A classification of basic helix-loop-helix transcription factors of soybean

Karen A. Hudson, Matthew E. Hudson

Research output: Contribution to journalArticle

Abstract

The complete genome sequence of soybean allows an unprecedented opportunity for the discovery of the genes controlling important traits. In particular, the potential functions of regulatory genes are a priority for analysis. The basic helix-loop-helix (bHLH) family of transcription factors is known to be involved in controlling a wide range of systems critical for crop adaptation and quality, including photosynthesis, light signalling, pigment biosynthesis, and seed pod development. Using a hidden Markov model search algorithm, 319 genes with basic helix-loop-helix transcription factor domains were identified within the soybean genome sequence. These were classified with respect to their predicted DNA binding potential, intron/exon structure, and the phylogeny of the bHLH domain. Evidence is presented that the vast majority (281) of these 319 soybean bHLH genes are expressed at the mRNA level. Of these soybean bHLH genes, 67% were found to exist in two or more homeologous copies. This dataset provides a framework for future studies on bHLH gene function in soybean. The challenge for future research remains to define functions for the bHLH factors encoded in the soybean genome, which may allow greater flexibility for genetic selection of growth and environmental adaptation in this widely grown crop.

Original languageEnglish (US)
Article number603182
JournalInternational Journal of Genomics
Volume2015
DOIs
StatePublished - 2015

Fingerprint

Basic Helix-Loop-Helix Transcription Factors
Soybeans
Genes
Genome
Helix-Loop-Helix Motifs
Crops
Genetic Selection
Photosynthesis
Genetic Association Studies
Phylogeny
Regulator Genes
Introns
Exons
Seeds
Biosynthesis
Hidden Markov models
Light
Pigments
Messenger RNA
Seed

ASJC Scopus subject areas

  • Biochemistry
  • Molecular Biology
  • Genetics
  • Pharmaceutical Science

Cite this

A classification of basic helix-loop-helix transcription factors of soybean. / Hudson, Karen A.; Hudson, Matthew E.

In: International Journal of Genomics, Vol. 2015, 603182, 2015.

Research output: Contribution to journalArticle

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