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Open Access Research article

Population-genetic analysis of HvABCG31 promoter sequence in wild barley (Hordeum vulgare ssp. spontaneum)

Xiaoying Ma12, Hanan Sela3, Genlin Jiao2, Chao Li1, Aidong Wang1, Mohammad Pourkheirandish4, Dmitry Weiner5, Shun Sakuma4, Tamar Krugman5, Eviatar Nevo5, Takao Komatsuda4, Abraham Korol5* and Guoxiong Chen1*

Author affiliations

1 Extreme Stress Resistance and Biotechnology Laboratory, Cold and Arid Regions Environmental and Engineering Institute, Chinese Academy of Sciences, Lanzhou 730000, China

2 Shenzhen Fairy Lake Botanical Garden, Chinese Academy of Sciences, Shenzhen, 518004, China

3 Institute for Cereal Crops Improvement, Tel Aviv University, Ramat Aviv, Tel Aviv 69978, Israel

4 National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan

5 Institute of Evolution and Department of Evolutionary & Environmental Biology, University of Haifa, Mount Carmel, Haifa 31905, Israel

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Citation and License

BMC Evolutionary Biology 2012, 12:188  doi:10.1186/1471-2148-12-188

Published: 24 September 2012

Abstract

Background

The cuticle is an important adaptive structure whose origin played a crucial role in the transition of plants from aqueous to terrestrial conditions. HvABCG31/Eibi1 is an ABCG transporter gene, involved in cuticle formation that was recently identified in wild barley (Hordeum vulgare ssp. spontaneum). To study the genetic variation of HvABCG31 in different habitats, its 2 kb promoter region was sequenced from 112 wild barley accessions collected from five natural populations from southern and northern Israel. The sites included three mesic and two xeric habitats, and differed in annual rainfall, soil type, and soil water capacity.

Results

Phylogenetic analysis of the aligned HvABCG31 promoter sequences clustered the majority of accessions (69 out of 71) from the three northern mesic populations into one cluster, while all 21 accessions from the Dead Sea area, a xeric southern population, and two isolated accessions (one from a xeric population at Mitzpe Ramon and one from the xeric ‘African Slope’ of “Evolution Canyon”) formed the second cluster. The southern arid populations included six haplotypes, but they differed from the consensus sequence at a large number of positions, while the northern mesic populations included 15 haplotypes that were, on average, more similar to the consensus sequence. Most of the haplotypes (20 of 22) were unique to a population. Interestingly, higher genetic variation occurred within populations (54.2%) than among populations (45.8%). Analysis of the promoter region detected a large number of transcription factor binding sites: 121–128 and 121–134 sites in the two southern arid populations, and 123–128,125–128, and 123–125 sites in the three northern mesic populations. Three types of TFBSs were significantly enriched: those related to GA (gibberellin), Dof (DNA binding with one finger), and light.

Conclusions

Drought stress and adaptive natural selection may have been important determinants in the observed sequence variation of HvABCG31 promoter. Abiotic stresses may be involved in the HvABCG31 gene transcription regulations, generating more protective cuticles in plants under stresses.

Keywords:
Wild barley; HvABCG31; Promoter; Phylogenetic; TFBSs