Polarized packaging of bacteriophage lambda chromosomes.

Packaging of chromosomes during lytic growth of cohesive end-site (cos site) duplication strains of phage lambda is strikingly asymmetric; the duplication segment is generally at the left chromosome end (Emmons, 1974). In the present study, the packaging of non-replicating cos duplication chromosomes is shown to be similarly asymmetric. It is, therefore, likely that the packaging process itself is polarized, in an A to R direction. This conclusion is based on the study of packaging of repressed prophage chromosomes of dilysogenic strains of Escherichia coli by a heteroimmune helper. In these strains one of the two prophages contains a cos duplication (see Fig. 2). The frequency with which helper-packaged chromosomes carry the cos duplication segment agrees well with expectations derived from lytically grown phage.Haploid segregants are produced from the cos duplication strain at a lower level (35%) during lytic growth than during packaging of repressed prophage chromosomes (50%). This is expected if chromosomes are packaged processively (in sequence) during lytic growth.Packaging of repressed cos triplication chromosomes by a heteroimmune helper also yields a distribution of haploid and duplication chromosomes that agrees with expectations from lytically grown cos duplication phage and the assumption that the initial cutting of a cos site to initiate a packaging sequence is made at random.Polarized, processive packaging and random initial cutting are elements of a model of lambda chromosome packaging proposed by Emmons (1974), for which our experiments provide support.     

Bacteriophage lambda derivatives carrying two copies of the cohesive end site

A spontaneously arising tandem duplication derivative of bacteriophage lambda has been isolated, which carries two copies of the site where the cohesive ends are formed (designated cos). Its structure has been determined by electron microscopy of DNA heteroduplexes. These heteroduplexes reveal that the duplication is usually, but not always, carried on the left end of the chromosome. A second duplication phage having two copies of cos, constructed by Feiss &; Campbell (1974), has also been studied by electron microscopy and is found to have a similar property.Unlike most tandem duplication derivatives of phage λ, the mutant studied here is not stable during growth in the absence of generalized recombination, but segregates both the triplication and the parental phage. This verifies that both cos sites are functional. The triplication does not arise as a result of end-to-end aggregation of phage chromosomes or site-specific recombination catalyzed by the chromosome maturation system at cos. It must therefore result from the cutting of mature ι chromosomes from concatemeric replication intermediates. The pattern of cutting observed shows that the λ cohesive ends are not created by a free nuclease acting on unpackaged DNA. The cutting appears to be influenced by the amount of DNA previously packaged into a phage head. A model for λ packaging is presented which explains the results.The duplication phage of Feiss &; Campbell (1974) carries a novel addition containing self-complementary sequences.     

Gap junction distribution in the Drosophila wing disc mutants vg,l(2)gd,l(3)c43hs1, and l(2)gl4

The density of gap junctions in four Drosophila melanogaster mutants with abnormal wing disc development has been determined using quantitative electron microscopy and compared with the gap junction density in wild-type wing discs. No appreciable differences relative to wild-type controls were found in the cell death mutant vestigial or in the mildly hyperplastic mutant lethal giant disc which could not be accounted for in terms of altered lateral plasma membrane surface density or as an extension of the gap junction growth which normally occurs during the third larval stage of development in wild-type wing discs. However, both the severely hyperplastic mutant l₍₃₎c43^hs1 and the neoplastic mutant lethal giant larva have significant reductions in the gap junction surface density, the number of gap junctions, and the gap junction areal fraction of the lateral plasma membrane compared with wild-type controls. These differences cannot be attributed to altered lateral plasma membrane surface densities which are not significantly different from wild-type control wing discs. The reduced gap junction density in severely hyperplastic and neoplastic wing discs suggests that alterations in the number or distribution of gap junctions may be as disruptive to normal growth and development as their complete absence.     

Packaging of coliphage lambda DNA. II. The role of the gene D protein

The gene D protein (pD) of coliphage λ is normally an essential component of the virus capsid. It acts during packaging of concatemeric λ DNA into the phage prohead and is necessary for cutting the concatemers at the cohesive end site (cos). In this report we show that cos cutting and phage production occur without pD in λ deletion mutants whose DNA content is less than 82% that of λ wild type. D-independence appears to result directly from DNA loss rather than from inactivation (or activation) of a phage gene. (1) In cells mixedly infected with undeleted λ and a deletion mutant, particles of the deletion mutant alone are efficiently produced in the absence of pD; and (2) D-independence cannot be attributed to loss of a specific segment of the phage genome. pD-deficient phage resemble pD-containing phage in head size and DNA ends; they differ in their extreme sensitivity to EDTA, greater density, and ability to accept pD.pD appears to act by stabilizing the head against disruption by overfilling with DNA rather than by changing the capacity of the head for DNA. This is shown by the observation that the amount of DNA packaged by a “headful” mechanism, normally in excess of the wild-type chromosome size, is not reduced in the absence of pD. In fact, pD is required for packaging headfuls of DNA. This implies that a mechanism exists for preventing the entry of excess DNA into the head during packaging of concatemers formed by deletion mutants, and we suggest that this is accomplished by binding of cos sites to the head.The above results show that pD is not an essential component of the nuclease that cuts λ concatemers at cos during packaging, and they imply that 82% of a wild-type chromosome length can enter the prohead in the absence of pD. Yet, pD is needed for the formation of cohesive ends after infection with undeleted phage. We propose two models to account for these observations. In the first, cos cutting is assumed to occur early during packaging. The absence of pD leads to release of packaged DNA and the loss of cohesive ends by end-joining. In the second, cos cutting is assumed to occur as a terminal event in packaging. pD promotes cos cutting indirectly through its effect on head stability. We favor the second model because it better explains the asymmetry observed in the packaging of the chromosomes of cos duplication mutants (Emmons, 1974).     

Studies of l(3)c43hs1 a polyphasic, temperature-sensitive mutant of Drosophila melanogaster with a variety of imaginal disc defects.

The heat-sensitive, lethal mutation l(3)c43^hs1 (3–49.0) produces wide variety of defects in the imaginal discs of Drosophila melanogaster. At permissive temperatures (20°C or lower), homozygotes are viable, but sterile. At 22°C, lethality occurs during the late pupal stage, and at 25°C or higher, lethality occurs during the third larval instar. The imaginal-disc abnormalities observed after exposure to restrictive temperatures include: deficiencies of head structures, duplications and deficiencies of the antenna, a homeotic transformation of the arista to tarsus, duplications and deficiencies of wing and haltere structures, differentiation of amorphous cuticular material in the wing blade, an increase in the number of sex-comb teeth, and disruption of the normal segmentation of the tarsus. Exposure to 27°C for 24 hr at different times in the life cycle revealed that each of these defects has a characteristic temperature-sensitive period (TSP) during the larval stages. Injection of wing discs before and after their TSP showed that the mutation is expressed autonomously. These results are discussed in relation to the role that the l(3)c43⁺ gene plays in the development of imaginal discs.     

Cell and Solution Velocity Constants for the Reaction CO + Hb → COHb at Different Temperatures in Mammals with Different Red Cell Sizes

Using a double beam stopped-flow apparatus, measurements were made of the velocity constant of the reaction CO + Hb → COHb in solution and in the red cells of human beings, rabbits, horses, and goats. The solution constant (l'') at 37°C for human beings was 362 mM ^-1 sec.^-1; in other species l'' was somewhat lower. Two rabbits, despite having apparently identical hemoglobins had significantly different values for l''. The energy of activation (E) of l'' was between 8 and 11 kcal/mole in all cases. The cell reaction constant (l''_c) at 37° was between 61 and 73 mM ^-1 sec.^-1 in all cases; at 37° the trend was for the smaller cells to have the higher l''_c. This cell size effect was much less than previously found for the faster oxygen reaction. This showed that by merely increasing the rate of chemical reaction, it was not possible to increase cell uptake rate beyond a certain level, this level being dependent on the size and membrane properties of the cell. At lower temperatures l'' was a more important factor in determining l''_c than was cell size. The cell membrane was a barrier to gas diffusion in all species. The effect of temperature on l''_c was also measured and was less than its effect on l'' at most temperatures. Temperature effect increased in small cells at low temperatures. Both these findings are in accordance with predictions based on differentiation of Roughton''s equations.     

Temperature-sensitive periods and autonomy of pleiotropic effects of l(1)Nts1, a conditional notch lethal in Drosophila.

Analysis of temperature-shift experiments using strains homo- and/or hemizygous for a temperature-sensitive (ts) mutation of the Notch locus, l(1)N^ts1, has permitted us to localize temperature-sensitive periods (TSPs) both for lethality and for adult ectodermal morphology defects. Discrete TSPs for lethality are localized to the first half of the embryonic period, to the second larval instar, to the third larval instar, and to a 15 hr period immediately after pupation. TSPs for adult morphology defects are localized to the second and third larval instars for eyeless-headless and duplicated antenna, to the third larval instar for small and rough (spl-like) eye, eye scar, fused leg segments, shortened tarsal leg segments, Notch wings, and extra macrochaetae, and to the early pupal period for extra and missing microchaetae, fa^g-like rough eye and thick wing vein defects. Within the third larval instar, distinct patterns of eye, wing, and leg defects are observed. There is a striking similarity between the adult morphology defects and TSPs of l(1)N^ts1 and those of the larval and adult locomotor mutant, shi^ts1 (C. A. Poodry, L. Hall, and D. T. Suzuki, 1973, Develop. Biol.32, 373–386). Expression of l(1)N^ts1 also has been studied in genetic mosaics, in which we find that the pleiotropic effects of l(1)N^ts1 are autonomously expressed.     

Potential Mechanism of the Anti-trypanosomal Activity of Organoruthenium Complexes with Bioactive Thiosemicarbazones

In the search for new metal-based drugs against diseases produced by trypanosomatid parasites, four organoruthenium(II) compounds [Ru₂(p-cymene)₂(L)₂]X₂, where L are bioactive 5-nitrofuryl-containing thiosemicarbazones and X?=?Cl or PF_6, had been previously obtained. These compounds had shown activity on Trypanosoma brucei, the etiological agent of African trypanosomiasis. Because of genomic similarities between trypanosomatides, these ruthenium compounds were evaluated, in the current work, on Trypanosoma cruzi, the parasite responsible of American trypanosomiasis (Chagas disease). Two of them showed significant in vitro growth inhibition activity against the infective trypomastigote form of T. cruzi (Dm28c clone, IC₅₀?=?11.69 and 59.42 μM for [Ru₂(p-cymene)₂(L4)₂]Cl₂ and [Ru₂(p-cymene)₂(L1)₂]Cl₂, respectively, where HL4?=?5-nitrofuryl-N-phenylthiosemicarbazone and HL1?=?5-nitrofurylthiosemicarbazone), showing fairly good selectivities toward trypanosomes with respect to mammalian cells (J774 murine macrophages). Moreover, [Ru₂(p-cymene)₂(L2)₂]Cl₂, where HL2?=?5-nitrofuryl-N-methylthiosemicarbazone, was synthesized in order to evaluate the effect of improved solubility on biological behavior. This new chloride salt showed higher activity against T. cruzi than that of the previously synthesized hexafluorophosphate one (Dm28c clone, IC₅₀?=?14.30 μM for the former and 231.3 μM for the latter). In addition, the mode of antitrypanosomal action of the organoruthenium compounds was investigated. The complexes were not only able to generate toxic free radicals through bioreduction but they also interacted with two further potential parasite targets: DNA and cruzipain, a cysteine protease which plays a fundamental role in the biological cycle of these parasites. The results suggest a “multi-target” mechanism of trypanosomicidal action for the obtained complexes.     

Biomethanation of H2 and CO2 by Methanobacterium thermoautotrophicum in membrane and ceramic bioreactors

Direct conversion of gaseous H₂ and CO₂ to CH₄ was achieved with Methanobacterium thermoautotrophicum ΔH (DSM 1053) cells fixed either on a cellulose acetate membrane or inside a porous silica-alumina ceramic support.In a membrane bioreactor with cellulose acetate (5 μmø), methane production rate increased in proportion to the contact area between the gases and the methanogen cells, giving a methane production rate of 0.75 ml CH₄/cm² contact area/h. The initial fixed-cell mass of 0.2 mg dry cell/cm² of contact area increased to 1 mg/cm² after 12 h of cultivation (steady state).In the ceramic bioreactor (cylindrical, 30 mmø × 70; av. pore size 100 μ, and porosity 79.7%), the methane production rate at steady state was 6 l CH₄/l ceramic/l. The methanogen cells grew homogeneously inside the ceramic up to 7 cm depth, and the cell density ranged from 20 to 30 mg dry cell/cm³ ceramic.     

The probability of G1 cells to enter into S increases with their size while S length decreases with cell enlargement in Allium cepa

The distribution of cell surface area projection (cell size) has been measured at birth and at initiation of DNA synthesis in steady-state populations of Allium cepa root meristems. The conditional probability, P(I/G₁), that initiation occurs given that the event of being in g₁ also occurs has been estimated from these data. p(I/G₁) was found to increase when cells became larger. The distribution of G₁ duration has been constructed from indicated cell size distributions. The absolute frequencies of G₁ times showed a maximum in the zone of cells with short G₁ periods; about 14% of cells appear to enter into S with G₁ - 1 h. These results suggest that the increase of p(I/G₁) was due to cell enlargement and not to cell aging. By comparing the cell size distribution at initiation of S and at the end of this period, a drastic reduction of cell size variability during DNA replication was observed and both curves were seen as rather similar in shape although they obviously had different modal points. These observations support that there is a negative correlation between the initiation size and the duration of genome duplication, and that cells which initiate DNA synthesis with the same size have a similar replication time. From this hypothesis, a plot of S duration versus cell size at initiation of this period was constructed by comparing the distributions of cell size at start and end of replication; this plot was also consistent with the existence of a negative correlation between cell initiation size and S length.     

Studies on the female-sterile mutant rudimentary of Drosophila melanogaster,: I. An analysis of the rudimentary wing phenotype

The rudimentary wing phenotype was examined in detail, using six different alleles of rudimentary, and a number of points about the genesis of the r phenotype were made. (1) All of the r alleles in which the wings are defective produce wings in which the area of individual hair cells is reduced. The more severely affected the allele, the greater is the reduction in wing cell area. This reduction in area is probably uniform throughout the wing rather than localized to specific wing regions. (2) The total number of cells per wing is also greatly reduced in phenotypically r wings. As with cell area, the more severely affected the allele, the greater the reduction in cell number. However, the reduction in cell number is not uniform throughout the wing. In the less severely affected alleles, the cell number reduction is much greater in those regions of the wing which are drastically altered in shape (truncated), while those wing regions which show only slight size reductions but no overall shape changes have near normal numbers of cells. In the most deformed wings, there is a reduction in cell number throughout the wing, but again those regions with are severely truncated are the most drastically reduced in cell number. Measurements of the amount of chitin per wing indicated that the three most severely affected alleles had as much or more chitin than the wild type. It is suggested that overproduction of chitin in these alleles prevents normal expansion of the wing cells, thus increasing the severity of the wing defect. Finally, the validity and limitations of a quantitative measure of the r phenotype were defined. This measure was utilized to demonstrate a clear-cut effect of nutrition on the expression of the r phenotype.     

The development of wingless,a homeotic mutation of Drosophila

The mutation wingless produces a homeotic transformation in which the distal structures (appendages) of both the wing and haltere discs are replaced by a duplication of the proximal structures (thorax). However, not all of the mutant discs show mutant phenotype; some of them differentiate normal appendages. Gynandromorph and clonal analyses suggest that the phenotype does not result from massive cell death followed by regeneration and/or duplication. We conjecture that the mutant phenotype is caused by a specific failure in the process of compartmentalization. In contrast to other homeotic mutants, wingless is not cell autonomous; that is, mutant clones show wildtype phenotype when produced in wildtype wings.     

Spontaneous Spatial Correlation of Elastic Modulus in Jammed Epithelial Monolayers Observed by AFM

For isolated single cells on a substrate, the intracellular stiffness, which is often measured as the Young’s modulus, E, by atomic force microscopy (AFM), depends on the substrate rigidity. However, little is known about how the E of cells is influenced by the surrounding cells in a cell population system in which cells physically and tightly contact adjacent cells. In this study, we investigated the spatial heterogeneities of E in a jammed epithelial monolayer in which cell migration was highly inhibited, allowing us to precisely measure the spatial distribution of E in large-scale regions by AFM. The AFM measurements showed that E can be characterized using two spatial correlation lengths: the shorter correlation length, l_S, is within the single cell size, whereas the longer correlation length, l_L, is longer than the distance between adjacent cells and corresponds to the intercellular correlation of E. We found that l_L decreased significantly when the actin filaments were disrupted or calcium ions were chelated using chemical treatments, and the decreased l_L recovered to the value in the control condition after the treatments were washed out. Moreover, we found that l_L decreased significantly when E-cadherin was knocked down. These results indicate that the observed long-range correlation of E is not fixed within the jammed state but inherently arises from the formation of a large-scale actin filament structure via E-cadherin-dependent cell-cell junctions.     

Wing Defects in Drosophila xenicid Mutant Clones Are Caused by C-Terminal Deletion of Additional Sex Combs (Asx)

Background

The coordinated action of genes that control patterning, cell fate determination, cell size, and cell adhesion is required for proper wing formation in Drosophila. Defects in any of these basic processes can lead to wing aberrations, including blisters. The xenicid mutation was originally identified in a screen designed to uncover regulators of adhesion between wing surfaces [1].

Principal Findings

Here, we demonstrate that expression of the βPS integrin or the patterning protein Engrailed are not affected in developing wing imaginal discs in xenicid mutants. Instead, expression of the homeotic protein Ultrabithorax (Ubx) is strongly increased in xenicid mutant cells.

Conclusion

Our results suggest that upregulation of Ubx transforms cells from a wing blade fate to a haltere fate, and that the presence of haltere cells within the wing blade is the primary defect leading to the adult wing phenotypes observed.     

Gene replacement and elimination using λRed- and FLP-based tool to re-direct carbon flux in acetogen biocatalyst during continuous CO2/H2 blend fermentation

A time- and cost-efficient two-step gene elimination procedure was used for acetogen Clostridium sp. MT1834 capable of fermenting CO₂/H₂ blend to 245 mM acetate (p < 0.005). The first step rendered the targeted gene replacement without affecting the total genome size. We replaced the acetate pta-ack cluster with synthetic bi-functional acetaldehyde-alcohol dehydrogenase (al-adh). Replacement of pta-ack with al-adh rendered initiation of 243 mM ethanol accumulation at the expense of acetate production during CO₂/H₂ blend continuous fermentation (p < 0.005). At the second step, al-adh was eliminated to reduce the genome size. Resulting recombinants accumulated 25 mM mevalonate in fermentation broth (p < 0.005). Cell duplication time for recombinants with reduced genome size decreased by 9.5 % compared to Clostridium sp. MT1834 strain under the same fermentation conditions suggesting better cell energy pool management in the absence of the ack-pta gene cluster in the engineered biocatalyst. If the first gene elimination step was used alone for spo0A gene replacement with two copies of synthetic formate dehydrogenase in recombinants with a shortened genome, mevalonate production was replaced with 76.5 mM formate production in a single step continuous CO₂/H₂ blend fermentation (p < 0.005) with cell duplication time almost nearing that of the wild strain.     

Development and Characterization of an In Vivo Pathogenic Molecular Clone of Equine Infectious Anemia Virus

An infectious nonpathogenic molecular clone (19-2-6A) of equine infectious anemia virus (EIAV) was modified by substitution of a 3.3-kbp fragment amplified by PCR techniques from a pathogenic variant (EIAV_PV) of the cell culture-adapted strain of EIAV (EIAV_PR). This substitution consisted of coding sequences for 77 amino acids at the carboxyl terminus of the integrase, the S1 (encoding the second exon of tat), S2, and S3 (encoding the second exon of rev) open reading frames, the complete env gene (including the first exon of rev), and the 3′ long terminal repeat (LTR). Modified 19-2-6A molecular clones were designated EIAV_PV3.3, and infection of a single pony (678) with viruses derived from a mixture of five of these molecular clones induced clinical signs of acute equine infectious anemia (EIA) at 23 days postinfection (dpi). As a consequence of this initial study, a single molecular clone, EIAV_PV3.3#3 (redesignated EIAV_UK), was selected for further study and inoculated into two ponies (613 and 614) and two horses (700 and 764). Pony 614 and the two horses developed febrile responses by 12 dpi, which was accompanied by a 48 to 64% reduction in platelet number, whereas pony 613 did not develop fever (40.6°C) until 76 dpi. EIAV could be isolated from the plasma of these animals by 5 to 7 dpi, and all became seropositive for antibodies to this virus by 21 dpi. Analysis of the complete nucleotide sequence demonstrated that the 3.3-kbp 3′ fragment of EIAV_UK differed from the consensus sequence of EIAV_PV by just a single amino acid residue in the second exon of the rev gene. Complete homology with the EIAV_PV consensus sequence was observed in the hypervariable region of the LTR. However, EIAV_UK was found to contain an unusual 68-bp nucleotide insertion/duplication in a normally conserved region of the LTR sequence. These results demonstrate that substitution of a 3.3-kbp fragment from the EIAV_PV strain into the infectious nonpathogenic molecular clone 19-2-6A leads to the production of progeny virus particles with the ability to induce clinical signs of EIA. Therefore, EIAV_UK, which is the first pathogenic, cell culture-adapted molecular clone of EIAV to be described, should be of value in identifying viral determinants of pathogenicity.     

An Appraisal of Life History Features of Kiefferulus calligaster (Kieffer, 1911) (Diptera: Chironomidae) from Kolkata,India

Life history parameters of the freshwater chironomid species Kiefferulus calligaster (Kieffer, 1911) were investigated under laboratory conditions, with the use of larval development time and wing length as key features. An index of fitness was derived using these two parameters to represent the fitness of adults as a function of the larval development. Survivorship, deduced from the data on the mortality of larval stages, was related to developmental time as—(survivorship, l_x) y = 1.16 ? 0.04 × (days). The larval development time varied between males and females with a minimum of 8 and a maximum of 12 days from first instar larva to eclosion of imagine. The average wing length of adult females was larger than males (3.9 mm ± 0.03 S.E. vs. 3.36 mm ± 0.02 S.E.), for both early and late emerging individuals. The degree of dimorphism between the sexes was prominent for wing length and larval development time. The index of fitness for the early and late emerging adults differed significantly (P < 0.05) in both the sexes.     

Effects of pH and Lactate on Hydrogen Sulfide Production by Oral Veillonella spp.

Indigenous oral bacteria in the tongue coating such as Veillonella have been identified as the main producers of hydrogen sulfide (H₂S), one of the major components of oral malodor. However, there is little information on the physiological properties of H₂S production by oral Veillonella such as metabolic activity and oral environmental factors which may affect H₂S production. Thus, in the present study, the H₂S-producing activity of growing cells, resting cells, and cell extracts of oral Veillonella species and the effects of oral environmental factors, including pH and lactate, were investigated. Type strains of Veillonella atypica, Veillonella dispar, and Veillonella parvula were used. These Veillonella species produced H₂S during growth in the presence of l-cysteine. Resting cells of these bacteria produced H₂S from l-cysteine, and the cell extracts showed enzymatic activity to convert l-cysteine to H₂S. H₂S production by resting cells was higher at pH 6 to 7 and lower at pH 5. The presence of lactate markedly increased H₂S production by resting cells (4.5- to 23.7-fold), while lactate had no effect on enzymatic activity in cell extracts. In addition to H₂S, ammonia was produced in cell extracts of all the strains, indicating that H₂S was produced by the catalysis of cystathionine γ-lyase (EC 4.4.1.1). Serine was also produced in cell extracts of V. atypica and V. parvula, suggesting the involvement of cystathionine β-synthase lyase (EC 4.2.1.22) in these strains. This study indicates that Veillonella produce H₂S from l-cysteine and that their H₂S production can be regulated by oral environmental factors, namely, pH and lactate.     

Preferential unequal recombination in the glyS region of the Escherichia coli chromosome.

Duplications of the Escherichia coli chromosomal region carrying the glyS and xylloci can be selected by deoxyadenosine treatment of trpA36 glyS_LglyTsu_AGA or (glyUsu_AGA) cultures. The deoxyadenosine lowers the suppression efficiency of these missense suppressors, and growth is severely limited by the resulting tryptophan starvation. Prolonged growth in the presence of 250 μg deoxyadenosine/ml leads to the accumulation of mutants with two (or more) copies of the allele for glycyl-transfer RNA synthetase, glyS_L. The same duplication is obtained each time the selective pressure is applied. This was shown by physically isolating the duplicated region in the form of circular DNA excised from the duplication by recombination. In repeated experiments, a circular species 140,000 base-pairs in size was isolated. These results are interpreted as showing that there are two loci, one on each side of the glyS locus, and spaced 140,000 base-pairs apart, which are prone to recombining with each other in a manner leading to a genetic duplication.