Table 1. Summary of proteins identified in the total protein and LD-enriched protein fractions derived from Arabidopsis siliques, seeds, and seedlings, and the percentage of LD proteins within all samples.

iBAQ-processed proteomic data of both the total protein fraction and the LD-enriched fraction was filtered for at least two peptides per protein group. Then, the relative abundance of LD-associated proteins in the LD-enriched fraction was calculated based on their iBAQ scores. LD proteins were chosen taking into account protein families known and identified in this work.

Developmental Stage	Total Protein Fraction	LD-Enriched Fraction	% of LD Proteins in LD-Enriched Fraction
Phase I siliques	1,723	1,266	16.8 ± 4.4
Phase II siliques	1,417	1,337	17.5 ± 1.1
Rehydrated seeds	1,425	1,353	31.8 ± 1.5
Stratified seeds	1,511	1,024	31.8 ± 8
24 h seedlings	2,004	1,158	24.3 ± 7.9
36 h seedlings	2,197	1,368	25.9 ± 5.1
48 h seedlings	2,218	1,478	28.5 ± 4.5
60 h seedlings	2,198	1,723	34.1 ± 12.2