AP Biology
... readily form base pairs with complementary single-stranded segments on other DNA molecules. The enzyme DNA ligase can seal the strands to produce recombinant DNA molecules. Activity20B: Restriction Enzymes Genes can be cloned in recombinant DNA vectors: a closer look (pp. 378-381, FIGURES 20.3-20. ...
... readily form base pairs with complementary single-stranded segments on other DNA molecules. The enzyme DNA ligase can seal the strands to produce recombinant DNA molecules. Activity20B: Restriction Enzymes Genes can be cloned in recombinant DNA vectors: a closer look (pp. 378-381, FIGURES 20.3-20. ...
The landscape of microbial phenotypic traits and associated genes
... not be represented in existing databases. To this end, we constructed a standard ‘bag-of-words’ representation: a matrix where rows correspond to words and columns to organisms for each of the five corpora separately (excluding the mixed collection). In order to enforce consistency between corpora, ...
... not be represented in existing databases. To this end, we constructed a standard ‘bag-of-words’ representation: a matrix where rows correspond to words and columns to organisms for each of the five corpora separately (excluding the mixed collection). In order to enforce consistency between corpora, ...
How Genes and Genomes Evolve
... • Most cell types can be cultured but only cells that express telomerase can be immortalized • DNA can be cut reliably and in a repeatable manner using restriction enzymes – Be aware of the details of restriction endonucleases ...
... • Most cell types can be cultured but only cells that express telomerase can be immortalized • DNA can be cut reliably and in a repeatable manner using restriction enzymes – Be aware of the details of restriction endonucleases ...
(lectures 24
... Hawaiian species of the genus Drosophila. Being dipterans (flies) they have giant salivary gland chromosomes which are not only polytene (multiple stranded) and can have many bands identified on them by staining for DNA, but also the two homologues are paired in this larval salivary gland! (This mus ...
... Hawaiian species of the genus Drosophila. Being dipterans (flies) they have giant salivary gland chromosomes which are not only polytene (multiple stranded) and can have many bands identified on them by staining for DNA, but also the two homologues are paired in this larval salivary gland! (This mus ...
Gene Duplication and Evolution
... Arabidopsis; 58.3% of human gene pairs and 67.7% of mouse gene pairs had R ⫽ S ⫽ 0. Because Lynch and Conery recognized the potential problem of redundancy, human and mouse gene pairs with S ⬍0.01 were not used in their analyses. In many cases, however, both gene sequences from an S ⬍ 0.01 pair were ...
... Arabidopsis; 58.3% of human gene pairs and 67.7% of mouse gene pairs had R ⫽ S ⫽ 0. Because Lynch and Conery recognized the potential problem of redundancy, human and mouse gene pairs with S ⬍0.01 were not used in their analyses. In many cases, however, both gene sequences from an S ⬍ 0.01 pair were ...
(Rfg, Rbg), (Gfg, Gbg)
... 60,000 short DNA probes of specified sequences are orderly tethered. Each probe corresponds to a particular short section of a gene. So a single gene is covered by several probes which span different parts of the gene sequence. ...
... 60,000 short DNA probes of specified sequences are orderly tethered. Each probe corresponds to a particular short section of a gene. So a single gene is covered by several probes which span different parts of the gene sequence. ...
pdf
... nirK tree corresponds to the 16S rRNA and amoA trees. While the role of nitrite reduction in the metabolism of nitrifying bacteria is still uncertain, these data show that the nirK gene is present in closely related nitrifying isolates from many oceanographic regions and suggest that nirK sequences ...
... nirK tree corresponds to the 16S rRNA and amoA trees. While the role of nitrite reduction in the metabolism of nitrifying bacteria is still uncertain, these data show that the nirK gene is present in closely related nitrifying isolates from many oceanographic regions and suggest that nirK sequences ...
Influence of Menstruation on the Microbiota of Healthy Women`s
... an important role in preventing infections. These microorganisms produce large amounts of lactic acid during growth in the vagina, thereby maintaining its acidity. Furthermore, these bacteria inhibit the growth of many pathogenic organisms by producing hydrogen peroxide (H2O2) (3). Several attempts ...
... an important role in preventing infections. These microorganisms produce large amounts of lactic acid during growth in the vagina, thereby maintaining its acidity. Furthermore, these bacteria inhibit the growth of many pathogenic organisms by producing hydrogen peroxide (H2O2) (3). Several attempts ...
Lecture 8
... * These paralogs are more similar to each other than to orthologs → result of duplication after the species split * The remaining 13% (=253 ORFs) perhaps older paralogs that have been lost in the other species due to specialisation ...
... * These paralogs are more similar to each other than to orthologs → result of duplication after the species split * The remaining 13% (=253 ORFs) perhaps older paralogs that have been lost in the other species due to specialisation ...
Master student project in the DeNeWa framework
... which are formed as a result of mutations and show an extended activity. They belong to different types of β-lactamases gene familiys (such as TEM, SHV, CTX-M) and are mostly plasmid-coded and thus more easily horizontally transmissible. ESBL´s hydrolyze different beta-lactam antibiotics which cause ...
... which are formed as a result of mutations and show an extended activity. They belong to different types of β-lactamases gene familiys (such as TEM, SHV, CTX-M) and are mostly plasmid-coded and thus more easily horizontally transmissible. ESBL´s hydrolyze different beta-lactam antibiotics which cause ...
PDF
... Scientific, Rockford, IL). Ultra high-throughput sequencing was performed on a Genome Analyzer platform (Illumina, San Diego, CA). A more detailed protocol on library preparation is available upon request. Analysis of sequencing data ...
... Scientific, Rockford, IL). Ultra high-throughput sequencing was performed on a Genome Analyzer platform (Illumina, San Diego, CA). A more detailed protocol on library preparation is available upon request. Analysis of sequencing data ...
Experiment 1: Determining the presence of E. coli and H. pylori in
... identical to parent cells), and clones (also called strains) are host specific. Each clone is genetically different from other clones, so it is possible to trace water contamination to certain hosts, such as humans, cattle, or birds. It is also possible to locate the geographic source of contaminati ...
... identical to parent cells), and clones (also called strains) are host specific. Each clone is genetically different from other clones, so it is possible to trace water contamination to certain hosts, such as humans, cattle, or birds. It is also possible to locate the geographic source of contaminati ...
RECOMBINANT DNA USING BACTERIAL PLASMIDS
... BACKGROUND: Bacteria have not only their normal DNA, they also have a circular DNA called a plasmid. It is a wonderful ally for biologists who desire to get bacteria to produce very specific proteins. The plasmids conveniently can be cut, fused with other DNA and then reabsorbed by the bacteria. The ...
... BACKGROUND: Bacteria have not only their normal DNA, they also have a circular DNA called a plasmid. It is a wonderful ally for biologists who desire to get bacteria to produce very specific proteins. The plasmids conveniently can be cut, fused with other DNA and then reabsorbed by the bacteria. The ...
Milestone3
... When investigating a gene in a genome and how the gene is regulated, it may be useful to identify instances of various motifs for the gene. However, identifying instances of motifs in a genomic sequence is non-trivial. For example, the TATA box for most eukaryotic genes is composed of the following ...
... When investigating a gene in a genome and how the gene is regulated, it may be useful to identify instances of various motifs for the gene. However, identifying instances of motifs in a genomic sequence is non-trivial. For example, the TATA box for most eukaryotic genes is composed of the following ...
Pair-wise sequence alignment
... – Alignment score is expressed as number of standard deviation units by which the similarity score for real sequences (R) exceeds the average similarity score (M) of randomly permuted sequences October 2K5 ...
... – Alignment score is expressed as number of standard deviation units by which the similarity score for real sequences (R) exceeds the average similarity score (M) of randomly permuted sequences October 2K5 ...
Bacterial Gene Swapping in Nature
... different environments, genetically altered plasmids probably pose little danger. Plasmids slow the growth rates of bacteria and are usually eliminated if there is no advantage to an organism in keeping them. For instance, if a genetically manipulated plasmid carrying the mercury-resistance trait fo ...
... different environments, genetically altered plasmids probably pose little danger. Plasmids slow the growth rates of bacteria and are usually eliminated if there is no advantage to an organism in keeping them. For instance, if a genetically manipulated plasmid carrying the mercury-resistance trait fo ...
References - UTH e
... 1. PCR enables rapid amplification of template DNA for screening of uncharacterized mutations Because of its rapidity and simplicity, PCR is ideally suited to providing numerous DNA templates for mutation screening. Partial DNA sequences, at the genomic or the cDNA level, from a gene associated with ...
... 1. PCR enables rapid amplification of template DNA for screening of uncharacterized mutations Because of its rapidity and simplicity, PCR is ideally suited to providing numerous DNA templates for mutation screening. Partial DNA sequences, at the genomic or the cDNA level, from a gene associated with ...
Chapter 12
... 12.15 The Human Genome Project is an ambitious application of DNA technology • The Human Genome Project was begun in 1990 and is now largely completed – Initially involved three stages: genetic (linkage) and physical mapping of chromosomes, followed by DNA sequencing – Superseded by "shotgun" approa ...
... 12.15 The Human Genome Project is an ambitious application of DNA technology • The Human Genome Project was begun in 1990 and is now largely completed – Initially involved three stages: genetic (linkage) and physical mapping of chromosomes, followed by DNA sequencing – Superseded by "shotgun" approa ...
DNA sequence of the control region of phage D108: the N
... the two proteins. The DNA sequence coding for the repressor and the N-termlnal part of the transposase fall in the major area of sequence nonhomology between phage Mu and phage D108 (4, 5 ) . If the repressor and transposase do indeed interact, and if the interaction Is similar for each phage, then ...
... the two proteins. The DNA sequence coding for the repressor and the N-termlnal part of the transposase fall in the major area of sequence nonhomology between phage Mu and phage D108 (4, 5 ) . If the repressor and transposase do indeed interact, and if the interaction Is similar for each phage, then ...
Multiple Knockout Analysis of Genetic Robustness in the Yeast
... Here we go beyond gene essentiality and dispensability and chart the architecture of robustness against gene knockouts of the yeast metabolic network, employing large scale deep multiple knockouts in an in-silico model. Extending the common notion of essentiality we define a gene as contributing to ...
... Here we go beyond gene essentiality and dispensability and chart the architecture of robustness against gene knockouts of the yeast metabolic network, employing large scale deep multiple knockouts in an in-silico model. Extending the common notion of essentiality we define a gene as contributing to ...
The Atlas of Protein Sequences
... •5. Now, try to answer all of the questions below. 1. What is the SWISS-PROT primary accession number? 2. What is the common name of the protein? 3. What is the gene called? 4. Which year was the crystal structure of the catalytic domain determined? Name the first author. 5. Does the enzyme require ...
... •5. Now, try to answer all of the questions below. 1. What is the SWISS-PROT primary accession number? 2. What is the common name of the protein? 3. What is the gene called? 4. Which year was the crystal structure of the catalytic domain determined? Name the first author. 5. Does the enzyme require ...
Urania basin brine Bannock basin interface l`Atalante basin interface
... Fragment size (base pairs) ...
... Fragment size (base pairs) ...
Ensembl gene annotation project (e!76) Homo sapiens (human
... merged gene set in the future. As for supporting evidence, the merge of Ensembl and HAVANA transcripts also involved merging of protein and cDNA supporting evidence associated with the transcripts to ensure the basis on which the annotations were made would not be lost. Following the merge, the long ...
... merged gene set in the future. As for supporting evidence, the merge of Ensembl and HAVANA transcripts also involved merging of protein and cDNA supporting evidence associated with the transcripts to ensure the basis on which the annotations were made would not be lost. Following the merge, the long ...
here - Genomes Unzipped
... Li et al.[1] sequenced cDNA from lymphoblastoid cell lines derived from 27 individuals whose genomes have been sequenced at low coverage [2], and identified 10,210 sites of mismatches between an individual’s mRNA and DNA sequences (RDD sites, for RNA-DNA difference). RDD sites included all possible ...
... Li et al.[1] sequenced cDNA from lymphoblastoid cell lines derived from 27 individuals whose genomes have been sequenced at low coverage [2], and identified 10,210 sites of mismatches between an individual’s mRNA and DNA sequences (RDD sites, for RNA-DNA difference). RDD sites included all possible ...
Metagenomics
Metagenomics is the study of genetic material recovered directly from environmental samples. The broad field may also be referred to as environmental genomics, ecogenomics or community genomics. While traditional microbiology and microbial genome sequencing and genomics rely upon cultivated clonal cultures, early environmental gene sequencing cloned specific genes (often the 16S rRNA gene) to produce a profile of diversity in a natural sample. Such work revealed that the vast majority of microbial biodiversity had been missed by cultivation-based methods. Recent studies use either ""shotgun"" or PCR directed sequencing to get largely unbiased samples of all genes from all the members of the sampled communities. Because of its ability to reveal the previously hidden diversity of microscopic life, metagenomics offers a powerful lens for viewing the microbial world that has the potential to revolutionize understanding of the entire living world. As the price of DNA sequencing continues to fall, metagenomics now allows microbial ecology to be investigated at a much greater scale and detail than before.