Biology Reference
In-Depth Information
The most common markers used in the development of Sub1 mega-varieties
Table 2.1.
Type of
marker
Expected
size (bp)
Tm (
◦
C)
Primer
Sequence
Position
Accession
NB
a
RM8300
(SC3)F
GCTAGTGCAGGGTTGACACA
60
∼
300 kb
upstream of
SUB1A
SSR
200
RM8300
(SC3)R
CTCTGGCCGTTTCATGGTAT
60
GnS2F
CTTCTTGCTCAACGACAACG
60
exon of
SUB1A
CAPS
(
AluI/PvuII
)
Teqing
242
26D17
b
GnS2R
TCGATGGGGTCTTGATCTCT
60
132 & 110
NB
a
No product
26D17
b
AEX1F
AGGCGGAGCTACGAGTACCA
62
non-synonymous
SNP for
SUB1A
mismatch
231
AEX1R
GCAGAGCGGCTGCGA
62
specific for
tolerance
Teqing
No product
NB
a
No product
NB
a
/93-11
ART5F
CAGGGAAAGAGATGGTGGA
60
SUB1C
promoter
15 bp
insertion in
NB/93-11
217
118k20
b
ART5R
TTGGCCCTAGGTTGTTTCAG
60
202
NB
a
/93-11
Sub1C173F
AACGCCAAGACCAACTTCC
60
exon of
SUB1C
9bp
deletion in
NB/93-11
164
118k20
b
Sub1C173R
AGGAGGCTGTCCATCAGGT
60
173
a
Nipponbare
b
derived from IR40931-26
Table 2.2.
Current status of Sub1 lines developed through marker-assisted backcrossing (MABC)
Recurrent
parent
Country of
origin
Donor
parent
Introgression
size (Mb)
IRRI
designation
Country where
released
Year of
release
Generation
Swarna
India
IR49830
BC
3
F
2
2.3-3.4
IR05F102
India &
Indonesia,
Bangladesh,
Nepal &
Myanmar
2009
2010
2011
IR64
Philippines
IR40931
BC
2
F
2
6.5-7.8
IR07F102
Philippines &
Indonesia
2009
Samba
Mahsuri
India
IR49830
BC
2
F
2
6.5-9.2
IR07F101
Nepal, India
2011
2013
N/A
a
TDK1
Laos
IR40931
BC
3
F
2
1.5-2.5
IR07F289
BR11
Bangladesh
IR40931
BC
2
F
2
0.3-2.6
IR07F290
Bangladesh
2010
N/A
b
CR1009
India
IR40931
BC
2
F
3
2.7-6.4
IR07F291
Ciherang
Indonesia
IR64-Sub1
BC
1
F
2
6.5-7.8
IR09F436
Indonesia,
Bangladesh
2012
2013
N/A
c
PSB Rc18
Philippines
IR64-Sub1
BC
1
F
2
6.5-7.8
IR09F437
a
Not applicable; under advanced evaluation in Lao PDR
b
Not applicable; released proposal submitted in India
c
Not applicable; under evaluation in the Philippines
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