Fungal Genome Size and Intron Evolution
Kemin Zhou, Oct 4, 2012
Figures Only, Tables will be in the manuscript word file
Percent Relative Intron Location from 5’-End of mRNA
Co
un
t
10
02
00
30
04
00
Aspni1
10
01
50
20
02
50
Mycfi1
10
01
50
20
02
50
30
0
Mycgr1
20
03
00
40
05
00 Necha2
10
30
50
70
Picst3
10
02
00
30
04
00
Trive1
50
15
02
50
35
0
Trire2
30
05
00
70
0 copci1
10
02
00
30
04
00
cryneo1
40
06
00
80
01
000 Lacbi1
20
03
00
40
05
00 Phchr1
20
03
00
40
05
00
Pospl1
0 20 40 60 80 100
50
15
02
50
35
0
Sporo1
0 20 40 60 80 100
40
60
80
10
0
ustma1
0 20 40 60 80 100
10
02
00
30
04
00
Batde5
0 20 40 60 80 100
20
04
00
60
08
00
Phybl1
Fig 1.
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0600
Avg = 0.501
Exon Length0 200 400 600 800 1000
01500
Avg = 214.8
Number of Introns per Gene0 10 20 30 40
0600
Avg = 7.6 round = 0
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0600 Avg = 0.476
Exon Length0 200 400 600 800 1000
02000 Avg = 246.2
Number of Introns per Gene0 10 20 30 40
0600 Avg = 6.5 round = 1
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0400
Avg = 0.456
Exon Length0 200 400 600 800 1000
02000 Avg = 276.9
Number of Introns per Gene0 10 20 30 40
0600 Avg = 5.7 round = 2
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0400
Avg = 0.427
Exon Length0 200 400 600 800 1000
01500 Avg = 332.3
Number of Introns per Gene0 5 10 15 20 25 30 35
01000 Avg = 4.6 round = 4
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0400 Avg = 0.407
Exon Length0 200 400 600 800 1000
01000 Avg = 412.1
Number of Introns per Gene0 5 10 15 20 25 30 35
01500 Avg = 3.5 round = 8
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0300
Avg = 0.419
Exon Length0 200 400 600 800 1000
0800 Avg = 493.3
Number of Introns per Gene0 5 10 15 20 25 30 35
03000
Avg = 2.7 round = 16
Relative Intron Location0.0 0.2 0.4 0.6 0.8 1.0
0300 Avg = 0.453
Exon Length0 200 400 600 800 1000
0600 Avg = 551.9
Number of Introns per Gene0 5 10 15 20 25 30
03000 Avg = 2.4 round = 32
0.0 0.2 0.4 0.6 0.8 1.0
0200 Avg = 0.481
0 200 400 600 800 1000
0600 Avg = 583.7
0 5 10 15 20 25 30
04000 Avg = 2.2 round = 64
Fig 2.
RIL Exon Length IPG
0.42 0.44 0.46 0.48 0.50
23
45
67
8
Relative Intron Location
IPG
0.42 0.44 0.46 0.48 0.50
4.5
5.5
6.5
7.5
Relative Intron Location
IPG
0 50000 150000 250000
23
45
67
Number of RT
2 4 6 8 10 12
23
45
67
ln(Number of RT)
-0.13
Fig 3.
A.
B.
C.
D.Number of RT Events
Ln (Number of RT Events)
789.210089.2948.4 610718.4 5
xey x
Mean Relative Intron Location
Me
an
Nu
mb
er
of
Co
din
g E
xon
s p
er
Ge
ne
0.40 0.42 0.44 0.46 0.48 0.50
12
34
56
78
Aspni1
Batde5
copci1
cryneo1
Lacbi1
Mycfi1Mycgr1
Necha2
Phchr1
Phybl1
Picst3
Pospl1
Sporo1
Trire2Trive1
ustma1
7.66y = 61.94x – 23.313p-value = 2.566E-07
Fig 4.
0 200 400 600 800 1000 1200 1400
23
45
67
8
Number of RT
EP
G
Fig 5.
Number of RTF
389.210089.2848.4 510118.2 3
xey x
Fig 6.
Intercept: 9.69 ± 1.99Slope: -0.30 ± 0.16
Intercept: 4.04 ± 0.35Slope: -0.11 ± 0.03
9 10 11 12 13 14
23
45
67
ln (Total RTF Length (nt))
Ave
rag
e E
PG
Aspni1
Batde5
copci1
cryneo1
Lacbi1
Mycfi1
Mycgr1Necha2
Phchr1
Phybl1
Picst3
Pospl1
Sporo1
Trire2
Trive1
ustma1
0 100 200 300 400
010
0020
0030
00
Cou
nt3n3n+13n+2
0 100 200 300 400
050
150
250
Cou
nt
3n3n+13n+2
Exon Length (nt)
C. reinhardtii
FungiA.
B.
Fig 7.
75
Number of Introns per Gene
Ave
rag
e E
xon
Le
ng
th (
nt) 5.1988961.11.1060 7812.0 xey x
020
060
010
00
0 10 20 30 40 50 60 70
Fig 8.
Percent relative intron location from 5’-end of mRNA
Diff
ere
nce
of
fre
qu
en
cy (
no
n-c
on
serv
ed
- c
on
serv
ed
)
-0.0
40.
000.
04 1.204E-07
Aspni1
1.482E-18
Mycfi1
2.228E-10
Mycgr1
1.390E-25
Necha2
-0.0
40.
000.
04 1.303E-03
Picst3
1.397E-35
Trive1
5.121E-18
Trire2
4.021E-08
copci1
-0.0
40.
000.
04 5.447E-01
cryneo1
1.770E-35
Lacbi1
1.330E-01
Phchr1
4.135E-02
Pospl1
0 20 40 60 80
-0.0
40.
000.
04 8.968E-02
Sporo1
0 20 40 60 80
2.997E-03
ustma1
0 20 40 60 80
8.028E-11
Batde5
0 20 40 60 80
1.047E-22
Phybl1
Fig 9.
Fig 10.
allbetween phylaphylumspecies
0
2
4
6
8
0
1
2
3
4
5
6
7
copc
i1
cryn
eo1
Lacb
i1
Phchr
1
Pospl1
Sporo
1
ustm
a1
Batde
5
Phybl1
Aspni1
Myc
fi1
Myc
gr1
Necha
2
Picst3
Trire
2
Trive
1
A.
B.
EP
G p
er
40
0 a
aE
PG
EPG of Genes Conserved in All Species
EP
G o
f S
pe
cie
s-sp
eci
fic G
en
es
2 3 4 5 6 7 8
23
45
67
Aspni1
Batde5
copci1
cryneo1
Lacbi1
Mycfi1
Mycgr1
Necha2
Phchr1
Phybl1
Picst3
Pospl1
Sporo1
Trire2
Trive1
ustma1
y = 0.503 x + 1.172
Excluding Sporo1, p-val=8.196E-07
Fig 11.
Recommended
