Full Paper - Biotechniques.org
... of many passerines (Poupon et al 2005). Other than viruses and spirochetes, pathogenic bacteria are also of public health concern due to their involvement in human illness, infection, disease, and mortality. Pathogenic bacteria located internally on birds have been isolated from pharynxes and cloaca ...
... of many passerines (Poupon et al 2005). Other than viruses and spirochetes, pathogenic bacteria are also of public health concern due to their involvement in human illness, infection, disease, and mortality. Pathogenic bacteria located internally on birds have been isolated from pharynxes and cloaca ...
Bacterial and Fungal Contamination in Three Brands of
... product, There are several different preservatives available but the cosmetic market is dominated by a few preservatives: parabens, formaldehyde, formaldehyde releasers, and methylchloroisothiazolinone/ methylisothiazolinone (7). ...
... product, There are several different preservatives available but the cosmetic market is dominated by a few preservatives: parabens, formaldehyde, formaldehyde releasers, and methylchloroisothiazolinone/ methylisothiazolinone (7). ...
TRANSPOSON INSERTION SITE VERIFICATION
... TRANSPOSON INSERTION SITE VERIFICATION Transposon and T-DNA insertion in Arabidopsis genes can be identified using the Arabidopsis thaliana Insertion Database (ATIdb) (http://atidb.org/cgi-perl/gbrowse/atibrowse). There is, as yet, no publicly available insertion site verification data VERIFICATION ...
... TRANSPOSON INSERTION SITE VERIFICATION Transposon and T-DNA insertion in Arabidopsis genes can be identified using the Arabidopsis thaliana Insertion Database (ATIdb) (http://atidb.org/cgi-perl/gbrowse/atibrowse). There is, as yet, no publicly available insertion site verification data VERIFICATION ...
Transposable elements, genes and recombination in a 215
... about 2,700 kb cM–1 (2,243–3,365 kb cM–1, 95% confidence interval). Genes present in these two BACs are 0.1 cM distal to the vernalization gene Vrn1 and none of them is a candidate for this vernalization gene. The frost tolerance gene Fr1 was not segregating in these mapping populations and therefor ...
... about 2,700 kb cM–1 (2,243–3,365 kb cM–1, 95% confidence interval). Genes present in these two BACs are 0.1 cM distal to the vernalization gene Vrn1 and none of them is a candidate for this vernalization gene. The frost tolerance gene Fr1 was not segregating in these mapping populations and therefor ...
Journal of Bacteriology
... in protection responses. Among these are three genes encoding proteins involved in resistance to acriflavine (ngr226, ngr288, and ngr289), genes involved in detoxification of other small molecules (e.g., ngr065, ngr334, two copies of the multidrug resistance protein B), CopC (copper resistance prote ...
... in protection responses. Among these are three genes encoding proteins involved in resistance to acriflavine (ngr226, ngr288, and ngr289), genes involved in detoxification of other small molecules (e.g., ngr065, ngr334, two copies of the multidrug resistance protein B), CopC (copper resistance prote ...
Conflicting Phylogenies for Early Land Plants are Caused by
... The problem underlying the conflict in many of these studies can be viewed as a question of where to place the charophyte root on a tree consisting of (in sequence) liverworts–mosses–hornworts–tracheophytes. If the root is placed between hornworts and tracheophytes then bryophytes will be monophyleti ...
... The problem underlying the conflict in many of these studies can be viewed as a question of where to place the charophyte root on a tree consisting of (in sequence) liverworts–mosses–hornworts–tracheophytes. If the root is placed between hornworts and tracheophytes then bryophytes will be monophyleti ...
supplementary material
... eQTLs found in SPA and many more. Methods which utilize multiple correlated etraits in some form (PC- and trans-mapping) exhibited a strong increase in the power of eQTL detection over SPA. For PC-mapping, 24% of all identified eQTLs were not detected by other methods, while for trans-mapping 87% we ...
... eQTLs found in SPA and many more. Methods which utilize multiple correlated etraits in some form (PC- and trans-mapping) exhibited a strong increase in the power of eQTL detection over SPA. For PC-mapping, 24% of all identified eQTLs were not detected by other methods, while for trans-mapping 87% we ...
R and Bioconductor recap (P) - Bioinformatics Training Materials
... 1.2 Reading data into R . . . . 1.3 Dealing with numerical data 1.4 A digression on plotting . . 1.5 Importing the clincal data . ...
... 1.2 Reading data into R . . . . 1.3 Dealing with numerical data 1.4 A digression on plotting . . 1.5 Importing the clincal data . ...
Where Is DNA Found?
... cooling, and strand rebuilding is repeated typically 25 to 30 times, yielding more than one million copies of the original DNA molecule. Each cycle takes less than two minutes from start to finish. ...
... cooling, and strand rebuilding is repeated typically 25 to 30 times, yielding more than one million copies of the original DNA molecule. Each cycle takes less than two minutes from start to finish. ...
Microbiology of Environmental Engineering Systems
... structures, intracellular structures and cell organelles. One of most important cytological characteristics of prokaryotes is the Gram-positive or Gram-negative type of cell wall. A Gram-positive cell well is a thick and rigid 3-D layer of polymer. A Gram-negative cell wall is a thin and more elasti ...
... structures, intracellular structures and cell organelles. One of most important cytological characteristics of prokaryotes is the Gram-positive or Gram-negative type of cell wall. A Gram-positive cell well is a thick and rigid 3-D layer of polymer. A Gram-negative cell wall is a thin and more elasti ...
Eukaryote-to-eukaryote gene transfer events revealed by the
... genes present in S288c were not found in the EC1118 genome (Table S4). Most of these genes are repeated and located in subtelomeric regions, which have not been accurately assembled, making it difficult to estimate copy number precisely. However, several of these genes (e.g., HXT16, PAU21, and SOR1) ...
... genes present in S288c were not found in the EC1118 genome (Table S4). Most of these genes are repeated and located in subtelomeric regions, which have not been accurately assembled, making it difficult to estimate copy number precisely. However, several of these genes (e.g., HXT16, PAU21, and SOR1) ...
Pseudomonas entomophila: A Versatile Bacterium with
... Several genes in the genome of P. entomophila have been associated with its entomopathogenicity. For example, the presence of genes that encode for TccC-type insecticidal toxin are particularly striking since they are only found in entomopathogenic bacteria such as Photorhabus luminescens and Xenorh ...
... Several genes in the genome of P. entomophila have been associated with its entomopathogenicity. For example, the presence of genes that encode for TccC-type insecticidal toxin are particularly striking since they are only found in entomopathogenic bacteria such as Photorhabus luminescens and Xenorh ...
RNA interference - genemol de Jean
... RNAi is a specific process, known as the RNA interference machinery. It appears that the machinery, once it finds a double-stranded RNA molecule, cuts it up with an endonuclease (Dicer), separates the two strands, and then proceeds to destroy other single-stranded RNA molecules that are complementa ...
... RNAi is a specific process, known as the RNA interference machinery. It appears that the machinery, once it finds a double-stranded RNA molecule, cuts it up with an endonuclease (Dicer), separates the two strands, and then proceeds to destroy other single-stranded RNA molecules that are complementa ...
detection and pathogenetic role of mmr missense mutations
... variants to restore MMR functionality of two MMR- human cell lines, HCT116 and LoVo, respectively MLH1 and MSH2 defective. This functional assay, based on a previous report, showed some design limits, so we tried to improve the test and develop a best one, unsuccessfully. However, test results confi ...
... variants to restore MMR functionality of two MMR- human cell lines, HCT116 and LoVo, respectively MLH1 and MSH2 defective. This functional assay, based on a previous report, showed some design limits, so we tried to improve the test and develop a best one, unsuccessfully. However, test results confi ...
LIU Shuangjiang
... to microbial attack, because of the existence of two electron-withdrawing groups, chlorine and nitro-group. Until recently the understanding of microbial degradation of chloronitrobenzene are very poor. We have isolated and identified a Comamonas strain CNB-1, which uses 4-chloronitrobenzene as sole ...
... to microbial attack, because of the existence of two electron-withdrawing groups, chlorine and nitro-group. Until recently the understanding of microbial degradation of chloronitrobenzene are very poor. We have isolated and identified a Comamonas strain CNB-1, which uses 4-chloronitrobenzene as sole ...
Cellular function prediction and biological pathway discovery in
... prediction. Although a few attempts have been made along the line, better statistical models can be developed to retrieve more information from the data. In this paper, we propose a statistical model for functional annotation of unannotated proteins in Arabidopsis thaliana using high-throughput biol ...
... prediction. Although a few attempts have been made along the line, better statistical models can be developed to retrieve more information from the data. In this paper, we propose a statistical model for functional annotation of unannotated proteins in Arabidopsis thaliana using high-throughput biol ...
View Tutorial
... the notion of clusters of orthologous genes (COGs) [3,8] and observed that only a small number of genes and universally conserved acrossed all three domains of life. One such gene, EF-Tu, is key to translation. There are more than 30,000 bacterial and archaeal genomes available on the NCBI site and ...
... the notion of clusters of orthologous genes (COGs) [3,8] and observed that only a small number of genes and universally conserved acrossed all three domains of life. One such gene, EF-Tu, is key to translation. There are more than 30,000 bacterial and archaeal genomes available on the NCBI site and ...
An interspecific plant hybrid shows novel changes in
... PtSR34a.1 is not associated with any of the three AS isoforms common between the two parents and the hybrid. The conceptual translation of the hybrid-specific AS forms revealed a premature termination codon in both cases (Figure 3). If the transcripts are translated they would result in truncated pr ...
... PtSR34a.1 is not associated with any of the three AS isoforms common between the two parents and the hybrid. The conceptual translation of the hybrid-specific AS forms revealed a premature termination codon in both cases (Figure 3). If the transcripts are translated they would result in truncated pr ...
Whole Genome Sequencing and foodborne pathogens: a UK
... • Technical, quality, logistical and training issues need to be addressed but should not delay roll-out of the technology ...
... • Technical, quality, logistical and training issues need to be addressed but should not delay roll-out of the technology ...
This is a test - DNALC Lab Center
... includes humans. So, all of the hundreds of thousands of Alu copies have accumulated in primates since their separation from other vertebrate groups about 65 million years ago. Once an Alu integrates into a new site, it accumulates new mutations at the same rate as surrounding DNA loci. Alu elements ...
... includes humans. So, all of the hundreds of thousands of Alu copies have accumulated in primates since their separation from other vertebrate groups about 65 million years ago. Once an Alu integrates into a new site, it accumulates new mutations at the same rate as surrounding DNA loci. Alu elements ...
Molecular-based detection of potentially pathogenic bacteria in
... platform. Raw sequence reads were filtered to remove those determined to be chimeras and those with lengths of <300 nt. Filtered sequence reads were analyzed using a Ribosomal Database Project (RDP) classifier and an operational taxonomic unit (OTU)-based protocol as described previously (Harb et al ...
... platform. Raw sequence reads were filtered to remove those determined to be chimeras and those with lengths of <300 nt. Filtered sequence reads were analyzed using a Ribosomal Database Project (RDP) classifier and an operational taxonomic unit (OTU)-based protocol as described previously (Harb et al ...
Identification of genes that are associated with DNA repeats in
... Using in silico analysis we studied a novel family of repetitive DNA sequences that is present among both domains of the prokaryotes (Archaea and Bacteria), but absent from eukaryotes or viruses. This family is characterized by direct repeats, varying in size from 21 to 37 bp, interspaced by similar ...
... Using in silico analysis we studied a novel family of repetitive DNA sequences that is present among both domains of the prokaryotes (Archaea and Bacteria), but absent from eukaryotes or viruses. This family is characterized by direct repeats, varying in size from 21 to 37 bp, interspaced by similar ...
Lecture 6: May 31, 2007 6.1 Introduction to Classification 6.2
... Accuracy The accuracy of a classifier can be evaluated using a test set with known class derivation for every item. The classification error can be tested using varying schemes, which will be discussed in 6.7.1. Transparency Some classification functions are very clear (for example a threshold funct ...
... Accuracy The accuracy of a classifier can be evaluated using a test set with known class derivation for every item. The classification error can be tested using varying schemes, which will be discussed in 6.7.1. Transparency Some classification functions are very clear (for example a threshold funct ...
Introduction to Bioinformatics
... The link to Blast2 is broken. You can get to Blast2 by clicking on the Blast link, and clicking on "Align two sequences" in the Special section. For Discovery Question 17, don't go back to the Blast2 Sequences window. Instead, open up a new Blast2 Sequences window and leave the old window open. This ...
... The link to Blast2 is broken. You can get to Blast2 by clicking on the Blast link, and clicking on "Align two sequences" in the Special section. For Discovery Question 17, don't go back to the Blast2 Sequences window. Instead, open up a new Blast2 Sequences window and leave the old window open. This ...
Horizontal transfer of non-LTR retrotransposons: artifact or rare event
... 2008). For example, HT of CR1B elements was identified along with the analysis of non-LTR retrotransposons diversity in Maculinea genomes. Bioinformatic approaches can greatly expand opportunities to observe the distribution and evolutionary history of non-LTR retrotransposons in various eukaryotic ...
... 2008). For example, HT of CR1B elements was identified along with the analysis of non-LTR retrotransposons diversity in Maculinea genomes. Bioinformatic approaches can greatly expand opportunities to observe the distribution and evolutionary history of non-LTR retrotransposons in various eukaryotic ...
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.