Matthew Kwong - GEP Community Server
... corresonding donor and acceptor sites have a phase that add up to three or zero. This is the way that the amino acid sequences are conserved from one exon to the next. There are often many possible candidates for donor sites (and sometimes acceptor sites as well). One considers all donor sites until ...
... corresonding donor and acceptor sites have a phase that add up to three or zero. This is the way that the amino acid sequences are conserved from one exon to the next. There are often many possible candidates for donor sites (and sometimes acceptor sites as well). One considers all donor sites until ...
Staphylococcus aureus CC395 harbours a novel
... than transduction. Thus S. aureus CC395 may serve as a hub for the continuous exchange of CRISPR as well as antimicrobial resistance and virulence genes between CoNS and S. aureus. ...
... than transduction. Thus S. aureus CC395 may serve as a hub for the continuous exchange of CRISPR as well as antimicrobial resistance and virulence genes between CoNS and S. aureus. ...
Expression of the six chromate ion transporter
... digestions and by sequencing inserts using M13 forward/reverse universal primers. DNA fragments containing the chr genes were obtained by digestions with HindIII/XbaI or HindIII/EcoRI endonucleases and subcloned into the corresponding sites of pACYC184 or pUCP20 vectors. E. coli W3110 cells were tra ...
... digestions and by sequencing inserts using M13 forward/reverse universal primers. DNA fragments containing the chr genes were obtained by digestions with HindIII/XbaI or HindIII/EcoRI endonucleases and subcloned into the corresponding sites of pACYC184 or pUCP20 vectors. E. coli W3110 cells were tra ...
Assaying … promoter activity
... …the plasmid integrated into the genome by homologous recombination with the nimB and ORF5468 gene. We tested the stability of the integrated plasmid via a true breeding experiment. In this experiment, recombinant cells were grown at the non-permissive temperature in the absence of antibiotic select ...
... …the plasmid integrated into the genome by homologous recombination with the nimB and ORF5468 gene. We tested the stability of the integrated plasmid via a true breeding experiment. In this experiment, recombinant cells were grown at the non-permissive temperature in the absence of antibiotic select ...
Sequence requirements for function of the
... re-introduced into the Drosophila genome via P elementmediated germline transformation, and these transgenic constructs can amplify with the correct tissue and temporal specificity (deCicco and Spradling, 1984). However, amplification is highly sensitive to chromosomal position effects and only ~1/3 ...
... re-introduced into the Drosophila genome via P elementmediated germline transformation, and these transgenic constructs can amplify with the correct tissue and temporal specificity (deCicco and Spradling, 1984). However, amplification is highly sensitive to chromosomal position effects and only ~1/3 ...
Erp, an extracellular protein family specific to
... smegmatis and M. xenopi and the selected recombinant plasmids were sequenced. The DNA sequences were assembled and the deduced amino acid sequences were shown to contain repeated sequences based on the PGLTS motif, as already described for the M. tuberculosis and M. leprae proteins. Fig. 1 shows a s ...
... smegmatis and M. xenopi and the selected recombinant plasmids were sequenced. The DNA sequences were assembled and the deduced amino acid sequences were shown to contain repeated sequences based on the PGLTS motif, as already described for the M. tuberculosis and M. leprae proteins. Fig. 1 shows a s ...
Supplemental Tables
... also posted at the AAA site, were also used in this analysis. The FlyBase inferred cytological map locations were assigned to all of the orthologs called in the four species. These associations were then ordered and sorted according to their scaffold assignments and molecular coordinates for each sp ...
... also posted at the AAA site, were also used in this analysis. The FlyBase inferred cytological map locations were assigned to all of the orthologs called in the four species. These associations were then ordered and sorted according to their scaffold assignments and molecular coordinates for each sp ...
Genome-Wide Analysis of In Vivo Binding of the Master Regulator
... To allow activation and screening of cryptic antibiotic biosynthetic clusters, detailed insight is required into the linkages between environmental (nutritional) signals and secondary metabolite production. Carbon source utilization is a major determining factor in the metabolic control of antibioti ...
... To allow activation and screening of cryptic antibiotic biosynthetic clusters, detailed insight is required into the linkages between environmental (nutritional) signals and secondary metabolite production. Carbon source utilization is a major determining factor in the metabolic control of antibioti ...
Exceptionally high levels of recombination
... Scientifique, F91198 Gif-sur-Yvette, France; 5Department of Biology, University of North Carolina, Greensboro, North Carolina 27403, USA; 6Department of Biology, University of Oulu 90014, Finland; 7Department of Environmental Biology, University of Guelph, Ontario N1G 2W1, Canada; 8School of Life Sc ...
... Scientifique, F91198 Gif-sur-Yvette, France; 5Department of Biology, University of North Carolina, Greensboro, North Carolina 27403, USA; 6Department of Biology, University of Oulu 90014, Finland; 7Department of Environmental Biology, University of Guelph, Ontario N1G 2W1, Canada; 8School of Life Sc ...
A molecular method for assessing meiofauna diversity in marine
... Molecular techniques could be beneficial to pollution studies and monitoring programs wanting to incorporate meiofauna data by lowering the cost of sample processing as well as eliminating the need for taxonomic expertise. In one study Litvaitis, et al. (1994) used a fragment of the nuclear 28S rRN ...
... Molecular techniques could be beneficial to pollution studies and monitoring programs wanting to incorporate meiofauna data by lowering the cost of sample processing as well as eliminating the need for taxonomic expertise. In one study Litvaitis, et al. (1994) used a fragment of the nuclear 28S rRN ...
First report of a tetracycline-inducible gene
... system to be functional in the ruminant pathogen, suggesting that this tetracycline-inducible promoter system might be of general use in mollicutes. ...
... system to be functional in the ruminant pathogen, suggesting that this tetracycline-inducible promoter system might be of general use in mollicutes. ...
Seed-Specific Gene Activation Mediated by the Cre//ox Site
... l h e Cre//ox site-specific recombination system was used to activate a transgene in a tissue-specific manner. Cre-mediated activation of a 8-glucuronidase marker gene, by removal of a loxbounded blocking fragment, allowed the visualization of the activation process. By using seed-specific promoters ...
... l h e Cre//ox site-specific recombination system was used to activate a transgene in a tissue-specific manner. Cre-mediated activation of a 8-glucuronidase marker gene, by removal of a loxbounded blocking fragment, allowed the visualization of the activation process. By using seed-specific promoters ...
Discovery and characterization of chromatin states for Please share
... We also introduce a new framework for model learning and selection of the number of states that compactly and adequately describes the biological datasets (Online Methods), based on a two-stage nested initialization procedure. In the first stage, we learn a large compendium of models at varying numb ...
... We also introduce a new framework for model learning and selection of the number of states that compactly and adequately describes the biological datasets (Online Methods), based on a two-stage nested initialization procedure. In the first stage, we learn a large compendium of models at varying numb ...
1 THE EVOLUTION OF LINE-1 IN VERTEBRATES Stéphane
... vertebrates. The most variation is found in the 50 UTR, which is longer in amniotes, and in the ORF1, which tend to evolve faster in mammals. The highly divergent L1 families of lizard, frog, and fish share species-specific features suggesting that they are subjected to the same functional constrain ...
... vertebrates. The most variation is found in the 50 UTR, which is longer in amniotes, and in the ORF1, which tend to evolve faster in mammals. The highly divergent L1 families of lizard, frog, and fish share species-specific features suggesting that they are subjected to the same functional constrain ...
Comparative genomics provides evidence for the 3
... Springs, these mat communities are dominated by two groups of phototrophs at 60 and 65°C: unicellular cyanobacteria (Synechococcus spp.) and filamentous anoxygenic phototrophs (FAPs) related to Chloroflexus and Roseiflexus spp. (Nübel et al., 2002). Based on growth in culture (Madigan et al., 1974; ...
... Springs, these mat communities are dominated by two groups of phototrophs at 60 and 65°C: unicellular cyanobacteria (Synechococcus spp.) and filamentous anoxygenic phototrophs (FAPs) related to Chloroflexus and Roseiflexus spp. (Nübel et al., 2002). Based on growth in culture (Madigan et al., 1974; ...
Drosophila Forkhead Homologues Are Expressed in
... in restricted hematopoietic lineages, while the expression of H8 was ubiquitous. Southern analysis showed that FKH 5-3 is conserved through yeast, which is rare among tissuespecific transcriptionfactors. The H3 and 5-3 clones provide evidence that FKH family members are present in a tissuerestricted ...
... in restricted hematopoietic lineages, while the expression of H8 was ubiquitous. Southern analysis showed that FKH 5-3 is conserved through yeast, which is rare among tissuespecific transcriptionfactors. The H3 and 5-3 clones provide evidence that FKH family members are present in a tissuerestricted ...
Drosophila Forkhead Homologues Are Expressed in
... in restricted hematopoietic lineages, while the expression of H8 was ubiquitous. Southern analysis showed that FKH 5-3 is conserved through yeast, which is rare among tissuespecific transcriptionfactors. The H3 and 5-3 clones provide evidence that FKH family members are present in a tissuerestricted ...
... in restricted hematopoietic lineages, while the expression of H8 was ubiquitous. Southern analysis showed that FKH 5-3 is conserved through yeast, which is rare among tissuespecific transcriptionfactors. The H3 and 5-3 clones provide evidence that FKH family members are present in a tissuerestricted ...
Cloning of the Papaya Chromoplast-Specific
... showed a strong accumulation of lycopene (approximately 63% of the total carotenoid content) in redfleshed fruit, while none was detected in yellow-fleshed fruit. The profile of yellow-fleshed fruit showed mostly b-cryptoxanthin and b-carotene derivatives, up to 75% of the total carotenoid content, ...
... showed a strong accumulation of lycopene (approximately 63% of the total carotenoid content) in redfleshed fruit, while none was detected in yellow-fleshed fruit. The profile of yellow-fleshed fruit showed mostly b-cryptoxanthin and b-carotene derivatives, up to 75% of the total carotenoid content, ...
pdf
... The two enzymes apparently are functionally and physiologically equivalent [Zumft, 1997]. The nirK gene from Pseudomonas auerofaciens can be expressed in a mutant of Pseudomonas stutzeri that lacks the nirS gene [Glockner et al., 1993], but the two enzymes do not usually occur in the same organism. ...
... The two enzymes apparently are functionally and physiologically equivalent [Zumft, 1997]. The nirK gene from Pseudomonas auerofaciens can be expressed in a mutant of Pseudomonas stutzeri that lacks the nirS gene [Glockner et al., 1993], but the two enzymes do not usually occur in the same organism. ...
Alterations to the remote control of Shh gene expression cause
... margin of the limb bud to the anterior margin during the early stages of development. The inducing tissue was defined as originating in the zone of polarizing activity (ZPA) of the limb bud and later the protein responsible for this activity was identified as SHH. We and others [29 –31] showed that ...
... margin of the limb bud to the anterior margin during the early stages of development. The inducing tissue was defined as originating in the zone of polarizing activity (ZPA) of the limb bud and later the protein responsible for this activity was identified as SHH. We and others [29 –31] showed that ...
Gill: Human Disease Genomics
... • There are 8,000 known rare Mendelian diseases • Each can cause over a dozen different phenotypes of 10,000 known disease phenotypes • Together rare Mendelian diseases affect 1 in 33 babies • There are over 20,000 genes in the human genome • Sequencing all genes is cheap, and getting cheaper • We n ...
... • There are 8,000 known rare Mendelian diseases • Each can cause over a dozen different phenotypes of 10,000 known disease phenotypes • Together rare Mendelian diseases affect 1 in 33 babies • There are over 20,000 genes in the human genome • Sequencing all genes is cheap, and getting cheaper • We n ...
Analysis of expressed sequence tags from the Huperzia serrata leaf
... tetraketides (Morita et al. 2007, Wanibuchi et al. 2007). However, as of January 2009, there were only 10 nucleotide sequences from H . serrata available in the NCBI database. The limited information on the genetic contents of this plant triggered our efforts to construct a cDNA library from the H . ...
... tetraketides (Morita et al. 2007, Wanibuchi et al. 2007). However, as of January 2009, there were only 10 nucleotide sequences from H . serrata available in the NCBI database. The limited information on the genetic contents of this plant triggered our efforts to construct a cDNA library from the H . ...
Epigenetic Control of Apomixis
... are continuously being made to further increase productivity of crop plants to feed the burgeoning global population. The global population is expected to reach 9 billion by 2050 with the growth of 2−3 billion people over the next 35 years [20]. To feed the ever-growing global population, we need to ...
... are continuously being made to further increase productivity of crop plants to feed the burgeoning global population. The global population is expected to reach 9 billion by 2050 with the growth of 2−3 billion people over the next 35 years [20]. To feed the ever-growing global population, we need to ...
Deletion of a conserved noncoding sequence in Plzf intron leads to
... (Fig. 4A and Supp. Table S1). There are 47 substitutions or SNPs in strict sense; 22 small indels (insertions and deletions up to 14 bp), from which 12 appear to be in a single base “run” and 5 in more complex microsatellites. In addition, during the positional cloning efforts, we identified 6 micros ...
... (Fig. 4A and Supp. Table S1). There are 47 substitutions or SNPs in strict sense; 22 small indels (insertions and deletions up to 14 bp), from which 12 appear to be in a single base “run” and 5 in more complex microsatellites. In addition, during the positional cloning efforts, we identified 6 micros ...
Practical: Ranges
... strand returns the strand information in a compact representation called a run-length encoding. The ‘names’ could have been specified when the instance was constructed; once named, the GRanges instance can be subset by name like a regular vector. As the GRanges function suggests, the GRanges class e ...
... strand returns the strand information in a compact representation called a run-length encoding. The ‘names’ could have been specified when the instance was constructed; once named, the GRanges instance can be subset by name like a regular vector. As the GRanges function suggests, the GRanges class e ...
Transposable element
A transposable element (TE or transposon) is a DNA sequence that can change its position within the genome, sometimes creating or reversing mutations and altering the cell's genome size. Transposition often results in duplication of the TE. Barbara McClintock's discovery of these jumping genes earned her a Nobel prize in 1983.TEs make up a large fraction of the C-value of eukaryotic cells. There are at least two classes of TEs: class I TEs generally function via reverse transcription, while class II TEs encode the protein transposase, which they require for insertion and excision, and some of these TEs also encode other proteins. It has been shown that TEs are important in genome function and evolution. In Oxytricha, which has a unique genetic system, they play a critical role in development. They are also very useful to researchers as a means to alter DNA inside a living organism.