Table 1.
Description | Pooled based | Whole population based | ||||||||
---|---|---|---|---|---|---|---|---|---|---|
Indel-Seq | Seq-BSA | QTL-seq | MutMap | BSR-seq | WGRS | GBS | SKIM-seq | SNP array | RNA-seq | |
Cost | Low | Low | Low | Low | Low | High | Medium | Medium | High | Medium |
Mapping 1–2 traits at a time | Yes | Yes | Yes | Yes | Yes | No | No | No | No | Yes |
Mapping > 2 traits at a time | No | No | No | No | No | Yes | Yes | Yes | Yes | No |
DNA/RNA based | DNA | DNA | DNA | DNA | RNA | DNA | DNA | DNA | DNA | RNA |
Variants | InDels | SNPs | SNPs | SNPs | SNPs | SNPs | SNPs | SNPs | SNPs | SNPs |
Approach | RG = HTP=HTB ≠ LTB | HTP = HTB≠LTB and SNP index | SNP index | SNP frequency | SNPs/FPKM | SNP calls | SNP calls | SNP calls | SNP variation | FPKM |
Status of sequencing-based trait mapping in legume crops† | + | + | +++ | – | – | ++ | +++ | + | +++ | – |
RG reference genome, HTP high trait parent, HTB high trait bulk, LTB low trait bulk, FPKM Fragments Per Kilobase of transcript per Million mapped reads
†+, ++ and +++ signs indicate technologies utilized in moderate, good and excellent quantity in the legume crops, and – sign indicates technologies yet to be utilized in legume crops