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Exercise 11 - Understanding the Output for a blastn Search
Exercise 11 - Understanding the Output for a blastn Search

... (excerpted from a document created by Wilson Leung, Washington University) Read the following tutorial to better understand the BLAST report for a nucleotide-nucleotide alignment. ...
Genetic characterization of the mitochondrial DNA - (BORA)
Genetic characterization of the mitochondrial DNA - (BORA)

... on opposite DNA strands, as well as genes on the same strand (Wolstenholme, 1992b). Within the metazoans the mitochondrial genomes range in size from 14 – 42 kb (Crease, 1999). This variation in size can to some extent be due to differences in gene length, but in most cases it is a result of size di ...
Eastern Cougar Foundation “Puma concolor canadensis”
Eastern Cougar Foundation “Puma concolor canadensis”

DNA Binding Properties of Novel Platinum and Palladium
DNA Binding Properties of Novel Platinum and Palladium

... These studies indicate a DNA binding mechanism for [Pt(dione)Cl4] that is uniquely  different than that of cis­platin. An interesting point to notice is that the percent change in  migration rate of poly(dG­dG)­poly(dC­dC) in the presence of cis­platin is considerably  lower  than  the  percent  cha ...
Evolution of a pseudo-control region in the mitochondrial genome of
Evolution of a pseudo-control region in the mitochondrial genome of

... approach a 2.5 kb PCR fragment comprising the section between ND6 and 12s genes was isolated from Buteo buteo hureo,cloned and sequenced. The gene order corresponds to the novel arrangement described for Folco peregrinrrs by Mindell et al. (1998). The fragment includes a non coding section between t ...
Detecting a Transposon in Corn
Detecting a Transposon in Corn

... by inserting into a gene, or may reactivate expression by jumping out. Thus, McClintock explained color variegations, such as speckled kernels, that had intrigued botanists for centuries. (See Concept 32 of DNA From the Beginning, www.dnaftb.org, for an animation explaining McClintock’s elucidation ...
ppt
ppt

... The fossil record is especially valuable, and the only option for many extinct taxa ...
Trawling DNA Databases for Partial Matches: What is the FBI Afraid
Trawling DNA Databases for Partial Matches: What is the FBI Afraid

... and federal databases as combined in the National DNA Index System (NDIS) hold over seven million short tandem repeat (STR) profiles from convicted offenders as well as a growing number of people who were merely arrested or detained. 3 When investigators recover a DNA sample from the scene of a crim ...
SAY IT WITH DNA: PROTEIN SYNTHESIS WORKSHEET: Practice
SAY IT WITH DNA: PROTEIN SYNTHESIS WORKSHEET: Practice

... codes which translate into amino acid sequences spelling out meaningful sentences in English! This activity provides practice in base-pair matching and following the sequence as performed by cells. Further practice is provided by requesting students to create new DNA messages which can be "decoded b ...
Chapter 4. Studying DNA Learning outcomes 4.1. Enzymes for DNA
Chapter 4. Studying DNA Learning outcomes 4.1. Enzymes for DNA

... 4. Describe, with examples, the way that restriction endonucleases cut DNA and explain how the results of a restriction digest are examined 5. Distinguish between blunt- and sticky-end ligation and explain how the efficiency of blunt-end ligation can be increased 6. Give details of the key features ...
Full text in pdf - International Microbiology
Full text in pdf - International Microbiology

Advanced primer design
Advanced primer design

... 1.2 When too few primer sets are generated If only small number of primer sets is generated for GC rich or AT rich sequences, it is plausible that the primer design conditions for the given target sequence are too stringent. In PrimerExplorer V3, the primer design conditions are automatically select ...
LAB 1: Scientific Method/Tools of Scientific Inquiry
LAB 1: Scientific Method/Tools of Scientific Inquiry

... one of four possible nitrogenous bases (“bases” for short) on the other. The phosphate group is acidic and thus negatively charged. This is why DNA has a net negative charge. Because all nucleotides in DNA contain deoxyribose they are called deoxyribonucleotides, though for simplicity we will just c ...
Preface 1 PDF
Preface 1 PDF

... speed up the development of yeast cell factories have been recently made. Metabolic engineering strategies for developing yeast strains for the production of polymer monomers: lactic, succinic, and cis, cis-muconic acids have been attempted. S. cerevisiae has already firmly established itself as a ce ...
Evolutionary ecology of rotifers - with emphasis on life
Evolutionary ecology of rotifers - with emphasis on life

... Part 1: Life history strategies and population ecology There are strong mechanistic links between the life histories of individuals and population growth, and a rich theoretical population biology theory formalizes these connections. For example, matrix population models are defined on the age-spec ...
Evolution of colour vision in primates
Evolution of colour vision in primates

... have excellent colour vision. The first mammals, however, are thought to have been largely nocturnal species. For them, the ability to see in lowlight conditions was at a premium, rather than the ability to see in colour. The ancestors of modern mammals consequently lost colour vision at the time of ...
Microbial DNA qPCR Assays
Microbial DNA qPCR Assays

Microbial DNA qPCR Assays
Microbial DNA qPCR Assays

UV-Targeted Dinucleotides Are Not Depleted in Light
UV-Targeted Dinucleotides Are Not Depleted in Light

... We started by a systematic approach and investigated all available complete bacteria and archaeal genomes. We then took a closer look at the genomes of 3 strains of the picocyanobacterium Prochlorococcus marinus. Prochlorococcus marinus as a Model Organism Each of the 3 strains of P. marinus we inve ...
Speciation
Speciation

... • Extensive gene flow from outside the hybrid zone can overwhelm selection for increased reproductive isolation inside the hybrid zone • In cases where hybrids have increased fitness, local extinctions of parent species within the hybrid zone can prevent the breakdown of reproductive barriers ...
Candidatus Paenicardinium endonii
Candidatus Paenicardinium endonii

... and previous studies, some MLSs extended across the width of the cell, whereas some extended part way. The width of MLSs that we determined (17 nm) was similar to that of Endo (1979), but wider than the 14–15 nm reported by Shepherd et al. (1973). These differences might be due to artefacts of fixat ...
source file - MIMG — UCLA
source file - MIMG — UCLA

... For genes with possible alternative start codon…It’s time to BLAST! • BLAST your results: – Construct a “revised” protein sequence in FASTA format (add or subtract amino acid residues in proper reading frame to reflect new start codon position then copy/paste into lab notebook). ...
DNA for Defence Lawyers
DNA for Defence Lawyers

... It is then measured. Too much DNA can skew a sample. Too little can lead to a “no result”. Some products including cloth dyes or cleaning agents can inhibit DNA analysis. Ultra violet light, heat, humidity or bacterial action can destroy DNA. Ideally only a very small amount is needed. In NSW betwee ...
J Mol Evol (2007) 65:541–554 - digital
J Mol Evol (2007) 65:541–554 - digital

... the fields of evolutionary and conservation biology because of its potential implications in many biological processes. New insights into the gene structure and evolution of MHC genes can be gained through study of additional lineages of birds not yet investigated at the genomic level. In this study ...
Fingerprinting the Fungal Community
Fingerprinting the Fungal Community

... sequences within the community DNA need to be fully sequenced, with each nucleic acid sequence being compared to a computer database in order determine their homology to known sequences (using a sequence matching program such as BLAST, available at http://www.ncbi.nlm.nih.gov/blast/). To obtain sequ ...
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DNA barcoding

DNA barcoding is a taxonomic method that uses a short genetic marker in an organism's DNA to identify it as belonging to a particular species. It differs from molecular phylogeny in that the main goal is not to determine patterns of relationship but to identify an unknown sample in terms of a preexisting classification. Although barcodes are sometimes used in an effort to identify unknown species or assess whether species should be combined or separated, the utility of DNA barcoding for these purposes is subject to debate.The most commonly used barcode region, for animals, at least, is a segment of approximately 600 base pairs of the mitochondrial gene cytochrome oxidase I (COI).Applications include, for example, identifying plant leaves even when flowers or fruit are not available, identifying insect larvae (which may have fewer diagnostic characters than adults and are frequently less well-known), identifying the diet of an animal, based on its stomach contents or faeces and identifying products in commerce (for example, herbal supplements, wood, or skins and other animal parts).
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