Comparative Analysis of Hina Gene Sequences in Wild (Hordeum spontaneum) and Cultivated (H. vulgare) Barleys

doi:10.1016/S1671-2927(11)60124-7

Journal of Integrative Agriculture ›› 2011, Vol. 10 ›› Issue (9): 1313-1322.DOI: 10.1016/S1671-2927(11)60124-7

Comparative Analysis of Hina Gene Sequences in Wild (Hordeum spontaneum) and Cultivated (H. vulgare) Barleys

LI Wei-tao, JIANG Qian-tao, CHEN Guo-yue, PU Zhi-en, LIU Ya-xi, WANG Ji-rui, ZHENG You-liang, WEI Yu-ming

1. Triticeae Research Institute, Sichuan Agricultural University
2. Key Laboratory of Southwestern Crop Germplasm Utilization, Ministry of Agriculture/College of Agriculture, Sichuan Agricultural University

收稿日期:2010-08-09 出版日期:2011-09-01 发布日期:2011-09-09
通讯作者: Correspondence WEI Yu-ming, Professor, Tel: +86-28-82650337, Fax: +86-28-82650350, E-mail: ymwei@sicau.edu.cn
基金资助:
National Basic Research Program of China (2010CB134400).

Comparative Analysis of Hina Gene Sequences in Wild (Hordeum spontaneum) and Cultivated (H. vulgare) Barleys

LI Wei-tao, JIANG Qian-tao, CHEN Guo-yue, PU Zhi-en, LIU Ya-xi, WANG Ji-rui, ZHENG You-liang, WEI Yu-ming

1. Triticeae Research Institute, Sichuan Agricultural University
2. Key Laboratory of Southwestern Crop Germplasm Utilization, Ministry of Agriculture/College of Agriculture, Sichuan Agricultural University

Received:2010-08-09 Online:2011-09-01 Published:2011-09-09
Contact: Correspondence WEI Yu-ming, Professor, Tel: +86-28-82650337, Fax: +86-28-82650350, E-mail: ymwei@sicau.edu.cn
Supported by:
National Basic Research Program of China (2010CB134400).

摘要/Abstract

摘要： The Hina gene is one of the two known Hin genes for hardness, and its RNA expression is correlated with grain hardnessand dry matter digestibility variation. In this study, only one clone of Hina gene was obtained from one barley accession.A total of 121 Hina gene sequences were isolated from 121 wild barley (Hordeum spontaneum) accessions in Israel, Iran,and Turkey, and then their molecular characteristics were compared with 97 Hina gene sequences from 74 cultivatedbarley (H. vulgare) lines in Europe and 23 landrace (H. vulgare) with global distribution and other 26 Hina gene sequencesfrom cultivated barleys (H. vulgare) with unknown global distribution. Cis-acting regulatory element (CARE) searchingrevealed that there were different types of regulatory element for the Hina gene in wild and landrace/cultivated barleys.There were six consistent cis-acting binding sites in wild and landrace/cultivated barleys, whereas 8 to 16 inconsistentTATA-boxes were observed. In addition, three special elements (E2Fb, Sp1, and boxS) were only observed in wild barley,while one (AT1-motif) was only found in landrace/cultivated barley. Forty-four deduced amino acid sequences of HINAfrom wild and landrace/cultivated barleys were obtained by deleting repetitive amino acid sequences, and they wereclustered into two groups on the basis of Neighbor-Joining analysis. However, there was no obvious difference in theamino acid sequences of HINA between wild and landrace/cultivated barleys. Comparing to protein secondary structureof wheat PINA, it was indicated that HINA also existed a signal peptide. In addition, HINA was a hydrophilic protein onthe basis of the protein properties and composition.

关键词: Hina, secondary structure, regulatory element, grain hardness, barley

Abstract: The Hina gene is one of the two known Hin genes for hardness, and its RNA expression is correlated with grain hardnessand dry matter digestibility variation. In this study, only one clone of Hina gene was obtained from one barley accession.A total of 121 Hina gene sequences were isolated from 121 wild barley (Hordeum spontaneum) accessions in Israel, Iran,and Turkey, and then their molecular characteristics were compared with 97 Hina gene sequences from 74 cultivatedbarley (H. vulgare) lines in Europe and 23 landrace (H. vulgare) with global distribution and other 26 Hina gene sequencesfrom cultivated barleys (H. vulgare) with unknown global distribution. Cis-acting regulatory element (CARE) searchingrevealed that there were different types of regulatory element for the Hina gene in wild and landrace/cultivated barleys.There were six consistent cis-acting binding sites in wild and landrace/cultivated barleys, whereas 8 to 16 inconsistentTATA-boxes were observed. In addition, three special elements (E2Fb, Sp1, and boxS) were only observed in wild barley,while one (AT1-motif) was only found in landrace/cultivated barley. Forty-four deduced amino acid sequences of HINAfrom wild and landrace/cultivated barleys were obtained by deleting repetitive amino acid sequences, and they wereclustered into two groups on the basis of Neighbor-Joining analysis. However, there was no obvious difference in theamino acid sequences of HINA between wild and landrace/cultivated barleys. Comparing to protein secondary structureof wheat PINA, it was indicated that HINA also existed a signal peptide. In addition, HINA was a hydrophilic protein onthe basis of the protein properties and composition.

Key words: Hina, secondary structure, regulatory element, grain hardness, barley

LI Wei-tao, JIANG Qian-tao, CHEN Guo-yue, PU Zhi-en, LIU Ya-xi, WANG Ji-rui, ZHENG You-liang, WEI Yu-ming. Comparative Analysis of Hina Gene Sequences in Wild (Hordeum spontaneum) and Cultivated (H. vulgare) Barleys[J]. Journal of Integrative Agriculture, 2011, 10(9): 1313-1322.

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Comparative Analysis of Hina Gene Sequences in Wild (Hordeum spontaneum) and Cultivated (H. vulgare) Barleys

Comparative Analysis of Hina Gene Sequences in Wild (Hordeum spontaneum) and Cultivated (H. vulgare) Barleys

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