Molecular markers and genotyping platforms 21 May 2013

1. Groundnut
Consensus maps (year) 2012 2013
Marker loci mapped 897 3,693
Total map distance (cM) 3,864 2,651
Map density (cM/loci) 4.42 1.39
Molecular markers and genotyping platforms
SSRs
90 KASPar assaysSNPs
DArT arrays DArT arrays with 15,360 features
8,486 SNPs based on 454 GS FLX
Titanium transcript sequences from 19
tetraploid genotypes
SSR enriched library
(ICGV 86031)
Sequencing of clones
(ICRISAT)
BAC-end sequencing
(UC-Davis/ ICRISAT)
1,500 novel SSR markers
Aeschynomenoid / Dalbergoid
& Genistoid species
SSR identification
Arachis hypogaea
In silico analysis
Molecular breeding
 Active partner in International
Peanut Genome Project led by
USA
 Major player in Chinese
initiative for sequencing AA
genome
Functional and comparative genomics
Comparison of Arachis genome with Soybean
Population structure and marker-trait association
Trait mappingGenome sequencing
Linkage disequilibrium (LD) decay
DArT
SSR
00.1
SNP
Reference consensus genetic maps
Expression of transcripts in aerial and
subterranean young pods
10X BAC library
(TMV 2)
Subgroups of reference set
Genetic diversity with SSRs, DARTs and SNPs
Global / base
collection
Composite
collection
Core
collection
Phenotyping data for
agronomic, oil quality,
nutritional quality, biotic
stress, abiotic stress and
yield components
Groundnut
reference set
Genotyping with
4,597 DArTs, 154 SSRs,
90 KASPar
Drought tolerant Drought susceptible
Late leaf spot Leaf rust
A major QTL for rust
PVE up to
82.96%
First generation molecular breeding product with rust resistance developed and evaluated
Donor Target variety Generation
Rust resistance
GPBD 4 ICGV 91114,
TAG 24, JL 24
BC2F6 &
BC3F5
High oleate trait
SunOleic 95R ICGV 06110,
ICGV 06420,
ICGV 07368,
ICGV 06142
BC2F1
Pyramiding high oleate trait, rust and late leaf
spot resistance
GPBD 4,
SunOleic 95R
ICGV 00350,
ICGV 02266,
ICGV 03128,
ICGV 03042,
ICGV 05155
F1
Target region: South Asia, Eastern South Africa (ESA)
and West Central Africa (WCA)
ICGV 91114 + rust QTL Introgression linesICGV 91114 GPBD 4
Marker-trait association
Inclusive Market-Oriented Development (IMOD) –
our approach to bringing prosperity in the drylands.
ICRISAT is a member of the CGIAR Consortium. May 2013