Ali MY et al. (1973) Parasitologia Hungarica "Nematodes associated with Coleoptera species in Egypt Part 2."

Ali MY, Wahab A, El-Kifel AH

[Parasitologia Hungarica, 1973]

Ali MY et al. (2000) FEBS Lett "A novel C-terminal kinesin subfamily may be involved in chromosomal movement in caenorhabditis elegans."

Malik AN, Ali MY, Siddiqui SS, Siddiqui ZK

[FEBS Lett, 2000]

C-terminal kinesin motor proteins, such as the Drosophila NCD and yeast KAR3, are involved in chromosomal segregation. Previously we have described two orthologs of NCD in Caenorhabditis elegans, KLP-3 and KLP-17, which also participate in chromosome movement. Here we report cDNA cloning of klp-15 and klp-16, and the expression pattern of the genes encoding C-terminal motor kinesins including klp-15 and klp-16. Interestingly KLP-15 and KLP-16 form a unique class of C-terminal kinesins, distinct from the previously known C-terminal motors in other organisms. Using in situ hybridization and RNA interference assay, we show that although all of these motors mediate chromosome segregation, they do so in a combination of unique and overlapping manners, suggesting a complex hierarchy of kinesin motor function in metazoans.

Ali MY et al. (2000) DNA Res "C. elegans KLP-11/OSM-3/KAP-1: orthologs of the sea urchin kinesin-II, and mouse KIF3A/KIFB/KAP3 kinesin complexes."

Ohnishi H, Khan MLA, Nishikawa K, Shakir MA, Siddiqui SS, Siddiqui ZK, Ali MY

[DNA Res, 2000]

Kinesins are intracellular multimeric transport motor proteins that move cellular cargo on microtubule tracks. It has been shown that the sea urchin KRP85/95 holoenzyme associates with a KAP115 non-motor protein, forming a heterotrimeric complex in vitro, called the Kinesin-II. Here we describe isolation of a cDNA clone corresponding to the klp-11 kinesin in C. elegans. Our sequence analysis of the encoded KLP-11 shows that it shares high homology with the OSM-3 kinesin. We also describe a nematode cDNA encoding KAP-1 that shares extensive homology with the sea urchin KAP115 kinesin associated protein. Sequence-based structural analysis of the OSM-3, KLP-11, and KAP-1, presented here suggests that these may form a heterotrimeric complex. We also describe the presence of a Drosophila armadillo consensus motif in CeKAP-1, first found in spKAP115, that suggests a possible role for the KAP-1 in signal transduction.

Ali MY et al. (2000) Journal of Biochemistry and Molecular Biology "Expression and cDNA cloning of klp-12 gene encoding an ortholog of the chicken chromokinesin, mediating chromosome segregation in Caenorhabditis elegans."

Ali Khan L, Siddiqui SS, Shakir MA, Nishikawa K, Ali MY, Kobayashi KF

[Journal of Biochemistry and Molecular Biology, 2000]

In eukaryotes, chromosomes undergo a series of complex and coordinated movements during cell division. The kinesin motor proteins, such as the chicken Chromokinesin, are known to bind DNA and transport chromosomes on spindle microtubles. We previously cloned a family of retrograde C-terminus kinesins in Caenorhabditis elegans that mediate chromosomal movement during embryonic development. Here we report the cloning of a C. elegans klp-12 cDNA, encoding an ortholog of chicken Chromokinesin and mouse KIF4. The KLP-12 protein contains 1609 amino acid and harbors two leucine zipper motifs. The in situ RNA hybridization in embryonic stages shows that the klp-12 gene is expressed during the entire embryonic development. The RNA interference assay reveals that, similar to the role of Chromokinesin, klp-12 functions in chromosome segregation. These results support the notion that during mitosis both types, the anterograde N-terminus kinesins such as KLP-12 and the retrograde C- terminus kinesins, such as KLP-3, KLP-15, KLP-16, and KLP-17, may coordinate chromosome assembly at the metaphase plate and chromosomal segregation towards the spindle poles in C. elegans.

Ali MY et al. (2000) Biochem Biophys Res Commun "cDNA cloning and expression of a C-terminus motor kinesin-like protein KLP-17, involved in chromosomal movement in Caenorhabditis elegans."

Ali MY, Siddiqui SS

[Biochem Biophys Res Commun, 2000]

Members of the kinesin protein family transport intracellular cargo to their correct cellular destination. Previously we have characterized the klp-3 gene from Caenorhabditis elegans, which encodes an ortholog of the retrograde C-terminus kinesin motors, such as Drosophila NCD, and yeast KAR3, involved in the chromosomal movement. Here we report the cloning of a full-length klp-17 cDNA in C. elegans, encoding a C-terminus kinesin of 605 amino residues. KLP-17 sequence defines a novel phylogenetic group, distinct from the NCD/KAR3 family. Interestingly, the klp-17 gene transcript is restricted to the nuclear compartment, as deduced by the RNA in situ hybridization in embryos. The klp-17::gfp-expressing transgenic animals do not display any GFP fluorescence signal, but expression of the extra chromosomal arrays cause production of abnormal males, and embryos with morphological defects and lethality in the progeny. Similarly, the klp-17 RNA interference assay results in embryonic death, arrested embryos, and polyploid cells. Thus, KLP-17 represents a new motor protein that mediates chromosome movement, essential for cell divisions during metazoan development.

Rankin CH J Neurogenet "But can they learn? My accidental discovery of learning and memory in C. elegans."

Rankin CH

[J Neurogenet]

I did not set out to study <i>C. elegans</i>. My undergraduate and graduate training was in Psychology. My postdoctoral work involved studying learning and memory in 1mm diameter juvenile <i>Aplysia californica</i>. As a starting Assistant Professor when I attempted to continue my studies on Aplysia I encountered barriers to carrying out that work; at about the same time I was introduced to <i>Caenorhabditis elegans</i> and decided to investigate whether they could learn and remember. My laboratory was the first to demonstrate conclusively that <i>C. elegans</i> could learn and in the years since then my lab and many others have demonstrated that <i>C. elegans</i> is capable of a variety of forms of learning and memory.

Ausubel FM (2018) Annu Rev Genet "Tracing My Roots: How I Became a Plant Biologist."

Ausubel FM

[Annu Rev Genet, 2018]

My trajectory to becoming a plant biologist was shaped by a complex mix of scientific, political, sociological, and personal factors. I was trained as a microbiologist and molecular biologist in the late 1960s and early 1970s, a time of political upheaval surrounding the Vietnam War. My political activism taught me to be wary of the potential misuses of scientific knowledge and to promote the positive applications of science for the benefit of society. I chose agricultural science for my postdoctoral work. Because I was not trained as a plant biologist, I devised a postdoctoral project that took advantage of my microbiological training, and I explored using genetic technologies to transfer the ability to fix nitrogen from prokaryotic nitrogen-fixing species to the model plant Arabidopsis thaliana with the ultimate goal of engineering crop plants. The invention of recombinant DNA technology greatly facilitated the cloning and manipulation of bacterial nitrogen-fixation (nif) genes, but it also forced me to consider how much genetic engineering of organisms, including human beings, is acceptable. My laboratory has additionally studied host-pathogen interactions using Arabidopsis and the nematode Caenorhabditis elegans as model hosts. Expected final online publication date for the Annual Review of Genetics Volume 52 is November 23, 2018. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Schaffner KF (1998) Philosophy of Science "Model organisms and behavioral genetics - A rejoinder."

Schaffner KF

[Philosophy of Science, 1998]

In this rejoinder to the three preceding comments, I provide some additional philosophical warrant for the biomedical sciences' focus on model organisms. I then relate the inquiries on model systems to the concept of 'deep homology', and indicate that the issues that appear to divide my commentators and myself are in part empirical ones. I cite recent work on model organisms, and especially C. elegans that supports my views. Finally, I briefly readdress some of the issues raised by Developmental Systems Theory.

Vanfleteren JR et al. (1994) Mol Phylogenet Evol "Molecular genealogy of some nematode taxa as based on cytochrome c and globin amino acid sequences."

Moens L, Vanfleteren JR, Trotman CNA, Tweedie SA, Van de Peer Y, Lu L, Van Hauwaert ML, Blaxter ML

[Mol Phylogenet Evol, 1994]

We have begun to reconstruct the ancient history of the nematode phylum based on cytochrome c and globin amino acid sequences. The data suggest that the nematode ancestor diverged from a line leading to mammals about 1 billion years ago and that the most recent common ancestor of the extant species Caenorhabditis elegans, Trichostrongylus colubriformis, Nippostrongylus brasiliensis, Ascaris suum, and Pseudoterranova decipiens lived about 550 MY ago. The rhabditids and strongylids emerged as one offshoot of this ancestor, the ascarids as another. Rhabditids and strongylids diverged some 400 MY ago, whereas the genera Trichostrongylus and Nippostrongylus diverged slightly over 200 MY ago. A gene duplication event in the strongylid branch is predicted to have occurred around 250-335 MY ago. There are two globin genes in Nippostrongylus, expressed in anatomically distinct compartments (body and cuticle), and the single sequence from Trichostrongylus is most like the Nippostrongylus body globin gene. A strikingly different duplication event occurred within the same period in the line leading to the extant ascarid genera, creating a single polypeptide containing two globin domains. The genera Ascaris and Pseudoterranova diverged some 150-250 MY ago. Interestingly, the second globin repeat evolved at a faster rate in both species examined. This is possibly related to the acquisition of an unusual carboxyterminal extension, composed of alternating positively and negatively charged residues, that is necessary for the assembly of several monomers into the native polymeric molecules.

Carpenter AE (2011) Proc IEEE Int Symp Biomed Imaging "EXTRACTING BIOMEDICALLY IMPORTANT INFORMATION FROM LARGE, AUTOMATED IMAGING EXPERIMENTS."

Carpenter AE

[Proc IEEE Int Symp Biomed Imaging, 2011]

Major challenges remain in the extraction of rich information from high-throughput microscopy experiments. In this paper, I describe some of these challenges, particularly those that are the subject of ongoing research in my laboratory. The challenges include segmenting neurons, co-cultures of different cell types, and whole organisms; segmenting and tracking cells in time-lapse images; quantifying complex phenotypic changes; and discovering biologically relevant subpopulations of cells.