Biomedical subjects

J E Hamer

Publications and source records attributed to J E Hamer.

At least 37 records · Page 2Linked to original sources

PubMed1996

Genetic differentiation in the rice blast fungus revealed by the distribution of the Fosbury retrotransposon.

Repetitive DNA sequences genetically differentiate certain host-specific forms of the plant pathogenic fungus Pyricularia grisea. For example, high copy numbers of a sequence designated MGR586 are conserved in isolates that infect rice. In this report, we describe the molecular characterization of another repetitive DNA sequence designated fosbury. Restriction mapping and DNA sequence analysis show that fosbury is a member of a long terminalrepeat (LTR)-containing retrotransposon family, and gel blot hybridization analysis suggests that, like MGR586, fosbury is preferentially found in isolates that infect rice. This supports the view that rice pathogens comprise a genetically distinct form of P. grisea. We also investigated the distribution of fosbury and MGR586 and found that these elements are sometimes associated in the genome, and gel blot hybridization analysis shows that restriction sites flanking both of these elements resolve rice pathogens into similar clonal lineage groups. We conclude that the transposition of repetitive DNA sequences plays an important role in generating DNA fingerprint variation in the rice blast fungus.

Ascomycota↗

PubMed1996

Rearrangements at a DNA-fingerprint locus in the rice blast fungus.

Populations of the rice blast fungus, Magnaporthe grisea, can be sorted into clonal lineages based on restriction fragment length polymorphisms (RFLPs) detected with the repetitive DNA sequence MGR586. Mechanisms that produce DNA-fingerprint variation among lineages, are not known. In the process of analyzing the meiotic segregation of MGR586 RFLPs we identified a novel polymorphism, called MGR586-P2, in one member of a sister-spore pair from a complete tetrad. Molecular cloning revealed that P2 was generated by a nearby insertion of a novel, long-terminal-repeat (LTR)-containing retrotransposon. Genetic analysis showed that P2 and its progenitor polymorphism (P1) are alleles of a single polymorphic locus termed MGR586-PL (PL). Surprisingly, we found that a strain harboring PL recurrently produced clonal descendants harboring P1, P2 and possibly a third allele designated P3. PL is not located near a telomeric region. Our results show that some DNA-fingerprint loci may be hypervariable and undergo recurrent rearrangements. These findings have implications for interpreting DNA-fingerprint profiles from M. grisea populations.

Ascomycota↗

PubMed1996

Cytokinesis in Aspergillus nidulans is controlled by cell size, nuclear positioning and mitosis.

The mycelium of Aspergillus nidulans is composed of multinucleate cellular compartments delimited by crosswalls called septa. Septum formation is dependent on mitosis and requires the recruitment of actin to the site of septum formation. Employing a collection of temperature sensitive nuclear distribution (nudA2, nudC3 and nudF7), nuclear division (nimA5, hfaB3), and septation (sepD5, sepG1) mutants, we have investigated the interdependency among nuclear positioning, mitosis, and cell growth in structuring the cellular compartments of A. nidulans. The cellular compartments of nud+ strains were highly uniform with regard to nuclear distribution and averaged 38 microns in length. Incubation of nud mutants at semi-restrictive temperature resulted in aberrant nuclear distribution that appeared to direct the formation of variable-sized cellular compartments, ranging from 5 microns to greater than 81 microns. In germinating spores, the first septum forms at the basal end of the germ tube following the third round of nuclear division. Germlings must undergo mitosis in order to form a septum. Temperature-sensitive mitotic mutants were used to show that a single nuclear division is sufficient to activate septum formation, provided a critical cell size has been attained. In mitotic mutants and wild-type cells, delays in nuclear division resulted in the misplacement of the first septum. These results strongly support the role of mitotic nuclei in determining septal placement, and suggest that cell size control is post-mitotic in A. nidulans.

Aspergillus nidulans↗

PubMed1995

sepB: an Aspergillus nidulans gene involved in chromosome segregation and the initiation of cytokinesis.

In Aspergillus nidulans conidia, cytokinesis (septation) is delayed until three rounds of nuclear division have been completed. This has permitted the identification of essential genes that are involved in the coordination of cytokinesis with nuclear division. Conditional mutations in the sepB gene block septation but allow germinating spores to complete the first three rounds of nuclear division at restrictive temperature. sepB3 mutants demonstrate transient delays in M-phase, accumulate aneuploid nuclei and show defects in chromosome segregation. Molecular analysis of the sepB gene reveals that it is essential and possesses limited similarity to the CTF4 gene of Saccharomyces cerevisiae. Using temperature-shift analysis we show that sepB is required after the first nuclear division but before the onset of cytokinesis. A failure to execute the sepB function results in a block to nuclear division and leads to cell death at a time when wild-type cells would be undergoing cytokinesis. Finally, we demonstrate that sepB is also required for the uninucleate cell divisions of developing conidiophores. Our results suggest that sepB3 mutants accumulate specific nuclear defects that do not arrest mitosis, but block the initiation of septum formation. Thus, proper chromosome segregation and a functional sepB gene are required to initiate cytokinesis.

Amino Acid Sequence↗

PubMed1994

Identification and characterization of Aspergillus nidulans mutants defective in cytokinesis.

Filamentous fungi undergo cytokinesis by forming crosswalls termed septa. Here, we describe the genetic and physiological controls governing septation in Aspergillus nidulans. Germinating conidia do not form septa until the completion of their third nuclear division. The first septum is invariantly positioned at the basal end of the germ tube. Block-and-release experiments of nuclear division with benomyl or hydroxyurea, and analysis of various nuclear division mutants demonstrated that septum formation is dependent upon the third mitotic division. Block-and-release experiments with cytochalasin A and the localization of actin in germlings by indirect immunofluorescence showed that actin participated in septum formation. In addition to being concentrated at the growing hyphal tips, a band of actin was also apparent at the site of septum formation. Previous genetic analysis in A. nidulans identified four genes involved in septation (sepA-D). We have screened a new collection of temperature sensitive (ts) mutants of A. nidulans for strains that failed to form septa at the restrictive temperature but were able to complete early nuclear divisions. We identified five new genes designated sepE, G, H, I and J, along with one additional allele of a previously identified septation gene. On the basis of temperature shift experiments, nuclear counts and cell morphology, we sorted these cytokines mutants into three phenotypic classes. Interestingly, one class of mutants fails to form septa and fails to progress past the third nuclear division. This class of mutants suggests the existence of a regulatory mechanism in A. nidulans that ensures the continuation of nuclear division following the initiation of cytokinesis.

Alleles↗

PubMed1993

The ebb and flow of a fungal genome.

Transposable DNA elements have only recently been described in a few species of filamentous fungi, but may be more abundant than previously believed. Several different elements have been isolated from the rice blast pathogen Magnaporthe grisea. The distribution and amplification of these elements suggest a potential role in the evolution of the fungal genome.

DNA Transposable Elements↗

PubMed1993

Identification and characterization of MPG1, a gene involved in pathogenicity from the rice blast fungus Magnaporthe grisea.

Differential cDNA cloning was used to identify genes expressed during infectious growth of the fungal pathogen Magnaporthe grisea in its host, the rice plant. We characterized one of these genes, MPG1, in detail. Using a novel assay to determine the proportion of fungal biomass present in the plant, we determined that the MPG1 transcript was 60-fold more abundant during growth in the plant than in culture. Mpg1 mutants have a reduced ability to cause disease symptoms that appears to result from an impaired ability to undergo appressorium formation. MPG1 mRNA was highly abundant very early in plant infection concomitant with appressorium formation and was also abundant at the time of symptom development. The MPG1 mRNA was also expressed during conidiation and in mycelial cultures starved for nitrogen or carbon. MPG1 potentially encodes a small, secreted, cysteine-rich, moderately hydrophobic protein with the characteristics of a fungal hydrophobin. Consistent with the role of the MPG1 gene product as a hydrophobin, Mpg1 mutants show an "easily wettable" phenotype. Our results suggest that hydrophobins may have a role in the elaboration of infective structures by fungi and may fulfill other functions in fungal phytopathogenesis.

Amino Acid Sequence↗

PubMed1993

Karyotypic Variation within Clonal Lineages of the Rice Blast Fungus, Magnaporthe grisea.

We have analyzed the karyotype of the rice blast fungus, Magnaporthe grisea, by using pulsed-filed gel electrophoresis. We tested whether the electrophoretic karyotype of an isolate was related to its pathotype, as determined by infection assays, or its genetic lineage, as determined by DNA fingerprinting. Highly reproducible electrophoretic karyotypes were obtained for a collection of U.S. and Chinese isolates representing a diverse collection of pathotypes and genetic lineages. Chromosomes ranged in size from 3 to 10 Mb. Although chromosome number was largely invariant, chromosome length polymorphisms were frequent. Minichromosomes were also found, although their presence was not ubiquitous. They ranged in number from 1 to 3 and in size from 470 kb to 2.2 Mb. Karyotypes were sufficiently variable as to obscure the obvious relatedness of isolates on the basis of pathogenicity assays or genetic lineage analysis by DNA fingerprinting. We documented that the electrophoretic karyotype of an isolate can change after prolonged serial transfer in culture and that this change did not alter the isolate's pathotype. The mechanisms bringing about karyotype variability involve deletions, translocations, and more complex rearrangements. We conclude that karyotypic variability in the rice blast fungus is a reflection of the lack of sexuality in wild populations which leads to the maintenance of neutral genomic rearrangements in clones of the fungus.

Journal Article↗

PubMed1992

Genetic organization of a repeated DNA sequence family in the rice blast fungus.

The fungal rice pathogen Magnaporthe grisea contains repetitive DNA sequences called MGR. We have used a DNA probe, MGR586, derived from these sequences and crosses between rice-pathogenic and non-rice-pathogenic laboratory strains of M. grisea to rapidly map genes in this organism. The rice-pathogenic strain contained 57 EcoRI restriction fragments that hybridize to the MGR586 probe; the other five non-rice-pathogenic parent strains contained a single MGR586 sequence. Genetic analysis of MGR segregation detected eight linkage groups and allowed the mapping of three pigmentation genes (Alb1, Rsy1, and Buf1), the mating type locus (Mat1), the nucleolar organizer (Rdn1), the Smol gene, and two restriction fragment length polymorphisms linked to Smol. Our results indicate that the MGR586 loci are randomly distributed about the M. grisea genome and permit the construction of a well-marked linkage map useful for future studies on genome organization and genetic analysis in M. grisea.

Journal Article↗

PubMed1990

Genetic mapping with dispersed repeated sequences in the rice blast fungus: mapping the SMO locus.

The SMO genetic locus in strains of the fungus Magnaporthe grisea that infect weeping lovegrass, directs the formation of correct cell shapes in asexual spores, infection structures, and asci. We have identified and characterized a Smo- strain of M. grisea that infects rice. The smo mutation in this strain segregates as a single gene mutation and is allelic to previously identified smo alleles. A marked reduction in pathogenicity co-segregates with the Smo- phenotype, suggesting that the SMO locus plays a role in rice pathogenicity. A family of dispersed repeated DNA sequences, called MGR, have been discovered in the nuclear DNA of M. grisea rice pathogens. Genetic crosses between Smo- rice pathogens and Smo+ non-rice pathogens were used to follow the segregation of the SMO locus and individual MGR sequences. Using DNA blot analysis with cloned MGR hybridization probes, we mapped the SMO locus to a chromosomal region flanked by two closely linked MGR sequences. We demonstrated that the copy number of MGR sequences could be reduced in subsequent crosses to non-rice pathogens of M. grisea, and that new MGR sequences did not occur following meiosis indicating that these sequences are stable in the genome. We conclude that restriction fragment polymorphism mapping with cloned MGR sequences as hybridization probes is an effective way to map genes in the rice blast fungus.

Ascomycota↗

PubMed1989

Host species-specific conservation of a family of repeated DNA sequences in the genome of a fungal plant pathogen.

We have identified a family of dispersed repetitive DNA sequences in the genome of Magnaporthe grisea, the fungus that causes rice blast disease. We have named this family of DNA sequences "MGR" for M. grisea repeat. Analysis of five MGR clones demonstrates that MGR sequences are highly polymorphic. The segregation of MGR sequences in genetic crosses and hybridization of MGR probes to separated, chromosome-size DNA molecules of M. grisea shows that this family of sequences is distributed among the M. grisea chromosomes. MGR sequences also hybridize to discrete poly(A)+ RNAs. Southern blot analysis using a MGR probe can distinguish rice pathogens from various sources. However, MGR sequences are not highly conserved in the genomes of M. grisea field isolates that do not infect rice. These results suggest that host selection for a specific pathogen genotype has occurred during the breeding and cultivation of rice.

Ascomycota↗

PubMed1987

Functional organization of the Aspergillus nidulans trpC promoter.

We investigated the functional organization of the Aspergillus nidulans trpC promoter by the sequential removal of sequences upstream of the major trpC mRNA cap site (+1). DNA fragments containing promoter mutations were fused to the Escherichia coli lacZ gene, and a novel method was used to select for integration of the fusion gene at the Aspergillus argB locus. beta-Galactosidase assays and S1 nuclease protection experiments demonstrated that the promoter mutations affected gene expression in three ways: (i) 5' deletions up to -82 resulted in variable increases in beta-galactosidase activity, depending on the growth conditions; (ii) a deletion from -67 to -11 did not alter the level of beta-galactosidase activity, but did give rise to mRNAs with aberrant 5' ends; and (iii) a 5' deletion with an endpoint at -11 and an internal deletion from -142 to -11 abolished gene expression. These results indicate that sequences upstream of -82 reduce transcription of the trpC gene and that distinct DNA sequence elements are required for expression versus correct initiation of transcription of the trpC gene. The sequences essential for trpC expression do not include the common eucaryotic promoter elements CCAAT and TATAAA. To our knowledge, this is the first functional analysis of a promoter from a fungus other than Saccharomyces cerevisiae.

Aspergillus nidulans↗

PubMed1985

Primary structure of the trpC gene from Aspergillus nidulans.

We have determined the structure and complete nucleotide sequence of the trifunctional trpC gene from the Ascomycetous fungus Aspergillus nidulans. Results from RNA gel blot analyses showed that this gene encodes two size classes of polyribosomal, poly (A)+RNAs with approximate lengths of 2,400 and 2,600 nucleotides. S1 nuclease protection studies demonstrated that the distribution into the two size classes is due to selection of alternative sites for polyadenylation. The transcription units contain a single open translation reading frame of 2,304 nucleotides. The sequence of this reading frame is approximately 40% divergent from the sequence of the functionally analogous trp-1 gene from Neurospora crassa (Schechtman, M.G. and Yanofsky, C., J. Mol. Appl. Gen. 2:83-99). The predicted amino acid sequence of the A. nidulans trpC polypeptide is also 40% divergent from the predicted amino acid sequence of the N. crassa trp-1 polypeptide. The A. nidulans gene has considerably less bias in codon selection than observed for the N. crassa gene. Discrete regions of DNA homology were also found in similar positions in the 5' and 3' flanking sequences of the Aspergillus and Neurospora genes. Similar regions of homology were not observed in other Aspergillus or Neurospora genes that have been sequenced. Thus, if these evolutionarily conserved sequences act as signals for transcription initiation or polyadenylation, or are involved in gene regulation, their functions are restricted to a subset of protein coding genes in these two closely related fungi.

Amino Acid Sequence↗

PubMed1985

Expression of an Escherichia coli beta-galactosidase fusion gene in Aspergillus nidulans.

We inserted in frame the Escherichia coli lacZ gene into the protein-coding region of the Aspergillus nidulans trpC gene and introduced the resultant fused gene into the A. nidulans genome. A functional beta Gal fusion protein was produced. Removal of the trpC transcription and translation initiation sequences from the fusion gene abolished production of the fusion protein, showing that expression is dependent on these sequences. Thus, lacZ fusions should be of use for estimating gene activity in a. nidulans.

Aspergillus nidulans↗

PubMed1984

The stage specific inhibition of Dictyostelium discoideum spore germination by the mutagen 4-nitroquinoline 1-oxide.

The drug 4-nitroquinoline 1-oxide (4NQO) is a potent inhibitor of Dictyostelium discoideum spore germination. This inexpensive, water soluble drug is active at a concentration of 5 micrograms/ml (26 microM) and permeates the spore at all stages in germination. Spores subjected to 4NQO treatment exhibit an irreversible blockage of myxamoebae emergence, but spore activation, post-activation lag, and swelling are not affected. Swollen 4NQO-treated spores lose the outer two spore walls but lack the ability to degrade the innermost wall. The drug does not affect oxygen uptake during post-activation lag or swelling, and only a stage specific depression in O2 uptake is observed when control spores begin to release myxamoebae. When added early in germination, 4NQO blocks the incorporation of [3H] uracil into a cold trichloroacetic acid (TCA) insoluble fraction by 98%. However, when the drug is added midway through germination and followed by a pulse labelling period of 1 h, only 65% inhibition of RNA synthesis is observed. This lack of complete inhibition may occur because the drug requires metabolic activation; thus, new rounds of RNA synthesis may have initiated before the drug became fully activated. 4NQO also blocks the de novo expression of beta-glucosidase activity when added early in germination. Additionally, we observe that vegetative cellular slime mold cells are 100 times more resistant than spores to 4NQO-induced damage. Taken together, our results support the observation that RNA synthesis is only required for the emergence stage of germination and that dormant D. discoideum spores may lack efficient excision repair mechanisms.

4-Nitroquinoline-1-oxide↗

PubMed1984

Transformation of Aspergillus nidulans by using a trpC plasmid.

We constructed a chimeric plasmid carrying a complete copy of the trifunctional trpC gene from the Ascomycete fungus Aspergillus nidulans. This plasmid, designated pHY201, replicates in Escherichia coli, where it confers resistance to ampicillin and chloramphenicol and complements trpC mutants lacking phosphoribosylanthranilate isomerase activity. We used pHY201 to transform an A. nidulans trpC- strain to trpC+ at frequencies of greater than 20 stable transformants per microgram of DNA. Southern blot analysis of DNA from transformants showed that pHY201 DNA had integrated into the A. nidulans chromosomes in a majority of cases. Most of the integration events appeared to occur at the site of the trpC- allele of the recipient strain. In several instances, we succeeded in recovering pHY201, or derivatives thereof, from A. nidulans transformants by restriction endonuclease digestion of chromosomal DNA, ligation, and transformation of E. coli.

Ampicillin↗

PubMed1983

Developmental regulation of the Aspergillus nidulans trpC gene.

We have cloned the trifunctional trpC gene from Aspergillus nidulans by hybrid phage lambda complementation of an Escherichia coli trpC mutant lacking phosphoribosylanthranilate isomerase activity. Four different phages sharing a 4.3-kilobase region were obtained. Plasmid subclones containing this region also complemented the E. coli trpC mutant. We determined that a 1.8-kilobase DNA fragment was minimally required for complementation. The fragment hybridized with two poly(A)+ RNAs, 3.0 and 3.2 kilobases in length. We infer that these transcripts are Aspergillus trpC mRNAs and that the entire Aspergillus trpC gene is not required for complementation in E. coli. Levels of both trpC transcripts in poly(A)+ RNA are regulated by growth medium composition. They were highest when cells were grown in minimal medium containing nitrate as the nitrogen source and lowest when cells were grown in medium containing yeast extract. The concentrations of the transcripts are also regulated during conidiophore development. Conidiating cultures grown on medium containing yeast extract had significantly higher levels of both transcripts than did hyphae grown in minimal medium containing nitrate. Levels of the transcripts in mature spores were equivalent to those found in hyphae grown in minimal medium containing nitrate. Results from nutritional experiments with an A. nidulans trpC mutant suggest that developmental regulation of trpC mRNA levels may be related to a high requirement for tryptophan or a compound derived from tryptophan during conidiation.

Amino Acid Sequence↗

PubMed1983

The timing of ribonucleic acid synthesis during the germination of heat-activated Dictyostelium discoideum spores.

To observe changes in the rate of RNA synthesis during Dictyostelium discoideum spore germination, we have pulse labeled germinating spores with [3H]uracil at stage-specific intervals. The labeled RNAs have been fractionated on 1.7 and 10% polyacrylamide gels. Additionally we have monitored the total changes in ribonucleic acid content during germination. In general, the rate of synthesis of various RNA species appears to increase noncoordinately, while the total RNA content remains unchanged during germination. This may indicate extensive RNA turnover during germination. Little or no RNA synthesis is observed during the first pulse period (postactivation lag). During the 1-2-h pulse period, 25, 17, 5.8, and 5 S RNA were all synthesized. The synthesis of these species increased with each pulse period, with the greatest amount of synthesis occurring during the final 3-4-h pulse. The synthesis of 4 S RNA initiated during the 2-3-h pulse and increased during the final 3-4-h pulse. The percentage of poly(A) + RNA increased with each time period from 0.1% of the total labeled RNA at the 0-1-h pulse period to 10% of the total RNA synthesized at the 2-3-h pulse time. During the final pulse period (3-4 h), this level dropped to 6%. Analysis of acid-soluble extracts from dormant spores revealed relatively high levels of the four ribonucleoside 5'-triphosphates. These levels remained unchanged during the 1st h of germination. Thus RNA synthesis during the postactivation lag stage of germination does not appear to be limited by precursor availability and may involve other regulatory mechanisms.

Dictyostelium↗