Bioinformatics analysis of MIKC-type MADS-box gene family in legumes

doi:10.19802/j.issn.1007-9084.2021175

Abstract

Abstract:

MIKC MADS-box is a biological function rich family of transcription factors, and involved in regulating plant growth and development. In order to study the biological characteristics of MIKC-type MADS-box family genes in legumes, 92 and 45 MADS-box genes were identified in soybean and Medicago truncatula by bioinformatics method, and they were divided into 15 subfamilies. Motif analysis showed that the motifs of soybean and Medicago were different, and the gene structure and function changed. Collinearity and K_s analysis showed that 90.5% of the MIKC gene pairs in soybean and 87.1% of the MIKC-type gene pairs in Medicago were generated before the whole genome triplication in dicotyledons. Expression pattern analysis of genes in soybean showed that the MIKC MADS-box genes in soybean seedling stage were expressed higher than other stages, especially the expression of SVP, SOC1 and AGL12 subfamilies. Protein interaction network showed that soybean protein SVP interacted with CO, FT and TFL1 to regulate plant flowering. This study will lay a foundation for the further biological functions of MADS-box gene family.

Key words: MIKC-type MADS-box, transcription factors, soybean, evolution, expression pattern analysis

CLC Number:

S565.1

Yue ZHANG, Jia-qi WANG, Zi-jian YU, Qiang XU, Lan ZHANG, Yu-xin PAN. Bioinformatics analysis of MIKC-type MADS-box gene family in legumes[J]. CHINESE JOURNAL OF OIL CROP SCIENCES, 2022, 44(4): 798-809.

Figures/Tables 10

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亚类 Subgroup	氨基酸数量/aa Number of amino acids	分子量/kD Molecular weight	等电点 pI	不稳定系数 Instability index	亚细胞定位 Subcellular localization
MIKC*	325~354	36 688.47~40 409.85	5.65~6.84	44.43~67.16	nucl
PI	181~208	20 907.02~24 394.79	7.82~8.87	45.28~54.38	nucl
AP3	227~243	26 185.89~28 023.26	9.17~9.32	27.88~47.32	nucl
BS	245~246	28 916.87~29 081.13	6.52~6.68	56.90~78.50	cyto
AG/STK	222~247	25 696.40~28 426.04	9.25~9.72	49.32~64.90	nucl
AGL12	203~204	22 990.75~23 297.09	8.93~9.10	40.37~41.04	mito
SEP1	243~255	27 685.27~29 210.10	6.46~8.94	37.17~52.09	nucl
AGL6	230~245	26 573.23~28 603.19	8.62~9.15	43.80~60.34	nucl
AP1	236~253	27 428.39~28 452.56	8.55~9.58	42.13~67.59	nucl，chlo
SOC1	126~237	24 106.42~27 197.87	8.58~9.55	50.98~68.53	nucl
AGL15	126~246	14 182.42~27 941.70	5.30~10.11	44.07~63.45	nucl
SVP	204~248	23 430.83~28 679.29	5.58~9.65	42.38~67.23	nucl
AGL17	97~257	10 915.86~29 299.72	6.97~9.62	44.32~59.50	nucl，cyto
FLC	198~243	22 764.24~27 685.27	6.46~8.77	36.78~40.09	nucl，cyto

亚类 Subgroup	氨基酸数量/aa Number of amino acids	分子量/kD Molecular weight	等电点 pI	不稳定系数 Instability index	亚细胞定位 Subcellular localization
MIKC*	318~402	36 080.67~45 575.26	5.22~8.17	41.73~70.43	nucl，chlo
PI	180~181	21 051.41~20 855.95	8.87~9.64	43.43~89.89	nucl，cyto
AP3	229~231	26 609.31~26 941.92	9.16~9.24	31.17~40.92	nucl
BS	232	27 417.37	6.46	45.91	mito
AG/STK	223~260	25 963.57~29 690.34	6.97~9.37	31.46~65.4	nucl
AGL12	202	22 890.77	8.78	43.75	chlo
SEP1	50~250	5 590.64~28 850.58	4.78~9.07	38.73~54.38	nucl，chlo
AGL6	189~251	22 127.54~29 480.69	8.88~9.33	40.99~47.86	nucl，cyto
AP1	62~256	7 054.27~29 223.40	8.24~9.86	41.85~54.42	nucl
SOC1	205~230	23 786.38~26 302.74	7.68~9.51	46.43~52.11	nucl
AGL15	249~256	28 195.10~29 267.42	6.98~8.8	55.05~65.24	nucl
SVP	135~239	15 741.38~27 825.90	5.65~9.25	45.98~53.93	nucl
AGL17	61~278	6 878.05~31 769.53	8.85~10.65	43.00~49.26	nucl，mito
FLC	-----	-----	-----	-----	-----

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