Genomic Sequencing Advances Quiz
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Genomic Sequencing Advances Quiz

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@ReliableMookaite1890

Questions and Answers

What is the purpose of a barcode in Illumina sequencing?

Enables simultaneous sequencing of multiple samples

What is the function of adapters in Illumina workflow?

Known primers added to ends of DNA fragments

What does a flow cell in Illumina sequencing consist of?

Glass slide with oligos that attach to adapters

What is the role of cluster in Illumina sequencing?

<p>Formed after bridge amplification, multiple copies of the same DNA strand on flow cell</p> Signup and view all the answers

What does base calling from raw data involve in Illumina sequencing?

<p>Interpreting the identity of the base from the color of a cluster</p> Signup and view all the answers

What is the format of FASTQ files in Illumina sequencing?

<p>A txt file with four lines per read</p> Signup and view all the answers

What is the significance of quality values in Illumina sequencing?

<p>Represent the certainty of the base determined by the clarity of the spot on the flow cell</p> Signup and view all the answers

What is the term for the rapid increase in frequency of a specific genetic variant due to positive natural selection?

<p>Selective sweep</p> Signup and view all the answers

Which of the following is a measure of the amount of genetic variation in a population?

<p>Heterozygosity</p> Signup and view all the answers

Which enzyme shears DNA at specific sites?

<p>ApeKI</p> Signup and view all the answers

Which allele is related to metabolism in bobcats, affecting energy expenditure and obesity?

<p>GPR158</p> Signup and view all the answers

Which allele is related to abdominal fat storage and lipid metabolism in bobcats?

<p>LECT2</p> Signup and view all the answers

Which allele is related to noxious heat detection in bobcats?

<p>TRPM</p> Signup and view all the answers

What is the term for distinct chromosomal regions where genetic variants are inherited together?

<p>Linkage disequilibrium</p> Signup and view all the answers

What does Fst measure in population genetics?

<p>Divergence between populations</p> Signup and view all the answers

What is the term for the process of identifying structural rearrangements in the genome?

<p>CNVs</p> Signup and view all the answers

What is the best Phred quality score indicating high consistency in DNA sequencing?

<p>30</p> Signup and view all the answers

Which method is suitable for de novo bacterial/viral genome assembly and BAC sequencing?

<p>Pac bio (NGS)</p> Signup and view all the answers

What does copy number variation (CNV) refer to?

<p>Variation in repeated genome sequences</p> Signup and view all the answers

What do string graphs in de novo assembly use to construct full sequence contigs?

<p>Nodes representing reads</p> Signup and view all the answers

What is the focus of transcriptome analysis?

<p>RNA molecules in cells</p> Signup and view all the answers

What is the method for SNP detection in genomes and can be used in genetic mapping and estimation of allele frequencies?

<p>RADseq</p> Signup and view all the answers

How are consensus sequences obtained from de novo assembly contigs based on?

<p>Weighted voting, incorporating quality scores for accuracy</p> Signup and view all the answers

What is the main purpose of genome re-sequencing?

<p>To gather data on genetic variation through mapping reads to a known reference sequence</p> Signup and view all the answers

What is the calculation of N50 for a given genome assembly with contig lengths of 5mb, 25mb, 40mb, and 30mb?

<p>30mb</p> Signup and view all the answers

What is the purpose of large scaffolds in genomes with many repeats?

<p>To be generated using mate pair libraries and methods that produce very long reads</p> Signup and view all the answers

What are the cost-saving approaches for genome variation at the population level?

<p>Low coverage whole genome sequencing, reduced-representation sequencing, and targeted enrichment</p> Signup and view all the answers

What is the main advantage of low/ultra-low coverage sequencing?

<p>Data for the entire genome of multiple individuals and increased likelihood of detecting all alleles</p> Signup and view all the answers

What does whole genome sequencing involve?

<p>Sequencing the entire genome</p> Signup and view all the answers

What should be considered for sequencing?

<p>Capture amount, specificity, variability, reproducibility, cost, and input DNA</p> Signup and view all the answers

Study Notes

Advances in Genomic Sequencing Technologies and Strategies

  • Assembly using short reads combined with large mate libraries at different coverages helps assemble larger contigs
  • Comparisons between assembly programs should consider speed, error, number of contigs, and contig length
  • Velvet is a highly efficient genome assembly program for short DNA sequence reads
  • Genome re-sequencing aims to gather data on genetic variation through mapping reads to a known reference sequence
  • Structural variation analysis leverages the distance and orientation between paired reads to provide insights on genome structure
  • Bridge amplification is used in Illumina sequencing flow cells to amplify DNA fragments for sequencing
  • N50 for a given genome assembly with contig lengths of 5mb, 25mb, 40mb, and 30mb is calculated as 30mb
  • Large scaffolds in genomes with many repeats can be generated using mate pair libraries and methods that produce very long reads
  • Whole genome sequencing involves sequencing the entire genome, while enrichment targets specific genomic regions
  • Cost-saving approaches for genome variation at the population level include low coverage whole genome sequencing, reduced-representation sequencing, and targeted enrichment
  • Considerations for sequencing include capture amount, specificity, variability, reproducibility, cost, and input DNA
  • Advantages of low/ultra-low coverage sequencing include data for the entire genome of multiple individuals and increased likelihood of detecting all alleles

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Description

Test your knowledge about recent advances in genomic sequencing technologies and strategies with this quiz. Explore topics such as genome assembly, re-sequencing, structural variation analysis, sequencing platforms, and cost-saving approaches for population-level variation studies.

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