Differences in the number of genotyping data for GWAS

Question

[rizky_dsatrio]

If we want to do GWAS in agriculture, which is the better option among these cases:

1. I get 200 whole-genome data and also 200 plant accessions. I use 200 whole-genome data for SNP-calling and GWAS analysis.

2. I get 2000 whole-genome data, but I only have 200 plant accessions. I use 2000 whole-genome data for SNP-calling and GWAS analysis.

Please kindly help me with the explanation as I am new in this field.

Thank you,

Regards