Determining in situ bacterial filtration rates by zooplankton: improvements to the [methyl-3H]thymidine labelling technique

Bacterial feeding by macrozooplankton was studied in Lake Hartbeespoort,a hypertrophic reservoir with abundant coarse (>60 µm)organic particulates. principally Microcystis colonies. Feedingrates were measured in situ, using a twin-barrelled grazingchamber. Filtration rates determined for natural free-livingbacteria labelled with [methyl-³H]thymidine using publishedtechniques proved unacceptably imprecise, unreliable and insensitive.The nature and magnitude of contributory sources of error wereevaluated. Major shortcomings identified were: (i) inefficientconcentration of radiolabelled natural bacteria; (ii) inadequateradiolabel uptake by bacteria; (iii) inadequate removal of unincorporatedlabel and significant release of incorporated label; (iv) unacceptablyhigh and variable surface adsorption errors; (v) poor controlof isotope loss on preservation. New and modified experimentalprocedures, designed and tested to overcome these difficulties,are described. Efficient concentration of natural bacteria (10-foldincrease) using tangential ultrafiltration (TUF), and increasingspecific activity of the tracer by overnight incubation of bacteriawith [methyl-³H]thymidine improved measurement sensitivity.The removal of free (released) isotope from tracer suspensionsby TUF-rinsing shortly before in Situ exposure and the subsequentsaturation of uptake kinetics by the addition of unlabelledthymidine. along with the chilling of labelled bacteria duringtransport and pre-experimental manipulations, considerably reducedadsorption error. Adsorption of free radiolabelled compoundswas measured for each date- specific experimental series usinga modified ‘killed-control’ procedure. which reducedthis error to 11% on average. Estimates of isotope loss (averaging57.6%) associated with sample preservation were measured inparallel ship-board experiments on each occasion. These modificationsgave considerably more reliable and realistic measurements ofspecies-specific filtration rates.     

PCR-based assays of mendelian polymorphisms from anonymous single-copy nuclear DNA: techniques and applications for population genetics

This paper outlines a PCR-based approach for population genetics that offers several advantages over conventional Southern blotting methods for revealing restriction-fragment-length polymorphisms (RFLPs) in nuclear DNA. Primers are constructed from clones isolated from a nuclear DNA library, and these primers subsequently are employed in in vitro syntheses of homologous regions. Amplified products are then screened directly for RFLPs by using gel-staining procedures. Population applications for this PCR-based approach, including potential strengths and weaknesses, are exemplified by two RFLP data sets generated to estimate (a) male-mediated gene flow in the green turtle (Chelonia mydas) and (b) geographic population genetic structure in the American oyster (Crassostrea virginica). Restriction assays of amplified products from 14 or 15 independent primer pairs in each species revealed polymorphisms at several loci that proved highly informative in the population genetic analyses. In general, the Mendelian polymorphisms produced by this PCR-based approach will provide useful genetic markers for population studies, particularly in situations where simpler and less expensive allozyme methods have failed, for whatever reason, to provide adequate information.      

Optimization of an electroporation procedure for Kluyveromyces lactis transformation

Summary An electroporation method using a Bio-Rad Gene Pulser has been optimized for introducing heterologous DNA into Kluyveromyces lactis yeasts. The plasmid pCR1, derived from a native Kluyveromyces plasmid, was used to transform K. lactis. This plasmid produces a wheat -amylase and contains both the biosynthetic marker URAA and G418 resistance genes. Transformation was optimal at 4500 V/cm, 25 F, and with 0.2 g plasmid DNA. Transformation efficiencies in the range 10⁴–10⁵ transformants/10⁷ cells/g DNA were obtained.     

Poikilothermic traits and thermoregulation in the Afrotropical social subterranean Mashona mole-rat (Cryptomys hottentotus darlingi) (Rodentia: Bathyergidae)

When acclaimated for two months at 26 C the social Mashona mole-rat Cryptomys hottentotus darlingi (±S.D.) resting metabolic rate (RMR) of 0·98±0.·14cm²O₂g _-1 h_-1 ( n =21), within a thermal neutral zone (TNZ) of 28 31·5 C ambient temperature (Ta). The body temperature (Tb) of the mole-rat is very low. 33·3±0·5 C, and remained stable between 25 31·5 C ( n =28). Above 33 C. Tb increased to a mean of 34·±0· C (n=28) (Ta range 33 39 C). Below Ta 25 C. Tb showed strong poikilothermic tendencies, with Tb dropping to a mean of 26·8±1·16 C. whereas above Ta25 C. Tb varied in a typically endothermic pattern. The conductance is high 0·19±0·03 cm² O_2g¹ C ¹ (n=28) at the lower limit of thermoneutrality. The mean RMR at 18 C (the lowest Ta tested) was 2·63 ± 0·55 cm³ O₂g ¹ h ¹ (n=7) which is 2·6 times that of the resting metabolic rate in the TNZ.     

Mycena species can be opportunist-generalist plant root invaders

Traditional strict separation of fungi into ecological niches as mutualist, parasite or saprotroph is increasingly called into question. Sequences of assumed saprotrophs have been amplified from plant root interiors, and several saprotrophic genera can invade and interact with host plants in laboratory growth experiments. However, it is uncertain if root invasion by saprotrophic fungi is a widespread phenomenon and if laboratory interactions mirror field conditions. Here, we focused on the widespread and speciose saprotrophic genus Mycena and performed (1) a systematic survey of their occurrences (in ITS1/ITS2 datasets) in mycorrhizal roots of 10 plant species, and (2) an analysis of natural abundances of ¹³C/¹⁵N stable isotope signatures of Mycena basidiocarps from five field locations to examine their trophic status. We found that Mycena was the only saprotrophic genus consistently found in 9 out of 10 plant host roots, with no indication that the host roots were senescent or otherwise vulnerable. Furthermore, Mycena basidiocarps displayed isotopic signatures consistent with published ¹³C/¹⁵N profiles of both saprotrophic and mutualistic lifestyles, supporting earlier laboratory-based studies. We argue that Mycena are widespread latent invaders of healthy plant roots and that Mycena species may form a spectrum of interactions besides saprotrophy also in the field.     

Glycosylation and secretion of human tissue plasminogen activator in recombinant baculovirus-infected insect cells.

Cell lines established from the lepidopteran insect Spodoptera frugiperda (fall armyworm; Sf9) are used routinely as hosts for the expression of foreign proteins by recombinant baculovirus vectors. We have examined the pathway of protein glycosylation and secretion in these cells, using human tissue plasminogen activator (t-PA) as a model. t-PA expressed in Sf9 cells was both N glycosylated and secreted. At least a subset of the N-linked oligosaccharides in extracellular t-PA was resistant to endo-beta-N-acetyl-D-glucosaminidase H, which removes immature, high-mannose-type oligosaccharides. This refutes the general conclusion from previous studies that Sf9 cells cannot process immature N-linked oligosaccharides to an endo-beta-N-acetyl-D-glucosaminidase H-resistant form. A nonglycosylated t-PA precursor was not detected in Sf9 cells, even with very short pulse-labeling times. This suggests that the mammalian signal sequence of t-PA is efficiently recognized in Sf9 cells and that it can mediate rapid translocation across the membrane of the rough endoplasmic reticulum, where cotranslational N glycosylation takes place. However, t-PA was secreted rather slowly, with a half-time of about 1.6 h. Thus, a rate-limiting step(s) in secretion occurs subsequent to translocation and N glycosylation of the t-PA polypeptide. Treatment of Sf9 cells with tunicamycin, but not with inhibitors of oligosaccharide processing, prevented the appearance of t-PA in the extracellular medium. This suggests that N glycosylation per se, but not processing of the N-linked oligosaccharides, is required directly or indirectly in baculovirus-infected Sf9 cells for the secretion of t-PA. Finally, the relative efficiency of secretion decreased dramatically with time of infection, suggesting that the Sf9 host cell secretory pathway is compromised during the later stages of baculovirus infection.     

Protein measurement using bicinchoninic acid: elimination of interfering substances

Protein quantitation based on bicinchoninic acid (BCA) is simple, sensitive, and tolerant to many detergents and substances known to interfere with the Lowry method. However, certain compounds often used during protein purification do interfere with the BCA protein assay. The response of the BCA chromophore to various interfering substances has provided insight into the mechanism of protein quantitation by BCA. Certain substances (e.g., glucose, mercaptoethanol, and dithiothreitol) elicit a strong absorbance at 562 nm when combined with the BCA working reagent. The absorbance appears to be identical to the normal response elicited by protein. Other agents (e.g., ammonium sulfate and certain ampholytes) diminish the protein-induced color development and shift the wave-length of the color response. Both types of interference can be eliminated by selectively precipitating protein with deoxycholate and trichloroacetic acid (A. Bensadoun and D. Weinstein (1976) Anal. Biochem. 70,241-250) prior to reaction with bicinchoninic acid. The modifications described here permit quick, efficient removal of many interfering substances that are commonly utilized during protein purification.     

Expression by Soil Bacteria of Nodulation Genes from Rhizobium leguminosarum biovar trifolii

Gram-negative, rod-shaped bacteria from the soil of white clover-ryegrass pastures were screened for their ability to nodulate white clover (Trifolium repens) cultivar Grasslands Huia and for DNA homology with genomic DNA from Rhizobium leguminosarum biovar trifolii ICMP2668 (NZP582). Of these strains, 3.2% were able to hybridize with strain ICMP2668 and nodulate white clover and approximately 19% hybridized but were unable to nodulate. Strains which nodulated but did not hybridize with strain ICMP2668 were not detected. DNA from R. leguminosarum biovar trifolii (strain PN165) cured of its symbiotic (Sym) plasmid and a specific nod probe were used to show that the relationship observed was usually due to chromosomal homology. Plasmid pPN1, a cointegrate of the broad-host-range plasmid R68.45 and a symbiotic plasmid pRtr514a, was transferred by conjugation to representative strains of nonnodulating, gram-negative, rod-shaped soil bacteria. Transconjugants which formed nodules were obtained from 6 of 18 (33%) strains whose DNA hybridized with that of PN165 and 1 of 9 (11%) strains containing DNA which did not hybridize with that of PN165. The presence and location of R68.45 and nod genes was confirmed in transconjugants from three of the strains which formed nodules. Similarly, a pLAFR1 cosmid containing nod genes from a derivative of R. leguminosarum biovar trifolii NZP514 formed nodules when transferred to soil bacteria.     

Chemical phosphorylation of proteins by zinc-ATP

During an examination of in vitro phosphorylation of the adipocyte lipid-binding protein (ALBP) by the insulin receptor, we detected insulin receptor-independent, chemical phosphorylation of ALBP. This activity was present in ALBP purified to homogeneity from murine 3T3-L1 cells and in recombinant murine ALBP purified from expressing E. coli cultures. Phosphoamino acid analysis revealed that chemical phosphorylation of ALBP occurred primarily on Ser residues. The phosphorylation activity occurred in the alkaline pH range from 8 to 11 and exhibited a broad temperature dependence. The reaction rate was linearly dependent upon the ATP concentration and exhibited a biphasic kinetic profile. Eight of twelve other proteins tested also underwent chemical phosphorylation. Zn+2, Mg+2, or Mn+2 promoted optimal phosphorylation of different proteins. We conclude that many proteins are capable of undergoing chemical phosphorylation.     

Genetic Structure and DNA Sequences at Junctions Involved in the Rearrangements of Bacillus Subtilis Strains Carrying the Trpe26 Mutation

Studies on the region upstream to ribosomal operon rrnD of Bacillus subtilis led to the characterization of two of the four chromosomal junctions involved in the rearrangements (a translocation and an inversion) of the strains carrying the trpE26 mutation. Genetic analysis, by integrative mapping, showed linkage of rrnD to cysB and hisA (both on segment A) in the trpE26-type strains. Physical analysis showed that the region upstream to rrnD is now linked to the trpE-ilvA chromosome segment as demonstrated by analyzing restriction site-polymorphism between 168 and trpE26-type strains. Similar experiments confirmed the previous genetic data on linkage in these areas in strains carrying novel rearrangements derived from the trpE26-type strains: stable merodiploids and inversions. The nucleotide sequence of the area 5' to rrnD in both types of strains (168 and trpE26), the region downstream of the citG gene and the region carrying the trpE26 mutation (made available to us by D. Henner) provided evidence for the molecular basis of the differences in structure, allowed the identification of the break points and revealed the presence of a polypurine region upstream to rrnD as seen in other systems in B. subtilis. No extensive homology was found between pairs of junctions so far sequenced. The models proposed by C. Anagnostopoulos for the role of DNA sequences of intrachromosomal homology involved in the transfer of the trpE26 mutation and the formation of novel arrangements require therefore reevaluation.