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Welcome to the Pubget Medical Subject Headings (MESH) browser. Click on a topic or subtopic below to explore related papers. In the gold box is the most recent paper about the current MESH term, and below are 20 related papers.
Caenorhabditis (1):
Recent article
Caenorhabditis
Abstract
We provide an in-depth analysis of mtDNA pseudogene evolution in C. briggsae natural isolates and related Caenorhabditis species. Mapping the observed presence and absence of the pseudogenes onto phylogenies suggests that Psinad5-1 originated in the ancestor to C. briggsae and its recently discovere...
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PMID: 20026478
PDF is available here.
PDF is available here.
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Journal of Ethnopharmacology (127)3 2010
Abstract
Anthelmintic activity was confirmed in 12 plant species. Of these, eight showed strong evidence of activity (p<0.0001), one exhibited moderate evidence of activity (p<0.001), three demonstrated weak evidence of activity (p<0.05), and five plants showed no evidence of activity. The eight species with...
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PMID: 19962435
PDF is available here.
PDF is available here.
Abstract
We examine the regulation of the 3'UTR of the die-1 transcription factor in a single neuron of the nematode C. elegans. This 3'UTR shows the intriguing feature of being differentially regulated across the animal's left/right axis. In the left gustatory neuron, ASEL, in which DIE-1 protein is normall...
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PMID: 20040592
PDF is available here.
PDF is available here.
Abstract
We present an approach that combines rule-based filters and a Bayesian Classifier to identify a class of snoRNAs (H/ACA) without requiring target sequence information. It takes advantage of unique attributes of their genomic organization and improved species-specific motif characterization to predic...
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PMID: 20038629
PDF is available here.
PDF is available here.
Genome Research (19)12 2009
Abstract
We compare temporal expression profiles of one-to-one orthologs in conserved or divergent genomic positions in two genetically distant nematode species-Caenorhabditis elegans and C. briggsae-that share a near-identical developmental program. We find, for all major patterns of temporal expression, a...
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PMID: 19745112
PDF is available here.
PDF is available here.
Abstract
Lethality changes were investigated during development in 4 h metal exposed Caenorhabditis elegans. Exposure to examined metals caused severe lethality toxicities in L1- and L2-larvae, in L3-larvae exposed to examined metals at concentrations of 50 and 100 microM and to Pb, Hg, and Cr at the concent...
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PMID: 19588066
PDF is available here.
PDF is available here.
Parasitology (93 ( Pt 2))02 2009
Abstract
An instrument for measuring the motility of larval and adult nematodes is described along with an analysis of its use as a tool to analyse drug action on these parasites. Motility was detected from larval parasites of Nippostrongylus brasiliensis and Ascaris suum in the absence and presence of vario...
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PMID: 3785972
PDF is available here.
PDF is available here.
Abstract
Filarial nematode parasites, the causative agents of elephantiasis and river blindness, undermine the livelihoods of over one hundred million people in the developing world. Recently, the Filarial Genome Project reported the draft sequence of the ~95 Mb genome of the human filarial parasite Brugia m...
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PMID: 18952001
PDF is available here.
PDF is available here.
Planta Medica (75)3 2009
Abstract
Epigallocatechin gallate (EGCG) is a major green tea polyphenol with pronounced antioxidative activity. The effects of EGCG on lifespan and stress resistance in wild-type N2 and transgenic strains of Caenorhabditis elegans [ HSP-16.2/GFP, MEV-1(KN1), FEM-1(HC17)] were investigated. The expression of...
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PMID: 19085685
PDF is available here.
PDF is available here.
Developmental Biology (325)1 2009
Abstract
We show that in C. briggsae, RNAi of skn-1 results in a stronger E defect but no apparent MS defect, while RNAi of pop-1 results in loss of gut and an apparent E to MS transformation, the opposite of the pop-1 knockdown phenotype seen in C. elegans. The difference in pop-1(-) phenotypes correlates w...
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PMID: 18977344
PDF is available here.
PDF is available here.
Abstract
We employed a splicing-sensitive microarray to study the evolution of allele-specific AS in nematodes. We compared splicing levels among five distinct Caenorhabditis elegans lines. Our results indicate that AS is less variable between natural isolates (NIs) from England, Hawaii, and Australia than w...
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PMID: 18718918
PDF is available here.
PDF is available here.
Transgenic Research (17)4 2008
Abstract
We demonstrated that the n-3 fatty acid desaturase gene (sFat-1) synthesized from revised and optimized codons based on roundworm Caenorhabditis briggsae genomic gene for enhanced expression in mammals was successfully expressed in Chinese hamster ovary (CHO) cells and significantly elevated cellula...
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PMID: 18322818
PDF is available here.
PDF is available here.
Trends in Genetics (24)8 2008
Abstract
We describe a new mechanism: the recruitment of internal exonic sequences ('intronization') in Caenorhabditis species. The numbers of intronization events and introns gained by other mechanisms are similar, suggesting that intronization significantly contributes to recent intron creation in nematode...
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PMID: 18597887
PDF is available here.
PDF is available here.
Abstract
We have identified 18 sHSPs in the Caenorhabditis elegans genome and 20 sHSPs in the Caenorhabditis briggsae genome. Analysis of phylogenetic relationships and evolutionary dynamics of the sHSPs in these two genomes reveals a very complex pattern of evolution. The sHSPs in C. elegans and C. briggsae...
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PMID: 17940840
PDF is available here.
PDF is available here.
Abstract
I illustrate internal calibration in these groups with direct estimates of the mutation rate from contemporary populations that are corrected for interfering effects of selection on the assumption of neutrality of substitutions. Divergence times are inferred among 6 species each of Caenorhabditis an...
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PMID: 18234705
PDF is available here.
PDF is available here.
Trends in Genetics (24)4 2008
Abstract
We review how current mapping resources and methodologies within and between species support the use of Caenorhabditis spp. for studying genetic variation, with a focus on pathways associated with human disease....
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PMID: 18325626
PDF is available here.
PDF is available here.
Abstract
We contrast rates of nucleotide substitution and codon usage bias among thousands of orthologous groups of genes in six species of Caenorhabditis, including the classic model organism Caenorhabditis elegans. Despite evidence that weak selection on synonymous codon usage is pervasive in the history o...
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PMID: 18430935
PDF is available here.
PDF is available here.
Abstract
The inherent operational problems of biofilters such as a pressure drop increase and nutrient limitations were managed in a toluene-removing gas biofilter with a sustainable grazing fauna consisting of micrometazoa and ciliate protozoa. Dynamic populations of predatory nematodes (Caenorhabditis sp.)...
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PMID: 18397767
PDF is available here.
PDF is available here.
Experimental Gerontology (43)3 2008
Abstract
We determined the effect of dietary restriction by bacterial deprivation on life span in five different wild-derived Caenorhabditis elegans strains and two strains of the related species Caenorhabditis remanei. Longevity was enhanced in each of the wild-derived C. elegans strains, in most cases to a...
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PMID: 18083317
PDF is available here.
PDF is available here.
Abstract
We have taken an unbiased forward mutagenesis approach to isolating zygotic mutations that masculinize all tissues of C. briggsae hermaphrodites. The screens identified loss-of-function mutations in the C. briggsae orthologs of tra-1, tra-2, and tra-3. The somatic and germline phenotypes of these mu...
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PMID: 18245372
PDF is available here.
PDF is available here.
Multilocus patterns of polymorphism and selection across the X chromosome of Caenorhabditis remanei.
Abstract
I sampled nucleotide polymorphism at 40 loci across the X chromosome. The site-frequency spectrum for these loci provides no evidence for population size change, and one locus presents a candidate for linkage to a target of balancing selection. Selection for codon usage bias leads to the non-neutral...
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PMID: 18245859
PDF is available here.
PDF is available here.
Abstract
We describe the first cultured isolates of C. elegans and C. briggsae from sub-Saharan Africa. We characterize these samples for patterns of nucleotide polymorphism and vulva precursor cell lineage, and conduct a series of hybrid crosses in C. briggsae to test for genetic incompatibilities. The dist...
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PMID: 18073782
PDF is available here.
PDF is available here.
Abstract
We report a strikingly different pattern in Caenorhabditis nematodes-more than 92% of cassette exons from Caenorhabditis elegans are conserved in Caenorhabditis briggsae and/or Caenorhabditis remanei. High levels of conservation extend to minor-form exons (present in a minority of transcripts) and a...
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PMID: 18048400
PDF is available here.
PDF is available here.
Developmental Biology (314)1 2008
Abstract
We determined the C. briggsae embryonic cell lineage, using the tools StarryNite and AceTree. We traced both cell divisions and cell positions for all cells through all but the last round of cell division and for selected cells through the final round. We found the lineage to be remarkably similar t...
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PMID: 18164284
PDF is available here.
PDF is available here.
Abstract
We generated transcriptional GFP reporters corresponding to 5 '-upstream sequences of the ftn-1 and ftn-2 genes. We identified a conserved 63-bp sequence, the iron-dependent element (IDE), that is required for iron-dependent regulation of a ftn-1 GFP reporter in intestine. The IDE contains two GATA-...
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PMID: 18024960
PDF is available here.
PDF is available here.
Abstract
In the present study we have analyzed whole genomic data from C. briggsae, C. remanei, Pristionchus pacificus and Brugia malayi and EST data from several other nematode species to study the evolutionary history of the nematode globin gene family. We find a high level of conservation of the C. elegan...
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PMID: 18844991
PDF is available here.
PDF is available here.
Abstract
We characterized mitochondrial genome evolutionary processes in Caenorhabditis briggsae natural isolates to show that numerous lineages experience a high incidence of nonsynonymous substitutions in protein-coding genes and accumulate unusual deleterious noncoding DNA stretches with associated hetero...
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PMID: 18302772
PDF is available here.
PDF is available here.
BMC Bioinformatics (9)1 2008
Abstract
The most accurate gene-finders were 'combiner' algorithms, which made use of transcript- and protein-alignments and multi-genome alignments, as well as gene predictions from other gene-finders. Gene-finders that used alignments of ESTs, mRNAs and proteins came in second. There was a tie for third pl...
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PMID: 19099578
PDF is available here.
PDF is available here.
Diversification and adaptive sequence evolution of Caenorhabditis lysozymes (Nematoda: Rhabditidae).
Abstract
We used phylogenetic inference and sequence analysis tools to assess the evolution of lysozymes from three congeneric nematode species, Caenorhabditis elegans, C. briggsae, and C. remanei. Their lysozymes fall into three distinct clades, one belonging to the invertebrate-type and the other two to th...
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PMID: 18423043
PDF is available here.
PDF is available here.
Abstract
In this study, we initially searched for motifs occurring in the area 1000 bp upstream from all miRNAs independent of their genomic location. We discovered a previously unknown sequence motif GANNNNGA that displayed a conserved distribution in the nematode worms Caenorhabditis elegans and Caenorhabd...
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PMID: 19036124
PDF is available here.
PDF is available here.
BMC Genomics (9)1 2008
Abstract
We identified 988 TF genes in C. elegans, and inferred corresponding sets in C. briggsae and C. remanei, containing 995 and 1093 TF genes, respectively. Analysis of the three gene sets revealed 652 3-way reciprocal 'best hit' orthologs (nematode TF set), approximately half of which are zinc finger (...
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PMID: 18752680
PDF is available here.
PDF is available here.
BMC Biology (6)1 2008
Abstract
We identified approximately 1300 genes and 400 pseudogenes in the 19 largest gene families, most of which fall into larger superfamilies. In the related species C. briggsae and C. remanei, we identified most or all genes in each of the 19 families. For most families, C. elegans has the largest numbe...
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PMID: 18837995
PDF is available here.
PDF is available here.
Abstract
Analysis of the amino acid composition of prion protein using a newly developed program for radar-chart deviation analysis has identified an abnormality or irregularity of the N-terminal flexible domain. Aromatic amino acids Trp and His together with Gly are abnormally abounding in this N-terminal d...
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PMID: 18991771
PDF is available here.
PDF is available here.
Nucleic Acids Research (36)Database issue 2008
Abstract
The genome sequences of a large number of metazoan species are now known. As multiple closely related genomes are sequenced, comparative studies that previously focussed on only pairs of genomes can now be extended over whole clades. The orthologous and paralogous transcripts in clades (OPTIC) datab...
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PMID: 17933761
PDF is available here.
PDF is available here.
Electrophoresis (28)23 2007
Abstract
We describe the adaptation of this method to obtain information on the N-glycome from minute amounts of tissue. The starting material, ranging from less than a milligram to a few milligrams of fresh tissue, is directly ground in Laemmli sample buffer and subject briefly to discontinuous Tris-glycine...
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PMID: 18041037
PDF is available here.
PDF is available here.
Abstract
The nematode Anisakis simplex is a representative parasite for marine animals and occasionally causes not only anisakiasis but also allergic reactions in sensitized subjects. Besides the known allergens, a number of unidentified allergens have been suggested to still exist in A. simplex. In this stu...
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PMID: 17689675
PDF is available here.
PDF is available here.
Abstract
We isolated dauer-formation mutations in C. briggsae, a species closely related to the model organism C. elegans. We identified mutations in orthologs of C. elegans genes daf-2 (insulin receptor), daf-3 (Smad), and daf-4 (TGF-beta type 2 receptor), as well as genes required for formation of sensory...
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PMID: 17660533
PDF is available here.
PDF is available here.
Abstract
We have sequenced the approximately 90 megabase (Mb) genome of the human filarial parasite Brugia malayi and predict approximately 11,500 protein coding genes in 71 Mb of robustly assembled sequence. Comparative analysis with the free-living, model nematode Caenorhabditis elegans revealed that, desp...
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PMID: 17885136
PDF is available here.
PDF is available here.
Abstract
We report data on the cumulative effects of mutations that affect body size in three species of rhabditid nematode that vary fivefold in adult size. Results are very consistent with previous studies of mutations underlying fitness in the same strains: two strains of Caenorhabditis briggsae decline i...
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PMID: 17483403
PDF is available here.
PDF is available here.
Bioinformatics (23)12 2007
Abstract
We present a method for combining gene-finders called Genomix. Genomix selects the predicted exons that are best conserved within and/or between species in terms of sequence and intron-exon structure, and combines them into a gene structure. Genomix was used to combine predictions from four gene-fin...
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PMID: 17483502
PDF is available here.
PDF is available here.
Matrix Biology (26)5 2007
Abstract
The collagen prolyl 4-hydroxylases (P4Hs) are essential for proper extracellular matrix formation in multicellular organisms. The vertebrate enzymes are alpha(2)beta(2) tetramers, in which the beta subunits are identical to protein disulfide isomerase (PDI). Unique P4H forms have been shown to assem...
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PMID: 17321733
PDF is available here.
PDF is available here.
Journal of Antibiotics (60)6 2007
Abstract
Two new beta-class milbemycins from Streptomyces bingchenggensis, named milbemycin beta(13) and beta(14), have been isolated and characterized. The producing organism has been deposited at the China General Microbiology Culture Collection Center (Accession No: CGMCC1734). On the basis of detailed sp...
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PMID: 17617691
PDF is available here.
PDF is available here.
Abstract
We measured life-history traits in the progeny of inbred versus outcrossed C. elegans and C. remanei individuals derived from recently isolated natural populations. In addition, we maintained inbred lines of C. remanei through 13 generations of full-sibling mating. Highly inbred C. remanei showed dr...
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PMID: 17542844
PDF is available here.
PDF is available here.
Abstract
We have investigated the qualitative and quantitative expression of 21 orthologous alternative splice events through the development of 2 nematode species separated by 85-110 Myr of evolutionary time. We demonstrate that most of these alternative splice events present in Caenorhabditis elegans are c...
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PMID: 17272679
PDF is available here.
PDF is available here.
Abstract
We addressed why Caenorhabditis elegans males are inefficient at fertilizing their hermaphrodites. During copulation, hermaphrodites generally move away from males before they become impregnated. C. elegans hermaphrodites reproduce by internal self-fertilization, so that copulation with males is not...
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PMID: 17277358
PDF is available here.
PDF is available here.
Abstract
We have previously determined that in the arrested oocytes of old-aged C. elegans hermaphrodites with depleted sperm, large cytoplasmic ribonucleoprotein foci form. The formation of these foci is reversible, as they dissociate within 3 h after a male mates with the hermaphrodite, resupplying it with...
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PMID: 17216268
PDF is available here.
PDF is available here.
Abstract
We describe in detail the structure of all of the coding units within this operon. The operon is composed of eight genes of a diverse nature, organized in a complex structure. We have produced transgenic strains carrying fusions between gfp and a number of genes from the operon. These constructs sho...
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PMID: 17174523
PDF is available here.
PDF is available here.
Trends in Genetics (23)3 2007
Abstract
We summarize the main findings of the meeting, which marks the formal birth of a research community dedicated to Caenorhabditis species evolution....
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PMID: 17275130
PDF is available here.
PDF is available here.
Abstract
We have previously demonstrated that the Caenorhabditis elegans ABC family shows poor one-to-one gene orthology with other distant model organisms. To address the evolution dynamics of this gene family among closely related species, we carried out a comparative analysis of the ABC family among the t...
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PMID: 17194779
PDF is available here.
PDF is available here.
Developmental Biology (302)1 2007
Abstract
We analyzed the promoter of hlh-6 to identify the elements required for gland-specific expression. Our experiments identified three distinct regulatory elements required for hlh-6 expression: a PHA-4-binding site and two new elements, HRL1 and HRL2 (for hlh-6 regulatory elements 1 and 2). The three...
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PMID: 17049341
PDF is available here.
PDF is available here.
Current Biology (17)2 2007
Abstract
Quantitative evolution in the roles of graded induction by LIN-3/EGF and Notch signaling is demonstrated for the Caenorhabditis vulva signaling network. This evolutionary system biology approach provides a quantitative view of the variational properties of this biological system....
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PMID: 17240335
PDF is available here.
PDF is available here.
BMC Genomics (8)1 2007
Abstract
Transgenic C. elegans strains were generated for 366 transcription factor promoter/gfp reporter gene fusions. GFP distributions were determined, and then summarized with reference to developmental stage and cell type. Reliability of these data was demonstrated by comparison to previously described g...
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PMID: 17244357
PDF is available here.
PDF is available here.
BMC Bioinformatics (8)1 2007
Abstract
This paper describes MUMmerGPU, an open-source high-throughput parallel pairwise local sequence alignment program that runs on commodity Graphics Processing Units (GPUs) in common workstations. MUMmerGPU uses the new Compute Unified Device Architecture (CUDA) from nVidia to align multiple query sequ...
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PMID: 18070356
PDF is available here.
PDF is available here.
BMC Genomics (8)1 2007
Abstract
All 33 C. elegans putative globin genes are transcribed. The translated sequences have the essential signatures of single domain bona fide globins, or they contain a distinct globin domain that is part of a larger protein. All globin domains can be aligned so as to fit the globin fold, but internal...
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PMID: 17916248
PDF is available here.
PDF is available here.
BMC Genomics (8)1 2007
Abstract
In C. elegans, G/C tracts are distributed along every chromosome in a non-random pattern. Most G/C tracts are within introns or are close to genes. Analysis of SAGE data showed that G/C tracts correlate with the levels of regional gene expression in C. elegans. G/C tracts are over-represented and di...
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PMID: 17986356
PDF is available here.
PDF is available here.
Abstract
The soil nematode Caenorhabditis briggsae is an attractive model system for studying evolution of both animal development and behavior. Being a close relative of C. elegans, C. briggsae is frequently used in comparative studies to infer species-specific function of the orthologous genes and also for...
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PMID: 18050493
PDF is available here.
PDF is available here.
Abstract
Inverted repeats have been found to occur in both prokaryotic and eukaryotic genomes. Usually they are short and some have important functions in various biological processes. However, long inverted repeats are rare and can cause genome instability. Analyses of C. elegans genome identified long, nea...
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PMID: 17327921
PDF is available here.
PDF is available here.
Nucleic Acids Research (35)Database issue 2007
Abstract
WormBase (http://wormbase.org), a model organism database for Caenorhabditis elegans and other related nematodes, continues to evolve and expand. Over the past year WormBase has added new data on C.elegans, including data on classical genetics, cell biology and functional genomics; expanded the anno...
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PMID: 17099234
PDF is available here.
PDF is available here.
Abstract
We show that 74% (60/81) of the reported gains in C. elegans are present in a C. briggsae relative. This pattern indicates that these introns represent losses in C. briggsae, not gains in C. elegans. In addition, 61% (25/41) of the reported gains in C. briggsae are present in the more distant C. bri...
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PMID: 16943250
PDF is available here.
PDF is available here.
Abstract
We report a study designed to separate effects of species, genotype, and environment on the degradation of fitness resulting from new mutations. Mutations accumulated for >200 generations at 20 degrees in two strains of two species of nematodes that differ in thermal sensitivity. Caenorhabditis brig...
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PMID: 16888328
PDF is available here.
PDF is available here.