A detailed serological analysis of a xenogeneic anti-Ia serum

Rabbit anti-mouse-Ia serum was raised against Ia specificities present in CBAJH (H-2 _k) serum. This xenogeneic antiserum was considered to react with similar specificities to those detected by mouse anti-Ia^k alloantisera and more evidence is now presented for this contention. By absorption, the xenogeneic antiserum was found to react with spleen, lymph node, bone marrow, and thymus, reactions similar to that found with the allogeneic anti-Ia^k antiserum. Furthermore, red cells, platelets, brain, kidney, and liver could not absorb the activity from the xenogeneic antiserum, demonstrating the selective tissue distribution of the antigens reactive with this serum. This reactive population was previously shown to consist of B cells and a subpopulation of T cells. In a backcross study of (C57BL/6 × A)F₁ × C57BL/6, the rabbit anti-Ia and mouse anti-Ia reactions were found to segregate together, and some evidence for the genetic regulation of the expression of Ia specificities was also found. By direct testing, and by absorption testing using a number of strains, the xenogeneic antiserum was shown to contain high titers of antibody to Ia.1, 3, 7, 15, and 17; lower titers to Ia.19, and 22; little antibody to Ia.18, and no reaction for the private specificity Ia. 2, although the multiple absorptions required to define these specificities may have observed some reactions. The data indicate that the xenogeneic and allogeneic anti-Ia_k antisera recognize similar Ia determinants, which map to theLA, IE andIC subregions of theH-2 complex. These have been given the same specificity designation as the allogeneic specificities, but they are separately identified by a prime (').     

The expression of I-Ed molecules in F1 hybrid mice detected with antigen-specific,I-Ed-restricted cloned T-cell lines

The expression of polymorphic determinants on I-E molecules is largely dependent on allelic variation in the E chain. We have previously analyzed the expression of E ^k and E ^b chains in F₁ hybrid mice by a combination of techniques, and have shown that functional variation detected by the responsiveness of cloned T-cell lines specific for these molecules correlates well with serological determination of E expression. In the present study, we have extended our analysis to E ^d expression in F₁ hybrid mice. We show that E ^d is relatively poorly expressed in three F₁ combinations: H-2 ^d× H-2 ^b, H-2 ^d× H-2 ^s, and H-2 ^d× H-2 ^u. The former two crosses express E chains from the H-2 ^dparent only; when recombinant strains carrying E ^b or E ^s and an active E gene are used, E ^d expression is significantly increased. On the other hand, H-2 ^umice synthesize E chains; the poor expression of E ^d chains in this F₁ hybrid apparently reflects the strong preferential association of E ^u chains with all E molecules thus far analyzed. These results confirm that E chains compete for binding to E chains and that preferential association of different allelic forms of E chains with E chains is a generalized phenomenon. They also illustrate the importance of the rate of biosynthesis of Ia chains for cell-surface expression.     

The genetics of adult-plant blackleg (Leptosphaeria maculans) resistance from Brassica juncea in B. napus

The genetic control of adult-plant blackleg (Leptosphaeria maculans) resistance in a Brassica napus line (579NO48-109-DG-1589), designated R13 possessing Brassica juncea-like resistance (JR), was elucidated by the analysis of segregation ratios in F₂ and F₃ populations from a cross between R13 and the highly blackleg-susceptible B. napus cultivar Tower. The F₂ segregration ratios were bimodal, demonstrating that blackleg resistance in R13 was controlled by major genes. Analysis of the segregation ratios for 13 F₃ families indicated that blackleg resistance in these families was controlled by three nuclear genes, which exhibited a complex interaction. Randomly sampled plants of F₃ progeny all had the normal diploid somatic chromosome number for B. napus. The similarities between the action of the three genes found in this study with those controlling blackleg resistance in B. juncea is discussed.     

Polymorphism ofTcrb andTcrg genes in Biozzi mice: Segregation analysis of a newTcrg haplotype with antibody responsiveness

Tcrb andTcrg gene polymorphism was investigated in high (H) and low (L) responder Biozzi mice from selection I, II, and GS by Southern blot analysis with appropriateV andC probes. No polymorphism of theTcrb haplotype was detected between H and L mice in all selections which were all found to be of the BALB/c type. The H-I and H-II g genotype was of BALB/c and DBA/2 type, respectively. In contrast, a newTcrg haplotype shared by L-I and L-II mice was identified and characterized by C1, 2, 3, C4, V1, 2, 3, V5, and V6 restriction fragment length polymorphisms (RFLPs).Tcrg genotypes were not fixed in the GS selection and two additional new haplotypes were identified in two L-GS mice. An attempt was made to correlate the L-Ig genotype with the low responder status by analyzingg haplotypes among highest and lowest responder (H-1 x L-I)F₂ hybrids immunized with sheep red blood cells (SRBC). No correlation was found in this segregation study, whereas a highly significant one was established with theH-2 haplotype, a locus already known to participate in the genetic control of H-I/L-I difference. The lack of correlation between SRBC response and theTcrg genotype was consistent with the heterogenousg haplotypes found in mice of the GS selection. Together, the present results suggest that H and L mice have the sameTcrab potential repertoire and that T-cell receptor (Tcr) genes cannot be considered as immune response genes in this model. Our results also indicate that the F₂ segregation analysis, given a polymorphic gene, is suitable for an investigation of its immune response functions.     

Cloned T cells recognize Trichinella spiralis antigen in association with an Ek βEk α restriction element

A method is described for the production of T-cell lines and clones specific for solubilized Trichinella spiralis antigens. hese T cells are antigen-specific and do not respond to challenge with a third party antigen (lysozyme). The proliferation responses of the cloned T cells are specifically inhibited by anti-I-E but not by anti I-A subregion monoclonal reagents. The inhibition patterns obtained are consistent with cis-gene complementation in B10.K cells involving the E^k -chain and the E^k -chain of the I-E molecule. Inhibition is obtained with an E^k -specific monoclonal antibody (H9-14.8) but not with an A^k -specific monoclonal antibody (10-2.16). Inhibition was also observed with Ia.7-specific (H40-242) or Ia.22-specific (17-3-3) monoclonal antibodies. The inhibition patterns were confirmed by antigen presentation experiments using recombinant inbred mice. Only B 10.K (E^k E^k spleen cells and not B 10.A(5R) (E^b E^k ) or B10.S(9R) (E^s E^k ) spleen cells could effectively present T. spiralis antigens. The role of hybrid Ia molecules in the immune response to T. spiralis is discussed.     

Recombination hot spots within the I region of the mouse H-2 complex map to the E β and E α genes

Recombinant mouse strains with crossovers in the I region of the H-2 major histocompatibility complex were examined by restriction fragment analysis for the presence of polymorphic restriction sites within the E and E genes. Nine recombinant mouse strains were shown to have crossed over within a 5 kb DNA segment that contains the large intron between the second and third exons of the E gene. These results are in accord with previous studies mapping a recombination hot spot within this gene. Seven recombinant mouse strains between the p and k haplotypes were shown to have crossed over in a 6 kb segment within the E gene. These results show the existence of a recombination hot spot within the E gene. Comparison of the H-2 haplotypes involved in these two recombination hot spots suggests that a specific DNA sequence in b, s, f, and q haplotypes may act to promote recombination in the E gene and a specific DNA sequence in the p haplotype may act to promote recombination in the E gene.     

Weitere Untersuchungen an Nachkommen von Kürbis-Artbastarden

Zusammenfassung Aus 1950 durchgeführten Artkreuzungen zwischenCucurbita maxima Duch. und weichschaligemC. pepo L. wurden mittels Embryonenkultur F₁-Bastarde gewonnen. An Hand zweimaliger Rückkreuzung mitC. maxima und anschließender Selbstung gelang es, zum Teil wiederum mit Hilfe der Embryonenkultur, 4 verschiedene Bastardkombinationen bis in die F₄ zu verfolgen. In dieser Generation spalteten (1954 und 1955) bei Auswertung von 72 Familien mit insgesamt 733, davon 600 fertilen Pflanzen in 2 Bastardlinien resp. 3 Familien, insgesamt 4 weichschalige Pflanzen heraus. Da diese Pflanzen frei abblühten und das gewonnene Saatgut heterozygot war, mußten erneut zwei Selbstungsgenerationen aufgezogen werden, die in den Jahren 1956–58 mehrere erbreine Stämme weichschaliger Pflanzen lieferten.Nach Kurzer Einführung in die Anatomie der Samenschale und ihre verschiedenen Typen sowie in die bisherigen Ergebnisse genetischer Untersuchungen zur Frage der Testaausbildung wird an Hand der Spaltungsergebnisse beim erstmaligen Auftreten weichschaliger Pflanzen in der F₄ sowie der nach erneuter Selbstung in der F₆ erzielten Spaltungsverhältnisse aufgezeigt, daß das Merkmal weichschalig durchzwei Gene bedingt ist. Nach kurzer Besprechung von Spaltungen pachyspermer und leptospermer Pflanzen in der F₃ wird die Variabilität der Testaausbildung bis zum Auftreten weichschaliger Pflanzen beschrieben.In einem weiteren Kapitel wird die Variabilität in der Ausbildung der weichschaligen Testa der Bastardnachkommen, das Ergebnis der Selektion auf rein weichschalige Typen im Verlauf der 7. bis 11. Generation (1957–1964) und die Größenvariabilität der Samen der weichschaligen Typen im Vergleich zu den Ausgangsarten sowie einem Weltsortiment vonC. maxima erörtert. Zur Veranschaulichung dieser Verhältnisse wird die erstmalig vonF. Galton benutzte Methode der Contourellipsen herangezogen, deren Berechnung und zeichnerische Darstellung mit Hilfe der Großrechenanlage IBM 7090 erfolgte.Abschließend wurden die beobachtetenMendel-Spaltungen unter dem Gesichtspunkt der die Pollenmeiose sowie die Pollenentwicklung der F₁ charakterisierenden Störungen, ferner die Bedeutung des erzielten Ergebnisses für die Züchtung diskutiert. Es wird eine Formel für die Berechnung der Wahrscheinlichkeit mitgeteilt, mit der unter ähnlichen Bedingungen rezessive Pflanzen erwartet werden können, wenn das rezessive Merkmal durch n Faktoren bedingt ist und im Anschluß an die Artkreuzungj Rückkreuzungen mit der dominanten Art erforderlich sind. Auch auf die Bedeutung von Untersuchungen der vorliegenden Art für Fragen der Genlokalisation und Genanalyse wird hingewiesen.

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Further investigations on progeny of pumpkin species hybridsI. Seed formation, especially in progeny with soft seed coat, and the regularity in transmission of a recessive trait from one parental species to fertile progeny with characteristics of the other parental species

Summary Using embryo culture, we obtainedF ₁-hybrids from interspecific crosses realized in 1950 betweenCucurbita maxima Duch. and a form ofC. pepo L. with soft shell seed or weichschaligen Samen (a so called naked seed type). These and their descendants, the latter in part also obtained by embryo culture, were back-crossed toC. maxima, and theF ₃ selfed. In this way we obtained descendants from 4 different crosses between the two species.Studying (in 1954 and 1955) 72F ₄-families with a total of 733 (600 fertile) plants, we found 4 plants with soft shell seeds. They were descended from 3F ₄-families or from 2 crosses respectively between the above named species.Since these plants flowered in the presence of other progeny from our species crosses, their seed was heterozygous, and two generations of selfing were necessary to obtain (in 1956–1958) different true breeding families, whose plants furnished homozygous soft shell seed.The anatomy of seed coats and results of studies by other authors on the genetic control of different seed coat types are discussed briefly. Given the segregation ratios in theF ₄ of our soft shell seeds, as well as those obtained inF ₆ after renewed selfing, it is shown that the trait soft shell is controlled by two genes. After a short discussion of segregation in theF ₃ of pachyspermic and leptospermic plants, the variability of seed coat formation until the appearance of soft shell seed is described.In a special chapter we discuss the variability of the soft-shell seed character in hybrid progeny, the result of our selection experiments from the 7^th up to the 12^th generation (1957–1964), and the variability in the seed size of our types compared with that of pure species and of a collection ofC. maxima. To illustrate these relationships we used the method of contour-ellipses introduced byF. Galton. These ellipses were computed and designed by means of the computer IBM 7090.Finally we discuss Mendelian segregation of our plants in the light of abnormalities characteristic for meiosis of pollen-mother-cells and pollen development inF ₁, and the significance of the results to plant breeding. A formula is given for calculating the probability of obtaining recessive plants when the recessive trait depends onn factors, and whenj backcrosses to the dominant variety are necessary to establish a stable strain. The importance of experiments of this kind to the problem of gene localization and gene analysis is also pointed out.

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Herrn Professor Dr. Dr. Dr. h. c. O.Heinisch, geb. 23. 4. 1896, gest. 3. 5. 1966, zum Gedächtnis.     

The inheritance of radiation induced semi-sterility in Rhodnius prolixus

Eggs from crosses of 40 adult male R. prolixus irradiated with 6K rad -rays with normal females had a mean fertility of 23.9%, only 2 crosses being completely sterile. The 86 F₁ progeny of both sexes, when outcrossed with normal mates, had a mean egg fertility of 12.6%, and 43 of these matings were completely sterile. Twenty-eight F₂ bugs reared from F₁ x normal crosses were mated with normal partners and had a mean fertility of 44.6%, 6 of them being fully fertile, a reversal towards normal fertility. Cytogenetic examination of F₁ F₂ and F₃ males showed that these changes in fertility correlated well with the degree of chromosomal abnormality found. The very high recovery rate of translocations in F₁ generation males can be related to the holocentric chromosomes of these bugs which precludes the formation of dicentric chromosomes which are inviable in monocentric species. In F₁ and F₂ males the majority of translocations were associated as chains of III+I or as chains of IV. Only one bug was found with a ring of IV chromosome association and it is suggested that chromosome morphology, combined with a low chiasma frequency, favours chain association. Most chain multivalents showed linear orientation which may lead to duplication deficiencies and zygotic death. However parallel, indifferent and the more stable convergent modes of chain orientation were also all observed indicating that survival of some translocations in this species may be possible. The survival to the F₂ generation of chromosomal fragments confirmed the holocentric nature of triatomine chromosomes. It is suggested that semi-sterile males would prove more effective than releases of completely sterile males for reducing wild populations of R. prolixus, because of the delayed effects of sterilizing radiation consequent upon the holocentric structure of triatomine chromosomes.     

Identity of molecules bearing murine ia alloantigenic specificities Ia.7 and Ia.22: Evidence for a single type of I-E molecule in homozygotes

In homozygous mice bearingI regions derived from haplotypek, only a single type of Ia molecule bearing the alloantigenic specificities Ia.7 and Ia.22 was found using techniques of sequential immune precipitation and tryptic peptide analysis. As suggested at the fourth Ir Gene Workshop (Sachs 1978), Ia.7 is considered here to be an antigenic determinant associated with I-E-subregionencoded molecules, i. e., it is excluded from theI–C subregion. TheI–C subregion is currently defined mainly by functional traits. It is now known that the I-E molecules are composed of an chain encoded in theI–E subregion, and a chain encoded in theI–A subregion. Since theI–C subregion is not involved with the determination of these Ia molecules, and since in homozygotes there is apparently only a single type of molecule bearing both specificities Ia.7 and Ia.22, the term I-E/C molecule should probably be dropped in favor of the simpler designation I-E.     

Generation of cytotoxic T lymphocytes by the H-2-encoded E molecules

Primary CML was generated in strain combinations 4R anti-2R, R107 anti-3R, 7R anti-9R, and GD anti-R101 — combinations differing only in the chromosomal interval between the I-A subregion and the Ss locus. No CML could be obtained in any of the reciprocal combinations of these strains. This unidirectionality of the CML reaction correlates with the expression or nonexpression of the E molecules encoded by this interval: the reaction occurred in combinations in which the responder strain lacked and the stimulator strain expressed the E molecules in the cell membrane. The CML reaction was positive when tested on LPS-stimulated blast cells but weak on Con A-stimulated blasts and negative on la-negative tumor cells. The reaction could partially be inhibited by monoclonal antibodies to the Ia.m7 determinant presumably carried by the E chain; it was not inhibited by monoclonal antibodies specific for Ia determinants carried by the A molecule. Cytotoxic lymphocytes specific for a particular combination of E and E chains reacted with all cells expressing the particular E chain, no matter what the origin of the E chain associated with the E chain was. Attempts to generate cytotoxic lymphocytes specifically reactive with allotypic determinants on E chains failed. In F₁ hybrids expressing one type of E chain and two types of E chain, the single E chain was found to associate with both chains, producing two types of E molecule. We conclude from these experiments that the CML determinants detected in the strain combinations used are encoded by the same loci as those coding for the serologically detectable la determinants. The CML determinants are carried by the E chains; the E chain does not contribute in any way to the specificity of determinant recognition by the cytotoxic lymphocytes. No evidence for allotypic variation of the E chain as detected by the CML assay could be found in this study.     

The single DR β gene of the DRw8 haplotype is closely related to the DR β 3III gene encoding DRw52

In most individuals two HLA-DR genes are expressed from each chromosome. One of these genes encodes one of the classical DR specificities, while the other encodes either of the supertypic DRw52/DRw53 specificities. In addition to these genes usually one or two DR pseudogenes are present. In contrast, the DRw8 chromosomal region only contains a single DR gene. To determine the relationship of this single gene to the multiple DR genes of other DR specificities, comparisons of Southern genomic blots were carried out. In this analysis genomic clones for each individual DR chain locus were included. The DR w8 gene was indistinguishable from the DR III gene of DR3 cells (encoding DRw52), suggesting that it is closely related to the latter gene. The functional implications of this finding are discussed.     

Optimizing control of a continuous stirred tank fermenter using a neural network

Feedforward neural networks are a general class of nonlinear models that can be used advantageously to model dynamic processes. In this investigation, a neural network was used to model the dynamic behaviour of a continuous stirred tank fermenter in view of using this model for predictive control. In this system, the control setpoint is not known explicitly but it is calculated in such a way to optimize an objective criterion. The results presented show that neural networks can model very accurately the dynamics of a continuous stirred tank fermenter and, the neural model, when used recursively, can predict the state variables over a long prediction horizon with sufficient accuracy. In addition, neural networks can adapt rapidly to changes in fermentation dynamics.List of Symbols F Dimensionless flow rate (F/ V₀) - F m³/h Flow rate - F ₀ m³/h Inlet flow rate - J Objective cost function - K _i Dimensionless constant in Eq. (3) (k _i /s₀) - k _i kg/m³ Substrate inhibition constant in Haldane model - k _m Dimensionless constant in Eq. (3) (k _s /s₀) - k _m kg/m³ Substrate inhibition constant in Haldane model - n prediction horizon - S Dimensionless substrate concentration (s/s₀) - s kg/m³ Substrate concentration - t h Time - v Dimensionless volume (V/V₀) - V m³ Liquid volume in fermenter - W _ij , W _jk Weight matrices in neural network - X Dimensionless biomass concentration - x kg/m³ Biomass concentration - Y Biomass/substrate yield coefficient - Weighting factor in Eq. (4) - Dimensionless specific growth rate (/ ) - 1/h Maximum specific growth rate - 1/h Specific growth rate - Dimensionless time ( t)     

L and D presequence peptides derived from the precursor of F1β subunit of the ATP synthase inhibit mitochondrial protein import by interaction with import machinery

We investigated the effect of L and D enantiomers of a 25-residue peptide derived from the N-terminal region of the presequence of Nicotiana plumbaginifolia F₁ subunit of the ATP synthase, pF₁(1, 25), on import into spinach leaf mitochondria. Three in vitro synthesized precursor proteins using different import pathways were used. Import of the precursor proteins of F₁ subunit of the ATP synthase, pre-F₁, and the alternative oxidase, pre-AOX, required addition of external ATP, whereas the chimeric precursor containing the N-terminal 84 amino acids of the cytochrome b ₂ precursor protein linked to dihydrofolate reductase, pre-b ₂(1, 84)-DHFR was not dependent on ATP. Import of pre-F₁, and pre-AOX was inhibited already at 1 M and 3 M concentration of the L and D enantiomers, whereas inhibition of import of pre-b ₂(1, 84)-DHFR, occurred at concentrations >10 M of both enantiomers. Binding efficiency of the precursor proteins was not affected by addition of the L and D enantiomers. There was no correlation between inhibition of import of pre-F₁ and pre-AOX and dissipation of membrane potential measured as a decrease of Rhodamine 123 fluorescence quenching. The inhibitory effect of the L and D presequence enantiomers on import of pre-F₁ and pre-AOX was concluded to occur within the outer membrane translocase machinery beyond the initial precursor receptor interaction. Furthermore, the fact that the D enantiomer had the same effect as the natural peptide showed that interaction of the presequence with the import machinery was not dependent on chiral properties of the presequence.     

The photosynthetic F1-α3β3 and α1β1 catalytic core complexes

Minimal photosynthetic catalytic F₁() core complexes, containing equimolar ratios of the and subunits, were isolated from membrane-bound spinach chloroplast CF₁ and Rhodospirillum rubrum chromatophore RrF₁. A CF₁-₃₃ hexamer and RrF₁-₁₁ dimer, which were purified from the respective F₁() complexes, exhibit lower rates and different properties from their parent F₁-ATPases. Most interesting is their complete resistance to inhibition by the general F₁ inhibitor azide and the specific CF₁ inhibitor tentoxin. These inhibitors were earlier reported to inhibit multisite, but not unisite, catalysis in all sensitive F₁-ATPases and were therefore suggested to block catalytic site cooperativity. The absence of this typical property of all F₁-ATPases in the ₁₁ dimer is consistant with the view that the dimer contains only a single catalytic site. The ₃₃ hexamer contains however all F₁ catalytic sites. Therefore the observation that CF₁-₃₃ can bind tentoxin and is stimulated by it suggests that the F₁ subunit, which is required for obtaining inhibition by tentoxin as well as azide, plays an important role in the cooperative interactions between the F₁-catalytic sites.Abbreviations CF₀F₁ chloroplast F₀F₁ - CF₁ chloroplast F₁ - CF₁ chloroplast F₁ subunit - CF₁ chloroplast F₁ subunit - CF₁() a complex containing equal amounts of the CF₁ and subunits - MF₁ mitochondrial F₁ - RrF₀F₁ Rhodospirillum rubrum F₀F₁ - RrF₁ R. rubrum F₁ - RrF₁ R. rubrum F₁ subunit - RrF₁ R. rubrum F₁ subunit - RrF₁() a complex containing equal amounts of the RrF₁ and subunits - Rubisco Ribulose-1,5-bisphosphate carboxylase - TF₁ thermophilic bacterium PS3 F₁     

E infα supk transgene in B10 mice suppresses the development of myasthenia gravis

Mice bearing the H-2 ^bhaplotype are susceptible to the development of experimental autoimmune myasthenia gravis (EAMG), induced by acetylcholine receptor (AChR) autoimmunity. One of the genes influencing EAMG susceptibility has been mapped to the A ^blocus of the major histocompatibility complex, and the A chain has been implicated in the pathogenesis. Mice of the H-2 ^bhaplotype, including C57BL/10 (B10), have a genomic deletion of the E gene and therefore fail to express the E molecule on their cell surface. To test the hypothesis that failure to express the cell surface E molecule in B10 mice contributes to EAMG pathogenesis, E _inf ^supk transgenic B10 mice expressing the T molecule were examined. Expression of the E molecule in E _inf ^supk transgenic B10 mice partially prevented the development of EAMG.     

Complexity at the mouse minor histocompatibility locusH-4

The fine immunogenetics of the chromosome 7 mouse minor histocompatibility (H) locusH-4 was investigated. Both class I major histocompatibility complex (MHC)-restricted cytotoxic T lymphocytes (CTL) and class II MHC-restricted helper T cells (TH) specifically reactive with H-4 antigens were isolated as clones and were used as genetic probes for classical backcross segregation analysis. Results of a four point cross indicated that theH-4 locus was actually comprised of two genes, that have been designatedH-46 andH-47. The former encodes antigens recognized by the TH and the latter encodes antigens recognized by the CTL. Moreover, these two genes could be separated from the gene pink-eyed dilution (p) which was found to be sandwiched between them. The functional significance of a minor H congenic strain differing by both TH-definedH-46 and CTL-definedH-47 was addressed using F₁ complementation tests. Such studies indicated that immune responses against H-46 antigens was required for generation of H-47-specific CTL. Altogether, these results suggest selective presentation of different minor H gene products by class I or class II MHC proteins and that the minor H locusH-4 may have necessarily included both TH and CTL-defined genes because of requisite TH-CTL collaboration. Address correspondence and offprint requests to: D. C. Roopenian.     

Distance-constraint approach to protein folding. I. Statistical analysis of protein conformations in terms of distances between residues

A statistical analysis of protein conformations in terms of the distance between residues, represented by their C atoms, is presented. We consider four factors that contribute to the determination of the distanced _i,i+k between a given pair ofith and(i+k)th residues in the native conformation of a globular protein: (1) the distancek along the chain, (2) the size of the protein, (3) the conformational states of theith to(i+k)th residues, and (4) the amino acid types of the and(i+k)th residues. In order to account for the dependence on the distancek along the chain, the statistics are taken for three ranges, viz., short, medium, and long ranges (k8; 9k20; andk21; respectively). In the statistics of short-range distances, a mean distanceD _k and its standard deviationS _k are calculated for each value ofk, with and without taking into account the conformational states of all residues fromi toi+k (factors 1 and 3). As an Appendix, the relations for converting from the distances between residues into other conformational parameters are discussed. In the statistics of long-range distances, a reduced distanced* _ij (the actual distance divided by the radius of gyration) is used to scale the data so that they become independent of protein size, and then a mean reduced distanceD _l (a, a) and its standard deviation _l (a, a) are calculated for each amino acid pair (a, a) (factors 2 and 4). The effect of the neighboring residues along the chain on the value of the distanced* _ij is explored by a linear regression analysis between the actual reduced distanced* _ij and the mean value over theD _l for all possible pairs of residues in the two segments of the (i–2)th to the (i+2)th and the (j–2)th to the (j+2)th residues. The effect is assessed in terms of the tangentA _l (a, a) of the calculated regression line for each amino acid pair (a, a). In the statistics of medium-range distances, only factors 1 and 4 are considered, to simplify the analysis. The scaled distanced _i,i+k =(d _i,i+k -D _k )/S _k is used to eliminate the dependence onk, the distance along the chain. The propertiesD _m (a, a), _m (a, a) andA _m (a, a) corresponding toD _l (a, a), _l (a, a), andA _l (a, a), and also calculated for each amino acid pair (a, a). The results are interpreted as follows: the smaller values ofD _l (a, a) andD _m (a, a) indicate a preference of the pair (a, a) for a contact (e.g., pairs between hydrophobic amino acids, and pairs of Cys with aromatic amino acids), and the larger values of these quantities indicate a preference for distant mutual location (e.g., pairs between strong hydrophilic amino acids); the smaller values of _l (a, a) and _m (a, a) indicate a strong preference for either contact or noncontact (e.g., pairs between hydrophobic amino acids, and pairs between strong hydrophobic and hydrophilic amino acids, respectively), and the larger values of these quantities indicate the ambivalent/neutral nature of the preference for contact and noncontact (e.g., pairs containing Ser or Thr); the smaller values ofA _l (a, a) andA _m (a, a) indicate that the distance of an (a, a) pair is determined independently of the amino acid character of the neighboring residues along the chain (e.g., some pairs of Cys or Met with other amino acids) and the larger values of these quantities indicare that such amino acid character contributes strongly to the determination of the distance (e.g., pairs containing Ser or Thr, and pairs between amino acids with small side chains). The difference between the statistics for the long- and medium-range distances is also discussed; the former reflect the difference between the hydrophobic and hydrophilic character of the residues, but the latter cannot be easily interpretable only in terms of hydrophobicity and hydrophilicity. The data analyzed here are used in the optimization of an object function to compute protein conformation in a subsequent paper.     

Plant regeneration via somatic embryogenesis in Styrian pumpkin: cytological and biochemical investigations

Somatic embryo formation was induced from cotyledon explants of Styrian pumpkin (Cucurbita pepo L. subsp. pepo var. styriaca Greb.) by using a solid MS medium supplemented with 16.11M NAA and 4.44M BA or 26.85M NAA and 13.32M BA. The callus proliferation was more efficient on medium supplemented with 26.85M NAA and 13.32M BA. In contrast, the embryogenic response was higher on medium with lower concentrations of growth regulators (16.11M NAA and 4.44M BA). The time needed for embryo induction did not depend on medium composition. Embryos in globular stage were transferred to three different maturation media, containing 2.89M GA₃ in combination with 0.54M NAA, 11.42M IAA and growth regulator-free medium. The germination rate was the highest when embryos were cultured on medium with 11.42M IAA. Plantlets grown on this medium achieved maturity suitable for transplantation into soil within 9 to 10weeks. The regenerated plants were successfully transferred into field and developed fertile flowers and set fruits. Biochemical analysis showed significant lower total glutathione levels among in vitro grown plantlets compared to seedlings grown in soil. When the plantlets were transferred into soil, they reached a normal size within a month and the glutathione concentration was comparable to seed-derived plants at the same developmental stage. Transmission electron microscopy was used to investigate possible differences in the ultrastructure of cells from callus cultures, and leaf cells of regenerated and seed-derived plants. Differences in the ultrastructure were found within chloroplasts which contained only single thylakoids, large starch grains and small plastoglobuli in callus cells in comparison to leaf cells, which possessed a well developed thylakoid system, small starch grains and large plastoglobuli.     

Microbial transformation of ginsenoside Rb1 by Rhizopus stolonifer and Curvularia lunata

Of 49 microbial strains screened for their capabilities to transform ginsenoside Rb₁, Rhizopus stolonifer and Curvularia lunata produced four key metabolites: 3-O-[-d-glucopyranosyl-(1,2)--d-glucopyranosyl]- 20-O-[-d-glucopyranosyl]-3,12, 20(S)-trihydroxydammar-24-ene (1), 3-O-[-d-glucopyranosyl-(1,2)--d- glucopyranosyl]-20-O-[-d-glucopyranosyl]-3,12, 20(S)-trihydroxydammar-24-ol (2), 3-O-[-d-gluco- pyranosyl-(1,2)--d-glucopyranosyl]-3, 12, 20(S)-trihydroxydammar-24-ene (3), and 3-O--d-glucopyranosyl-3, 12, 20(S)-trihydroxydammar-24-ene (4), identified by TOF-MS, ¹H- and ¹³C-NMR spectral data. Metabolites 1, 3 and 4 were from the incubation with R. stolonifer, and 1 and 2 from the incubation with C. lunata. Compound 2 was identified as a new compound.     

Biochemical documentation of allelic variation of the I-E antigens of the d,k, p,r, and u haplotypes

The extent of allelic variation of the E and E polypeptide chains of the I-E antigens from the H-2> ^d ,H-2 ^k , H-2 ^p , H-2 ^r , and H-2 ^u haplotypes is described. E and E chains were individually labeled with arginine or lysine and compared by tryptic peptide analysis. The results indicate minimum variability among the E polypeptides encoded by the d, k, p, and r haplotypes. However, the E ^u chain differed significantly from the other allelic E gene products. On the other hand, the E alleles demonstrated substantial variability with the E ^d being notably less similar to the other alleles than they are to each other. These findings are consistent with a number of observations regarding the serology and functions of the I-E antigens.Abbreviations MHC major histocompatibility complex - NMS normal mouse serum - NP-40 Nonidet P-40 - NTS 0.25% NP-40, 10 mM Tris-Cl, 0.15 M NaCl (pH 7.4) - SDS sodium dodecylsulfate - SDS-PAGE polyacrylamide gel electrophoresis in the presence of SDS