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... about 8 million base pairs of DNA (8.5 fg) per nucleus. The genome of P. carinii f.sp. carinii is divided into 13^15 linear chromosomes that range from 300 to 700 kb in size. Eight different P. carinii f.sp. carinii karyotypes have been observed. The karyotypes of P. carinii f.sp. carinii differ due ...
... about 8 million base pairs of DNA (8.5 fg) per nucleus. The genome of P. carinii f.sp. carinii is divided into 13^15 linear chromosomes that range from 300 to 700 kb in size. Eight different P. carinii f.sp. carinii karyotypes have been observed. The karyotypes of P. carinii f.sp. carinii differ due ...
Specificity of Insertion by the Translocatable Tetracycline Resistance Element Tn10.
... to cells of the desired bacterial host that had been grown to 5 x 108 per ml in LB broth. Mixtures were arranged so that the multiplicity of infection was approximately ten particles per infecting cell. After 30 min a t 37", each mixture was plated on green indicator plates containing tetracycline ( ...
... to cells of the desired bacterial host that had been grown to 5 x 108 per ml in LB broth. Mixtures were arranged so that the multiplicity of infection was approximately ten particles per infecting cell. After 30 min a t 37", each mixture was plated on green indicator plates containing tetracycline ( ...
Control of DNA excision efficiency in Paramecium
... nuclei then differentiate into a micronucleus or a macronucleus. In the second case, the whole genome is processed through chromosome fragmentation, telomere addition to the broken ends and excision of internal eliminated sequences (IESs) that are eventually eliminated. Massive DNA amplification als ...
... nuclei then differentiate into a micronucleus or a macronucleus. In the second case, the whole genome is processed through chromosome fragmentation, telomere addition to the broken ends and excision of internal eliminated sequences (IESs) that are eventually eliminated. Massive DNA amplification als ...
A Single Eubacterial Origin of Eukaryotic
... were used to amplify a fragment of 1,539 bp, which was cloned into pGEMT (Promega). Two clones were sequenced on both strands. To distinguish between this PCR product and the published G. lamblia PFO gene sequence, we refer to the published sequence as G. lamblia PFO1 and to the gene represented by ...
... were used to amplify a fragment of 1,539 bp, which was cloned into pGEMT (Promega). Two clones were sequenced on both strands. To distinguish between this PCR product and the published G. lamblia PFO gene sequence, we refer to the published sequence as G. lamblia PFO1 and to the gene represented by ...
24 Recombination Hotspots in Nonallelic Homologous Recombination
... Unfortunately, the relatively low frequency of recombination events across the genome as a whole (approx 50 crossovers per male meiosis) means that to obtain accurate estimates over even relatively large physical distances requires large numbers of meioses. It is not feasible to type the number of m ...
... Unfortunately, the relatively low frequency of recombination events across the genome as a whole (approx 50 crossovers per male meiosis) means that to obtain accurate estimates over even relatively large physical distances requires large numbers of meioses. It is not feasible to type the number of m ...
Tracing the Thread of Plastid Diversity through the Tapestry of Life
... The Glaucocystophyta are a small group of relatively uncommon freshwater, unicellular algae that are of little economic importance, and they are often neglected even by specialists. It has become apparent, however, that this group occupies a key position in the evolution of plastids. Unlike other pl ...
... The Glaucocystophyta are a small group of relatively uncommon freshwater, unicellular algae that are of little economic importance, and they are often neglected even by specialists. It has become apparent, however, that this group occupies a key position in the evolution of plastids. Unlike other pl ...
SVPaper050711
... (14%) and SINEs (15%)), followed by variable number tandem repeats (VNTRs) (15%) and pseudogenes (2%). Other mechanisms, not involving retrotransposons, account for 29% of SVs. The median length of all SVs is 349 bp, with modes at 100 bp and 6,400 bp, LINE insertions comprising the majority of the l ...
... (14%) and SINEs (15%)), followed by variable number tandem repeats (VNTRs) (15%) and pseudogenes (2%). Other mechanisms, not involving retrotransposons, account for 29% of SVs. The median length of all SVs is 349 bp, with modes at 100 bp and 6,400 bp, LINE insertions comprising the majority of the l ...
Presence of multiple group I introns closely 23S rRNAs of lichen-forming
... towards the intron core structure. More importantly, all of these putative proteins contained one LAGLIDADG motif, identified by using Pfam v21.10 [17], characteristic of the HE involved in intron mobility. The LAGLIDADG family of HE comprises more than 200 proteins and is the most diverse of the HE ...
... towards the intron core structure. More importantly, all of these putative proteins contained one LAGLIDADG motif, identified by using Pfam v21.10 [17], characteristic of the HE involved in intron mobility. The LAGLIDADG family of HE comprises more than 200 proteins and is the most diverse of the HE ...
Complete comparative genomic analysis of two field isolates of
... Analysis of all variations showed that 398 point mutations, six insertions totalling 30 bp and 20 deletions totalling 1326 bp occur in predicted ORFs; 65 point mutations, three insertions (13 bp) and five deletions (102 bp) occur in intergenic regions; and 58 point mutations, two insertions (79 bp) ...
... Analysis of all variations showed that 398 point mutations, six insertions totalling 30 bp and 20 deletions totalling 1326 bp occur in predicted ORFs; 65 point mutations, three insertions (13 bp) and five deletions (102 bp) occur in intergenic regions; and 58 point mutations, two insertions (79 bp) ...
Pourcel et al., Microbiology 2005
... The remarkable repetitive elements called CRISPRs (clustered regularly interspaced short palindromic repeats) consist of repeats interspaced with non-repetitive elements or ‘spacers’. CRISPRs are present in both archaea and bacteria, in association with genes involved in DNA recombination and repair ...
... The remarkable repetitive elements called CRISPRs (clustered regularly interspaced short palindromic repeats) consist of repeats interspaced with non-repetitive elements or ‘spacers’. CRISPRs are present in both archaea and bacteria, in association with genes involved in DNA recombination and repair ...
Analysis of clones carrying repeated DNA sequences in two YAC
... coordinates of the YAC clones which hybridized to chloroplast DNA with the coordinates of clones which had been mapped previously on to chromosome 4 and the top half of chromosome 5 using RFLP markers as probes (Hwang eta/., 1991; Schmidt etal., unpublished results). One-hundred-and-ninety-five clon ...
... coordinates of the YAC clones which hybridized to chloroplast DNA with the coordinates of clones which had been mapped previously on to chromosome 4 and the top half of chromosome 5 using RFLP markers as probes (Hwang eta/., 1991; Schmidt etal., unpublished results). One-hundred-and-ninety-five clon ...
Sideroblastic Anemias Disorder Subdivisions Idiopathic Sideroblastic Anemia
... semi-autonomous organelles that likely began as freestanding prokaryotes that invaded eukaryotic cells more than a billion years ago (Jansen, 2000). A symbiotic relationship eventually developed between these prokaryotic cells and their eukaryotic hosts. The former prokaryotes lost the capacity for ...
... semi-autonomous organelles that likely began as freestanding prokaryotes that invaded eukaryotic cells more than a billion years ago (Jansen, 2000). A symbiotic relationship eventually developed between these prokaryotic cells and their eukaryotic hosts. The former prokaryotes lost the capacity for ...
Inference of homologous recombination in bacteria using whole
... called ClonalFrame [13]. ClonalFrame has proved useful to identify interesting patterns of recombination in a wide variety of organisms including Campylobacter [14], Neisseria [15] and Francisella [16]. In order to perform efficient inference, ClonalFrame does not model the source of specific recomb ...
... called ClonalFrame [13]. ClonalFrame has proved useful to identify interesting patterns of recombination in a wide variety of organisms including Campylobacter [14], Neisseria [15] and Francisella [16]. In order to perform efficient inference, ClonalFrame does not model the source of specific recomb ...
Differential Enzyme Targeting As an Evolutionary Adaptation to
... template, the 59 region of AGT was amplified by PCR and RAGE (Mizobuchi and Frohman 1993) (with the exception of the domestic cat, the cDNA of which had previously been cloned [Lumb, Purdue, and Danpure 1994]). The amplified region included all the sequence from exon 1 and most or all of the 59 UTR ...
... template, the 59 region of AGT was amplified by PCR and RAGE (Mizobuchi and Frohman 1993) (with the exception of the domestic cat, the cDNA of which had previously been cloned [Lumb, Purdue, and Danpure 1994]). The amplified region included all the sequence from exon 1 and most or all of the 59 UTR ...
Complete genome sequence of the thermophilic Thermus sp
... predicted protein coding sequences (2279) than HB27 (2210) and HB8 (2173), but lower than that of T. scotoductus SA-01 (2458). They also share a similar number of rRNA (16S-23S-5S) operons with a wellbalanced high G + C content above 60 %, a common feature displayed by thermophilic bacteria. The num ...
... predicted protein coding sequences (2279) than HB27 (2210) and HB8 (2173), but lower than that of T. scotoductus SA-01 (2458). They also share a similar number of rRNA (16S-23S-5S) operons with a wellbalanced high G + C content above 60 %, a common feature displayed by thermophilic bacteria. The num ...
Identification of New Genes Involved in Meiosis by a Genetic Screen
... ZMM that constitutes a link between recombination and Synaptonemal Complex (SC) assembly. Yeast mutants that lack ZMM proteins have defects in recombination, SC formation and nuclear division progression. Meiotic cell cycle progression in zmm mutants is modulated by temperature. This conditional beh ...
... ZMM that constitutes a link between recombination and Synaptonemal Complex (SC) assembly. Yeast mutants that lack ZMM proteins have defects in recombination, SC formation and nuclear division progression. Meiotic cell cycle progression in zmm mutants is modulated by temperature. This conditional beh ...
Supporting Information Parfenov et al. 10.1073/pnas.1416074111
... mean-centered the RPKM values and divided by their SD for each exon. The lengths of the composite exons were transformed using the square root of the length. DNA Methylation and mRNA Expression Analysis. The Infinium HM450k array was used for TCGA Head and Neck samples (13). This platform includes p ...
... mean-centered the RPKM values and divided by their SD for each exon. The lengths of the composite exons were transformed using the square root of the length. DNA Methylation and mRNA Expression Analysis. The Infinium HM450k array was used for TCGA Head and Neck samples (13). This platform includes p ...
Alu repeat analysis in the complete human genome: trends and
... units separated by a poly ‘A’ stretch. The monomers, homologous to 7SL RNA, are absolutely identical except for a 30 bp insertion in the right monomer (Jelinek et al., 1980; Ullu and Tschudi, 1984). The 3 end of the Alu element has a long stretch of adenine residues, and is flanked by 4–10 bp of di ...
... units separated by a poly ‘A’ stretch. The monomers, homologous to 7SL RNA, are absolutely identical except for a 30 bp insertion in the right monomer (Jelinek et al., 1980; Ullu and Tschudi, 1984). The 3 end of the Alu element has a long stretch of adenine residues, and is flanked by 4–10 bp of di ...
Alu
... Place K points into the space represented by the objects that are being clustered. These points represent initial group centroids. Assign each object to the group that has the closest centroid. When all objects have been assigned, recalculate the positions of the K centroids. Repeat Steps 2 an ...
... Place K points into the space represented by the objects that are being clustered. These points represent initial group centroids. Assign each object to the group that has the closest centroid. When all objects have been assigned, recalculate the positions of the K centroids. Repeat Steps 2 an ...
Tutorial - QIAGEN Bioinformatics
... the reciprocal analysis of methylation, so that both hyper- and hypo-methylated regions can be identified in one workflow. These two instances are arbitrarily named "Call Methylation Levels" and "reverse methylation", and the order of inputs with regard to reads track and control reads track is reve ...
... the reciprocal analysis of methylation, so that both hyper- and hypo-methylated regions can be identified in one workflow. These two instances are arbitrarily named "Call Methylation Levels" and "reverse methylation", and the order of inputs with regard to reads track and control reads track is reve ...
Genomic Sequence Data - G3: Genes | Genomes | Genetics
... that may contribute to disease in humans or other organisms21,22. These pathogens are generally isolated from diseased tissue samples and thus are found as subsets of complex metagenomic data that also includes host sequence and, commonly, non-pathogenic commensal microflora. Viral DNA or RNA typica ...
... that may contribute to disease in humans or other organisms21,22. These pathogens are generally isolated from diseased tissue samples and thus are found as subsets of complex metagenomic data that also includes host sequence and, commonly, non-pathogenic commensal microflora. Viral DNA or RNA typica ...
Rates of Spontaneous Mutation
... listed in Table 2. Because of the large mutational target sizes employed, the rate differences among these viruses may be real. (The rate does not correlate with the retroviral or artificial origin of the mutational target sequence.) Compared to the lytic viruses, the retroviral mutation rates may n ...
... listed in Table 2. Because of the large mutational target sizes employed, the rate differences among these viruses may be real. (The rate does not correlate with the retroviral or artificial origin of the mutational target sequence.) Compared to the lytic viruses, the retroviral mutation rates may n ...
Use of a novel cassette to label phenotypically a cryptic plasmid of
... range of positions, pPOD2000 DNA was partially digested with Sau3A, separated by agarose gel electrophoresis and the DNA species corresponding to fulllength linear plasmid DNA molecules purified. After dephosphorylation the DNA was ligated to purified cAPGl000 DNA produced by cleavage with BamHI. B. ...
... range of positions, pPOD2000 DNA was partially digested with Sau3A, separated by agarose gel electrophoresis and the DNA species corresponding to fulllength linear plasmid DNA molecules purified. After dephosphorylation the DNA was ligated to purified cAPGl000 DNA produced by cleavage with BamHI. B. ...
An Introduction to Streptomyces
... agents. Also, in agriculture these compounds act as growth promoters, agents for plant protection, antiparasitic agents and herbicides (Hopwood, 1995). The onset of antibiotic production of Streptomyces cultures grown on agar usually coincides with the early stages of morphological differentiation. ...
... agents. Also, in agriculture these compounds act as growth promoters, agents for plant protection, antiparasitic agents and herbicides (Hopwood, 1995). The onset of antibiotic production of Streptomyces cultures grown on agar usually coincides with the early stages of morphological differentiation. ...
Extrapolation to the whole human genome
... given by Lander, et al., 2001; the higher from the size given by Venter, et al., 2001.) Also, as for processed pseudogenes, we estimate a predicted range of ~9,60010,400 non-processed pseudogenes in the human genome, extrapolating from the chromosome 22 data. Using the gene-poor chromosome 21, a muc ...
... given by Lander, et al., 2001; the higher from the size given by Venter, et al., 2001.) Also, as for processed pseudogenes, we estimate a predicted range of ~9,60010,400 non-processed pseudogenes in the human genome, extrapolating from the chromosome 22 data. Using the gene-poor chromosome 21, a muc ...