A total of 25 SSR primers were screened on 37 putative F₁s derived from the five different crosses. Identified cross specific highly informative SSRs primers, i.e., 14 for the first cross, 10 for the second, 12 for the third and 6 each for fourth and fifth crosses. For the first cross Bhagwa × Daru 17, four primers (HvSSRT_375, NRCP_SSR9, NRCP_SSR12 and NRCP_SSR92) were found to be highly informative with higher 100% hybrid purity index (HPI), PIC (~0.52), and observed heterozygosity (Ho, range 0.87–0.93) values, and two F₁s namely H₁ and H₂ were found to be highly heterotic with a heterozygosity index (HI) of 92.85%. Similarly, for Bhagwa × Nana, three primers (HvSSRT_375, HvSSRT_605 and NRCP_SSR19) had higher HPI (70%–100%), PIC (0.52–0.69), and Ho (0.75–0.33) values, and three F₁s H₁, H₂, and H₄ had 70% (HI). For Bhagwa × IC318712, four SSRs (HvSSRT_254, HvSSRT_348, HvSSRT_826 and NRCP_SSR95) had higher Ho (~0.83), HPI (100%) and PIC (~0.52) values, and four F₁s H₂, H₇, H₉, and H₁₀ showed 91.66% (HI). For Bhagwa × Nayana, HvSSRT_605, HvSSRT_826, and HvSSRT_432, and for Ganesh × Nayana, HVSSRT_375, HVSSRT_605, and HvSSRT_826 were found informative. These markers will be highly useful in developing maps of populations.

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