Genomic Survey and Gene Expression Analysis of the Basic Leucine Zipper Transcription Factor Family in Rice
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Aashima Nijhawan, Mukesh Jain, Akhilesh K. Tyagi, Jitendra P. Khurana
Plant Physiology, 2008, 146(2): 333-350 DOI: 10.1104/pp.107.112821; 追溯原文......本站官方QQ群：62473826
The basic leucine (Leu) zipper (bZIP) proteins compose a family of transcriptional regulators present exclusively in eukaryotes. The bZIP proteins characteristically harbor a bZIP domain composed of two structural features: a DNA-binding basic region and the Leu zipper dimerization region. They have been shown to regulate diverse plant-specific phenomena, including seed maturation and germination, floral induction and development, and photomorphogenesis, and are also involved in stress and hormone signaling. We have identified 89 bZIP transcription factor-encoding genes in the rice (Oryza sativa) genome. Their chromosomal distribution and sequence analyses suggest that the bZIP transcription factor family has evolved via gene duplication. The phylogenetic relationship among rice bZIP domains as well as with bZIP domains from other plant bZIP factors suggests that homologous bZIP domains exist in plants. Similar intron/exon structural patterns were observed in the basic and hinge regions of their bZIP domains. Detailed sequence analysis has been done to identify additional conserved motifs outside the bZIP domain and to predict their DNA-binding site specificity as well as dimerization properties, which has helped classify them into different groups and subfamilies, respectively. Expression of bZIP transcription factor-encoding genes has been analyzed by full-length cDNA and expressed sequence tag-based expression profiling. This expression profiling was complemented by microarray analysis. The results indicate specific or coexpression patterns of rice bZIP transcription factors starting from floral transition to various stages of panicle and seed development. bZIP transcription factor-encoding genes in rice also displayed differential expression patterns in rice seedlings in response to abiotic stress and light irradiation. An effort has been made to link the structure and expression pattern of bZIP transcription factor-encoding genes in rice to their function, based on the information obtained from our analyses and earlier known results. This information will be important for functional characterization of bZIP transcription factors in rice.
對水稻堿性亮氨酸拉鏈轉(zhuǎn)錄因子家族的基因組分析和基因表達分析
堿性亮氨酸拉鏈（bZIP）蛋白是真核生物中廣泛存在的一個轉(zhuǎn)錄因子家族。bZIP蛋白具有一個bZIP結(jié)構(gòu)域，結(jié)構(gòu)上有兩個特征：一個結(jié)合DNA的堿性區(qū)域和一個亮氨酸拉鏈二聚化區(qū)域。bZIP蛋白參與調(diào)控多種植物特異的現(xiàn)象，如種子成熟和萌發(fā)、花的誘導和發(fā)育、光形態(tài)建成和脅迫、激素信號傳遞。我們在水稻基因組中鑒定到89個編碼bZIP轉(zhuǎn)錄因子的基因。這些基因在染色體上的分布以及序列分析表明bZIP轉(zhuǎn)錄因子家族是通過基因復制進化的。通過對水稻bZIP結(jié)構(gòu)域以及其他植物bZIP轉(zhuǎn)錄因子bZIP結(jié)構(gòu)域的系統(tǒng)發(fā)生關(guān)系分析，發(fā)現(xiàn)植物中存在同源的bZIP結(jié)構(gòu)域。在bZIP結(jié)構(gòu)域的堿性和鉸鏈區(qū)存在相似的外顯子/內(nèi)含子結(jié)構(gòu)。作者對序列進行了細致的分析，鑒定了bZIP結(jié)構(gòu)域外的保守基序，預測了特定的DNA結(jié)合位點以及二聚化特性，根據(jù)這些特征可以將bZIP蛋白劃分為不同的組和亞家族。通過全長cDNA和EST表達結(jié)構(gòu)對bZIP轉(zhuǎn)錄因子基因進行了表達分析。結(jié)果表明水稻bZIP轉(zhuǎn)錄因子從開花轉(zhuǎn)換到穗和種子發(fā)育的不同階段，存在特異的和共表達的模式。bZIP轉(zhuǎn)錄因子基因在幼苗期對非生物脅迫和光處理也表現(xiàn)出不同的表達模式。根據(jù)本研究結(jié)果和之前的研究結(jié)果，通過基因結(jié)構(gòu)和表達模式，我們嘗試將水稻bZIP轉(zhuǎn)錄因子基因與其在水稻中的功能聯(lián)系起來。這些信息將為水稻bZIP轉(zhuǎn)錄因子的功能研究提供很大的幫助。
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基因列表◄
bZIP轉(zhuǎn)錄因子 OsbZIP22 bZIP轉(zhuǎn)錄因子 RISBZ1; OsbZIP58 bZIP轉(zhuǎn)錄因子; TGA因子 rTGA2.1; OsbZIP63; OsNIF1 bZIP轉(zhuǎn)錄激活因子 RF2a; OsbZIP75 bZIP轉(zhuǎn)錄激活因子 RF2b; OsbZIP30 bZIP轉(zhuǎn)錄因子 OsbZIP23 bZIP轉(zhuǎn)錄因子 OsbZIP72 bZIP轉(zhuǎn)錄因子; ABA應答元件結(jié)合因子 OsABF1; OsbZIP12 bZIP轉(zhuǎn)錄因子; ABRE結(jié)合因子 OSBZ8; OsbZIP05; OsbZIP5 bZIP轉(zhuǎn)錄因子;ABRE結(jié)合因子 OsABI5; OREB1; OsbZIP10 bZIP轉(zhuǎn)錄因子 OsbZIP21 bZIP轉(zhuǎn)錄因子 OsZIP-2a; OsbZIP80 bZIP轉(zhuǎn)錄因子 OsTRAB1; OsbZIP66 bZIP轉(zhuǎn)錄因子 OsbZIP50; OsbZIP74 bZIP轉(zhuǎn)錄因子 OsbZIP39 bZIP轉(zhuǎn)錄因子 OsbZIP60; O3; OPAQUE3 bZIP轉(zhuǎn)錄因子; ABRE結(jié)合蛋白 OsAREB1; OsbZIP46; OsABF2; ABL1; OsAREB8 bZIP轉(zhuǎn)錄因子 OsbZIP52; RISBZ5 bZIP轉(zhuǎn)錄因子; Ehd1調(diào)控因子; HY5同源基因 OsRE1; OsbZIP01; OsHY5L3; OUR1; OsbZIP1 bZIP轉(zhuǎn)錄因子 OsbZIP02 bZIP轉(zhuǎn)錄因子 OsbZIP03; OsHBP1b; OsTGA5; rTGA2.3; OsNIF3 bZIP轉(zhuǎn)錄因子 OsbZIP04 bZIP轉(zhuǎn)錄因子 OsbZIP06 bZIP轉(zhuǎn)錄因子 OsbZIP07 bZIP轉(zhuǎn)錄因子 OsTGAL1; OsTGA2; OsbZIP28; OsbZIP08 bZIP轉(zhuǎn)錄因子; Hd3a結(jié)合抑制因子 OsbZIP09; HBF2 bZIP轉(zhuǎn)錄因子 OsbZIP11; OsLG2 bZIP轉(zhuǎn)錄因子 OsbZIP13 bZIP轉(zhuǎn)錄因子 OsbZIP14 bZIP轉(zhuǎn)錄因子 OsbZIP15; RISBZ4 bZIP轉(zhuǎn)錄因子 OsbZIP16 bZIP轉(zhuǎn)錄因子 OsbZIP17 bZIP轉(zhuǎn)錄因子 OsbZIP19 bZIP轉(zhuǎn)錄因子 OsbZIP20; RITA-1; RISBZ3 bZIP轉(zhuǎn)錄因子 OsbZIP86; OsZIP-1a bZIP轉(zhuǎn)錄因子 OsbZIP24 bZIP轉(zhuǎn)錄因子 OsbZIP25 bZIP轉(zhuǎn)錄因子 OsbZIP26 bZIP轉(zhuǎn)錄因子 OsbZIP27 bZIP轉(zhuǎn)錄因子 OsbZIP28; OsbZIP1; OsTGA3 bZIP轉(zhuǎn)錄因子 OsbZIP29 bZIP轉(zhuǎn)錄因子 OsbZIP31 bZIP轉(zhuǎn)錄因子 OsbZIP32 bZIP轉(zhuǎn)錄因子 REB; OsbZIP33; RISBZ2 bZIP轉(zhuǎn)錄因子 OsbZIP34 bZIP轉(zhuǎn)錄因子 OsbZIP35 bZIP轉(zhuǎn)錄因子 OsbZIP36 bZIP轉(zhuǎn)錄因子 OsTGAP1; OsbZIP37 bZIP轉(zhuǎn)錄因子 LIP19; OsbZIP38 bZIP轉(zhuǎn)錄因子 OsOBF1; OsbZIP87 bZIP轉(zhuǎn)錄因子; 耐旱性 EDT1; OsbZIP40 TGA轉(zhuǎn)錄因子; bZIP轉(zhuǎn)錄因子 OsTGA1; OsbZIP41; OsLG2L bZIP轉(zhuǎn)錄因子 OsbZIP42; HBF1 bZIP轉(zhuǎn)錄因子 OsbZIP43 bZIP轉(zhuǎn)錄因子 OsbZIP44; OsbZIP50 bZIP轉(zhuǎn)錄因子 OsbZIP45 bZIP轉(zhuǎn)錄因子 OsbZIP47 bZIP轉(zhuǎn)錄因子; HY5同源基因 OsbZIP48; OsHY5L2 bZIP轉(zhuǎn)錄因子 OsbZIP49 bZIP轉(zhuǎn)錄因子 OsbZIP51 bZIP轉(zhuǎn)錄因子 OsbZIP53; APIP5; OsbZIP48 bZIP轉(zhuǎn)錄因子 OsbZIP54 bZIP轉(zhuǎn)錄因子 OsFD2; OsbZIP55 bZIP轉(zhuǎn)錄因子 OsbZIP56 bZIP轉(zhuǎn)錄因子 OsbZIP57 bZIP轉(zhuǎn)錄因子 OsbZIP59 bZIP轉(zhuǎn)錄因子 OsbZIP61 bZIP轉(zhuǎn)錄因子 OsbZIP62; OsFD7 bZIP轉(zhuǎn)錄因子 OsbZIP64 bZIP轉(zhuǎn)錄因子 OsbZIP65 bZIP轉(zhuǎn)錄因子 OsbZIP67 bZIP轉(zhuǎn)錄因子 OsbZIP68 bZIP轉(zhuǎn)錄因子 OsbZIP69; OsFD4 bZIP轉(zhuǎn)錄因子 OsbZIP70 bZIP轉(zhuǎn)錄因子 OsbZIP71 bZIP轉(zhuǎn)錄因子; 白葉枯病易感基因 OsbZIP73; OsTFX1 bZIP轉(zhuǎn)錄因子 OsTGA10; OsbZIP74 bZIP轉(zhuǎn)錄因子 OsbZIP76 bZIP轉(zhuǎn)錄因子 OsFD1; OsbZIP77 bZIP轉(zhuǎn)錄因子 OsbZIP78 bZIP轉(zhuǎn)錄因子 OsbZIP79 bZIP轉(zhuǎn)錄因子 OsbZIP81 bZIP轉(zhuǎn)錄因子 OsbZIP82 bZIP轉(zhuǎn)錄因子 OsbZIP83; TGAL11 bZIP轉(zhuǎn)錄因子 OsbZIP84 bZIP轉(zhuǎn)錄因子 OsbZIP85 bZIP轉(zhuǎn)錄因子 OsbZIP88 bZIP轉(zhuǎn)錄因子 OsbZIP89 bZIP轉(zhuǎn)錄因子; HY5同源基因 OsHY5L1; OsbZIP18