SMIL

Background

• SMIL Resource & Reporting Hub
• Current rainfall this season in Africa (NOAA)
• Current food security situation in Niger and Senegal (FEWS NET)
• SMIL co-PIs meeting planner

Project Participants

Niger

• Aissata Mamadou - INRAN Sorghum Breeder
• Magagi Abdou - LSDS HALAL Seed producer (Former INRAN Sorghum Breeder)
• Falalou Hamidou - ICRISAT Ecophysiologist
• Ardaly Ousseini - INRAN Sorghum technician

Senegal

• Ndiaga Cisse (co-PI) - Director of CERAAS (Cowpea & sorghum breeder)
• Bassirou Sine - CERAAS Ecophysiologist
• Daniel Fonceka (co-PI)
• Jean-Francois Rami (co-PI) - CIRAD Molecular Geneticist
• Cyril Diatta - Sorghum Breeder

Kansas

• Fanna Maina
• Jacques Faye
• Marcus Olatoye
• Geoffrey Morris - Sorghum Geneticist

Project Activities

Objective 1: Genomic characterization of West African germplasm

Genomic characterization of Senegalese and Nigerien landraces and breeding lines to connect West African germplasm to global sorghum breeding efforts.

Genotyping-by-sequencing

Purpose:

Genotyping-By-Sequencing (GBS) is a next generation sequencing approach that facilitates quantitative and population genomics studies of crops. In this study, we performed sequencing on the West African Sorghum germplasm from Genbank and breeding lines using the GBS protocol according to Elshire et al. 2011. The objective is to identify the genomic regions and accessions that harbor alleles that are adaptive for particular regions or environments. Moreover, characterizing genomic variation (SNP diversity, population structure, and haplotype structure) West African accessions will be useful for genomics-enabled breeding in West Africa. Alongside the West African accessions, we also genotyped other global accessions and breeding lines from K-State. In addition, our GBS preliminary results revealed 158018 SNPs for 2996 samples.

Materials & Methods:

• Sample inventory system
• Project GT_SMIL2015
• Protocol for DNA extraction
• GBS Library Preparation Protocol

Results:

• GBS_report_GT_SMIL2015
• GT_SMIL2015_pipeline_results

Objective 2: Genomics toolkit for GBS-to-KASP conversion

Objective 3: Multi-parent population development

Objective 4: Trait mapping for drought, striga, and grain mold

Purpose:

Senegal West African Sorghum Association Panel

WASAP Phenotyping data

1. Rainy season 2014, sent by Bassirou Sine 03/30/15
2. Hot off season 2015
3. Cold off season 2015/2016
4. [Cold off season 2016/2017]

Analysis Scripts and Results

Phenotyping capacity (Niger)

SAP Pictures Jacques

Objective 4: Trait mapping for drought, striga, and grain mold

Objective 5: Marker-Assisted Recurrent Selection and Genomic Selection