Effects of age,size, and density on natural survival for an important coral reef fishery species,yellow tang, <Emphasis Type="Italic">Zebrasoma flavescens</Emphasis>

Hundreds of thousands of juvenile yellow tang, Zebrasoma flavescens, are caught each year in the state of Hawai’i (USA) for the live aquarium trade. As part of an extensive adaptive management strategy built around a network of protected areas, an emphasis was placed on understanding this important species’ life history. Multiple capture-mark-recapture techniques and a model selection approach to data analysis in Program MARK were used to estimate the effects of individual age and conspecific density on natural per-capita daily survival probabilities of yellow tang recruits (recently settled individuals, 30–50 mm total length) and the effects of body size and site on natural per-capita monthly survival probabilities for juveniles (58–127 mm total length). The models of recruit survival that included additive effects of density and age were best supported by the data and indicated an increase of survival with age and decrease of survival with increased conspecific density. At 1 day post-settlement, the model averaged daily per-capita survival probability ranged from 0.963 (95% CI: 0.932–0.981) at a low density of 0.1 recruits m⁻² to 0.848 (95% CI: 0.752–0.911) at a high density of 1.3 recruits m⁻². The best supported model of juvenile survival had no effect of fish length or site, with a constant monthly per-capita survival of 0.939 (95% CI: 0.925–0.950). Only about 1% of recruits may survive to adulthood when protected from fishing. These results can be used to better analyze and interpret data from protected area monitoring surveys and refine management practices. Continued long-term monitoring, combined with targeted life history studies and demographic modeling, is needed to further investigate the population level effects of fishing yellow tang juveniles.     

Infectious salmon anaemia virus (ISAV) isolated from the ISA disease outbreaks in Chile diverged from ISAV isolates from Norway around 1996 and was disseminated around 2005, based on surface glycoprotein gene sequences

Background

All viruses in the family Bunyaviridae possess a tripartite genome, consisting of a small, a medium, and a large RNA segment. Bunyaviruses therefore possess considerable evolutionary potential, attributable to both intramolecular changes and to genome segment reassortment. Hantaviruses (family Bunyaviridae, genus Hantavirus) are known to cause human hemorrhagic fever with renal syndrome or hantavirus pulmonary syndrome. The primary reservoir host of Sin Nombre virus is the deer mouse (Peromyscus maniculatus), which is widely distributed in North America. We investigated the prevalence of intramolecular changes and of genomic reassortment among Sin Nombre viruses detected in deer mice in three western states.

Methods

Portions of the Sin Nombre virus small (S) and medium (M) RNA segments were amplified by RT-PCR from kidney, lung, liver and spleen of seropositive peromyscine rodents, principally deer mice, collected in Colorado, New Mexico and Montana from 1995 to 2007. Both a 142 nucleotide (nt) amplicon of the M segment, encoding a portion of the G2 transmembrane glycoprotein, and a 751 nt amplicon of the S segment, encoding part of the nucleocapsid protein, were cloned and sequenced from 19 deer mice and from one brush mouse (P. boylii), S RNA but not M RNA from one deer mouse, and M RNA but not S RNA from another deer mouse.

Results

Two of 20 viruses were found to be reassortants. Within virus sequences from different rodents, the average rate of synonymous substitutions among all pair-wise comparisons (π_s) was 0.378 in the M segment and 0.312 in the S segment sequences. The replacement substitution rate (π_a) was 7.0 × 10^-4 in the M segment and 17.3 × 10^-4 in the S segment sequences. The low π_a relative to π_s suggests strong purifying selection and this was confirmed by a Fu and Li analysis. The absolute rate of molecular evolution of the M segment was 6.76 × 10^-3 substitutions/site/year. The absolute age of the M segment tree was estimated to be 37 years. In the S segment the rate of molecular evolution was 1.93 × 10^-3 substitutions/site/year and the absolute age of the tree was 106 years. Assuming that mice were infected with a single Sin Nombre virus genotype, phylogenetic analyses revealed that 10% (2/20) of viruses were reassortants, similar to the 14% (6/43) found in a previous report.

Conclusion

Age estimates from both segments suggest that Sin Nombre virus has evolved within the past 37–106 years. The rates of evolutionary changes reported here suggest that Sin Nombre virus M and S segment reassortment occurs frequently in nature.     

A comparison of univariate and multivariate gene selection techniques for classification of cancer datasets

Background  

Gene selection is an important step when building predictors of disease state based on gene expression data. Gene selection generally improves performance and identifies a relevant subset of genes. Many univariate and multivariate gene selection approaches have been proposed. Frequently the claim is made that genes are co-regulated (due to pathway dependencies) and that multivariate approaches are therefore per definition more desirable than univariate selection approaches. Based on the published performances of all these approaches a fair comparison of the available results can not be made. This mainly stems from two factors. First, the results are often biased, since the validation set is in one way or another involved in training the predictor, resulting in optimistically biased performance estimates. Second, the published results are often based on a small number of relatively simple datasets. Consequently no generally applicable conclusions can be drawn.     

Cytochrome c from Schizosaccharomyces pombe. 2. Amino-acid sequence.

The amino acid sequence of Schizosaccharomyces pombe cytochrome c has been established by automatic degradation of the protein and by manual degradation of fragments obtained by cyanogen bromide cleavage and chymotryptic digestion. The chymotryptic peptides were aligned by homology with other known cytochrome c sequences. The protein is 108 residues long, with a four-residue amino-terminal tail. It has only one methionine residue and differs from other fungal cytochromes c in lacking the one-residue deletion at the C-terminal end. After a cyanogen bromide step, an unexpected cleavage of the peptide chain before a cysteine residue was observed. This is ascribed to formation of a dehydroalanyl residue during an incomplete S-carboxymethylation of the apoprotein, and subsequent cleavage under acidic conditions. Experimental evidence is presented in favour of the proposed mechanisms.     

Segmental identity and cerebellar granule cell induction in rhombomere 1

Background  

Cerebellar granule cell precursors are specifically generated within the hindbrain segment, rhombomere 1, which is bounded rostrally by the midbrain/hindbrain isthmus and caudally by the boundary of the Hoxa2 expression domain. While graded signals from the isthmus have a demonstrable patterning role within this region, the significance of segmental identity for neuronal specification within rhombomere 1 is unexplored. We examined the response of granule cell precursors to the overexpression of Hoxa2, which normally determines patterns of development specific to the hindbrain. How much does the development of the cerebellum, a midbrain/hindbrain structure, reflect its neuromeric origin as a hindbrain segment?     

Les cytochromes des Kluyveromyces: Détermination et implications systématiques

Low temperature spectrophotometric analysis carried out directly on whole cell pastes reveals either similitudes or differences in the cytochromic absorption spectra of the different yeast species belonging to the genus Kluyveromyces. This analysis confirms the division of the genus into two groups, K₁ and K₂, and the existence of five different species in the K₁ group; these systematic divisions have been previously based on physiological and biochemical criteria. Furthermore the spectrophotometric data sustain a division of the K₂ group into three main types, and suggest a phylogenic link between K₁ and K₂ groups through K. africanus and K. aestuarii.     

Etude spectrale à basse temperature chez Euglena gracilis Z en culture synchrone sur milieu lactate: Variation de teneur en cytochrome 556

Summary Low temperature spectra are described for whole Euglena cells. Euglena growing in synchronous culture with lactate medium show a cyclic variation of cytochrome 556 content during each cellular generation. The greatest quantity of cytochrome 556 seems to coincide with the non-dividing phase of the cells, the phase in which the mitochondrial network is observed. On the other hand after treatment of the Euglena with antimycin A, a correlation exists between the formation of giant mitochondria and an increase in the quantity of cytochrome 556.These results demonstrate the existence of a cyclic variation of cytochrome 556 synthesis in Euglena during synchronous growth on lactate medium.