To establish potential functions encoded by the memory response genes, the maize sequences were searched against annotated gene models for A. thaliana.
All the maize nsLTP proteins were searched against the Protein Data Bank (PDB) by BLASTP with the default parameters to identify the best template.
Confirmed and putative stress related genes such as aquaporin, dehydrin, ABC (ATP-binding cassette subfamily G, ABCG or Eibi), ERD (Early Response to Dehydration stresses), LEA (Late Embryogenesis Abundance), HSP (Heat Shock Protein) in barley, wheat, sorghum, maize, rice and Arabidopsis were searched in the literature and downloaded from the Uniprot and NCBI databases.
The proteins were searched against the maize (Zea mays) database.
These will be discussed separately in the following sections.> -wrap-foot> The identified pathways were searched against the maize (Zea mays mays) genome database at statistical level of P < 0.01.
Helitrons with multiple termini were searched against the maize genome according to the following criteria, but avoiding the 3'-termini of elements that ended in a guanine base: CCGT[ATCG]GCA[AT]CGCACG[AG]{2}[ATCG]{6, 8}CTAT.
The putative encoding genes were search by TBLASTN algorithm [GB#, GenBank accession number of maize RNA sequences; TBLASTN score; n.d., not determined].
To identify the key genes regulating starch biosynthesis, the consensus amino acid sequences previously annotated in rice, wheat, and maize were used to perform a BLAST search against the whole Brachypodium genome database (http://www.brachypodium.org/).org/
Putative NAC proteins in maize were identified using the conserved NAC domain sequences in a query that was performed by TBLASTN search.
(maize) were grown at 27°C.
