Soybean bZIP Gene Family Analysis with 92 Identified Genes

Comprising a genome-wide identification of 92 basic leucine zipper (bZIP) genes in soybean from stress-related transcriptome data. It includes phylogenetic classification into 13 subfamilies and identifies 12 candidate genes for salt stress response through comparative genomics and qRT-PCR validation.

Use Cases

• Analyze the evolutionary relationships of 92 GmbZIP genes across 13 distinct phylogenetic subfamilies.
• Screen for salt-stress-responsive candidate genes among the 12 identified GmbZIP genes using comparative genomic data.
• Examine protein-protein interaction networks predicted for the 12 candidate salt-stress-responsive genes.
• Study the enrichment of GmbZIP genes in plant hormone signal transduction pathways indicated by KEGG analysis.
• Investigate cis-regulatory elements, as 98.9% of GmbZIP gene promoters contain five types of hormone-responsive elements.

Strengths

• Identifies 92 distinct GmbZIP genes from stress-related transcriptome datasets.
• Phylogenetic analysis classifies genes into 13 distinct subfamilies with detailed evolutionary divergence.
• Collinearity analysis provides specific counts of gene pairs between soybean and five other plant species (e.g., 143 pairs with Medicago truncatula).
• Candidate gene screening is supported by both computational prediction (protein-protein interaction networks) and experimental validation (qRT-PCR).

Limitations

• Data is presented in a DOCX document (2.1 MB), not a structured, machine-readable tabular format, limiting direct computational analysis.
• The underlying transcriptome data (rows, samples) is not provided, only the analysis results.
• Focus is on specific abiotic stresses (waterlogging, salt, shade), which may not generalize to other stress conditions.

Provenance

Source

figshare, authored by Enqiang Zhou.

Collection Method

Genome-wide identification and evolutionary analysis using bioinformatics methods combined with transcriptome data from stress treatments.

Freshness

Last updated 2026-03-20.