Transcriptional analysis of the gene for glutamine synthetase II and
... was used as the S. coelicolor wild-type strain. Molecular cloning, Southern hybridization, DNA sequencing and analysis For all recombinant DNA techniques and analyses the standard procedures published previously (Fink et al. 1999) were used. PCR The oligonucleotide primers used in this study (Table ...
... was used as the S. coelicolor wild-type strain. Molecular cloning, Southern hybridization, DNA sequencing and analysis For all recombinant DNA techniques and analyses the standard procedures published previously (Fink et al. 1999) were used. PCR The oligonucleotide primers used in this study (Table ...
Brand, Veronica - Degenerate Primer Design using Computational Tools
... such: “Given a training set of known genes, design a pair of primers, one for the 5’ side and another for the 3’ side, so that the primers would amplify many of the genes and would have degeneracy that does not exceed a predefined limit” (2005). A degenerate primer in this case is a primer where mul ...
... such: “Given a training set of known genes, design a pair of primers, one for the 5’ side and another for the 3’ side, so that the primers would amplify many of the genes and would have degeneracy that does not exceed a predefined limit” (2005). A degenerate primer in this case is a primer where mul ...
Establishment of new mutations under divergence and genome
... the action of individual genes [13,14]. There are exceptions where interactions among multiple loci have been considered, e.g. the ‘snow-ball’ effect for the accumulation of the number of post-zygotic incompatibilities through time [15–17]. However, in general, studies of speciation genes have been ...
... the action of individual genes [13,14]. There are exceptions where interactions among multiple loci have been considered, e.g. the ‘snow-ball’ effect for the accumulation of the number of post-zygotic incompatibilities through time [15–17]. However, in general, studies of speciation genes have been ...
Definitions for annotating CDS sequences
... that flank the relevant CDS that need to be analyzed at the nucleotide level, it is sufficient to indicate “N/A”. It is also worth noting that any sequences outside of the linker sequences will be masked out and not analyzed. 5’ Linker – any sequences upstream of the relevant CDS for which the user ...
... that flank the relevant CDS that need to be analyzed at the nucleotide level, it is sufficient to indicate “N/A”. It is also worth noting that any sequences outside of the linker sequences will be masked out and not analyzed. 5’ Linker – any sequences upstream of the relevant CDS for which the user ...
Structure, expression and chromosomal location of the Oct
... the t "Sg genomic copy of Oct-4. The Oct-4 gene consists of five exons and four introns (Fig. 4B). The size of both short introns, 2 and 4, was accurately assessable by DNA sequencing, whereas the size of introns 1 and 3 was approximated by PCR analysis of the cloned t wSg genomic Oct-4 DNA. The exo ...
... the t "Sg genomic copy of Oct-4. The Oct-4 gene consists of five exons and four introns (Fig. 4B). The size of both short introns, 2 and 4, was accurately assessable by DNA sequencing, whereas the size of introns 1 and 3 was approximated by PCR analysis of the cloned t wSg genomic Oct-4 DNA. The exo ...
Efficient Family Based Association Tests
... Model for Association. For each of the genotyped SNP markers, we are interested in testing whether observed genotypes and phenotypes are associated. For the SNP being tested, we label the two alleles ‘A’ and ‘a’ and define a genotype score gijm as 0, 1 or 2 depending on whether Gijm = a/a, A/a or A/ ...
... Model for Association. For each of the genotyped SNP markers, we are interested in testing whether observed genotypes and phenotypes are associated. For the SNP being tested, we label the two alleles ‘A’ and ‘a’ and define a genotype score gijm as 0, 1 or 2 depending on whether Gijm = a/a, A/a or A/ ...
The evolutionary history of human chromosome 7
... et al. [6] revisited this problem by performing cross-species chromosome painting and reviewing previous R-banding data from over 40 primates and nonprimate mammals. Their results indicated that the ancestral chromosome forms found in Eutherian mammals may have comprised a small submetacentric chrom ...
... et al. [6] revisited this problem by performing cross-species chromosome painting and reviewing previous R-banding data from over 40 primates and nonprimate mammals. Their results indicated that the ancestral chromosome forms found in Eutherian mammals may have comprised a small submetacentric chrom ...
Heavy Chain Diversity Region Segments of the Channel Catfish
... exist. In the other clusters, recombination appears restricted to segments within a cluster and both the D1 and D2 segments appear to be utilized (13). The sequences of the D1 and D2 segments in different clusters are highly conserved which suggests that shark DH gene segments encode only limited CD ...
... exist. In the other clusters, recombination appears restricted to segments within a cluster and both the D1 and D2 segments appear to be utilized (13). The sequences of the D1 and D2 segments in different clusters are highly conserved which suggests that shark DH gene segments encode only limited CD ...
Week 2. DNA isolation and PCR
... The instructor will need tissue from wild type, as1 and as2 mutant Arabidopsis plants for the DNA isolation. If the plants were saved from the week 1 activities, the best material to use is 6-8 flower buds. If the instructor chooses to use leaf tissue from the saved plants, 2-3 young leaves that hav ...
... The instructor will need tissue from wild type, as1 and as2 mutant Arabidopsis plants for the DNA isolation. If the plants were saved from the week 1 activities, the best material to use is 6-8 flower buds. If the instructor chooses to use leaf tissue from the saved plants, 2-3 young leaves that hav ...
Slides: background and project plan
... • Each cell contains an identical copy of the whole genome - but utilizes only a subset of the genes to perform diverse, unique tasks • Most genes are highly regulated – their expression is limited to specific tissues, developmental stages, physiological condition • Main regulatory mechanism – trans ...
... • Each cell contains an identical copy of the whole genome - but utilizes only a subset of the genes to perform diverse, unique tasks • Most genes are highly regulated – their expression is limited to specific tissues, developmental stages, physiological condition • Main regulatory mechanism – trans ...
Creating conditional dual fluorescence labelled transgenic animals
... by them will be cut off. However, when they are oriented in opposite directions, the DNA flanked by them will be inverted. Transgenes with opposite directions of loxP can lead to ...
... by them will be cut off. However, when they are oriented in opposite directions, the DNA flanked by them will be inverted. Transgenes with opposite directions of loxP can lead to ...
Developmental Validation of the Quantifiler Real-Time
... DNA samples using the parallel amplification of differently sized fragments of mitochondrial DNA (4), or quantification with donor sex determination using the amplification of homologous but distinct regions of the X and Y chromosomes (4,5). The Quantifiler kits were designed for the quantification ...
... DNA samples using the parallel amplification of differently sized fragments of mitochondrial DNA (4), or quantification with donor sex determination using the amplification of homologous but distinct regions of the X and Y chromosomes (4,5). The Quantifiler kits were designed for the quantification ...
Supplementary Figure Legends (doc 34K)
... complete homozygosity situation in only 10% of the cases (step ). Around half of them harbour a complete or partial deletion of the NF1 locus as confirmed by real-time PCR-based gene dosage. Custom high resolution array-CGH enables the accurate characterization of the deletion type. NF1 complete an ...
... complete homozygosity situation in only 10% of the cases (step ). Around half of them harbour a complete or partial deletion of the NF1 locus as confirmed by real-time PCR-based gene dosage. Custom high resolution array-CGH enables the accurate characterization of the deletion type. NF1 complete an ...
Development of novel computational tools based on
... pools are named according to the types of functions they encode, those that encode virulence features are designated pathogenicity islands (PAI). PAI were first identified in human pathogenic strains of E. coli, the acquisition of genes of their sort have been shown to possess the ability to confer ...
... pools are named according to the types of functions they encode, those that encode virulence features are designated pathogenicity islands (PAI). PAI were first identified in human pathogenic strains of E. coli, the acquisition of genes of their sort have been shown to possess the ability to confer ...
High-resolution melting analysis of the single nucleotide
... the present study, 348 C. difficile strains with known PCR-ribotypes were investigated for respective single nucleotide polymorphisms (SNPs) within the proposed rpoB hot-spot region by using high-resolution melting (HRM) analysis. This method allows the detection of SNPs by comparing the altered mel ...
... the present study, 348 C. difficile strains with known PCR-ribotypes were investigated for respective single nucleotide polymorphisms (SNPs) within the proposed rpoB hot-spot region by using high-resolution melting (HRM) analysis. This method allows the detection of SNPs by comparing the altered mel ...
Full-text PDF
... In the next section, we do experiments against a set of NAT2 gene-related genotypes [3] taken from the HapMap datasets of the version on March 1, 2007 [11]. The data consists of 270 genotypes with 24 SNP sites. The 270 genotypes can be divided into 3 ethnic groups (i.e. populations). The first group ...
... In the next section, we do experiments against a set of NAT2 gene-related genotypes [3] taken from the HapMap datasets of the version on March 1, 2007 [11]. The data consists of 270 genotypes with 24 SNP sites. The 270 genotypes can be divided into 3 ethnic groups (i.e. populations). The first group ...
The murine homologue of HIRA, a DiGeorge
... cardiac and thymic malformations, which are thought to arise from disturbances in the interactions between hindbrain neural crest cells and the endoderm of the pharyngeal pouches. Several genes have been identified in the shortest region of deletion overlap at 22q11, but nothing is known about the e ...
... cardiac and thymic malformations, which are thought to arise from disturbances in the interactions between hindbrain neural crest cells and the endoderm of the pharyngeal pouches. Several genes have been identified in the shortest region of deletion overlap at 22q11, but nothing is known about the e ...
MOLECULAR CYTOGENETIC ANALYSES IN WHEAT AND
... wheat varieties currently cultivated stem from similar genetic sources, making them particularly vulnerable to pathogens and other stress factors. It is therefore essential to broaden the gene pool of wheat. Species related to common wheat have broad genetic variability for most useful agronomic tra ...
... wheat varieties currently cultivated stem from similar genetic sources, making them particularly vulnerable to pathogens and other stress factors. It is therefore essential to broaden the gene pool of wheat. Species related to common wheat have broad genetic variability for most useful agronomic tra ...
Down syndrome: characterisation of a case with partial trisomy of
... whereas other studies suggested that genes outside this region also contribute to the DS ...
... whereas other studies suggested that genes outside this region also contribute to the DS ...
... were isolated with a tightly linked RAPD marker, and subsequently the regions flanking the Rps1 locus were nearly saturated with AFLP markers. Identification and mapping of RAPD markers linked to the Rps1 locus. The screening of 400 decamer primers against the cultivar Williams (rps1-k) and its NIL ...
DNA sequencing revealed a definitive
... Figure 4. Similarity matrix for the amino acid sequences of the homeo domains of iab-7 and its deuterostome cognates. Numbers represent % aa positional identity, which is 100 x the number of matched aa/60 aa. 72% aa positional identity, respectively (26,28,30,31,32). Also, the HB4 homeo domain share ...
... Figure 4. Similarity matrix for the amino acid sequences of the homeo domains of iab-7 and its deuterostome cognates. Numbers represent % aa positional identity, which is 100 x the number of matched aa/60 aa. 72% aa positional identity, respectively (26,28,30,31,32). Also, the HB4 homeo domain share ...
Protein relative abundance patterns associated with sucrose
... sucrose, appears to be a major factor driving the supragingival microbiota in the direction of dysbiosis. Recent 16S rRNA-based studies indicated that caries-associated communities were less diverse than healthy supragingival plaque but still displayed considerable taxonomic diversity between indivi ...
... sucrose, appears to be a major factor driving the supragingival microbiota in the direction of dysbiosis. Recent 16S rRNA-based studies indicated that caries-associated communities were less diverse than healthy supragingival plaque but still displayed considerable taxonomic diversity between indivi ...
Characterisation of marsupial PHLDA2 reveals eutherian specific acquisition of imprinting Open Access
... MEST, PEG10, INS and H19, and are from 4 independent domains. We have previously reported that there is no evidence of genomic imprinting of CDKN1C (also known as p57KIP2) in a marsupial, the tammar wallaby (Macropus eugenii) [28,34]. CDKN1C is located in the KCNQ1 domain mapped adjacent to the IGF2 ...
... MEST, PEG10, INS and H19, and are from 4 independent domains. We have previously reported that there is no evidence of genomic imprinting of CDKN1C (also known as p57KIP2) in a marsupial, the tammar wallaby (Macropus eugenii) [28,34]. CDKN1C is located in the KCNQ1 domain mapped adjacent to the IGF2 ...
Molecular Inversion Probe
Molecular Inversion Probe (MIP) belongs to the class of Capture by Circularization molecular techniques for performing genomic partitioning, a process through which one captures and enriches specific regions of the genome. Probes used in this technique are single stranded DNA molecules and, similar to other genomic partitioning techniques, contain sequences that are complementary to the target in the genome; these probes hybridize to and capture the genomic target. MIP stands unique from other genomic partitioning strategies in that MIP probes share the common design of two genomic target complementary segments separated by a linker region. With this design, when the probe hybridizes to the target, it undergoes an inversion in configuration (as suggested by the name of the technique) and circularizes. Specifically, the two target complementary regions at the 5’ and 3’ ends of the probe become adjacent to one another while the internal linker region forms a free hanging loop. The technology has been used extensively in the HapMap project for large-scale SNP genotyping as well as for studying gene copy alterationsand characteristics of specific genomic loci to identify biomarkers for different diseases such as cancer. Key strengths of the MIP technology include its high specificity to the target and its scalability for high-throughput, multiplexed analyses where tens of thousands of genomic loci are assayed simultaneously.