糜子GRF转录因子全基因组鉴定及在茎分生组织中的表达特征

doi:10.16288/j.yczz.23-210

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Hereditas(Beijing) ›› 2024, Vol. 46 ›› Issue (3): 242-255.doi: 10.16288/j.yczz.23-210

• Research Article • Previous Articles Next Articles

Genome-wide identification of GRF transcription factors and their expression profile in stem meristem of broomcorn millet (Panicum miliaceum L.)

Heng Wei¹(), Tianpeng Liu², Jihong He², Kongjun Dong², Ruiyu Ren², Lei Zhang², Yawei Li², Ziyi Hao¹, Tianyu Yang¹^,²()

1. College of Life Science and Technology, Gansu Agricultural University, Lanzhou 730070, China
2. Crop Research Institute, Gansu Academy of Agricultural Sciences, Lanzhou 730070, China

Received:2023-08-01 Revised:2024-01-10 Online:2024-03-20 Published:2024-01-26
Contact: Tianyu Yang E-mail:1715414764@qq.com;13519638111@163.com
Supported by:
Second Tibetan Plateau Scientific Expedition and Research Program(2019QZKK0303);Science and Technology Planning Project of Gansu Province(22CX8NA028);China Modern Agricultural Industrial Technology System Project(CARS-06-14.5-A8)

Abstract

Abstract:

To understand the genome-wide information of the GRF family genes in broomcorn millet and their expression profile in the vegetative meristems, bioinformatic methods and transcriptome sequencing were used to analyze the characteristics, physical and chemical properties, phylogenetic relationship, chromosome distribution, gene structure, cis-acting elements and expression profile in stem meristem for the GRF family members. The results showed that the GRF gene family of millet contains 21 members, and the PmGRF gene is unevenly distributed on 12 chromosomes. The lengths of PmGRF proteins vary from 224 to 618 amino acids, and the isoelectric points are between 4.93-9.69. Each member of the family has 1-4 introns and 2-5 exons. The protein PmGRF13 is localized in both the nucleus and chloroplast, and the rest PmGRF proteins are located in the nucleus. Phylogenetic analysis showed that the 21 GRF genes were divided into 4 subfamilies (A,B,C and D) in broomcorn millet. The analysis of cis-acting elements showed that there were many cis-acting elements involved in light response, hormone response, drought induction, low temperature response and other environmental stress responses in the 2000 bp sequence upstream of the GRF genes. Transcriptome sequencing and qRT-PCR analyses showed that the expression levels of PmGRF3 and PmGRF12 in the dwarf variety Zhang778 were significantly higher than those of the tall variety Longmi12 in the internode and node meristems at the jointing stage, while the expression patterns of PmGRF4, PmGRF16 and PmGRF21 were reverse. In addition, the expression levels of PmGRF2 and PmGRF5 in the internode of Zhang778 were significantly higher than Longmi12. The other GRF genes were not or insignificantly expressed. These results indicated that seven genes, PmGRF2, PmGRF3, PmGRF4, PmGRF5, PmGRF12, PmGRF16 and PmGRF21, were related to the formation of plant height in broomcorn millet.

Key words: Panicum miliaceum L., GRF genes, transcriptome, plant height

Heng Wei, Tianpeng Liu, Jihong He, Kongjun Dong, Ruiyu Ren, Lei Zhang, Yawei Li, Ziyi Hao, Tianyu Yang. Genome-wide identification of GRF transcription factors and their expression profile in stem meristem of broomcorn millet (Panicum miliaceum L.)[J]. Hereditas(Beijing), 2024, 46(3): 242-255.

Figures/Tables 10

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基因名称	引物序列（5'→3'）
PmGRF2	F：GACACAGCACATGGCAACGA R：GTGAGCGGCACATCAACAGA
PmGRF3	F：GCAGCAACAGCAGCACTTCA R：GACGAGATGAGTAGGCACAGGT
PmGRF4	F：CGGTGCTGCTGGAGACTGAT R：GGCAACGATGTTCCGTGATTCT
PmGRF5	F：TTGAGTCGTCACTGTTCTTGGA R：CGGACAACCTGCCTTACATCTA
PmGRF12	F：GCAGCAACAGCAGCACTTCA R：GACGAGATGAGTAGGCACAGGT
PmGRF16	F：GGTCGCAGTCCATTGGTCAGT R：CGGAGTAGGCAGTTCAGCAGAA
PmGRF21	F：TGCCGTCCAGCTTGCTCCTT R：CACCGCCACTTCTTGCCATCAG
Pmactin	F：GGCATCACACCTTCTACAAC R：TCTCGAACATGATCTGGGTC

基因名称	基因ID	氨基酸数	分子质量 (Da)	等电点	不稳定指数	脂肪族氨基酸指数	亲水性平均系数	亚细胞定位	基因染色体定位
PmGRF1	LM01CHG000904	591	61,524.63	6.57	49.17	70.34	-0.270	细胞核	Chr.1
PmGRF2	LM01CHG001244	505	55,604.61	9.29	53.48	63.25	-0.763	细胞核	Chr.1
PmGRF3	LM02CHG001176	259	27,206.29	5.05	53.67	59.31	-0.669	细胞核	Chr.2
PmGRF4	LM04CHG000872	587	61,483.46	6.57	50.54	68.14	-0.325	细胞核	Chr.4
PmGRF5	LM04CHG001174	421	46,386.86	9.33	55.54	59.45	-0.805	细胞核	Chr.4
PmGRF6	LM04CHG002106	375	40,549.16	9.03	64.84	51.23	-0.866	细胞核	Chr.4
PmGRF7	LM06CHG000359	456	64,962.13	7.20	62.26	54.42	-0.548	细胞核	Chr.6
PmGRF8	LM06CHG000847	591	41,514.19	6.57	60.45	64.39	-0.430	细胞核	Chr.6
PmGRF9	LM06CHG000971	618	23,148.19	9.43	49.83	68.17	-0.266	细胞核	Chr.6
PmGRF10	LM07CHG000108	392	38,520.84	7.05	52.44	55.20	-0.646	细胞核	Chr.7
PmGRF11	LM07CHG000642	224	35,200.07	9.64	59.85	56.34	-0.673	细胞核	Chr.7
PmGRF12	LM11CHG001144	356	27,888.04	8.92	55.18	60.79	-0.626	细胞核	Chr.11
PmGRF13	LM12CHG002278	331	23,779.94	9.11	43.53	69.21	-0.228	叶绿体、细胞核	Chr.12
PmGRF14	LM12CHG002388	267	41,572.33	4.93	60.41	64.87	-0.444	细胞核	Chr.12
PmGRF15	LM12CHG002856	229	41,699.42	9.69	56.70	47.23	-0.733	细胞核	Chr.12
PmGRF16	LM13CHG000540	392	40,124.76	7.05	53.80	66.04	-0.481	细胞核	Chr.13
PmGRF17	LM14CHG000674	371	40,471.29	7.68	54.41	59.10	-0.482	细胞核	Chr.14
PmGRF18	LM15CHG002021	254	40,606.53	9.72	55.03	61.14	-0.478	细胞核	Chr.15
PmGRF19	LM16CHG000105	376	38,631.90	8.74	54.94	54.61	-0.635	细胞核	Chr.16
PmGRF20	LM16CHG000628	376	39,074.77	8.81	66.46	61.72	-0.493	细胞核	Chr.16
PmGRF21	LM17CHG001185	358	40,177.86	8.93	53.50	66.46	-0.466	细胞核	Chr.17

Genome-wide identification of GRF transcription factors and their expression profile in stem meristem of broomcorn millet (Panicum miliaceum L.)

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