代谢异速生长理论及其在微生物生态学领域的应用

新陈代谢是生物的基本生理过程,影响生物在不同环境中参与物质循环和能量转化的过程.代谢速率作为生物体重要的生命过程指标,几乎影响所有的生物活性速率,且在很多研究中均表现出异速生长现象.所谓代谢异速是指生物体代谢速率与其个体大小(或质量)之间存在的幂函数关系.代谢异速生长理论的提出,从机制模型角度解释了代谢异速关系这一普遍存在的生命现象.该理论利用分形几何学及流体动力学等原理,从生物能量学角度阐释了异速生长规律的机理,证实了3/4权度指数的存在;但同时有研究表明,权度指数因环境因素等影响处于2/3-1范围之间而非定值.随着研究工作的深入,代谢异速生长理论研究从起初的宏观动植物领域拓展到了微生物领域,在研究微生物的代谢异速生长理论时,可将微生物的可操作分类单元(Operational taxonomic unit,OTU)或具有特定功能的功能群视为一个微生物个体,基于其遗传多样性和功能多样性特征进行表征,以便于将微生物群落多样性与其生态功能性联系起来,使该理论在微生物生态学领域得到有效的补充和完善.尽管细菌具有独特的生物学特性,但与宏观生物系统中观测到的现象表现出明显的一致性.有研究表明,3个农田土壤细菌基于遗传多样性的OTU数的平均周转率分别为0.71、0.80和0.84,介于2/3与1之间,可能与生物代谢异速指数有一定关联,为微生物代谢异速指数的研究提出了一个参考解决方案.鉴于微生物个体特征和生物学特性,在分析代谢速率与个体大小关系中,从微生物单位个体的定义、个体大小表征到计量单位的统一,仍需更多的理论支持.分析了代谢异速生长理论在微生物与生态系统功能关系研究中的可能应用,延伸了该理论的应用范围,并对尚待加强的研究问题进行了评述和展望.     

Metabolic activities in Cyanophora paradoxa and its cyanelles

Isolated cyanelles of Cyanophora paradoxa perform photosystem I and II dependent Hill reactions. The photosynthetic electron transport of the cyanelles does not show special features uncommon in cyanobacteria or chloroplasts of red algae. A preparation of cyanelles performs photosynthetic O₂-evolution with approximately 1/3 of the rate of intact Cyanophora, in only, however, the first three minutes of the experiment. All attempts to stabilize the CO₂-fixation activity of isolated cyanelles failed. Isolated cyanelles do not perform KCN-sensitive O₂-uptake, indicating that respiratory cytochrome oxidase is lacking in cyanelles. O₂-consumption by crude extracts from Cyanophora is inhibited by KCN when N-tetramethyl-p-phenylenediamine/ascorbate or NADH but not NADPH are supplied as the electron donors in contrast to the situation in cyanobacteria. These findings suggest that cyanelles do not respire. It is concluded that cyanelles are not so much related to cyanobacteria as formerly believed, but share many properties with chloroplasts of eukaryotic cells.Abbreviations Chl chlorophyll - DCPIP dichlorophenol-indophenol - TMPD N-tetramethyl-p-phenylenediamine To whom correspondence should be addressed     

生命的三界学说以及生命的第三形式

1997年,Woese等人用比较16SrRNA序列的方法将生物分成三大类群,即真核类群,细菌类群和古生物类群。古细菌是既不同于原核生物也不同于真核生物的第三类生物。对生物三界学说的由来和发展、古细菌的分类、研究现状以及展望作一概述。     

Growth-size scaling relationships of woody plant species differ from predictions of the Metabolic Ecology Model

The Metabolic Ecology Model predicts that tree diameter ( D ) growth ( dD/dt ) scales with D ^1/3. Using data on diameter growth and height–diameter relationships for 56 and 40 woody species, respectively, from forests throughout New Zealand, we tested one prediction and two assumptions of this model: (i) the exponent of the growth–diameter scaling relationship equals 1/3 and is invariant among species and growth forms, (ii) small and large individuals are invariant in their exponents and (iii) tree height scales with D ^2/3. We found virtually no support for any prediction or assumption: growth–diameter scaling exponents varied substantially among species and growth forms, correlated positively with species' maximum height, and shifted significantly with increasing individual size. Tree height did not scale invariantly with diameter. Based on a quantitative test, violation of these assumptions alone could not explain the model's poor fit to our data, possibly reflecting multiple, unsound assumptions, as well as unaccounted-for variation that should be incorporated.     

Methodological aspects of scaling in biology

Interest in the scaling approach to problems of biological design has increased dramatically in the past few years. But thus far no systematic attempt has been made to review the possible pitfalls attendant upon this approach. As a beginning, the problems which can arise from rounding exponents, or taking standard errors at face value, or expressing dependent variables in ratio form are discussed. There follows a discussion of fitting specific functions to scaling data, of the special needs for documentation and of the potential value to be derived from suitable computer programs in scaling studies. Finally, the possible difficulties of demonstrating global optimization in biological systems, the risks of dimensional analysis and the value and nature of scaling models are discussed.     

The role of theory in an emerging new plant reproductive biology

Recent empirical studies hint at an end to the historical solitude between pollination and mating system approaches to plant reproductive character evolution. Now is an opportune time to distill theoretical results into comprehensible insight, and to integrate these findings into the emerging new plant reproductive biology. We outline four theoretical insights for understanding the evolution of reproductive characters, and show how these allow researchers to dissect complex ecological scenarios into clear and evolutionarily relevant components.     

Adaptive differences in plant physiology and ecosystem paradoxes: insights from metabolic scaling theory

The link between variation in species‐specific plant traits, larger scale patterns of productivity, and other ecosystem processes is an important focus for global change research. Understanding such linkages requires synthesis of evolutionary, biogeograpahic, and biogeochemical approaches to ecological research. Recent observations reveal several apparently paradoxical patterns across ecosystems. When compared with warmer low latitudes, ecosystems from cold northerly latitudes are described by (1) a greater temperature normalized instantaneous flux of CO₂ and energy; and (2) similar annual values of gross primary production (GPP), and possibly net primary production. Recently, several authors attributed constancy in GPP to historical and abiotic factors. Here, we show that metabolic scaling theory can be used to provide an alternative ‘biotically driven’ hypothesis. The model provides a baseline for understanding how potentially adaptive variation in plant size and traits associated with metabolism and biomass production in differing biomes can influence whole‐ecosystem processes. The implication is that one cannot extrapolate leaf/lab/forest level functional responses to the globe without considering evolutionary and geographic variation in traits associated with metabolism. We test one key implication of this model – that directional and adaptive changes in metabolic and stoichiometric traits of autotrophs may mediate patterns of plant growth across broad temperature gradients. In support of our model, on average, mass‐corrected whole‐plant growth rates are not related to differences in growing season temperature or latitude. Further, we show how these changes in autotrophic physiology and nutrient content across gradients may have important implications for understanding: (i) the origin of paradoxical ecosystem behavior; (ii) the potential efficiency of whole‐ecosystem carbon dynamics as measured by the quotient of system capacities for respiration, R, and assimilation, A; and (iii) the origin of several ‘ecosystem constants’– attributes of ecological systems that apparently do not vary with temperature (and thus with latitude). Together, these results highlight the potential critical importance of community ecology and functional evolutionary/physiological ecology for understanding the role of the biosphere within the integrated earth system.     

Cross-talk of NO, superoxide and molecular oxygen, a majesty of aerobic life

Because nitric oxide (NO) reacts with various molecules, such as hemeproteins, superoxide and thiols including glutathione (GSH) and cysteine residues in proteins, biological effects and metabolic fate of this gaseous radical are affected by these reactants. Although the lifetime of NO is short particularly under air atmospheric conditions (where the oxygen tension is unphysiologically high), it increases significantly under physiologically low oxygen concentrations. Because oxygen tensions in human body differ from one tissue to another and change depending on their metabolism, biological activity of NO in various tissues might be affected by local oxygen tensions. To elucidate the role of NO and related radicals in the regulation of circulation and energy metabolism, their effects on arterial resistance and energy metabolism in mitochondria, mammalian cells and enteric bacteria were studied under different oxygen tensions. Kinetic analysis revealed that NO-dependent generation of cGMP in resistance arteries and their relaxation were strongly enhanced by lowering oxygen tensions in the medium. NO reversibly suppressed the respiration and ATP synthesis of isolated mitochondria and intact cells particularly under low oxygen tensions. Kinetic analysis revealed that cross-talk between NO and superoxide generated in and around endothelial cells regulates arterial resistance particularly under physiologically low oxygen tensions. NO also inhibited the respiration and ATP synthesis of E. coli particularly under low oxygen tensions. Because concentrations of NO and H⁺ in gastric juice are high, most ingested bacteria are effectively killed in the stomach. However, the inhibitory effects of NO on the respiration and ATP synthesis of H. pylori are extremely small. Kinetic analysis revealed that H. pylori generates the superoxide radical thereby inhibiting the bactericidal action of NO in gastric juice. Based on such observations, critical roles of the cross-talk of NO, superoxide and molecular oxygen in the regulation of energy metabolism and survival of aerobic and microaerophilic organisms are discussed.     

Cross-talk of NO,superoxide and molecular oxygen,a majesty of aerobic life

Because nitric oxide (NO) reacts with various molecules, such as hemeproteins, superoxide and thiols including glutathione (GSH) and cysteine residues in proteins, biological effects and metabolic fate of this gaseous radical are affected by these reactants. Although the lifetime of NO is short particularly under air atmospheric conditions (where the oxygen tension is unphysiologically high), it increases significantly under physiologically low oxygen concentrations. Because oxygen tensions in human body differ from one tissue to another and change depending on their metabolism, biological activity of NO in various tissues might be affected by local oxygen tensions. To elucidate the role of NO and related radicals in the regulation of circulation and energy metabolism, their effects on arterial resistance and energy metabolism in mitochondria, mammalian cells and enteric bacteria were studied under different oxygen tensions. Kinetic analysis revealed that NO-dependent generation of cGMP in resistance arteries and their relaxation were strongly enhanced by lowering oxygen tensions in the medium. NO reversibly suppressed the respiration and ATP synthesis of isolated mitochondria and intact cells particularly under low oxygen tensions. Kinetic analysis revealed that cross-talk between NO and superoxide generated in and around endothelial cells regulates arterial resistance particularly under physiologically low oxygen tensions. NO also inhibited the respiration and ATP synthesis of E. coli particularly under low oxygen tensions. Because concentrations of NO and H⁺ in gastric juice are high, most ingested bacteria are effectively killed in the stomach. However, the inhibitory effects of NO on the respiration and ATP synthesis of H. pylori are extremely small. Kinetic analysis revealed that H. pylori generates the superoxide radical thereby inhibiting the bactericidal action of NO in gastric juice. Based on such observations, critical roles of the cross-talk of NO, superoxide and molecular oxygen in the regulation of energy metabolism and survival of aerobic and microaerophilic organisms are discussed.     

Identification of a new gene responsible for the oxygen tolerance in aerobic life of Streptococcus mutans

Alkyl hydroperoxide reductase in Streptococcus mutans consists of two components, Nox-1 and AhpC. Deletion of nox-1 and ahpC in a double mutant as well as the wild-type of Streptococcus mutans can form colonies in the presence of air to the same extent. The evidence suggested the presence of some other antioxidant system(s) independent of the Nox-1/AhpC system in the bacterium. Here we identified a new antioxidant gene (dpr) and the gene product (Dpr) which complements the defect of peroxidase activity caused by the deletion of nox-1 and ahpC in S. mutans. The dpr-disruption mutant of S. mutans could form colonies anaerobically but not aerobically.     

Diffusivity of oxygen in aerobic granules

This work for the first time estimated apparent oxygen diffusivity (D(app)) of two types of aerobic granules, acetate-fed and phenol-fed, by probing the dissolved oxygen (DO) level at the granule center with a sudden change in the DO of the bulk liquid. With a high enough flow velocity across the granule to minimize the effects of external mass transfer resistance, the diffusivity coefficients of the two types of granules were estimated with reference to a one-dimensional diffusion model. The carbon source has a considerable effect on the granule diameter (d) and the oxygen diffusivity. The diffusivity coefficients were noted 1.24-2.28 x 10(-9) m2/s of 1.28-2.50 mm acetate-fed granules, and 2.50-7.65 x 10(-10) m2/s of 0.42-0.78 mm phenol-fed granules. Oxygen diffusivity declined with decreasing granule diameter, in particular, the diffusivity of acetate-fed granules is proportional to the size, whereas the diffusivity of phenol-fed granules is proportional to the square of granule diameter. The existence of large pores in granule, evidenced by FISH-CLSM imaging, was proposed to correspond to the noted size-dependent oxygen diffusivity. The phenol-fed granules exhibited a higher excellular polymer (ECP) content than the acetate-fed granules, hence yielding a lower oxygen diffusivity.     

Nickel and copper tolerance and toxicity in three Tuscan populations of Silene paradoxa

Three Tuscan ecotypes of Silene paradoxa L. were studied to evaluate the occurrence of multiple tolerance or co-tolerance mechanisms and to underline some tolerance strategies in plants naturally adapted to toxic concentrations of heavy metals. Seeds were collected from non-toxic calcareous soil, a serpentine outcrop with high nickel content and a copper mine dump. The evaluation of the toxic effects of the metals on root growth showed the copper-tolerant population as nickel co-tolerant, whereas the opposite was not the case. This suggests the occurrence of a non-reciprocal co-tolerance mechanism.
The nickel-tolerant population seemed able to tolerate nickel by limiting its inhibiting effect on the peroxisomal H₂O₂ scavenging enzymes since, in the sensitive population, this inhibition revealed itself as one of the causes of nickel-induced oxidative stress. A very low copper root and shoot concentration seemed to be characteristic of the copper-tolerant population, combined with a low susceptibility to metal-induced oxidative stress.     

The origin of allometric scaling laws in biology

The empirical rules relating metabolic rate and body size are described in terms of (i) a scaling exponent, which refers to the ratio of the fractional change in metabolic rate to a change in body size, (ii) a proportionality constant, which describes the rate of energy expenditure in an organism of unit mass. This article integrates the chemiosmotic theory of energy transduction with the methods of quantum statistics to propose a molecular mechanism which, in sharp contrast to competing models, explains both the variation in scaling exponents and the taxon-specific differences in proportionality constants. The new model is universal in the sense that it applies to unicellular organisms, plants and animals.     

Metabolic scaling in insects supports the predictions of the WBE model

The functional association between body size and metabolic rate (BS-MR) is one of the most intriguing issues in ecological physiology. An average scaling exponent of 3/4 is broadly observed across animal and plant taxa. The numerical value of 3/4 is theoretically predicted under the optimized version of West, Brown, and Enquist's vascular resource supply network model. Insects, however, have recently been proposed to express a numerically different scaling exponent and thus application of the WBE network model to insects has been rejected. Here, we re-analyze whether such variation is indeed supported by a global deviation across all insect taxa at the order and family levels to assess if specific taxa influence insect metabolic scaling. We show that a previous reported deviation is largely due to the effect of a single insect family (Termitidae). We conclude that the BS-MR relationship in insects broadly supports the core predictions of the WBE model. We suggest that the deviation observed within the termites warrants further investigation and may be due to either difficulty in accurately measuring termite metabolism and/or particularities of their life history. Future work on allometric scaling should assess the nature of variation around the central tendencies in scaling exponents in order to test if this variation is consistent with core assumptions and predictions of the WBE model that stem by relaxing its secondary optimizing assumptions that lead to the 3/4 exponent.     

Metabolic scaling of antibiotics in reptiles: Basis and limitations

The allometric equation y = a · x^b has been used to scale many morphological and physiological attributes relative to body mass. For instance, in eutherian mammals, the equation P_met = 70M_b^0.75 has been used to describe the relationship between metabolic rate (P_met) and body mass (M_b). Similar equations have been derived for squamate reptiles. Recently, this relationship between metabolic rate and body mass has been used in determining appropriate dosages and dosing intervals of antibiotics both intraspecifically for different sized reptiles and interspecifically for those reptiles in which antibiotic pharmacokinetic studies have not been performed. Although this is a simple mathematical process, a number of problems surface when this approach is examined closely. First, the mass constant (a) in reptiles varies from 1–5 for snakes and 6–10 for lizards. No such information is available for chelonians or crocodilians. Unless the mass constant for the unknown species approximates that of the known species, inappropriate dosages and intervals of administration will be calculated. Second, pharmacokinetic differences may exist between widely divergent species, independent of metabolic rate. Third, all available pharmacokinetic studies and metabolic allometric equations are derived from clinically healthy reptiles. Differences more than likely exist between healthy and ill reptiles in regard to uptake, distribution, and elimination of drugs and overall metabolism. While metabolic scaling of antibiotics is a potentially useful and practical tool in drug dosing, these limitations must be considered when dosing an ill reptile. Until more scientifically derived information is available for demonstrating the accuracy of metabolic scaling of antibiotics in reptiles, the clinician will need to understand the limitations of this approach. © 1996 Wiley-Liss, Inc.