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Recombinant DNA technology has made it possible to clone receptors from many organisms by cross-hybridization or by the polymerase chain reaction. It may be difficult, though, to establish the functional importance of any clone obtained. We describe the cloning of nematode acetylcholine receptor genes by selection for resistance to levamisole, a scheme providing assurance that the clones obtained are functionally related...
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[
WormBook,
2005]
Genetic suppression has provided a very powerful tool for analyzing C. elegans. Suppression experiments are facilitated by the ability to handle very large numbers of individuals and to apply powerful selections. Because the animal grows as a self-fertilizing diploid, both dominant and recessive suppressors can be recovered. Many different kinds of suppression have been reported. These are discussed by category, with examples, together with discussion of how suppressors can be used to interpret the underlying biology, and to enable further experimentation. Suppression phenomena can be divided into intragenic and extragenic classes, depending on whether the suppressor lies in the same gene as the starting mutation, or in a different gene. Intragenic types include same-site replacement, compensatory mutation, alteration in splicing, and reversion of dominant mutations by cis- knockout. Extragenic suppression can occur by a variety of informational mechanisms, such as alterations in splicing, translation or nonsense-mediated decay. In addition, extragenic suppression can occur by bypass, dosage effects, product interaction, or removal of toxic products. Within signaling pathways, suppression can occur by modulating the strength of signal transmission, or by epistatic interactions that can reveal the underlying regulatory hierarchies. In C. elegans biology, the processes of muscle development, vulva formation and sex determination have provided remarkably rich arenas for the investigation and exploitation of suppression.
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Genetic analysis of C. elegans development has focused on developmental events that take place after hatching, during postembryonic development. After hatching with 558 cells, about 10% of these are blast cells that undergo further cell divisions (Fig. 1) to generate a total of 959 neurons, muscles, intestinal and hypodermal cells in the hermaphrodite and 1031 cells in the male. Like embryonic development (se Edgar, Chap. 19 this Vol.), the pattern of cell division and differentiation during C. elegans postembryonic development is nearly invariant and has been completely described. The cell lineage of wild-type, mutant, or laser-ablated animals can be determined by direct observation of development using Normarski optics. Because most cells during C. elegans postembryonic development generate unique patterns of descendents (though symmetries in the lineage exist), the cell lineage produced by a particular blast cell during development is a signature of that cell's identity. Any changes in cell identity, induce, for example, by laser ablation or neighboring cells or by mutation, can be recognized by a change in the lineage produced by that cell. By laser ablation, it has been shown that in many cases, that patterns of cell lineage executed by particular cells do not depend on their neighbors and instead reflect some intrinsic developmental program. On the other hand, the lineages of particular blast cells, for example, those that generate the hermaphrodite vulva, have been shown by laser ablation experiments to depend on interactions with their neighbors. Thus the pattern of cell divisions and differentiations that normally occur during C. elegans development depends on the ancestry of cells in some cases on their neighbors or positional signals in other cases. Two major goals of developmental genetic analysis in C. elegans have been to explain how genes couple cell lineage information to cell identity and to explain how genes control and mediate cell-cell interactions. As described below, this analysis has revealed molecular mechanisms for the generation of lineage asymmetry and for intercellular signaling that are general to perhaps all metazoans.
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[
WormBook,
2005]
In C. elegans, the germ line is set apart from the soma early in embryogenesis. Several important themes have emerged in specifying and guiding the development of the nascent germ line. At early stages, the germline blastomeres are maintained in a transcriptionally silent state by the transcriptional repressor PIE-1 . When this silencing is lifted, it is postulated that correct patterns of germline gene expression are controlled, at least in part, by MES-mediated regulation of chromatin state. Accompanying transcriptional regulation by PIE-1 and the MES proteins, RNA metabolism in germ cells is likely to be regulated by perinuclear RNA-rich cytoplasmic granules, termed P granules. This chapter discusses the molecular nature and possible roles of these various germline regulators, and describes a recently discovered mechanism to protect somatic cells from following a germline fate.
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[
1980]
The free-living nematode Caenorhabditis elegans has attracted attention in recent years as an organism for the study of the genetic control of development. This chapter briefly describes the present state of this work. Many of the studies reported on here have not yet been published but have been described in "The Worm Breeder's Gazette", an informal newsletter I edit, and at a C. elegans meeting held at Cold Spring Harbor in May 1979. A previous review of this field was written by Riddle (1978). The use of free-living nematodes in genetic studies was first suggested by Dougherty and Calhoun in 1948. Early studies of C. elegans by Dougherty and co-workers (1959) emphasized methods of axenic cultivation while the sexual cycle was described by Nigon (1949). The present interest in C. elegans, however, was triggered by Sydney Brenner who took up the organism in the late 1960s as a possibly useful organism for the study of the genetic control of the nervous system and of behavior (Brenner, 1973). It was largely due to Brenner (1974) that the present methods of cultivation and of genetic analysis were developed.
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[
Methods Cell Biol,
1995]
The number of easily distinguishable mutant phenotypes in Caenorhabditis elegans is relatively small, and this constrains the number of factors that can be followed in standard genetic crosses. Consequently, a new mutation is mapped, first to a chromosome using two-factor data from one or more crosses, and then to a chromosomal subregion by successive three-factor crosses. Mapping would be more efficient if it were possible to score a large number of well-distributed markers in a single cross. The advent of the polymerase chain reaction makes this approach feasible by allowing polymorphic genomic regions to serve as genetic markers that are easily scored in DNA released from individual animals. The only "phenotype" is a band on a gel, so the segregation of many of these markers can be followed in a single cross. Following the terminology proposed by Olsen et al. (1989), we refer to polymorphisms that can be scored by appropriately designed polymerase chain reaction (PCR) assays as polymorphic seqeunce-tagged sites (STSs)...
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Meiosis is the process by which eukaryotes reduce their chromosome content by half. During meiosis, the chromosomes undergo two divisions, the first of which involves the organized synapsis of homologous chromosomes. During this division, synapsis predisposes the chromosomes to recombination and proper disjunction. We review here aspects of meiotic recombination under study using the self-fertilizing hermaphroditic nematode Caenorhabditis elegans. Six linkage groups wre identified by Brenner that correlated with the six chromosomes observed by Nigon. Although the behavior of the chromosomes is reported to be holokinetic, we have not needed to invoke any unusual mechanisms to explain their behavior with regard to meiotic recombination. On the contrary, there appears to be a single homolog recognition site localized at or near one end of each of the chromosomes. It is not known whether the homolog recognition site is associated with a centromere, but it is clear that this region is responsible for the initiation of the meiotic phenomena of homolog pairing, recombination, and proper disjunction.
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[
1990]
Induction of the C. elegans vulva is a simple example of pattern formation in which the combined action of two intercellular signals specifies three cell types in a precise spatial pattern. These two signals, a graded inductive signal and a short-range lateral signal, are each mediated by a distinct genetic pathway. To understand how these intercellular signals specify cell type, we are studying, by genetic analysis and molecular cloning, genes whose products are involved in the induction pathway.
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[
1987]
The neurological development of the nematode Caenorhabditis elegans is being analysed by classical genetic and molecular approaches. Putative transposon insertions have been generated using a mutator strain. The mutations isolated include an allele of the axonal growth gene
unc-44 and a mutation in a novel dumpy gene. These alleles are unstable, but the reversion rates and the number of extraneous transposons can be decreased by serial backcrosses to a transposon Tc1 low copy number strain. Hybridization of Tc1 DNA to gel blots of mutant DNA revealed a limited number of transposable elements in addition to the wildtype complement. In the case of the dumpy mutation, the association of a unique Tc1 element with the mutation has been demonstrated by loss of the
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[
WormBook,
2006]
Throughout the C. elegans sequencing project Genefinder was the primary protein-coding gene prediction program. These initial predictions were manually reviewed by curators as part of a "first-pass annotation" and are actively curated by WormBase staff using a variety of data and information. In the WormBase data release WS133 there are 22,227 protein-coding gene, including 2,575 alternatively-spliced forms. Twenty-eight percent of these have every base of every exon confirmed by transcription evidence while an additional 51% have some bases confirmed. Most of the genes are relatively small covering a genomic region of about 3 kb. The average gene contains 6.4 coding exons accounting for about 26% of the genome. Most exons are small and separated by small introns. The median size of exons is 123 bases, while the most common size for introns is 47 bases. Protein-coding genes are denser on the autosomes than on chromosome X, and denser in the central region of the autosomes than on the arms. There are only 561 annotated pseudogenes but estimates but several estimates put this much higher.