What is the genetic material of PHI into 174 virus?
What is the genetic material of PHI into 174 virus?
So, the correct answer is ‘SSDNA’
What is Illumina PhiX?
The PhiX library provides a quality control for cluster generation, sequencing, and alignment, and a calibration control for cross-talk matrix generation, phasing, and prephasing. It can be rapidly aligned to estimate relevant sequencing by synthesis (SBS) metrics such as phasing and error rate.
What did Hershey and Chase do?
The Hershey-Chase experiments settled the long-standing debate about the composition of genes, thereby allowing scientists to investigate the molecular mechanisms by which genes function in organisms. In the early twentieth century, scientists debated whether genes were made of DNA or protein.
How many base pairs in bacteriophage phi X174 has?
The complete 30-base-pair origin region of bacteriophage phi X174 in a plasmid is both required and sufficient for in vivo rolling-circle DNA replication and packaging. Eur J Biochem.
What is a good Q30 score?
%Q30: The percentage of bases with a quality score of 30 or higher, respectively (see “Quality Scores Explained” below). Most Illumina runs will generate >70-80% Q30 data.
How do you test for rRNA contamination?
A very simple approach would be to download rRNA bed coordinates (from Ensembl) and then count the total number of reads that fall into this ROI (using bedtools suite) and divide this by total number of reads in the bam (samtools idxstats). This would give you a rough estimate of your background rRNA levels.
How much PhiX do I add?
| Platform | PhiX Aligned (%)† |
|---|---|
| MiSeq™ (MCS 2.2 or higher) | Minimum 5% |
| NextSeq™ 500/550 | 10-50%* |
| NextSeq 1000/2000 | 10-50%* |
| HiSeq™ 1000/1500/2000/2500 (HCS 2.2.38 or higher) | Minimum 5% |
Why is bacteriophage called 174?
The phi X 174 (or ΦX174) bacteriophage is a single-stranded DNA (ssDNA) virus that infects Escherichia coli, and the first DNA-based genome to be sequenced….Proteins.
| Protein | Copies | Function |
|---|---|---|
| J | 60 in virion | Binds to new single-stranded phage DNA; accompanies phage DNA into procapsid |
| K | — | Optimizes burst size; not essential |
How much should I spike PhiX?
5%
| Platform | PhiX Aligned (%)† |
|---|---|
| MiSeq™ (MCS 2.2 or higher) | Minimum 5% |
| NextSeq™ 500/550 | 10-50%* |
| NextSeq 1000/2000 | 10-50%* |
| HiSeq™ 1000/1500/2000/2500 (HCS 2.2.38 or higher) | Minimum 5% |
Does Escherichia virus phiX174 have genome sequences?
levels using filter: none has genome sequences Taxonomy browser (Escherichia virus phiX174) Escherichia virus phiX174 1) Taxonomy ID: 10847(for references in articles please use NCBI:txid10847) current name Escherichia virus phiX174, ICTV accepted 1)
What is the Phi X 174 bacteriophage?
The phi X 174 (or ΦX174) bacteriophage is a single-stranded DNA ( ssDNA) virus that infects Escherichia coli, and the first DNA-based genome to be sequenced. This work was completed by Fred Sanger and his team in 1977. In 1962, Walter Fiers and Robert Sinsheimer had already demonstrated the physical, covalently closed circularity of ΦX174 DNA.
How is ΦX174 related to other Microviridae?
ΦX174 is closely related to other microviridae, especially the NC phage (e.g. NC1, NC7, NC11, NC16, NC37, NC5, NC41, NC56, NC51, etc.) and more distantly related to the G4-like phages and even more distantly related to the α3-like phage. Rokyta et al. 2006 presented a phylogenetic tree of their relationships.
What can we learn from the ΦX174 genome?
The ΦX174 genome was the first phage to be cloned in yeast, which provides a convenient drydock for genome modifications. ΦX174 was also the first genome to be fully decompressed, having all gene overlaps removed . The effect of these changes resulted in significantly reduced host attachment, protein expression dysregulation, and heat sensitivity.