A reference microsatellite kit to assess for genetic diversity of Sorghum bicolor (Poaceae).
OBJECTIVE
Discrepancies in terms of genotyping data are frequently observed when comparing simple sequence repeat (SSR) data sets across genotyping technologies and laboratories. This technical concern introduces biases that hamper any synthetic studies or comparison of genetic diversity between collections. To prevent this for Sorghum bicolor, we developed a control kit of 48 SSR markers.


RESULTS
One hundred seventeen markers were selected along the genome to provide coverage across the length of all 10 sorghum linkage groups. They were tested for polymorphism and reproducibility across two laboratories (Centre de Cooperation Internationale en Recherche Agronomique pour le Developpement [CIRAD], France, and International Crops Research Institute for the Semi-Arid Tropics [ICRISAT], India) using two commonly used genotyping technologies (polyacrylamide gel-based technology with LI-COR sequencing machines and capillary systems with ABI sequencing apparatus) with DNA samples from a diverse set of 48 S. bicolor accessions.


CONCLUSIONS
A kit for diversity analysis (http://sat.cirad.fr/sat/sorghum_SSR_kit/) was developed. It contains information on 48 technically robust sorghum microsatellite markers and 10 DNA controls. It can further be used to calibrate sorghum SSR genotyping data acquired with different technologies and compare those to genetic diversity references.
CIRAD, UMR AGAP, F-34398 Montpellier, France. claire.billot@cirad.fr
Claire
C
Billot
Ronan
R
Rivallan
Mbaye Ndoye
MN
Sall
Daniel
D
Fonceka
Monique
M
Deu
Jean-Christophe
JC
Glaszmann
Jean-Louis
JL
Noyer
Jean-François
JF
Rami
Ange-Marie
AM
Risterucci
Patrick
P
Wincker
Puna
P
Ramu
Charles T
CT
Hash
D000483:Alleles; D017931:DNA Primers / Q000235:genetics; D018744:DNA, Plant / Q000737:chemistry / Q000235:genetics; D014644:Genetic Variation; D005838:Genotype; D060005:Genotyping Techniques / Q000379:methods*; D018895:Microsatellite Repeats / Q000235:genetics*; D008969:Molecular Sequence Data; D016133:Polymerase Chain Reaction; D011110:Polymorphism, Genetic; D017422:Sequence Analysis, DNA; D045868:Sorghum / Q000145:classification / Q000235:genetics*; D013045:Species Specificity
D017931:DNA Primers; D018744:DNA, Plant