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1.
The phylogeny of Greya Busck (Lepidoptera: Prodoxidae) was inferred from
nucleotide sequence variation across a 765-bp region in the cytochrome
oxidase I and II genes of the mitochondrial genome. Most parsimonious
relationships of 25 haplotypes from 16 Greya species and two outgroup
genera (Tetragma and Prodoxus) showed substantial congruence with the
species relationships indicated by morphological variation. Differences
between mitochondrial and morphological trees were found primarily in the
positions of two species, G. variabilis and G. pectinifera, and in the
branching order of the three major species groups in the genus. Conflicts
between the data sets were examined by comparing levels of homoplasy in
characters supporting alternative hypotheses. The phylogeny of Greya
species suggests that host-plant association at the family level and larval
feeding mode are conservative characters. Transition/transversion ratios
estimated by reconstruction of nucleotide substitutions on the phylogeny
had a range of 2.0-9.3, when different subsets of the phylogeny were used.
The decline of this ratio with the increase in maximum sequence divergence
among taxa indicates that transitions are masked by transversions along
deeper internodes or long branches of the phylogeny. Among transitions,
substitutions of A-->G and T-->C outnumbered their reciprocal
substitutions by 2-6 times, presumably because of the approximately 4:1
(77%) A+T-bias in nucleotide base composition. Of all transversions,
73%-80% were A<-->T substitutions, 85% of which occurred at third
positions of codons; these estimates did not decrease with an increase in
maximum sequence divergence of taxa included in the analysis. The high
frequency of A<-->T substitutions is either a reflection or an
explanation of the 92% A+T bias at third codon positions.
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2.
A wide-ranging examination of plastid (pt)DNA sequence homologies within
higher plant nuclear genomes (promiscuous DNA) was undertaken. Digestion
with methylation-sensitive restriction enzymes and Southern analysis was
used to distinguish plastid and nuclear DNA in order to assess the extent
of variability of promiscuous sequences within and between plant species.
Some species, such as Gossypium hirsutum (cotton), Nicotiana tabacum
(tobacco), and Chenopodium quinoa, showed homogenity of these sequences,
while intraspecific sequence variation was observed among different
cultivars of Pisum sativum (pea), Hordeum vulgare (barley), and Triticum
aestivum (wheat). Hypervariability of plastid sequence homologies was
identified in the nuclear genomes of Spinacea oleracea (spinach) and Beta
vulgaris (beet), in which individual plants were shown to possess a unique
spectrum of nuclear sequences with ptDNA homology. This hypervariability
apparently extended to somatic variation in B. vulgaris. No sequences with
ptDNA homology were identified by this method in the nuclear genome of
Arabidopsis thaliana.
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3.
Combined analysis of Perca fluviatilis reproductive performance and oocyte proteomic profile 总被引:1,自引:0,他引:1
Castets MD Schaerlinger B Silvestre F Gardeur JN Dieu M Corbier C Kestemont P Fontaine P 《Theriogenology》2012,78(2):432-442
The success of reproduction depends greatly upon gamete quality, especially oocytes which carry most of the molecular material necessary for early embryogenesis. However, it remains difficult to find relevant morphologic and/or biochemical parameters to assess oocyte quality and thus have a reliable prediction of the reproduction performance. To understand which criteria are the most reliable to assess the reproductive success of the Eurasian perch (Perca fluviatilis), we measured 14 parameters characterizing female, spawn, oocyte, and embryonic or larval development on 20 independent spawn. A data analysis allowed the definition of two clusters of spawn with different larval characteristics: the first cluster was composed of spawn which led mainly to strong large larvae presenting a low deformity rate, while the second cluster rather corresponds to spawn leading to smaller and weaker larvae with a higher deformity rate. Moreover, a third cluster (unfertilized spawn) was studied. Our analysis revealed that most of the prefertilization biological traits that we studied appeared poorly relevant to predict larval features, proper embryonic development and deformity occurrences. We thus performed a large scale proteomic analysis to highlight proteins differently expressed in each spawn cluster. A 2D-DIGE study followed by an MS/MS spectrometry allowed the identification of 32 proteins involved in several biological functions and differently expressed between spawn clusters. Among them, proteins involved in cell response to the oxidative stress, as well as energetic metabolism, heat shock proteins and Vitellogenins are of particular interest. Several functions appear specific to a spawn cluster and could thus explain their corresponding reproduction performance. In the future, proteins involved in those cellular mechanisms may constitute molecular markers predictive of the reproduction performance in Perca fluviatilis. 相似文献
4.
Fabrice Teletchea Alexis Fostier Ewa Kamler Jean-Noël Gardeur Pierre-Yves Le Bail Bernard Jalabert Pascal Fontaine 《Reviews in Fish Biology and Fisheries》2009,19(4):403-430
Based on an extensive literature search (1,000 references), the objectives of the present study were to establish a numerical
clustering of temperate freshwater fish based on their reproductive traits and to evaluate whether it was possible to extrapolate
zootechnical knowledge among species belonging to the same cluster. About 65 species were classified into ten homogeneous
clusters from the analysis of 29 reproductive traits, among which the most important were temperature during spawning, egg
incubation and larval rearing, degree-days for incubation, larval size upon hatching, spawning season, and parental care.
From this typology, a rather regular continuum of reproductive clusters emerges with two obvious endpoints. Between these
two extremes, species could be ordered chiefly according to temperature requirement, spawning season and parental care. In
conclusion, this new typology, differing significantly from all others proposed earlier, may now serve as a possible framework
to help enhancing the domestication of new species by comparison to species belonging to the same cluster. 相似文献
5.
JN Matthiessen 《Australian Journal of Entomology》1999,38(4):348-353
In field and laboratory studies, mortality of African black beetle, Heteronychus arator, in the winter-rainfall, Mediterranean-type climate region of south-western Australia was higher in the late immature stages during summer than in the early immature stages that occur during spring, a contrast to summer-rainfall climatic regions. Greatest mortality occurred around the pupal stage in contrasting soil types, despite drying differences in summer and supplementary watering in some plots. Sampling of natural populations confirmed experimental results that mortality in late immature stages is the major factor limiting H. arator populations under a Mediterranean-type climate. Inter-generation increase in H. arator abundance was uncommon, explaining the consistent abundance typically observed between years in south-western Australia. Random dispersal of newly emerged adults in autumn was inferred to restore uniformity in adult abundance between areas of varying favourability for immature survival. 相似文献
6.
The Eurasian perch, Perca fluviatilis L., has good potential as a candidate for inland aquaculture diversification in Europe. To aid the development of this new product, we define a quality reference based on attributes of wild perch, and compare the quality of perch reared in three different culture systems: (1) extensive (pond), (2) semi‐extensive (tank) and (3) intensive (re‐circulation system). In order to define a precise quality reference, it is necessary to characterize the spatial and seasonal variability in quality attributes of wild fish. To do so, wild perch were harvested every three month for a full biological cycle from two different natural systems (Lake Geneva in France and the River Rhine in the Netherlands). Two components of quality were taken into account: organoleptical (colour of skin and fillets (L*C*H° system; 12 variables), seven morphological measurements) and six technological components (viscero, hepato and gonadosomatic index, perivisceral fat index, fillet yield and condition factor K2). Using Principal Component Analysis, we show that within‐season variability is high, particularly for Rhine perch. Perch from the Rhine have a compact body and caudal fin, and possess a longer mouth and head than perch from Lake Genva. Reared fish possess wild‐like characteristics except for technological variables. Fish from extensive and semi‐extensive system show similar attributes, while fish from intensive rearing systems show a higher viscerosomatic and perivisceral fat index. 相似文献
7.
Based on the analysis of six egg variables and incubation temperature of 65 temperate freshwater fish species, the possible relationships between oocyte diameter, incubation time and incubation temperature were reassessed and compared to the results obtained from marine fishes. Most freshwater species have eggs (mean ± s . d . 2·19 ± 1·52 mm) larger than marine species, that are chiefly demersal and develop stuck to various substrata, such as plants or rocks. A strong negative relationship was found between incubation time ( t , days) and incubation temperature ( T , ° C): t = 186·23e−0·197 T ( r 2 = 0·87). A strong dependence of incubation time on oocyte diameter ( Ø , mm) and incubation temperature was also found and was defined as: log10 t = 3·002 + 0·599 log10 Ø − 1·91 log10 ( T + 2), which explained 92% of the variance of the data set. Five major groups of species were defined based on the principal component analysis (PCA) of four quantitative variables. There were two distinct groups of salmonids, displaying demersal and non-adhesive eggs with a long incubation time at low temperature, the eggs of which required a high number of degree-days. There was a large group of species possessing small, mostly demersal and adhesive eggs developing at high temperature during a short period of time, and requiring a low number of degree-days. Between these two extremes, there was a fourth group displaying intermediate values and a fifth group including three species with large, adhesive and demersal eggs incubating at high temperatures during a short period of time. The burbot Lota lota displayed an unusual combination of variables compared to the remaining species in the data set. 相似文献
8.
BRCA1 C-terminal (BRCT) domains are integral signaling modules in the DNA damage response (DDR). Aside from their established roles as phospho-peptide binding modules, BRCT domains have been implicated in phosphorylation-independent protein interactions, DNA binding and poly(ADP-ribose) (PAR) binding. These numerous functions can be attributed to the diversity in BRCT domain structure and architecture, where domains can exist as isolated single domains or assemble into higher order homo- or hetero-domain complexes. In this review, we incorporate recent structural and biochemical studies to demonstrate how structural features allow single and tandem BRCT domains to attain a high degree of functional diversity.Key words: BRCT domain, DNA repair, phosphorylation, phospho-peptide interaction, protein interaction, DNA binding, DNA damage response 相似文献
9.
Campeas A Brun-Bellut J Baras E Kestemont P Gardeur JN 《Animal : an international journal of animal bioscience》2009,3(9):1299-1307
This study aimed at modeling the relative importance of food intake on growth heterogeneity among cultured sea bass (Dicentrarchus labrax). First, we designed an individual growth model comprising five compartments (Energy intake, Losses, Net Energy, Recovered Energy and Maintenance). This model was calibrated with a first experiment carried out in eight tanks; A total of 130 juveniles (11 g) per tank were fed by a self-feeder (84 days, 20°C, 16L : 8D, 30 g NaCl/l). A second experiment was performed to better understand the relation between individual food intake, individual growth and growth heterogeneity, using the model as a tool for a hypothetico-deductive approach on growth heterogeneity (135 passive integrated transponder-tagged fish, same rearing conditions as above and individual food intake measured by X-ray every 14 days). The tested hypotheses were that food intake was (a) homogeneous, (b) proportional to the fish weight (i.e. to W1.00) X-ray (c) proportional to W0.66 and (d) reflected by the X-ray measurements of food intake. For each hypothesis, a simple linear regression between experimental and simulated results was produced. The Fitness indicators of these analyses, together with their confidence intervals (calculated by bootstrapping), allowed testing the relevance of these hypotheses. The analysis indicated that growth heterogeneity was largely accounted for by individual variations of food intake, as revealed by the X-ray analysis, and that food intake was proportional to W1.00, which suggests a dominance hierarchy where small fish are incapable of feeding maximally. 相似文献
10.
Florian Ryffel Eric JN Helfrich Patrick Kiefer Lindsay Peyriga Jean-Charles Portais J?rn Piel Julia A Vorholt 《The ISME journal》2016,10(3):632-643
The phyllosphere, which is defined as the parts of terrestrial plants above the ground, is a large habitat for different microorganisms that show a high extent of adaption to their environment. A number of hypotheses were generated by culture-independent functional genomics studies to explain the competitiveness of specialized bacteria in the phyllosphere. In contrast, in situ data at the metabolome level as a function of bacterial colonization are lacking. Here, we aimed to obtain new insights into the metabolic interplay between host and epiphytes upon colonization of Arabidopsis thaliana leaves in a controlled laboratory setting using environmental metabolomics approaches. Quantitative nuclear magnetic resonance (NMR) and imaging high-resolution mass spectrometry (IMS) methods were used to identify Arabidopsis leaf surface compounds and their possible involvement in the epiphytic lifestyle by relative changes in compound pools. The dominant carbohydrates on the leaf surfaces were sucrose, fructose and glucose. These sugars were significantly and specifically altered after epiphytic leaf colonization by the organoheterotroph Sphingomonas melonis or the phytopathogen Pseudomonas syringae pv. tomato, but only to a minor extent by the methylotroph Methylobacterium extorquens. In addition to carbohydrates, IMS revealed surprising alterations in arginine metabolism and phytoalexin biosynthesis that were dependent on the presence of bacteria, which might reflect the consequences of bacterial activity and the recognition of not only pathogens but also commensals by the plant. These results highlight the power of environmental metabolomics to aid in elucidating the molecular basis underlying plant–epiphyte interactions in situ. 相似文献