Genome assembly (Week 3) Flashcards

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1
Q

Whole-genome shotgun (WGS) approach

A

Generating sequence reads directly from a whole-genome library

Using computational techniques (computer) to reassemble in one step

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2
Q

Whole-genome Shotgun

ADVANTAGES

A
  • No mapping
  • Time efficient
  • Cost effective
     Random – No redundant sequencing
     Easy ‘Wet-lab”
     Disadvantages
     No mapping
     Don’t know the location
     Gaps difficult to resolve
     Assembly very computationally intense
     Difficult analysis
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2
Q

Whole-genome Shotgun sequencing

ADVANTAGES (3)

A

No mapping

  • Time efficient
  • Cost effective

Random – No redundant sequencing

Easy ‘Wet-lab”

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3
Q

Whole-genome shotgun sequencing

DISADVANTAGES (3)

A

No mapping

  • Don’t know the location
  • Gaps difficult to resolve

Assembly very computationally intense
Difficult analysis

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4
Q

Hierarchical shotgun approach

DEFINITION

A

Generating an overlapping set of intermediate-sized clones and keeping a map of that
BAC’s or YAC’s (Yeast Artificial chromosomes)

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5
Q

Hierarchical shotgun sequencing

ADVANTAGES & DISADVANTAGES

A
Advantages 
	Easy assembly 
	Know the location of reads 
	Can easily re-sequence any area 
	Less computationally intense 

Disadvantages
 Build library and physical map
 Redundant sequencing

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6
Q

Hierarchical shotgun sequencing VS whole-genome shotgun sequencing

A

Hierarchical shotgun approach
- genome is broken into large fragments prior to sequencing

WGS approach
- the entire genome is broken into small fragments for sequencing

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