Ellis RE (2006) Genome Biol "Enigma variations: control of sexual fate in nematode germ cells."

Ellis RE

[Genome Biol, 2006]

ABSTRACT: A new study showing that neither FEM-2 nor FEM-3 is required for spermatogenesis in Caenorhabditis briggsae, unlike in Caenorhabditis elegans, implies that the sex-determination pathway in these species is evolving rapidly, and supports the proposal that they evolved hermaphroditism independently.

Ellis RE et al. (1986) Nucleic Acids Res "The rDNA of C. elegans: sequence and structure."

Ellis RE, Sulston JE, Coulson AR

[Nucleic Acids Res, 1986]

We have sequenced one complete rDNA tandem repeat from the nematode C. elegans. By comparative analysis we derive secondary structures for the 18s, 5.8s, and 26s rRNA molecules, and comment on other important features of the sequence. We also present the sequence of a junction between the rDNA and non-ribosomal DNA. Finally, we use our data to quantify the evolutionary relationships among several organisms currently studied in developmental

Ellis RE et al. (1991) Development "Two C. elegans genes control the programmed deaths of specific cells in the pharynx."

Ellis RE, Horvitz HR

[Development, 1991]

The genes ces-1 and ces-2 control the decisions of two cells in the nematode Caenorhabditis elegans to undergo programmed cell death. Mutations that cause a gain of ces-1 function or a reduction of ces-2 function prevent these cells, the sisters of the two pharyngeal NSM neurons, from dying. These mutations do not affect most other cell deaths. Genetic studies indicate that ces-1 and ces-2 affect the fates of the NSM sisters by regulating the genes required for all programmed cell deaths to occur.

Ellis RE et al. (1995) Genetics "The fog-3 gene and regulation of cell fate in the germ line of Caenorhabditis elegans."

Ellis RE, Kimble JE

[Genetics, 1995]

In the nematode Caenorhabditis elegans, germ cells normally adopt one of three fates: mitosis, spermatogenesis or oogenesis. We have identified and characterized the gene fog-3, which is required for germ cells to differentiate as sperm rather than as oocytes. Analysis of double mutants suggests that fog-3 is absolutely required for spermatogenesis and acts at the end of the regulatory hierarchy controlling sex determination of the germ line. By contrast, mutations in fog-3 do not alter the sexual identity of other tissues. We also have characterized the null phenotype of fog-1, another gene required for spermatogenesis; we demonstrate that it too controls the sexual identity of germ cells but not of other tissues. Finally, we have studied the interaction of these two fog genes with gld-1, a gene required for germ cells to undergo oogenesis rather than mitosis. On the basis of these results, we propose that germ-cell fate might be controlled by a set of inhibitory interactions among genes that specify one of three fates: mitosis, spermatogenesis or oogenesis. Such a regulatory network would link the adoption of one germ-cell fate to the suppression of the

Ellis RE et al. (1991) Genetics "Genes required for the engulfment of cell corpses during programmed cell death in Caenorhabditis elegans."

Jacobson DM, Horvitz HR, Ellis RE

[Genetics, 1991]

After programmed cell death, a cell corpse is engulfed and quickly degraded by a neighboring cell. For degradation to occur, engulfing cells must recognize, phagocytose and digest the corpses of dying cells. Previously, three genes were known to be involved in eliminating cell corpses in the nematode Caenorhabditis elegans: ced-1, ced-2 and nuc-1. We have identified five new genes that play a role in this process: ced-5, ced-6, ced-7, ced-8 and ced-10. Electron microscopic studies reveal that mutations in each of these genes prevent engulfment, indicating that these genes are needed either for the recognition of corpses by other cells or for the initiation of phagocytosis. Based upon our study of double mutants, these genes can be divided into two sets. Animals with mutations in only one of these sets of genes have relatively few unengulfed cell corpses. By contrast, animals with mutations in both sets of genes have many unengulfed corpses. These observations suggest that these two sets of genes are involved in distinct and partially redundant processes that act in the engulfment of cell corpses.

Fitch DHA et al. (1995) Mol Biol Evol "18S ribosomal RNA gene phylogeny for some Rhabditidae related to Caenorhabditis."

Fitch DHA, Emmons SW, Bugaj-Gaweda B

[Mol Biol Evol, 1995]

We have investigated the molecular evolution of the nucleotide sequences of 18S ribosomal RNA genes (18S rDNA) from a set of nematodes in the family Rhabditidae (Nematoda: Secernentea). Our aim was to evaluate the usefulness of this gene for molecular systematics of this family, as well as to establish phylogenetic relationships within a group that has potential for comparative studies of the relationship between development and evolution. We determined the 18S rDNA sequences of nine species of nematodes representing six genera within this family (Caenorhabditis briggsae, C. vulgaris, C. remanei, Rhabditis blumi, Rhabditis sp. br, Rhabditella axei, Pellioditis typica, Teratorhabditis palmarum, and Pelodera strongyloides dermatitica). Using hypothetical models for secondary structure as well as nucleotide similarity, these sequences were aligned with the 18S rDNA sequence published by Ellis et al. for C. elegans and with the partial sequences published by Nadler for eight ascaridoid species. We find that 18S rDNA is likely to be a useful tool to resolve relationships at the intrafamilial level. However, 18S rDNA sequences cannot be used to resolve relationships between taxa as closely related as the Caenorhabditis species. Parsimony, minimum-evolution, and maximum-likelihood methods strongly reject Andrassy's proposed phylogenetic classification based on adult morphological characters but support that of Sudhaus as one alternative of a few possible phylogenies. Distances between genera in this family are about eight times as great as distances between tetrapod classes, suggesting rapid rates of substitution, ancient devergence, or both.

Abdel-Wahab N et al. Mol Biochem Parasitol "OvB20, an Onchocerca volvulus-cloned antigen selected by differential immunoscreening with vaccination serum in a cattle model of onchocerciasis."

Wu Y, Abdel-Wahab N, Tuan RS, Kuo YM, Bianco AE

[Mol Biochem Parasitol]

A cDNA of Onchocerca volvulus has been isolated by differential immunoscreening of an adult worm expression library using sera raised in cattle against the related species, O. lienalis. It was selected because of its recognition by antibodies from cattle immunized with irradiated third-stage (L3) larvae and not by antibodies from animals infected with non-irradiated larvae. The original 311-bp clone was used to isolate a 1478-bp cDNA. Designated OvB20, this codes for 460 amino acid residues, hybridizes with a approximately 1.6 kBp transcript and appears to be transcribed from a filarial-specific, single copy gene. It is expressed in developing stages from embryo to L4 larva, but not in the adult. The product of OvB20 appears to undergo co- or post-translational processing: in vitro transcription and translation give rise to a polypeptide consistent with the deduced amino acid sequence (approximately 52 kDa), whilst products of 52 and 65 kDa are detected in larvae by immunoblotting and following in vitro translations to which exogenous microsomes have been added. A 42-kDa protein was also detected in all in vitro translations. No homologous genes were found in the computer databases, although there are regions of weak sequence similarity with C-reactive proteins. The functional role of OvB20 may warrant further attention, as it has recently been shown that the recombinant protein confers host protection against a related rodent filaria following active immunization (Taylor, M.J., Abdel-Wahab, N., Wu, Y., Jenkins, R.E. and Bianco, A.E. (1995) Onchocerca volvulus larval antigen, OvB20 induces partial protection in a rodent model of onchocerciasis. Infect. Immun. 63, 4417-4422).

Lee SK (2021) Prog Mol Subcell Biol "EndoplasmicReticulum Homeostasis and Stress Responses in Caenorhabditis elegans."

Lee SK

[Prog Mol Subcell Biol, 2021]

The unfolded protein response (UPR) is an evolutionarily conserved adaptive regulatory pathway that alleviates protein-folding defects in the endoplasmic reticulum (ER). Physiological demands, environmental perturbations and pathological conditions can cause accumulation of unfolded proteins in the ER and the stress signal is transmitted to the nucleus to turn on a series of genes to respond the challenge. In metazoan, the UPR pathways consisted of IRE1/XBP1, PEK-1 and ATF6, which function in parallel and downstream transcriptional activation triggers the proteostasis networks consisting of molecular chaperones, protein degradation machinery and other stress response pathways ((Labbadia J, Morimoto RI, F1000Prime Rep 6:7, 2014); (Shen X, Ellis RE, Lee K, Annu Rev Biochem 28:893-903, 2014)). The integrated responses act on to resolve the ER stress by increasing protein folding capacity, attenuating ER-loading translation, activating ER-associated proteasomal degradation (ERAD), and regulating IRE1-dependent decay of mRNA (RIDD). Therefore, the effective UPR to internal and external causes is linked to the multiple pathophysiological conditions such as aging, immunity, and neurodegenerative diseases. Recent development in the research of the UPR includes cell-nonautonomous features of the UPR, interplay between the UPR and other stress response pathways, unconventional UPR inducers, and noncanonical UPR independent of the three major branches, originated from multiple cellular and molecular machineries in addition to ER. Caenorhabditis elegans model system has critically contributed to these unprecedented aspects of the ER UPR and broadens the possible therapeutic targets to treat the ER-stress associated human disorders and time-dependent physiological deterioration of aging.

Reilly DK et al. (2019) MicroPubl Biol "Evolution of hermaphroditism decreases efficacy of Ascaroside#8-mediated mate attraction in Caenorhabditis nematodes"

Srinivasan J, Randle LJ, Reilly DK

[MicroPubl Biol, 2019]

Nematodes, such as the model organism Caenorhabditis elegans, communicate environmental and developmental information with conspecifics through a class of small-molecule pheromones termed ascarosides (Butcher, 2017; Chute and Srinivasan, 2014; Ludewig and Schroeder, 2013). Nematodes share ascaroside signaling pathways (Choe et al., 2012), but are also capable of eavesdropping on chemical signals of predatory species (Liu et al., 2018). Ascarosides signal vast arrays of information, either individually or as blends, based on concentration, sex, physiological state, and other ascarosides sensed (McGrath and Ruvinsky, 2019; Pungaliya et al., 2009; Srinivasan et al., 2008; Srinivasan et al., 2012). For instance, octopamine-succinylated ascaroside #9 (osas#9) is able to signal starvation conditions in the absence of other ascarosides (Artyukhin et al., 2013).C. elegans (Cel) is an androdioecious species, with the majority of the natural population comprised of self-fertilizing hermaphrodites, and a small proportion (<0.2%) being male (Hodgkin et al., 1979). There are two other similarly androdioecious species in the genus, C. briggsae (Cbr) and C. tropicalis (Ctr). All three species evolved their hermaphroditism separately and uniquely (Ellis and Lin, 2014). Of the male-attracting ascarosides secreted by C. elegans (ascr#2, ascr#3, ascr#4, and ascr#8), ascr#8 is the most potent (Pungaliya et al., 2009). Since ascr#8 is a male attractant in this hermaphroditic species, we asked if other hermaphroditic species retained the ability to attract males using this cue. Males from the gonochoristic (male-female) sister species to C. briggsae and C. tropicalis C. nigoni (Cni) and C. wallacei (Cwa), respectively were also assayed for their ability to respond to ascr#8. The closest relative of C. elegans, the gonochoristic C. inopinata (Cin, formerly C. sp. 34), which has been recently characterized (Kanzaki et al., 2018), was also tested, along with the JaponicaGroup gonochoristic species C. japonica(Cja) and C. afra(Caf).Dwell times were analyzed as previously described using a Spot Retention Assay (Narayan et al., 2016). Dwell times were transformed using a Base 2 Exponentiation (2n, wherein n is equal to the raw dwell time value) to generate only non-zero data in order to calculate fold-changes. The Logbase2 of the fold-changes was then calculated to normalize the data. All data sets were first checked for normality using a DAgostino