer (GTB) than from samples stored in 10% formalin. Fecal DNA quality and COII amplification varied according to storage solution (formalin, ethanol, LB and GTB), extraction method (LB-based and GTB-based) and primate species (chimpanzee, baboon, human). It is recommended that fecal samples be collected in LB for DNA analysis. However, GTB-based protocols are suitable when total RNA is needed for epidemiological studies of viral diseases or gene expression analysis.     

Protein lysine 6-oxidase (lysyl oxidase) cofactor: methoxatin (PQQ) or pyridoxal?

1. Treatment of chick embryos with two lathyrogens lowered lysyl oxidase and increased collagen extractability. 2. Subsequent treatment with pyridoxal restored both parameters towards normal, whereas PQQ treatment was less effective. 3. These results suggest the requirement of a pyridoxal derivative for the formation of the enzyme, acting either as cofactor or because its formation requires some pyridoxal-dependent enzyme. The cochromatography of the enzyme with [3H]pyridoxine-derived radioactivity supports the cofactor role. 4. The conclusions of other authors that lysyl oxidase contains PQQ relates to enzymes from other species or to amine oxidases not characterised as lysyl oxidase.     

“Forms” of water mites (Acari: Hydrachnidia): intraspecific variation or valid species?

In many groups of organisms, especially in the older literature, it has been common practice to recognize sympatrically occurring phenotypic variants of a species as “forms”. However, what these forms really represent often remains unclear, especially in poorly studied groups. With new algorithms for DNA‐based species delimitation, the status of forms can be explicitly tested with molecular data. In this study, we test a number of what is now recognized as valid species of water mites (Hydrachnidia), but have in the past been treated as forms sympatrically occurring with their nominate species. We also test a form without prior taxonomical status, using DNA and morphometrics. The barcoding fragment of COI, nuclear 28S and quantitative analyses of morphological data were used to test whether these taxa merit species status, as suggested by several taxonomists. Our results confirm valid species. Genetic distances between the form and nominate species (Piona dispersa and Piona variabilis, COI 11%), as well as likelihood ratio tests under the general mixed‐Yule coalescent model, supported that these are separately evolving lineages as defined by the unified species concept. In addition, they can be diagnosed with morphological characters. The study also reveals that some taxa genetically represent more than one species. We propose that P. dispersa are recognized as valid taxa at the species level. Unionicola minor (which may consist of several species), Piona stjordalensis, P. imminuta s. lat., and P. rotundoides are confirmed as species using this model. The results also imply that future studies of other water mite species complexes are likely to reveal many more genetically and morphologically distinct species.     

Geographic variation in Mexican jays (Aphelocoma ultramarina): local differentiation,polyphyly or hybridization?

Studies of genetic variation within highly variable taxa can provide valuable insight into the factors influencing biological diversification. We examined six microsatellite loci, a nuclear intron and the mitochondrial control region to determine if the Mexican jay subspecies Aphelocoma ultramarina couchii and A. u. potosina have hybridized with western scrub-jays (A. californica). We suspected hybridization because these Mexican Jay populations resemble scrub-jays in several traits. We sampled six Mexican jay (N = 105) and four scrub-jay (N = 78) populations. Suspected hybrid Mexican Jay populations did not share any mitochondrial types or intron alleles with scrub-jays. All microsatellite alleles found in the suspected hybrid Mexican jay populations are also found in the control Mexican jay populations. Genetic distance-based trees from microsatellites supported reciprocal monophyly of Mexican jays and scrub-jays with bootstrap support > 80%. We randomized genotypes among populations to test scenarios consistent with hybridization. In some areas where Mexican jays and scrub-jays occur in sympatry or geographical proximity, randomization tests yield results expected under hybridization (100% support for seven of nine scenarios). However, these populations were not the primary candidates for hybridization based on phenotype. Even if low-level hybridization did occur, hybridization does not appear to be the main reason some Mexican jay populations resemble scrub-jays more than others. The scrub-jay-like traits in these populations may be due to drift, adaptation or plasticity. Alternatively, ancient hybridization, followed by selection for scrub-jay like traits in some Mexican jay populations, might have given rise to the observed variation.     

Auxin-stimulated NADH oxidase (semidehydroascorbate reductase) of soybean plasma membrane: Role in acidification of cytoplasm?

Summary Purified plasma membrane vesicles isolated both by aqueous twoPhase methods and by free-flow electrophoresis from homogenates prepared in the presence of 10 mM ascorbate, oxidized external NADH at rates of about 15 nanomoles/min/mg protein. The rate in the isolated vesicles was accelerated, without perceptible lag, 1.5-to 2-fold by 1 to 10 M auxin (2,4-dichlorophenoxyacetic acid or indole-3-acetic acid). The reaction would be expected to result in acidification of the vesicle interiors and is proposed as a mechanism to account for auxin-induced acidification of cytoplasmin vitro.     

Origin of an insect outbreak: escape in space or time from natural enemies?

Initiation of insect outbreaks is poorly understood, and may involve sporadic events that temporarily release insect populations from predation or parasitism. While studying a declining outbreak of the western tussock moth (Orgyia vetusta) on bush lupine (Lupinus arboreus), we witnessed the onset of a new tussock moth outbreak, separated by 1,000 m in space and 2 months in phenological timing from the original population. This new population underwent explosive growth for 2 years and then collapsed because of a massive die-off of lupines. We tested whether during its growth phase, this new outbreak benefited by escaping in either space or time from the natural enemies attacking the original population. In experimental populations on single bushes, we compared predation and parasitism at the sites of the new and the old outbreak. At the site of the old outbreak, we compared predation and parasitism early and late in the season. Parasitism was significantly lower and population growth significantly higher at the new outbreak site than the old one. Neither seasonal timing, predator exclusion, nor their interaction significantly affected survival at either site. Thus the new outbreak appeared to escape in space from parasitism. These results corroborate our previous experimental findings, which suggest that as predicted by theory, the interaction between the tussock moth and its parasitoids can produce large-scale spatial patterning in population densities.     

Lack of mitochondrial genetic structure in hamlets (Hypoplectrus spp.): recent speciation or ongoing hybridization?

Species in the genus Hypoplectrus (hamlet fish) have been recognized primarily on the basis of colour morphology, which varies substantially. Limited differentiation in other morphological characters, however, has led to ongoing debate about their taxonomy. Our analysis of mtDNA sequences demonstrates neither reciprocal monophyly nor significant genetic differentiation among hamlet colour morphs. These data are potentially consistent with a model of recent speciation due to sexual selection on colour morphology. The presence within hamlets of two divergent mtDNA clades, however, suggests a longer history during which hybridization and gene flow have prevented the differentiation of hamlet colour morphs, at least in neutral genetic markers.