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Acta Agronomica Sinica ›› 2022, Vol. 48 ›› Issue (3): 644-655.doi: 10.3724/SP.J.1006.2022.02089

• CROP GENETICS & BREEDING·GERMPLASM RESOURCES·MOLECULAR GENETICS • Previous Articles     Next Articles

Genome-wide identification and expression analysis of Elongator complex family genes in response to abiotic stresses in rice

WU Yan-Fei(), HU Qin, ZHOU Qi, DU Xue-Zhu, SHENG Feng*()   

  1. State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan 430062, Hubei, China
  • Received:2020-12-21 Accepted:2021-07-12 Online:2021-08-09 Published:2021-08-09
  • Contact: SHENG Feng E-mail:Byronwyf@163.com;shengfsk@163.com
  • Supported by:
    Major Program of Technological Innovation of Hubei Province(2018ABA080);Major Program of Technological Innovation of Hubei Province(2020BBB052);Key Program of Natural Science Foundation of Hubei Province(2019CFA027);Natural Science Foundation of Hubei Province(2020CFB261)

Abstract:

Elongator complex (ELP) is a class of protein complex that elongates RNA polymerase II in eukaryotic transcription, which plays an important role in plant growth and development, and resistance to biotic and abiotic stresses. In this study, we identified the ELP family genes and explored the physical and chemical properties, subcellular location, chromosome location, promoter cis-acting elements prediction, and expression patterns under abiotic stresses in rice (Oryza sativa) ELP family genes by bioinformatics methods. A total of six OsELPs members were preliminarily identified, which randomly distributed on five chromosomes and encoded protein containing 250 to 1344 amino acid in rice. Their molecular weight and isoelectric point were 27.97-148.99 kD and 5.01-8.63, respectively. Phylogenetic analysis showed that the ELPs proteins from rice (Oryza sativa), Arabidopsis (Arabidopsis thaliana), yeast (Saccharomyces cerevisiae), and human (Homo sapiens) could be divided into four groups (Group I-Group IV). And subgroup I contained OsELP1, subgroup II contained OsELP2 and OsELP5, subgroup III contained OsELP4, subgroup IV contained OsELP3 and OsELP6. There were a variety of cis-acting elements in the promoter regions of OsELPs, which mainly responded to light, phytohormone, drought, low temperature, defense, and stress stimulant signals. The induced expression patterns confirmed that all OsELPs genes were differentially expressed with different degrees under various abiotic stresses including PEG, low temperature, salt, and dehydration. Among them, OsELP6 was significantly up-regulated under the four kinds of abiotic stresses, which may mediate the comprehensive resistance to various abiotic stresses in rice.

Key words: rice (Oryza sativa), Elongator complex, bioinformatics, abiotic stresses

Table 1

Primers of OsELPs and internal reference genes for qRT-PCR"

引物名称
Primer name
序列
Sequence (5°-3°)
长度
Length (bp)
qELP1-F CATCTGTACTGATGGCAATTCG 22
qELP1-R ACGGGCTAAAGTAGTCAGTATG 22
qELP2-F GGAGCGTTCAAGATTCATCTTC 22
qELP2-R AATGTTCCAGAGCTCGATCATT 22
qELP3-F TATCAGAAATGGCACCTCCCTT 22
qELP3-R GCCTCTTCAACATTAGCAGAAG 22
qELP4-F CAGGACCTATGAAGGAACCC 20
qELP4-R CTATCCTCAAAGCCTCGTCA 20
qELP5-F GTGATTCTGATGATGAGCAACC 22
qELP5-R CAAGTACGATCAAGGCATTCTG 22
qELP6-F CGTAAGATGGGCTGTAACCTAT 22
qELP6-R TATCAGAAATGGCACCTCCCTT 22
qActin-F CTATCCTCAAAGCCTCGTCA 20
qActin-R TACCACCACTGAGAACGATGT 21

Table 2

Information of ELP family genes in rice"

基因名称
Gene name
RAP-DB ID
Gene ID
基因座
LOC loucs
氨基酸数
AA size (aa)
分子量
Molecular weight
(kD)
等电点
Isoelectric point
亚细胞定位
Subcellular
localization
OsELP1 Os07g0563700 LOC_Os07g37640 1344 148.99 5.47 PMa, Nuclb/Mbb
OsELP2 Os08g0493900 LOC_Os08g38570 850 92.67 6.69 Extraa/PMa, Mbb
OsELP3 Os04g0484900 LOC_Os04g40840 574 63.78 8.63 M.t.ma, Nuclb
OsELP4 Os06g0639600 LOC_Os06g43280 378 27.46 7.96 Nucla, C.t.sb
OsELP5 Os03g0201700 LOC_Os03g10460 385 42.52 5.01 Nucla, Cytob
OsELP6 Os03g0284000 LOC_Os03g17560 250 27.97 6.23 Cytoa, Cytob

Fig. 1

Phylogenetic trees of ELP proteins from rice (Oryza sativa), Arabidopsis (Arabidopsis thaliana), human (Homo sapiens), and yeast (Saccharomyces cerevisiae) In this study, OsELPs are shown in black circles, AtELPs in green square, HsELPs in cyan rhombus, and ScELPs in blue triangle. The scale bar represents 0.2 amino acid substitutions at each synonymous site."

Fig. 2

Gene structures of OsELPs genes"

Fig. 3

Conserved domains of OsELPs proteins"

Fig. 4

Prediction of cis-regulatory elements in the promoters of OsELPs"

Fig. 5

Relative expression patterns of OsELPs genes under PEG, cold, and NaCl stresses"

Fig. 6

Relative expression patterns of OsELPs genes under dehydration treatment"

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