Methodological problems in evolutionary biology VI. The force of evolutionary epistemology

Evolutionary epistemology takes various forms. As a philosophical discipline, it may use analogies by borrowing concepts from evolutionary biology to establish new foundations. This is not a very successful enterprise because the analogies involved are so weak that they hardly have explanatory force. It may also veil itself with the garbs of biology. Proponents of this strategy have only produced irrelevant theories by transforming epistemology's concepts beyond recognition. Sensible theories about knowledge and biology should presuppose that various long-standing problems concerning relations between the mental and the physical are solved. Such problems are wrongly disregarded by evolutionary epistemologists.     

Multi-algebra duplication

This paper was inspired by [5]. First, we define a new kind of duplication which differs from the usual one in that we have different multiplication tables for male and female gametes. [5] deals with the special case where the tables correspond to different recombination rates for males and females for two linked loci. Furthermore, we use the factoring and multilinear technique discussed in [2] and [3] to simplify the proofs in [5].     

Esterases in histochemistry and ultrahistochemistry

Synopsis The histochemical identification of individual esterases is a problem that has not yet been overcome. Inhibitors and different substrates reveal different patterns of distribution. 8-hydroxyquinoline acetate is a useful substrate in ultrahistochemistry. There is evidence of a relationship between esterase distribution and function.ACTH adrenocorticotropic hormone - 5Bri–O-2 5-bromoindoxyl acetate - 5Br–4ClI–O-2 5-bromo-4-chloro indoxyl acetate - cAMP cyclic adenosine monophosphate - DFP di-isopropyl-fluorophosphate - hCG human chorion gonadotropin - HS-2/4 thiol acetate/butyrate - I-O-2/4 indoxyl acetate/butyrate - N-O-2/3/4 -naphthyl acetate/propionate/butyrate - N-O-2 -naphthyl acetate - N-S-2/9 -naphthyl thiolacetate/nonanoate - NAS-O-2 naphthol AS acetate - NASD-O-2 naphthol AS-D acetate - 4NP-O-2/3 p-nitrophenyl acetate/propionate - 4NP-S-2 p-nitrophenyl thiol acetate - P-O-2 phenyl acetate - Q-O-2/4 8-hydroxyquinoline acetate/butyrate - Q-S-2/4 8-mercaptoquinoline acetate/butyrate - TBA-S-2/9 -thiolbenzanilide acetate/nonanoate - TSH thyroid-stimulating hormone     

Transforming Growth Factor-β and Ischemic Brain Injury

1. Necrosis and apoptosis are the two fundamental hallmarks of neuronal death in stroke. Nevertheless, thrombolysis, by using the recombinant serine protease t-PA, remains until now the only approved treatment of stroke in man.2. Over the last years, the cytokine termed Transforming Growth Factor-1 (TGF-1) has been found to be strongly up-regulated in the central nervous system following ischemia-induced brain damage.3. Recent studies have shown a neuroprotective activity of TGF-1 against ischemia-induced neuronal death. In vitro, TGF-1 protects neurons against excitotoxicity by inhibiting the t-PA-potentiated NMDA-induced neuronal death through a mechanism involving the up-regulation of the type-1 plasminogen activator inhibitor (PAI-1) in astrocytes.4. In addition, TGF-1 has been recently characterized as an antiapoptotic factor in a model of staurosporine-induced neuronal death through a mechanism involving activation of the extracellular signal-regulated kinase 1/2 (Erk1/2) and a concomitant increase phosphorylation of the antiapoptotic protein Bad.5. Altogether, these observations suggest that either TGF- signaling or TGF-1-modulated genes could be good targets for the development of new therapeutic strategies for stroke in man.     

Selective breeding of high and Low antibody-responder lines of guinea pigs

High (H) and Low (L) antibody-responder lines of guinea pigs were produced by selective breeding for the character quantitative agglutinin responsiveness to optimal doses of sheep erythrocytes (SE) and chicken erythrocytes (CE). The non cross-reacting SE and CE were alternated with each generation in order to avoid the specific interference of maternally transmitted antibodies. The continuous distribution of the phenotypes in the foundation population (F₀) and the progressive interline divergence during eight consecutive generations of selective breeding demonstrates that the character investigated is submitted to polygenic regulation. The difference in the peak agglutinin titers between the H and L lines of the eighth generation (HF₈/LF₈) is eight fold. The mean heritability (h²) of the character investigated, measured from the interline divergence of the eight generations of selection is 0.18±0.04. The h² value was established by the linear regression of the cumulated response to selection (R) on the cumulated selection differential (S). The selective breeding has a nonspecific effect because it also modifies the antibody responsiveness to other immunogens, such as f and s antigens ofSalmonella typhimurium or human erythrocytes, that are immunologically unrelated to those used in the selection.     

The eyes of mesopelagic crustaceans

Summary The compound eyes of the mesopelagic euphausiid Thysanopoda tricuspidata were investigated by light-, scanning-, and transmission electron microscopy. The eyes are spherical and have a diameter that corresponds to 1/6 of the carapace length. The hexagonal facets have strongly curved outer surfaces. Although there are four crystalline cone cells, only two participate in the formation of the cone, which is 90–120 m long and appears to have a radial gradient of refractive index. The clear zone, separating dioptric structures and retinula, is only 90–120 m wide. In it lie the very large oval nuclei of the seven retinula cells. Directly in front of the 70 m long and 15 m thick rhabdom a lens-like structure of 12 m diameter is developed. This structure, known in only a very few arthropods, seems to be present in all species of Euphausiacea studied to date. It is believed that the rhabdom lens improves near-field vision and absolute light sensitivity. Rod-shaped pigment grains and mitochondria of the tubular type are found in the plasma of retinula cells. The position of the proximal screening pigment as well as the microvillar organization in the rhadbdom are indicative of light-adapted material. The orthogonal alignment of rhabdovilli suggests polarization sensitivity. Behind each rhabdom there is a cup-shaped homogeneous structure of unknown, but possibly optical function. Finally, the structure and the function of the euphysiid eye are reviewed and the functional implications of individual components are discussed.This study was begun during the 1975 Alpha Helix South East Asia Bioluminescence Expedition to the South Moluccan Islands     

Methodological problems in evolutionary biology VII. The species plague

Various philosophers and evolutionary biologists have recently defended the thesis that species are individuals rather than sets. A decade of debates, however, did not suffice to settle the matter. Conceptual analysis shows that many of the key terms involved (individuation, evolutionary species, spatiotemporal restrictedness, individual) are ambiguous. Current disagreements should dissolve once this is recognized. Explication of the concepts involved leads to new programs for philosophical research. It could also help biology by showing how extant controversies concerning evolution may have conceptual rather than factual roots.     

The Use and Abuse of Sir Karl Popper

Karl Popper has been one of the few philosophers of sciences who has influenced scientists. I evaluate Popper's influence on our understanding of evolutionary theory from his earliest publications to the present. Popper concluded that three sorts of statements in evolutionary biology are not genuine laws of nature. I take him to be right on this score. Popper's later distinction between evolutionary theory as a metaphysical research program and as a scientific theory led more than one scientist to misunderstand his position on evolutionary theory as a scientific theory. In his later work Popper also introduced what he took to be improvements of evolutionary theory. Thus far these improvements have had almost no influence on evolutionary biology. I conclude by examining the influence of Popper on the reception of cladistic analysis.     

The kinetics of photoinhibition and its recovery in the red alga Porphyridium cruentum

When Porphyridium cruentum cells were illuminated with high fluence rate between 1900 and 4800 mol photons m^-2s^-1, a decrease in the photosynthetic activity of the cells was observed. Within the time frame of 20 min, and under the fluence rates studied, the sum of photons to be absorbed by cells (mg of chlorophyll (Chl), sufficient to initiate photoinhibition was calculated to be 9235.8 mol. The minimal specific light absorption rate to initiate photoinhibition in P. cruentum ranges between 2.29 and 4.26 mol photons s^-1 mg^-1 chl.a. There was a linear relationship between the specific rate of photoinhibition and the specific light absorption rate. A photon number of 2.56×10⁴ mol mg^-1 chl.a photoinhibited photosynthesis instantaneously. At 15°C, no photoinhibitory effect was observed at 2300 mol photons m^-2 s^-1 even after 45 min of illumination. At the other extreme of 35°C, 84% inhibition of photosynthetic activity was observed within 10 min of exposure to 2300 mol photons m^-2 s^-1. Between 20 and 30°C, the photoinhibitory effect was comparable. Photoinhibited P. cruentum cells recovered readily when transferred to low light (90 mol photons m^-2 s^-1) and darkness, and the specific rate of recovery was independent of the light intensity to which the cells were exposed, during the photoinhibitory treatment.Abbreviations Chlorophyll QL, specific light absorption rate Publication No. 28 of the Microalgal Biotechnology Laboratory     

The Philosophy of Donald T. Campbell: A Short Review and Critical Appraisal

Aside from his remarkable studies in psychology and the social sciences, Donald Thomas Campbell (1916–1996) made significant contributions to philosophy, particularly philosophy of science,epistemology, and ethics. His name and his work are inseparably linked with the evolutionary approach to explaining human knowledge (evolutionary epistemology). He was an indefatigable supporter of the naturalistic turn in philosophy and has strongly influenced the discussion of moral issues (evolutionary ethics). The aim of this paper is to briefly characterize Campbells work and to discuss its philosophical implications. In particular, I show its relevance to some current debates in the intersection of biology and philosophy. In fact, philosophy of biology would look poorer without Campbells influence. The present paper is not a hagiography but an attempt to evaluate and critically discuss the meaning of Campbells work for philosophy of biology and to encourage scholars working in this field to read and re-read this work which is both challenging and inspiring.     

Towards a pluralistic concept of function function statements in biology

The meaning of function statements is not clear. Several authors have come up with different explications. By interviewing biologists I tried to get a picture of how they think about function. Two explications of Feature X of organism S has function F came to the fore: (1) X contributes to F and F contributes to survival/reproduction of S and (2) X does F and that contributes to the evolutionary development of X in S via natural selection. Most biologists also related function to adaptation. Gould and Vrba criticize the ordinary use of adaptation in biology. They propose to use it only in the sense of features developed by natural selection for their current role and to use exaptation for features enhancing fitness, but not developed for this by natural selection. This, however, leaves a terminological gap, because as a consequence only effects of adaptations are functions. Effects of exaptations and effects which are not beneficial, like the production of heart sounds, are placed on the same level. That is not in accordance with the practice of biology. That is why a distinction is made between general, adaptive and exaptive functions: function as a pluralistic concept.Revised version of an earlier paper, published in Dutch in Kennis en Methode, November 1988.     

Elucidation of Structure of Lipid A from the Marine Gram-Negative Bacterium Pseudoalteromonas haloplanktis ATCC 14393T

The chemical structure of lipid A, from the marine -proteobacterium Pseudoalteromonas haloplanktis 14393, a main product of lipopolysaccharide hydrolysis (1% AcOH), was determined using chemical methods and NMR spectroscopy. The lipid A was shown to be -1,6-glucosaminobiose 1,4-diphosphate acylated with two (R)-3-hydroxyalkanoic acid residues at C3 and C3 and amidated with one (R)-3-hydroxydodecanoyl and one (R)-3-dodecanoyloxydodecanoyl residue at N2 and N2, respectively.     

Cocultivation of Fanconi anemia cells and of mouse lymphoma mutants leads to interspecies complementation of chromosomal hypersensitivity to DNA cross-linking agents

Summary We have studied the effects of cocultivation on the frequency of mitomycin C (MMC)-induced chromosomal aberrations. This was carried out by cocultivating Fanconi anemia (FA) cells from the genetic complementation groups A and B with both normal mouse lymphoma L5178Y cells and the derived FA-like mutant cells, MCN-151 and MCE-50, assigned to complementation groups I and II, respectively. The results show a partial complementation of the defect (i.e. a reduction in the frequency of chromosomal aberration) in FA group A cells cocultured with normal or group II mouse cells, and a partial correction of mouse group I cells cocultived with normal or FA group B human cells. No reciprocal effects were observed between FA group A cells and mouse group I mutant cells; the frequencies of MMC-induced chromosomal aberrations in these cells remained unchanged by cocultivation. Moreover, no complementation was observed for both FA group B cells and mouse group II cells, after cocultivation with normal cells of either mouse or human origin. This implies that a diffusible factor released by normal human and mouse cells, and by FA group B and mouse group II mutant cells, can correct at least in part the chromosomal defect of FA group A and mouse group I mutant cells. With normal human or mouse cells, the frequency of chromosomal breakage after cocultivation remains the same as that observed in non-cocultived cells. This suggests that no detectable clastogenic factor is released by human FA or FA-like mouse cells.     

The cloned β-mannanase gene from alkalophilic Bacillus sp. AM-001 produces two β-mannanases in Escherichia coli

The gene encoding -mannanase was cloned from alkalophilic Bacillus sp. AM-001 into Escherichia coli JM 101 by inserting HindIII-generated DNA fragments into the HindIII site of pUC19. A 2.0 kb XbaI-PstI fragment of the donor strain DNA was sufficient for -mannanase synthesis. The amount of -mannanase expressed in E. coli JM101 harboring pMAH3 (containing a 2.4 kb XbaI-HindIII fragment) was about 24% of the activity produced by the donor strain. E. coli JM101 harboring pMAH3 was found to produce two enzymatically active -mannanases (A and B). These two -mannanases were purified to electrophoretically homogenous states. The -mannanase A had enzymatic properties similar to those of the -mannanases M-I and M-II produced by alkalophilic Bacillus sp. AM-001, and the -mannanase B resembled its -mannanase M-III. In contrast to -mannanase production in the donor strain, that in E. coli was not inducible. The NH₂-terminal amino acid sequences from amino acid 1 (Asn) to 9 (Gln) of the three -mannanases purified from alkalophilic Bacillus sp. AM-001 coincide with those from amino acid 4 (Asn) to 12 (Gln) of the two -mannanases purified from E. coli transformant.     

Gene expression, cellular localization, and enzymatic activity of diacylglycerol kinase isozymes in rat ovary and placenta

Female reproductive organs show remarkable cyclic changes in morphology and function in response to a combination of hormones. Evidence has accumulated suggesting that phosphoinositide turnover and the consequent diacylglycerol (DG) protein kinase C (PKC) pathway are intimately involved in these mechanisms. The present study has been performed to investigate the gene expression, cellular localization, and enzymatic activity of the DG kinase (DGK) isozymes that control the DG-PKC pathway. Gene expression for DGK, -, -, and - was detected in the ovary and placenta. Intense expression signals for DGK and - were observed in the theca cells and moderate signals in the interstitium and corpora lutea of the ovary. On the other hand, signals for DGK were seen more intensely in granulosa cells. In the placenta, signals for DGK and - were observed in the junctional zone, whereas those for DGK were detected in the labyrinthine zone. At higher magnification, the signals for DGK were mainly discerned in giant cytotrophoblasts, and those for DGK were found in small cytotrophoblasts of the junctional zone. DGK signals were observed in all cellular components of the labyrinthine zone, including mesenchyme, trabecular trophoblasts, and cytotrophoblasts. DGK signals were detected in the junctional zone on day 13 and 15 of pregnancy and were diffusely distributed both in the labyrinthine and junctional zones at later stages. The present study reveals distinct patterns of mRNA localization for DGK isozymes in the rat ovary and placenta, suggesting that each isozyme plays a unique role in distinct cell types in these organs.This work was supported by Grants-in-Aids from the Ministry of Education, Culture, Sports, Science, and Technology (MEXT) of Japan, the Uehara Memorial Foundation, the ONO Medical Research Foundation, the Ciba-Geigy Foundation (Japan) for the Promotion of Science, the Kato Memorial Bioscience Foundation, and the Yamagata Health Support Foundation (to K.G.).     

The Darwinian revolution as viewed by a philosophical biologist

Darwin proclaimed his own work revolutionary. His revolution, however, is still in progress, and the changes that are going on are reflected in the contemporary historical and philosophical literature, including that written by scientists. The changes have taken place at different levels, and have tended to occur at the more superficial ones. The new ontology that arose as a consequence of the realization that species are individuals at once provides an analytical tool for explaining what has been happening and an example of the kind of changes that seem in order. It provides a clear distinction between the roles of history and of laws of nature. Pre-Darwinian evolution was superficial in the sense that it treated change as either as something pre-ordained or else due to timeless laws of nature, rather than historical contingency. Darwinism puts the ontological emphasis upon concrete, particular things (individuals) and therefore delegitimizes both essentialistic and teleological ways of thinking. However, traditional ways of thinking have persisted, if not explicitly, then often as assumptions and procedures that are merely implicit or even unconscious. As a result, anti-evolutionary attitudes continue to influence the practice of evolutionary biology as well as the study of its history and philosophy.     

Ernst Mayr as community architect: Launching the society for the study of evolution and the journalEvolution

Ernst Mayr's contributions to 20th century biology extend far beyond his defense of certain elements in evolutionary theory. At the center of mid-century efforts in American evolutionary studies to build large research communities, Mayr spearheaded campaigns to create a Society for the Study of Evolution and a dedicated journal,Evolution, in 1946. Begun to offset the prominence ofDrosophila biology and evolutionary genetics, these campaigns changed course repeatedly, as impediments appeared, tactics shifted, and compromises built a growing coalition of support. Preserved, however, were designs to balance the community and journal with careful equation of status and explicit partitioning of responsibilities within the working coalition. Choice terms such as cooperation and unity carried a strong political message. Mayr's editorship ofEvolution provides a superb example of these balancing efforts. The mid-century infrastructural activities described herein also represented aggressive attempts to leverage control across several layers of community. Leaders of these campaigns sought: (1) to promote evolutionary studies as a modernized research discipline and place it at the center of American biology, (2) to promote evolutionary studies within existing disciplines — e.g. systematics, genetics, and paleontology, (3) to foster certain research styles within evolutionary studies, and (4) to emphasize certain solutions to prominent research questions. Throughout, Mayr interjected his priorities, tactics and energy.     

Tree thinking cannot taken for granted: challenges for teaching phylogenetics

Tree thinking is an integral part of modern evolutionary biology, and a necessary precondition for phylogenetics and comparative analyses. Tree thinking has during the 20th century largely replaced group thinking, developmental thinking and anthropocentricism in biology. Unfortunately, however, this does not imply that tree thinking can be taken for granted. The findings reported here indicate that tree thinking is very much an acquired ability which needs extensive training. I tested a sample of undergraduate and graduate students of biology by means of questionnaires. Not a single student was able to correctly interpret a simple tree drawing. Several other findings demonstrate that tree thinking is virtually absent in students unless they are explicitly taught how to read evolutionary trees. Possible causes and implications of this mental bias are discussed. It seems that biological textbooks can be an important source of confusion for students. While group and developmental thinking have disappeared from most textual representations of evolution, they have survived in the evolutionary tree drawings of many textbooks. It is quite common for students to encounter anthropocentric trees and even trees containing stem groups and paraphyla. While these biases originate from the unconscious philosophical assumptions made by authors, the findings suggest that presenting unbiased evolutionary trees in biological publications is not merely a philosophical virtue but has also clear practical implications.

System of pleiotropic polygenes in the Cucurbitacea Ecballium elaterium (L.) Rich. related to durability and size of plant

Summary The statistical association between the characters life durability of plant and size of plant observed in a set of samples — cultivated forming a system of randomly balanced incomplete blocks — and corresponding to filial generations (pure, hybrid or backcross) from hybridization between the monoecious subspecies and the dioecious subspecies of the Cucurbitacea Ecballium elaterium (L.) Rich, respectively, is in concordance with the hypothesis that the system of polygenes governing the life durability of the plant in this species and the system of polygenes governing the size of the plants belong to the same system of polygenes. This system of pleiotropic polygenes governs the size and life durability of the plants at the same time.