Morphological variability of Atlantic salmon Salmo salar and brown trout Salmo trutta in different river environments

Abstract – The morphologies of sympatric juvenile Atlantic salmon Salmo salar parr and brown trout Salmo trutta parr were compared between Irish rivers with contrasting hydraulic environments – a high‐gradient and a low‐gradient tributary from the River Barrow catchment, south‐east Ireland and a high‐gradient river from the Burrishoole catchment, west of Ireland. The two catchments differ markedly in mean annual precipitation (849.0 mm year^?1 and 1370.3 mm year^?1 for the Barrow and Burrishoole catchments, respectively). Parr of both species demonstrated morphological variation between and within catchments. Changes in metrics such as pectoral fin length, body depth and body length between and within catchments suggest that hydraulic forces were a major determinant of morphological variation. Both species from the Burrishoole catchment had relatively larger pectoral fins, longer heads, larger eyes and shallower bodies than conspecifics from the Barrow catchment. In rivers subject to frequent rainfall‐driven high discharges, such as those in the Burrishoole catchment, a more fusiform body and head shape coupled with larger pectoral fins may reduce the energetic cost of maintaining position in the water column, as well as increase stability and manoeuvrability. The larger eyes in both parr species in the Burrishoole catchment could further be a response to the lower visibility of the more turbid and peat‐stained waters or to the reduced prey availability. The results of this study demonstrate that local adaptation to flow conditions can yield morphologically distinct populations and that multiple species can exhibit parallel phenotypic responses to changing environmental conditions.     

Characterization of proanthocyanidin in hot water extract isolated from <Emphasis Type="Italic">Pinus radiata</Emphasis> bark

Proanthocyanidins (PAs) in the hot water extract prepared from Pinus radiata bark were isolated by a Sephadex LH-20 chromatography. The PAs were characterized using UV/Visible, FT-IR and ¹³C nuclear magnetic resonance (NMR) spectroscopic techniques, matrix-assisted laser desorption/ionization time of flight (MALDI-TOF) mass spectrometry (MS), and gel permeation chromatography (GPC) analysis. Bate-Smith acidic alcoholysis and FT-IR spectrum of the PAs indicated the predominant presence of the procyanidin (PC) structure. The ¹³C NMR spectrum revealed that the PAs comprise PC (94%) together with a small amount of prodelphinidin (PD, 6%), and also that they contain the higher trans configuration rather than the cis configuration of C2–C3. The MALDI-TOF MS results obviously proved the presence of PD units, but the maximum degree of polymerization (DP) was limited to octamer. The average molar mass (Mw, Mn), polydispersity (Mw/Mn), and DP of the pine bark PAs were 3,800 (Mw), 1,200 (Mn), 3.2, and 13, respectively.     

Use of advanced recombinant lines to study the impact and potential of mutations affecting starch synthesis in barley

The effects on barley starch and grain properties of four starch synthesis mutations were studied during the introgression of the mutations from diverse backgrounds into an elite variety. The lys5f (ADPglucose transporter), wax (granule-bound starch synthase), isa1 (debranching enzyme isoamylase 1) and sex6 (starch synthase IIa) mutations were introgressed into NFC Tipple to give mutant and wild-type BC₂F₄ families with different genomic contributions of the donor parent. Comparison of starch and grain properties between the donor parents, the BC₂F₄ families and NFC Tipple allowed the effects of the mutations to be distinguished from genetic background effects. The wax and sex6 mutations had marked effects on starch properties regardless of genetic background. The sex6 mutation conditioned low grain weight and starch content, but the wax mutation did not. The lys5 mutation conditioned low grain weight and starch content, but exceptionally high β-glucan contents. The isa1 mutation promotes synthesis of soluble α-glucan (phytoglycogen). Its introgression into NFC Tipple increased grain weight and total α-glucan content relative to the donor parent, but reduced the ratio of phytoglycogen to starch. This study shows that introgression of mutations into a common, commercial background provides new insights that could not be gained from the donor parent.     

Characterisation of agricultural drainage ditch sediments along the phosphorus transfer continuum in two contrasting headwater catchments

Purpose

This study investigated the phosphorus (P) source, mobilisation and transport potential of ditch bed sediments as well as surrounding field and bank soils in two agricultural headwater catchments with contrasting soil drainage capacities. This information is important for discerning the potential for ditches to attenuate or augment transfers of P from upstream sources and thus for developing appropriate management strategies for these features.

Materials and methods

Phosphorus sources were characterised using the Mehlich3-P, water-soluble P and total P tests. Phosphorus mobilisation potential was characterised using the Mehlich3-AL/P, Mehlich3-Ca/P and DESPRAL P tests. Phosphorus transport potential was characterised using data collected on the presence/absence of surface water in ditches during field surveys and downstream turbidity data.

Results and discussion

Ditch sediments had similar P source contents (Mehlich3-P, water-soluble P and total P) to the surrounding field soils and higher P contents than bank soils. However, calcium contents of sediments in the poorly drained catchment reflected the deep sub-soils rather than the surrounding field and bank soils. Mehlich3-Al/P and Mehlich3-Ca/P contents of ditch sediments in the well (non-calcareous) and poorly (calcareous) drained catchments respectively indicated potential for P retention (above thresholds of 11.7 and 74, respectively). However, sediments were less aggregated than field soils and may mobilise more particulate P (PP) during rain events. Nevertheless, the majority of surveyed ditches dried out from March to September 2011; thus, their potential to mobilise PP may be less important than their capacity to attenuate soluble and PP during this time.

Conclusions

In these and similar catchments, soluble P attenuation and particulate P mobilisation should be maximised and minimised, respectively, for example, by cleaning out the sediments before they become saturated with P and encouraging vegetation growth on ditch beds. This study also highlighted the influence of deep sub-soils on soluble P retention in ditches and thus the utility of characterising soils below depths normally included in soil classifications.

     

Sub-irrigation in wetland agriculture

Much has been written about the chinampas of central Mexico. One of the commonly repeated themes is that these wetland fields were self-irrigated from below in a process known as sub-irrigation. According to this model, water infiltrates the planting platforms from adjacent canals and then rises to the root zone by capillary action. Thus, chinampas are thought to have needed little supplemental irrigation, and produced dependable and high yields. Here I report the results of field and lab studies of soils of 10 chinampas in the region east of Xochimilco, in the Mexican Federal District. These interpretations are combined with discussion of maize rooting tendencies, regional rainfall patterns, and the presence of willow tree roots in chinampa soils. I also consider whether farmers strive to create and maintain optimum field morphologies for subirrigation when faced with both flood and drought risk, and when manual irrigation is aready option. I conclude that while sub-irrigation is possible under certain combinations of field morphology, crop type, and soil properties, it was a relatively minor factor in the overall decision-making process of past chinampa farmers, and should not be a major determinant of future planning for chinampa preservation or reconstruction. Furthermore, sub-irrigation must be modeled carefully in relation to soil properties, croptypes, and seasonality if it is to beconsidered a significant function of wetland fields in any context.     

The ecoresponsive genome of Daphnia pulex

We describe the draft genome of the microcrustacean Daphnia pulex, which is only 200 megabases and contains at least 30,907 genes. The high gene count is a consequence of an elevated rate of gene duplication resulting in tandem gene clusters. More than a third of Daphnia's genes have no detectable homologs in any other available proteome, and the most amplified gene families are specific to the Daphnia lineage. The coexpansion of gene families interacting within metabolic pathways suggests that the maintenance of duplicated genes is not random, and the analysis of gene expression under different environmental conditions reveals that numerous paralogs acquire divergent expression patterns soon after duplication. Daphnia-specific genes, including many additional loci within sequenced regions that are otherwise devoid of annotations, are the most responsive genes to ecological challenges.     

Molecular characterization of tetracycline- and quinolone-resistant Aeromonas salmonicida isolated in Korea

The antibiotic resistance of 16 Aeromonas (A.) salmonicida strains isolated from diseased fish and environmental samples in Korea from 2006 to 2009 were investigated in this study. Tetracycline or quinolone resistance was observed in eight and 16 of the isolates, respectively, based on the measured minimal inhibitory concentrations. Among the tetracycline-resistant strains, seven of the isolates harbored tetA gene and one isolate harbored tetE gene. Additionally, quinolone-resistance determining regions (QRDRs) consisting of the gyrA and parC genes were amplified and sequenced. Among the quinolone-resistant A. salmonicida strains, 15 harbored point mutations in the gyrA codon 83 which were responsible for the corresponding amino acid substitutions of Ser⁸³→Arg⁸³ or Ser⁸³→Asn⁸³. We detected no point mutations in other QRDRs, such as gyrA codons 87 and 92, and parC codons 80 and 84. Genetic similarity was assessed via pulsed-field gel electrophoresis, and the results indicated high clonality among the Korean antibiotic-resistant strains of A. salmonicida.     

Bioavailability of an organophosphorus pesticide,fenamiphos, sorbed on an organo clay

Hydrolysis of an insecticide/nematicide, fenamiphos [ethyl-3-methyl-4-(methylthio)phenyl-(1-methylethyl)phosphoramidate], immobilized through sorption by cetyltrimethylammonium-exchanged montmorillonite (CTMA-clay) by a soil bacterium, Brevibacterium sp., was examined. X-ray diffraction analysis, infrared spectra, and a negative electrophoretic mobility strongly indicated that fenamiphos was intercalated within the bacterially inaccessible interlayer spaces of CTMA-clay. The bacterium hydrolyzed, within 24 h, 82% of the fenamiphos sorbed by the CTMA-clay complex. There was a concomitant accumulation of hydrolysis product, fenamiphos phenol, in nearly stoichiometric amounts. During the same period, in abiotic (uninoculated) controls, 4.6% of the sorbed insecticide was released into the aqueous phase as compared to 6.0% of the sorbed fenamiphos in another abiotic control where activated carbon, a sink for desorbed fenamiphos, was present. Thus, within 24 h, the bacterium hydrolyzed 77% more fenamiphos sorbed by organo clay than the amounts desorbed in abiotic controls. Such rapid degradation of an intercalated pesticide by a bacterium has not been reported before. Evidence indicated that extracellular enzymes produced by the bacterium rapidly hydrolyzed the nondesorbable fenamiphos, even when the enzyme itself was sorbed. Fenamiphos strongly sorbed to an organo clay appears to be readily available for exceptionally rapid degradation by the bacterium.