Weitere ähnliche Inhalte Ähnlich wie The role of cost in yeast gene expression Ähnlich wie The role of cost in yeast gene expression (9) Kürzlich hochgeladen (20) The role of cost in yeast gene expression1. Energ
etic c
in yea osts
st
Micha
el Bar
ton
Unive
rsity o
Manc f
heste
r
2. cost of a new cell
• protein
• fats
• nucleic acids
• ...
5. Craig and Weber
his, tyr, Mol Biol Evol (1998)15:774–776
phe, trp
amino acid
gly, ser, biosynthetic cost
cys
via glycolysis and
ala,
lys
TCA cycle
leu,
met, asp, val
asn, thr,
ile
pro, glu,
gln, arg
9. What price does the
cell have to pay?
at i s the
e. g. wh ent
inv estm
en ergy ins?
in p rote
10. £10
0m
42 illio
goa n
ls
cost vs benefit
il lion
0 m als
£8 go
16
14. yeast genome scale model
• 750 metabolic reactions
• can predict growth on different media
• can predict mutant phenotypes
17. Duarte, Herrgård, and Palsson
Genome Research (2004) 14:1298–1309
NH4
growth
Glu
supply distribution of
demand
resources
19. nutrient supply
per s lope
stee
=
eater cost
gr
increasing amino acid demand
20. trp arg gly
glucose limited cost
21. trp arg gly
nitrogen limited cost
22. cost selection
• minimise cost
• transcript levels
• protein levels
• amino acid levels
23. regression
energetic cost
atomic content
expression level
codon adaptation (CAI)
tRNA count
24. regression
energetic cost
atomic content
expression level
codon adaptation (CAI)
tRNA count
depen dent
c ost in apta tion
o f cod on ad
25. importance
cost carbon nitrogen sulphur tRNA CAI
transcript level
26. trans
latab
ility
importance
over c
mini ost
misa
tion
cost carbon nitrogen sulphur tRNA CAI
transcript level
27. importance
cost carbon nitrogen sulphur tRNA CAI
protein level
28. ility
importance
nsl atab
tra
ag ain
cost carbon nitrogen sulphur tRNA CAI
protein level
29. importance
cost carbon nitrogen sulphur tRNA
amino acid levels
30. transcripts 39%
proteins 41%
amino acids 78%
variation explained (R2)
34. acknowledgements
• Casey Bergman • Ian Donaldson
• Magnus Rattray • Raquel Linheiro
• Balazs Papp • Paul Cartwright
• Daniela Delneri
• Steve Oliver