Genome-wide analysis, evolutionary expansion, and expression of early auxin-responsive SAUR gene family in rice (Oryza sativa)

被引:225
作者
Jain, Mukesh
Tyagi, Akhilesh K.
Khurana, Jitendra P.
机构
[1] Univ Delhi, Interdisciplinary Ctr Plant Genom, New Delhi 110021, India
[2] Univ Delhi, Dept Plant Mol Biol, New Delhi 110021, India
关键词
auxin; evolution; expression; gene duplication; real-time PCR; rice (Oryza sativa); SAUR;
D O I
10.1016/j.ygeno.2006.04.008
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Small auxin-up RNAs (SAURs) are the early auxin-responsive genes represented by a large multigene family in plants. Here, we report the identification of 58 OsSAUR gene family members from rice (Oryza sativa japonica cv Nipponbare), the model monocot plant, by a reiterative database search and manual reannotation; 2 of these are pseudogenes. The coding sequences of OsSAURs do not possess any intron. Most of the predicted OsSAUR protein sequences harbor a putative nuclear localization signal at their N-terminus. Localized gene duplications appear to be the primary genetic event responsible for SAUR gene family expansion in rice. Interestingly, the duplication of OsSAURs was found to be associated with the chromosomal block duplication as well. The phylogenetic analysis revealed that the SAUR gene family expanded in rice and Arabidopsis due to species-specific expansion of the family in monocots and dicots. The auxin-responsive elements and downstream element are conserved in the upstream and downstream sequences, respectively, of OsSAURs. In addition to the 21 OsSAURs with full-length cDNA sequences and 20 with expressed sequence tags, gene expression analyses of at least 7 OsSAURs by RT-qPCR indicated that the majority of identified OsSAURs most likely are expressed in rice. The transcript abundance of the OsSAURs examined increased within a few minutes of exogenous auxin application with varying kinetics. The present study provides basic genomic information for the rice SAUR gene family and will pave the way for deciphering the precise role of SAURs in plant growth and development. (c) 2006 Elsevier Inc. All rights reserved.
引用
收藏
页码:360 / 371
页数:12
相关论文
共 52 条
[1]   Early genes and auxin action [J].
Abel, S ;
Theologis, A .
PLANT PHYSIOLOGY, 1996, 111 (01) :9-17
[2]  
ADAMS MD, 1995, NATURE, V377, P3
[3]   Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].
Altschul, SF ;
Madden, TL ;
Schaffer, AA ;
Zhang, JH ;
Zhang, Z ;
Miller, W ;
Lipman, DJ .
NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402
[4]   Diversity in nucleotide binding site-leucine-rich repeat genes in cereals [J].
Bai, JF ;
Pennill, LA ;
Ning, JC ;
Lee, SW ;
Ramalingam, J ;
Webb, CA ;
Zhao, BY ;
Sun, Q ;
Nelson, JC ;
Leach, JE ;
Hulbert, SH .
GENOME RESEARCH, 2002, 12 (12) :1871-1884
[5]   Functional divergence of duplicated genes formed by polyploidy during Arabidopsis evolution [J].
Blanc, G ;
Wolfe, KH .
PLANT CELL, 2004, 16 (07) :1679-1691
[6]   Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events [J].
Bowers, JE ;
Chapman, BA ;
Rong, JK ;
Paterson, AH .
NATURE, 2003, 422 (6930) :433-438
[7]   Ca2+/calmodulin is critical for brassinosteroid biosynthesis and plant growth [J].
Du, LQ ;
Poovaiah, BW .
NATURE, 2005, 437 (7059) :741-745
[8]  
FRANCO AR, 1990, J BIOL CHEM, V265, P15845
[9]   TISSUE-SPECIFIC AND ORGAN-SPECIFIC EXPRESSION OF SOYBEAN AUXIN-RESPONSIVE TRANSCRIPTS GH3 AND SAURS [J].
GEE, MA ;
HAGEN, G ;
GUILFOYLE, TJ .
PLANT CELL, 1991, 3 (04) :419-430
[10]   CHARACTERIZATION OF THE AUXIN-INDUCIBLE SAUR-AC1 GENE FOR USE AS A MOLECULAR-GENETIC TOOL IN ARABIDOPSIS [J].
GIL, P ;
LIU, Y ;
ORBOVIC, V ;
VERKAMP, E ;
POFF, KL ;
GREEN, PJ .
PLANT PHYSIOLOGY, 1994, 104 (02) :777-784