一株海洋杆菌属新菌种XAAS-72T的植物促生功能分析及ACC脱氨酶蛋白结构预测

doi:10.6048/j.issn.1001-4330.2024.07.026

新疆农业科学 ›› 2024, Vol. 61 ›› Issue (7): 1778-1785.DOI: 10.6048/j.issn.1001-4330.2024.07.026

一株海洋杆菌属新菌种XAAS-72^T的植物促生功能分析及ACC脱氨酶蛋白结构预测

王慧楠¹^,²(), 朱静², 谢文文²^,³, 何子璇²^,³, 柏晓玉¹, 朱艳蕾¹(), 张志东¹^,²^,³()

1.新疆师范大学生命科学学院,乌鲁木齐 8300541
2.新疆农业科学院微生物应用研究所/新疆特殊环境微生物实验室,乌鲁木齐 830091
3.新疆大学生命科学与技术学院,乌鲁木齐 830046

收稿日期:2023-10-11 出版日期:2024-07-20 发布日期:2024-09-04
通信作者: 朱艳蕾(1980-),女,江苏沛县人,副教授,博士,研究方向为微生物生态,(E-mail)zhuyanlei1226@163.com；
张志东(1977-),男,新疆乌鲁木齐人,研究员,博士,硕士生导师,研究方向为特殊环境微生物资源挖掘与利用,(E-mail)zhangzheedong@sohu.com
作者简介:王慧楠(1999-),女,吉林长春人,硕士研究生,研究方向为微生物生态,(E-mail)18946303350@163.com
基金资助:
新疆维吾尔自治区自然科学基金项目“杰出青年基金”(2022D01E19);新疆农业科学院科技创新重点培育专项(xjkcpy-2022004);新疆农业科学院农业科技创新稳定支持专项(xjnkywdzc-2023005)

Structure prediction of the ACC protein from Pontibacter kalidii XAAS-72^T with the plant growth-promoting character

WANG Huinan¹^,²(), ZHU Jing², XIE Wenwen²^,³, HE Zixuan²^,³, BAI Xiaoyu¹, ZHU Yanlei¹(), ZHANG Zhidong¹^,²^,³()

1. College of Life Sciences, Xinjiang Normal University, Urumqi 830054, China
2. Xinjiang Key Laboratory of Special Environmental Microbiology/Institute of Applied Microbiology, Xinjiang Academy of Agricultural Sciences, Urumqi 830091, China
3. College of Life Sciences and Technology, Xinjiang University, Urumqi 830046, China

Received:2023-10-11 Published:2024-07-20 Online:2024-09-04
Supported by:
"Outstanding Youth Fund" of Natural Science Foundation of Xinjiang(2022D01E19);Key Science and Technology Innovation Incubation Project of Xinjiang Academy of Agricultural Sciences(xjkcpy-2022004);Xinjiang Academy of A gricultural Sciences Sci-entific and technological innovation support(xjnkywdzc-2023005)

摘要/Abstract

摘要：

【目的】研究海洋杆菌属新菌种XAAS-72的植物促生功能,挖掘其潜在功能基因。【方法】通过对菌株全基因组测序,分析相关功能基因组成,挖掘ACC脱氨酶合成相关的候选基因,并进行功能预测。【结果】海洋杆菌属新种Pontibacter kalidii XAAS-72菌悬液处理可显著提高盆栽小麦麦苗生长,其基因组长度为5 054 860 bp,含1个环形质粒,总GC含量为54.52%,注释的基因数目为4 391个,编码蛋白数4 261个,具有多种抗逆和促生相关基因。其与Pontibacter sp. BAB1700的ACC脱氨酶(1-aminoeyclopropane-1-earboxylate-deaminase)相似度最高为72.48%。该蛋白属于不稳定亲水性蛋白,不具备跨膜结构,且无信号肽结构。【结论】海洋杆菌属新种XAAS-72蕴藏着丰富的抗逆和植物促生相关基因。

关键词: 海洋杆菌属; 植物促生特性; ACC脱氨酶; 结构预测

Abstract:

【Objective】To explore the plant growth promotion function of a novel strain Pontibacter kalidii XAAS-72^T, and investigate the potential functional genes. 【Methods】The strain whole genome was sequenced, and the composition of function genes were analyzed. A candidate gene related to ACC deaminase synthesis was obtained, and the enzyme protein characteristics were predicted. 【Results】The results showed that the growth of wheat seed treated with Pontibacter kalidii XAAS-72^T was promoted significantly in pots.The genome length of strain XAAS-72 (accession no. CP111079) was 5,054,860 bp, containing one circular plasmid. A total GC content was 54.52%, and the number of annotated genes was 4,391, coding for 4,261 proteins. A variety of resistance and growth-promoting related genes was observed. It had the highest similarity of 72.48% to the ACC deaminase of Pontibacter sp. BAB1700. It an unstable hydrophilic protein, with none of transmembrane structure and signal peptide structure. 【Conclusion】Pontibacter kalidii XAAS-72^T harbors a lot of genes related to the stress resistance and the plant growth-promoting.

Key words: Pontibacter; plant growth-promoting character; ACC deaminase; structure prediction

中图分类号:

S188

王慧楠, 朱静, 谢文文, 何子璇, 柏晓玉, 朱艳蕾, 张志东. 一株海洋杆菌属新菌种XAAS-72^T的植物促生功能分析及ACC脱氨酶蛋白结构预测[J]. 新疆农业科学, 2024, 61(7): 1778-1785.

WANG Huinan, ZHU Jing, XIE Wenwen, HE Zixuan, BAI Xiaoyu, ZHU Yanlei, ZHANG Zhidong. Structure prediction of the ACC protein from Pontibacter kalidii XAAS-72^T with the plant growth-promoting character[J]. Xinjiang Agricultural Sciences, 2024, 61(7): 1778-1785.

图/表 10

参考文献 29

[1]	Liang W J, Cui W N, Ma X L, et al. Function of wheat Ta-UnP gene in enhancing salt tolerance in transgenic Arabidopsis and rice[J]. Biochemical and Biophysical Research Communications, 2014, 450(1): 794-801. DOI PMID
[2]	Zhang C Y, Wang W W, Hu Y H, et al. A novel salt-tolerant strain Trichoderma atroviride HN082102.1 isolated from marine habitat alleviates salt stress and diminishes cucumber root rot caused by Fusarium oxysporum[J]. BMC Microbiology, 2022, 22(1):67-80. DOI PMID
[3]	Salma M, Samia A, Aftab B, et al. Identification of plasmid encoded osmoregulatory genes from halophilic bacteria isolated from the rhizosphere of halophytes - Science Direct[J]. Microbiological Research, 2019,228:126307-126307.
[4]	Zhang M, Yang L, Hao R Q, et al. Drought-tolerant plant growth-promoting rhizobacteria isolated from jujube (Ziziphus jujuba) and their potential to enhance drought tolerance[J]. Plant and Soil, 2020,(1/2):452,423-440.
[5]	张志东, 顾美英, 唐琦勇, 等. 盐爪爪根际耐盐促生菌的筛选及穴栽验证[J]. 中国农业科技导报, 2021, 23(3):186-192. DOI
	ZHANG Zhidong, GU Meiying, TANG Qiyong, et al. Screening and cavity planting of salt-tolerant probiotic bacteria in inter-rhizosphere of salt pawpaw[J]. Journal of Agricultural Science and Technology, 2021, 23(3):186-192.
[6]	Mohammad K H, John A M, Jarrod J, et al. Pectin-Rich Amendment Enhances Soybean Growth Promotion and Nodulation Mediated by Bacillus Velezensis Strains[J]. Plants, 2019, 8(5):120-134.
[7]	Zhou Y Y, Hao L P, Ji C, et al. The Effect of Salt-Tolerant Antagonistic Bacteria CZ-6 on the Rhizosphere Microbial Community of Winter Jujube (Mill. “Dongzao”) in Saline-Alkali Land[J]. BioMed Research International, 2021.
[8]	Zahra S T, Tariq M, Abdullah M, et al. Dominance of Bacillus species in the wheat (Triticum aestivum L.) rhizosphere and their plant growth promoting potential under salt stress conditions[J]. PeerJ, 2023,11: e14621.
[9]	Kumar A, Singh S, Gaurav A K, et al. Plant Growth-Promoting Bacteria: Biological Tools for the Mitigation of Salinity Stress in Plants[J]. Frontiers in microbiology, 2020,11:1216-1256.
[10]	Farzad B A, Davoud F, Ali B, et al. Comprehensive proteomic analysis of canola leaf inoculated with a plant growth-promoting bacterium, Pseudomonas fluorescens, under salt stress[J]. BBA - Proteins and Proteomics, 2016, 1864(9):1222-1236.
[11]	Swapmil S, Lti G M, Sharad T. Klebsiella sp. confers enhanced tolerance to salinity and plant growth promotion in oat seedlings (Avena sativa)[J]. Microbiological Research, 2018,206:25-32.
[12]	Glick B R, Nascimento F X. Pseudomonas 1-Aminocyclopropane-1-carboxylate (ACC) Deaminase and Its Role in Beneficial Plant-Microbe Interactions[J]. Microorganisms, 2021, 9(12): 2467.
[13]	张典利, 孟臻, 亓文哲, 等. 植物根际促生菌的研究与应用现状[J]. 世界农药, 2018, 40(6):37-43,50.
	ZHANG Dianli, MENG Zhen, QI Wenzhe, et al. Research and application status of plant rhizosphere growth promoting bacteria[J]. World Pesticides, 2018, 40(6):37-43,50.
[14]	Muhammad S A, Amna, Sumaira, et al. Induction of tolerance to salinity in wheat genotypes by plant growth promoting endophytes: Involvement of ACC deaminase and antioxidant enzymes[J]. Plant Physiology and Biochemistry, 2019,139:569-577.
[15]	Rubén P R, Jessica LCA, José L B, et al. Halophilic rhizobacteria from Distichlis spicata promote growth and improve salt tolerance in heterologous plant hosts[J]. Symbiosis, 2017, 73(3):179-189.
[16]	Muhammad T, Lftikhar A, Muhammad S, et al. Regulation of antioxidant production, ion uptake and productivity in potato (Solanum tuberosum L.) plant inoculated with growth promoting salt tolerant Bacillus strains[J]. Ecotoxicology and Environmental Safety, 2019,178:33-42.
[17]	Liu C H, Siew W Y, Hung Y T, et al. 1-Aminocyclopropane-1-carboxylate (ACC) Deaminase Gene in Pseudomonas azotoformans Is Associated with the Amelioration of Salinity Stress in Tomato[J]. Journal of Agricultural and Food Chemistry, 2021, 69(3):913-921.
[18]	Tavares M J, Nascimento F X, Glick B R, et al. The expression of an exogenous ACC deaminase by the endophyte Serratia grimesii BXF1 promotes the early nodulation and growth of common bean[J]. Letters in Applied Microbiology, 2018, 66(3):252-259. DOI PMID
[19]	Chhetri G, Yang D, Choi J, et al. Edaphorhabdus rosea gen. nov., sp. nov., a new member of the family Cytophagaceae isolated from soil in South Korea[J]. AntonieVan Leeuwenhoek, 2018a, 111(12):2385-2392.
[20]	Chhetri G, Kim J, Kim H, et al. Pontibacter oryzae sp. nov., a carotenoid-producing species isolated from a rice paddy field[J]. Antonie van Leeuwenhoek, 2019, 112(11):1705-1713.
[21]	Abirami P, Giji S, Mohan K, et al. Biomedical Potential of Astaxanthin from Novel Endophytic Pigment Producing Bacteria Pontibacter korlensis AG6[J]. Waste and Biomass Valorization, 2020,12.2119-2129.
[22]	Philippon T, Tian JH, Bureau C, et al. Denitrifying bio-cathodes developed from constructed wetland sediments exhibit electroactive nitrate reducing biofilms dominated by the genera Azoarcus and Pontibacter[J]. Bioelectrochemistry, 2021,140:107819.
[23]	Zhou J P, Liu Y, Lu Q, et al. Characterization of a Glycoside Hydrolase Family 27 α-Galactosidase from Pontibacter Reveals Its Novel Salt-Protease Tolerance and Transglycosylation Activity[J]. Journal of Agricultural and Food Chemistry, 2016, 64(11):2315-24. DOI PMID
[24]	Holguin G, Glick B R. Transformation of Azospirillum brasilense Cd with an ACC deaminase gene from enterobacter cloacae UW4 fused to the Tet r gene promoter improves its fitness and plant growth promoting ability[J]. Microbial Ecology, 2003, 46(1) 46(1):122-33. DOI PMID
[25]	Naing A H, Jeong H Y, Jung S K, et al. Overexpression of 1-Aminocyclopropane-1-Carboxylic Acid Deaminase (acdS) Gene in Petunia hybrida Improves Tolerance to Abiotic Stresses[J]. Frontiers in Plant Science, 2021,12:737490.
[26]	Tsolakidou M D, Pantelides L S, Tzima A K, et al. Disruption and Overexpression of the Gene Encoding ACC (1-Aminocyclopropane-1-Carboxylic Acid) Deaminase in Soil-Borne Fungal Pathogen Verticillium dahliae Revealed the Role of ACC as a Potential Regulator of Virulence and Plant Defense[J]. Molecular Plant Microbe Interactions Mpmi, 2019, 32(6):639-653.
[27]	李, 傅培龙, 贾颜, 等. 含ACC脱氨酶的螃蟹脚内生细菌筛选及其acdS基因克隆与分析[J]. 分子植物育种2021-12-27 17:19
	LI Qian, FU Peilong, JIA Yan, et al. Screening of Endophytic Bacteria from Viscum liquidambaricolum Containing ACC Deaminase and Cloning and Analysis of acdS Gene[J]. Molecular Plant Breeding, 2021-12-27 17:19.
[28]	Glick B R, Nascimento F X. Pseudomonas 1-Aminocyclopropane-1-carboxylate (ACC) Deaminase and Its Role in Beneficial Plant-Microbe Interactions[J]. Microorganisms, 2021, 9(12):2467.
[29]	Krishnendu P, Tithi S, Soumik M, et al. In silico structural and functional analysis of Mesorhizobium ACC deaminase[J]. Computational Biology and Chemistry, 2017,68:12-21.

编辑推荐 0

Metrics

阅读次数

全文

HTML			PDF

最新录用	在线预览	正式出版	最新录用	在线预览	正式出版
0	0	3	0	0	19

来源	本网站	其他网站

次数	11	11
比例	50%	50%

摘要

111

最新录用	在线预览	正式出版

0	0	111

来源	本网站	其他网站

次数	30	81
比例	27%	73%

基因ID Gene ID	酶编号 Enzyme number	基因 Gene	基因注释 Gene notes	KEGG注释编号 KEGG Note No	功能描述 Functional description
Chr1:3817900:3818805:-	EC:3.5.99.7		1-氨基环丙烷-1- 羧酸脱氨酶	K01505	ACC脱氨酶编码基因
Chr1:1392508:1394346:-	EC:3.2.1.141	treZ,glgZ	麦芽寡糖基海藻糖水解酶	K01236	参与耐盐渗透调节
Chr1:2091855:2093990:-	EC:3.2.1.68	ISA, treX	异淀粉酶	K01214
Chr1:4968277:4969896:-	3.2.1.28	TREH,treA,treF	海藻糖酶	K01194
Chrw1:405272:406936:-	-	betT,betS	胆碱/甘氨酸/脯氨酸甜菜碱转运蛋白	K02168
Chr1:1485258:1486622:-	-	nhaA	Na+/H+逆向转运蛋白	K03313	参与逆向转运系统
Chr1:2575687:2578005:-	EC: 2.4.1.15	TPS	海藻糖6-磷酸合酶/磷酸酶	K16055	促进植物生长
Chr1:340156:341550:-	EC: 4.1.1.19	speA	精氨酸脱羧酶	K01585
Chr1:813781:815514:+	E2.2.1.6L	ilvB, ilvG, ilvI	乙酰乳酸合成酶	K01652
Chr1:4768702:4769751:-	-	RecA	重组蛋白RecA	K03553	参与DNA修复
Chr1:2565780:2569433:-	-	sbcC, rad50	DNA修复蛋白	K03546
Chr1:202874:203482:+	-	recR	DNA修复蛋白	K06187
Chr1:4598147:4598860:+	-	recO	DNA修复蛋白	K03584
Chr1:1791331:1792521:-	EC:4.2.1.20	trpB	色氨酸合酶亚基	K01696	IAA产生
Chr1:928485:932990:-	EC:1.4.1.13	gltB	谷氨酸合酶	K00265	固氮及氮同化
Chr1:927028:928485:-	EC:1.4.1.13	gltD	谷氨酸合酶	K00266
Chr1:2561033:2561446:+	-	-iscU, nifU	固氮蛋白NifU及相关蛋白	K04488
Chr1:3771390:3772286:+	-	pstS	磷酸盐ABC转运体底物结合蛋白	K02040	磷酸盐代谢
Chr1:4580607:4581371:-	EC:7.3.2.1	pstB	磷酸盐ABC转运体atp结合蛋白	K02036
Chr1:4582284:4583159:-	-	pstC	磷酸盐转运体渗透酶亚基	K02037
Chr1:4579862:4580551:-	-	phoU	磷酸盐特异性转运系统辅助蛋白	K02039
Chr1:4765770:4766798:-	EC:2.7.13.3	phoR	双组分系统,ompr家族,磷酸盐调节传感器组氨酸激酶	K07636
Chr1:1334658:1335221:-	-	efp	延伸系数P	K02356	生物膜形成
Chr1:1553626:1554504:-	-	motB	鞭毛运动蛋白	K02557	生物膜形成
Chr1:595364:596620:-	EC:2.7.7.4	cysN	硫酸腺苷酰转移酶	K00956	硫同化及代谢
Chr1:597641:598360:-	EC:1.8.4.8 1.8.4.10	cysH	磷酸腺苷磷酸硫酸盐还原酶	K00390
Chr1:2069683:2070297:+	EC:2.7.1.25	cysC	腺苷酸硫酸激酶	K00860
Chr1:2189706:2190593:-	EC:2.5.1.144	cysM	半胱氨酸合酶B	K12339
Chr1:3367321:3368154:-	EC:2.3.1.30	cysE	丝氨酸O-乙酰转移酶	K00640
Chr1:2074:2508:-	-	osmC	渗透诱导蛋白	K04063	氧化还原酶
Chr1:639323:639814:+	EC:1.11.1.15	DOT5	过氧化物酶	K03564	氧化还原酶
Chr1:417073:417903:+	EC:2.1.1.80	cheR	趋化蛋白甲基转移酶	K00575	根定植趋化性
Chr1:417903:418475:+	EC:3.1.1.61 3.5.1.44	cheB	双组分系统,趋化性家族, 蛋白质-谷氨酸甲基酯酶/ 谷氨酰胺酶	K03412	根定植趋化性

基因ID Gene ID	酶编号 Enzyme number	基因 Gene	基因注释 Gene notes	KEGG注释编号 KEGG Note No	功能描述 Functional description
Chr1:3817900:3818805:-	EC:3.5.99.7		1-氨基环丙烷-1- 羧酸脱氨酶	K01505	ACC脱氨酶编码基因
Chr1:1392508:1394346:-	EC:3.2.1.141	treZ,glgZ	麦芽寡糖基海藻糖水解酶	K01236	参与耐盐渗透调节
Chr1:2091855:2093990:-	EC:3.2.1.68	ISA, treX	异淀粉酶	K01214
Chr1:4968277:4969896:-	3.2.1.28	TREH,treA,treF	海藻糖酶	K01194
Chrw1:405272:406936:-	-	betT,betS	胆碱/甘氨酸/脯氨酸甜菜碱转运蛋白	K02168
Chr1:1485258:1486622:-	-	nhaA	Na+/H+逆向转运蛋白	K03313	参与逆向转运系统
Chr1:2575687:2578005:-	EC: 2.4.1.15	TPS	海藻糖6-磷酸合酶/磷酸酶	K16055	促进植物生长
Chr1:340156:341550:-	EC: 4.1.1.19	speA	精氨酸脱羧酶	K01585
Chr1:813781:815514:+	E2.2.1.6L	ilvB, ilvG, ilvI	乙酰乳酸合成酶	K01652
Chr1:4768702:4769751:-	-	RecA	重组蛋白RecA	K03553	参与DNA修复
Chr1:2565780:2569433:-	-	sbcC, rad50	DNA修复蛋白	K03546
Chr1:202874:203482:+	-	recR	DNA修复蛋白	K06187
Chr1:4598147:4598860:+	-	recO	DNA修复蛋白	K03584
Chr1:1791331:1792521:-	EC:4.2.1.20	trpB	色氨酸合酶亚基	K01696	IAA产生
Chr1:928485:932990:-	EC:1.4.1.13	gltB	谷氨酸合酶	K00265	固氮及氮同化
Chr1:927028:928485:-	EC:1.4.1.13	gltD	谷氨酸合酶	K00266
Chr1:2561033:2561446:+	-	-iscU, nifU	固氮蛋白NifU及相关蛋白	K04488
Chr1:3771390:3772286:+	-	pstS	磷酸盐ABC转运体底物结合蛋白	K02040	磷酸盐代谢
Chr1:4580607:4581371:-	EC:7.3.2.1	pstB	磷酸盐ABC转运体atp结合蛋白	K02036
Chr1:4582284:4583159:-	-	pstC	磷酸盐转运体渗透酶亚基	K02037
Chr1:4579862:4580551:-	-	phoU	磷酸盐特异性转运系统辅助蛋白	K02039
Chr1:4765770:4766798:-	EC:2.7.13.3	phoR	双组分系统,ompr家族,磷酸盐调节传感器组氨酸激酶	K07636
Chr1:1334658:1335221:-	-	efp	延伸系数P	K02356	生物膜形成
Chr1:1553626:1554504:-	-	motB	鞭毛运动蛋白	K02557	生物膜形成
Chr1:595364:596620:-	EC:2.7.7.4	cysN	硫酸腺苷酰转移酶	K00956	硫同化及代谢
Chr1:597641:598360:-	EC:1.8.4.8 1.8.4.10	cysH	磷酸腺苷磷酸硫酸盐还原酶	K00390
Chr1:2069683:2070297:+	EC:2.7.1.25	cysC	腺苷酸硫酸激酶	K00860
Chr1:2189706:2190593:-	EC:2.5.1.144	cysM	半胱氨酸合酶B	K12339
Chr1:3367321:3368154:-	EC:2.3.1.30	cysE	丝氨酸O-乙酰转移酶	K00640
Chr1:2074:2508:-	-	osmC	渗透诱导蛋白	K04063	氧化还原酶
Chr1:639323:639814:+	EC:1.11.1.15	DOT5	过氧化物酶	K03564	氧化还原酶
Chr1:417073:417903:+	EC:2.1.1.80	cheR	趋化蛋白甲基转移酶	K00575	根定植趋化性
Chr1:417903:418475:+	EC:3.1.1.61 3.5.1.44	cheB	双组分系统,趋化性家族, 蛋白质-谷氨酸甲基酯酶/ 谷氨酰胺酶	K03412	根定植趋化性

一株海洋杆菌属新菌种XAAS-72^T的植物促生功能分析及ACC脱氨酶蛋白结构预测

Structure prediction of the ACC protein from Pontibacter kalidii XAAS-72^T with the plant growth-promoting character

在线阅读

PDF下载