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Date November 2016 Marks available 2 Reference code 16N.3.HL.TZ0.12
Level Higher level Paper Paper 3 Time zone TZ0 / no time zone
Command term Identify and Suggest Question number 12 Adapted from N/A

Question

The genetic code is the information encoded within the mRNA sequence that is translated into proteins by living cells. The codon table is shown.

 

The alignment was used to obtain a cladogram of these organisms.

State the bioinformatics tool used to obtain the alignment.

[1]
a.

State the meaning of the dash (–) in the alignment.

[1]
b.

(i) Identify the longest amino acid sequence where there are no differences amongst the five genera.

(ii) Suggest, with a reason, whether the DNA coding for the amino acid sequence identified in (c)(i) must be identical for the five genera.

[2]
c.

Describe briefly how the cladogram was obtained.

[2]
d.

Determine which two genera are most closely related according to their cytochrome c protein sequence.

[1]
e.

Markscheme

BLASTp

Do not allow “BLAST” alone but accept BLASTx.

a.

gap/no amino acid present «for cytochrome c in that organism in that position»
OR
protein is shorter

b.

(i) GLFGR

Can be shown directly on the alignment.

 

(ii) no, because more than one codon can code for an amino acid/degeneration of the genetic code

c.

ALTERNATIVE 1
a. alignment used to quantify differences and similarities

b. algorithms for cladograms
OR
named algorithms

Named algorithms: least squares, neighbour-joining, parsimony, maximum likelihood or Bayesian inference.
Allow other verifiable algorithms.

c. selection of best model

ALTERNATIVE 2
d. comparing amino acid sequences between organisms

e. more similar sequences correspond to closer evolutionary links/OWTTE
OR
number of differences indicate number of mutations accumulated «over time»
OR
«if mutation rate is assumed to be constant», more mutations imply further evolutionary distance

f. length of lines/position of nodes established by the number of differences/mutations between organisms

Marks should be awarded for statements from only one alternative, not both.

d.

Zea «corn» and Oryza «rice»

Both required.

e.

Examiners report

[N/A]
a.
[N/A]
b.
[N/A]
c.
[N/A]
d.
[N/A]
e.

Syllabus sections

Option B: Biotechnology and bioinformatics » Option B: Biotechnology and bioinformatics (Additional higher level topics) » B.5 Bioinformatics
Option B: Biotechnology and bioinformatics » Option B: Biotechnology and bioinformatics (Additional higher level topics)
Option B: Biotechnology and bioinformatics

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