DOI: 10.5061/dryad.m0qc8
title: Data from: Genome-wide analysis of the basic leucine zipper (bZIP) transcription factor gene family in six legume genomes

description: Background: Plant bZIP proteins characteristically harbor a highly
 conserved bZIP domain with two structural features: a DNA-binding basic
 region and a leucine (Leu) zipper dimerization region. They have been
 shown to be diverse transcriptional regulators, playing crucial roles in
 plant development, physiological processes, and biotic/abiotic stress
 responses. Despite the availability of six completely sequenced legume
 genomes, a comprehensive investigation of bZIP family members in legumes
 has yet to be presented. Results: In this study, we identified 428 bZIP
 genes encoding 585 distinct proteins in six legumes, Glycine max, Medicago
 truncatula,Phaseolus vulgaris, Cicer arietinum, Cajanus cajan, and Lotus
 japonicus. The legume bZIP genes were categorized into 11 groups according
 to their phylogenetic relationships with genes from Arabidopsis. Four
 kinds of intron patterns (a–d) within the basic and hinge regions were
 defined and additional conserved motifs were identified, both presenting
 high group specificity and supporting the group classification. We
 predicted the DNA-binding patterns and the dimerization properties, based
 on the characteristic features in the basic and hinge regions and the Leu
 zipper, respectively, which indicated that some highly conserved amino
 acid residues existed across each major group. The chromosome distribution
 and analysis for WGD-derived duplicated blocks revealed that the legume
 bZIP genes have expanded mainly by segmental duplication rather than
 tandem duplication. Expression data further revealed that the legume bZIP
 genes were expressed constitutively or in an organ-specific,
 development-dependent manner playing roles in multiple seed developmental
 stages and tissues. We also detected several key legume bZIP genes
 involved in drought- and salt-responses by comparing fold changes of
 expression values in drought-stressed or salt-stressed roots and leaves.
 Conclusions: In summary, this genome-wide identification, characterization
 and expression analysis of legume bZIP genes provides valuable information
 for understanding the molecular functions and evolution of the legume bZIP
 transcription factor family, and highlights potential legume bZIP genes
 involved in regulating tissue development and abiotic stress responses.
description: Raw protein sequences of
 all identified bZIPs in six legume genomesThis file includes the
 bZIPs protein sequences from Arabidopsis thaliana and six legume genomes
 (Glycine max,Medicago truncatula,Cajanus cajan,Cicer arietinum,Phaseolus
 vulgaris and Lotus japonicus). All these proteins were used to construct
 phylogenetic tree which correspondence to Figure 1 and Additional file 3
 of publication.Raw protein sequences of bZIPs
 from Arabidopsis thaliana and six legume
 genomes.txtAligned protein
 sequences of bZIPs from Arabidopsis thaliana and six legume
 genomesThis file includes the
 aligned bZIPs protein sequences from Arabidopsis thaliana and six legume
 genomes (Glycine max,Medicago truncatula,Cajanus cajan,Cicer
 arietinum,Phaseolus vulgaris and Lotus japonicus). The sequences were
 aligned using ClustalX 2.0. All these proteins were used to construct
 phylogenetic tree which correspondence to Figure 1 and Additional file 3
 of publication.The newick format of
 phylogenetic tree of all bZIP proteins from Arabidopsis thaliana and six
 legume genomesThe file was the tree
 file which was formated as .newick. The file could be opend by software
 MEGA to view or edit the phylogenetic tree. The tree file was correspoding
 to the Figure 1 and Additional file 3 in publication.Phylogenetic tree of all bZIP
 proteins from Arabidopsis thaliana and six legume
 genomes.newickPhylogenetic tree of all
 bZIP proteins from Arabidopsis thaliana and six legume
 genomesThe PDF file was the
 phylogenetic tree of all bZIP proteins from Arabidopsis thaliana and six
 legume genomes, which corresponds to the Figure 1 and Additional file 3 in
 publication