Reductionism in the study of enzyme adaptation

One of the principal goals of comparative biology is the elucidation of mechanisms by which organisms adapt to different environments. The study of enzyme structure, function, and stability has contributed significantly to this effort, by revealing adaptation at a molecular level. Comparative biochemistry, including enzymology, necessarily pursues a reductionist approach in describing the function and structure of biomolecules, allowing more straightforward study of molecular systems by removing much of the complexity of their biological milieu. Although this reductionism has allowed a remarkable series of discoveries linking chemical processes to metabolism and to whole-organism function in the context of the environment, it also has the potential to mislead when careful consideration is not made of the simplifying assumptions inherent to such research. In this review, a brief history of the growth of enzymology, its reliance on a reductionist philosophy, and its contributions to our understanding of biological systems is given. Examples then are provided of research techniques, based on a reductionist approach, that have advanced our knowledge about enzyme adaptation to environmental stresses, including stability assays, enzyme kinetics, and the impact of solute composition on enzyme function. In each case, the benefits of the reductionist nature of the approach is emphasized, notable advances are described, but potential drawbacks due to inherent oversimplification of the study system are also identified.

Hydrostatic pressure and the experimental toxicology of marine fishes: The elephant in the room

Hydrostatic pressure (HP) increases linearly with depth in aquatic environments, so that many fish species routinely experience moderate-to-high HP levels (i.e., from a few to dozens of MPa). Biological effects of this thermodynamic variable are evidenced by a reduced functionality of many biomolecular systems, even in barotolerant and barophilic species. It is likely that environmentally-relevant HP levels (i.e., above atmospheric) could also modulate the responsiveness to and toxic effects of pollutants in fish. Still, only a few laboratories have investigated this possibility. The already-published ecobarotoxicological studies have brought strong support to the notion that HP can indeed modulate pollutant response in shallow-water and deep-sea animals. A careful reassessment of toxicity responses is therefore required. To quantify the exact influence of HP in marine fish toxicology, a research framework is proposed that should ensure the collection of meaningful data for risk assessment, using standard toxicity testing and mechanistic approaches.

Muscle enzyme activities in a deep-sea squaloid shark,Centroscyllium fabricii, compared with its shallow-living relative,Squalus acanthias

The activities of several enzymes of energy metabolism were measured in the heart, red muscle, and white muscle of a deep and a shallow living squaloid shark, Centroscyllium fabricii and Squalus acanthias, respectively. The phylogenetic closeness of these species, combined with their active predatory nature, similar body form, and size makes them well matched for comparison. This is the first time such a comparison has been made involving a deep-sea elasmobranch. Enzyme activities were similar in the heart, but generally lower in the red muscle of C. fabricii. Paralleling the trend seen in deep-sea teleosts, the white muscle of C. fabricii had substantially lower activities of key glycolytic enzymes, pyruvate kinase and lactate dehydrogenase, relative to S. acanthias or other shallow living elasmobranchs. Unexpectedly, between the squaloid sharks examined, creatine phosphokinase activity was higher in all tissues of the deep living C. fabricii. Low white muscle glycolytic enzyme activities in the deep-sea species coupled with high creatine phosphokinase activity suggests that the capacity for short burst swimming is likely limited once creatine phosphate supplies have been exhausted.

Citrate synthase and pyruvate kinase activities during early life stages of the shrimp Farfantepenaeus paulensis (Crustacea, Decapoda, Penaeidae): effects of development and temperature

Energy metabolism in early life stages of the shrimp Farfantepenaeus paulensis subjected to temperature reduction (26 and 20 degrees C) was determined using the activities of citrate synthase (CS) and pyruvate kinase (PK). At both temperatures, weight-specific activity of CS decreased throughout the ontogenetic development from protozoea II (PZ II) to postlarva XII-XIV (PL XII-XIV). PK activity reached a pronounced peak in PL V-VI, followed by a further decrease in PL XII-XIV. Temperature reduction produced variation in oxygen consumption rates (QO(2)), ammonia-N excretion and in enzyme activities. Ammonia-N excretion was higher at 20 degrees C in mysis III (M III), PL V-VI and PL XII-XIV, resulting in substantially lower O:N ratios in these stages. QO(2) was increased in protozoea II (PZ II) and mysis I (M I) at 26 degrees C, while no difference in QO(2) was detected in the subsequent stages at either temperature. This fact coincided with higher CS and PK activities in M III, PL V-VI and PL XII-XIV at 20 degrees C compared with 26 degrees C. Regressions between individual enzyme activities and dry weight exhibited slope values of 0.85-0.92 for CS and 1.1-1.2 for PK and temperature reduction was reflected by higher slope values at 20 than at 26 degrees C for both enzymes. Weight-specific CS activity was positively correlated with QO(2) at 20 and 26 degrees C, and may thus be used as an indicator of aerobic metabolic rate throughout the early stages of F. paulensis. The variation in enzyme activities is discussed in relation to possible metabolic adaptations during specific ontogenetic events of the F. paulensis life cycle. Here, the catalytic efficiency of energy-metabolism enzymes was reflected in ontogenetic shifts in behaviour such as larval settlement and the adoption of a benthic existence in early postlarvae. In most cases, enhanced enzyme activities appeared to counteract negative effects of reduced temperature.

Key metabolic enzymes and muscle structure in triplefin fishes (Tripterygiidae): a phylogenetic comparison

Metabolic potential and muscle development were investigated relative to habitat and phylogeny in seven species of New Zealand triplefin fishes. Activity was measured in three principal glycolytic enzymes (lactate dehydrogenase, pyruvate kinase and phosphofructokinase) and two oxidative enzymes (citrate synthase and L3-hydroxyacyl CoA:NAD(+) oxidoreductase). The non-bicarbonate buffering capacity of caudal muscle was also estimated. Phylogenetic independent contrast analyses were used to reduce the effects of phylogenetic history in analyses. A positive relationship between metabolic potential and the effective water velocity at respective habitat depths was found only after the exclusion from analyses of the semi-pelagic species Obliquichthys maryannae. O. maryannae showed high glycolytic enzyme activities, and displayed double the activity of both oxidative enzymes relative to the six benthic species. Histochemically stained sections taken immediately posterior to the vent showed that adult O. maryannae and larval Forsterygion lapillum had significantly more red muscle, and smaller cross-sectional areas of white and red muscle fibres, than adults of benthic species. The distribution of red muscle in adult O. maryannae resembled that of larval F. lapillum, and differed from the typical teleost pattern seen in adults of the six benthic species. Both adult O. maryannae and larval F. lapillum have an expansive lateralis superficialis muscle, typical of larval fish, which encompasses much of the caudal trunk. Results suggest that anaerobic potential in New Zealand triplefins: (a) increases with the locomotory requirements of different habitats, and (b) displays a negative relationship with depth-dependent water velocities in benthic species. O. maryannae appears to have increased aerobic potential for sustained swimming by paedomorphic retention of larval muscle architecture.

Age determination and validation studies of marine fishes: do deep-dwellers live longer?

Age determination and validation studies on deep-water marine fishes indicate they are difficult to age and often long-lived. Techniques for the determination of age in individual fish includes growth-zone analysis of vertebral centra, fin rays and spines, other skeletal structures, and otoliths (there are three sets of otoliths in most bony fish semicircular canals, each of which is made of calcium carbonate). Most have regular increments deposited as the fish (and its semicircular canals) grows. The most commonly used otolith for age determination is the largest one called the sagitta. Age validation techniques include: (1) tag-recapture, often combined with oxytetracycline injection and analysis in growth-zones of bone upon recapture; (2) analysis of growth-zones over time; and (3) radiometric approaches utilizing a known radioactive decay series as an independent chronometer in otoliths from bony fishes. We briefly summarize previous studies using these three validation approaches and present results from several of our radiometric studies on deep-water, bony fishes recently subjected to expanding fisheries. Radiometric age validation results are presented for four species of scorpaenid fishes (the bank, Sebastes rufus, and bocaccio, S. paucispinis, rockfishes, and two thornyhead species, Sebastolobus altivelis and S. alascanus). In addition, our analysis of scorpaenids indicates that longevity increases exponentially with maximum depth of occurrence. The reason that the deep-water forms of scorpaenid fishes are long-lived is uncertain. Their longevity, however, may be related to altered physiological processes relative to environmental parameters like low temperature, high pressures, low light levels, low oxygen, and poor food resources.

Trimethylamine oxide counteracts effects of hydrostatic pressure on proteins of deep-sea teleosts

In shallow marine teleost fishes, the osmolyte trimethylamine oxide (TMAO) is typically found at <70 mmol/kg wet weight. Recently we found deep-sea teleosts have up to 288 mmol/kg, increasing in the order shallow < bathyal < abyssal. We hypothesized that this protein stabilizer counteracts inhibition of proteins by hydrostatic pressure, and showed that, for lactate dehydrogenases (LDH), 250 mM TMAO fully offset an increase in NADH K(m) at physiological pressure, and partly reversed pressure-enhanced losses of activity at supranormal pressures. In this study, we examined other effects of pressure and TMAO on proteins of teleosts that live from 2000-5000 m (200-500 atmospheres [atm]). First, for LDH from a grenadier (Coryphaenoides leptolepis) at 500 atm for 8 hr, there was a significant 15% loss in activity (P < 0.05 relative to 1 atm control) that was reduced with 250 mM TMAO to an insignificant loss. Second, for pyruvate kinase from a morid cod (Antimora microlepis) at 200 atm, there was 73% increase in ADP K(m) without TMAO (P < 0.01 relative to K(m) at 1 atm) but only a 29% increase with 300 mM TMAO. Third, for G-actin from a grenadier (C. armatus) at 500 atm for 16 hr, there was a significant reduction of F-actin polymerization (P < 0.01 compared to polymerization at 1 atm) that was fully counteracted by 250 mM TMAO, but was unchanged in 250 mM glycine. These findings support the hypothesis. J. Exp. Zool. 289:172-176, 2001.

Scaling effects on hypoxia tolerance in the Amazon fish Astronotus ocellatus (Perciformes: Cichlidae): contribution of tissue enzyme levels

Astronotus ocellatus is one of the most hypoxia tolerant fish of the Amazon; adult animals can tolerate up to 6 h of anoxia at 28 degrees C. Changes in energy metabolism during growth have been reported in many fish species and may reflect the way organisms deal with environmental constraints. We have analyzed enzyme levels (lactate dehydrogenase, LDH: EC 1.1.1.27; and malate dehydrogenase, MDH: EC 1.1.1.37) in four different tissues (white muscle, heart, liver, and brain) from different-sized animals. Both enzymes correlate with body size, increasing the anaerobic potential positively with growth. To our knowledge, this is the first description of scaling effects on hypoxia tolerance and it is interesting to explore the fact that hypoxia survivorship increases due to combining effects of suppressing metabolic rates and increasing anaerobic power as fish grow.

Comparison of the binding properties of A1 adenosine receptors in brain membranes of two congeneric marine fishes living at different depths

The binding properties of A1 adenosine receptors in brain membranes were compared in two congeneric marine teleost fishes which differ in their depths of distribution. Adenosine receptors were labeled using the A1 selective radioligand [3H]cyclohexyladenosine ([3H]CHA). The A1 receptor agonist [3H]CHA bound saturably, reversibly and with high affinity to brain membranes prepared from Sebastolobus altivelis and S. alascanus; however, the mean Kd values differed significantly (Figs. 1-3, Table 1). Saturation data fit to a one site model indicated that the A1 receptor in S. alascanus exhibited a higher affinity (Kd = 1.49 nM) for [3H]CHA whereas A1 receptors in S. altivelis exhibited a significantly lower affinity (Kd = 3.1 nM). Moreover, S. altivelis, but not S. alascanus, parameter estimates for [3H]CHA binding to two sites of receptor were obtained (Fig. 3, Table 1). The mean dissociation constant values for the high and low affinity sites for [3H]CHA in S. altivelis were 0.43 nM and 16.3 nM, respectively. In equilibrium competition experiments the adenosine analogs R-phenylisopropyladenosine (R-PIA), N-ethylcarboxamidoadenosine (NECA) and S-phenylisopropyladenosine (S-PIA) all displayed higher affinities for A1 receptors in S. alascanus as compared to S. altivelis brain membranes (Table 2, Fig. 6). The specific binding of [3H]CHA was significantly increased by 0.1 and 1.0 mM MgCl2 in both fishes; however, the sensitivity (95-131% increase) of S. altivelis to this effect was significantly greater than that of S. alascanus (48-91% increase) (Fig. 5). The results of kinetic, equilibrium saturation and equilibrium competition experiments all suggest that A1 adenosine receptors of S. altivelis and S. alascanus brain membranes differ with respect to their affinities for selected adenosine agonists.

Effects of high hydrostatic pressure per se, 101 atm on eel metabolism

Oxygen consumption (MO2) of confined eels was measured at atmospheric pressure, 1 atm, and at 101 atm of hydrostatic pressure per se (HP). The tolerance of the eels to hypoxia was studied at the two experimental pressures. At atmospheric pressure, when oxygen partial pressure (PWO2) fell below the critical pressure, Pc = 22.4 +/- 1.95 Torr, there was a linear PWO2-related decrease in MO2. At maximal hypoxia, the eels survived for several hours by their efficient anaerobic metabolism. At 101 atm of HP, as soon as the experimental pressure was attained, a linear PWO2-related decrease in MO2 was observed at PWO2 levels much higher than those considered as critical at atmospheric pressure. The relation MO2 = f (PWO2) was similar to that observed at 1 atm when PWO2 less than Pc, that is, when aerobic metabolism was insufficient to ensure the eels' energetic requirement. Moreover, the eels tolerated hypoxia much less well at 101 atm of HP than at 1 atm. In conclusion, the exposure of eels to 101 atm of HP induced a sharp decrease in aerobic metabolism; then, at 101 atm, the energetic requirements must be ensured by anaerobic processes which produced lactates in plasma whose values were similar to those observed at 1 atm when PWO2 less than Pc.

Pressure inactivation of tetrameric lactate dehydrogenase homologues of confamilial deep-living fishes

The susceptibility to inactivation by hydrostatic pressure of the tetrameric muscle-type (M4) lactate dehydrogenase homologues (LDH, EC 1.1.1.27; L-lactate: NAD+ oxidoreductase) from six confamilial macrourid fishes was compared at 4 degrees C. These marine teleost fishes occur over depths of 260 to 4815 m. The pressures necessary to half-inactivate the LDH homologues are related to the pressures which the enzymes are exposed to in vivo; higher hydrostatic pressures are required to inactivate the LDH homologues of the deeper-occurring macrourids. The resistance of the LDH homologues to inactivation by pressure is affected by protein concentration. After an hour of incubation at pressure, the percent remaining activity approaches an asymptomatic value. The inactivation of the macrourid LDH homologues by pressure was not fully reversible. Assuming that inactivation by pressure was due to dissociation of the native tetramer to monomers, apparent equilibrium constants (Keq) were calculated. Volume changes (delta V) were calculated over the range of pressures for which plots ln Keq versus pressure were linear. The delta V of dissociation values of the macrourid homologues range from -219 to -439 ml mol-1. Although the hydrostatic pressures required to inactivate the LDH homologues of the macrourid fishes are greater than those which the enzymes are exposed to in vivo, the pressure-stability of these enzymes may reflect the resistance of these enzymes to pressure-enhanced proteolysis in vivo.

Structural comparison of lactate dehydrogenase homologs differing in sensitivity to hydrostatic pressure

The muscle-type (M4) lactate dehydrogenases (L-lactate: NAD+ oxidoreductase EC 1.1.1.27) of two teleost fishes, Sebastolobus alascanus and Sebastolobus altivelis , differ in the susceptibility of ligand binding to perturbation by moderate hydrostatic pressures. The enzyme homologs were purified by affinity chromatography. The amino-acid compositions of these enzymes are virtually identical. The proteins were digested with trypsin and the peptide mixtures mapped using reverse-phase HPLC. Although there was variation in elution times of some peaks, the amino-acid compositions of the fractions from the two profiles were highly similar. Only one clear difference in amino-acid composition was found and this peptide was sequenced using the manual dansyl-Edman method. The enzyme of S. alascanus , which is susceptible to pressure-perturbation, had a histidine at position 115; the S. altivelis enzyme had an asparagine. Ionization of histidine is affected by pressure and may be involved in the differences between the two lactate dehydrogenase homologs. There is no covalently bound phosphate associated with either enzyme, and thus phosphorylation cannot account for the differences between the enzyme homologs. Acquisition of pressure-tolerance appears to involve only minor changes in primary structure.