Structural diversity and influencing factors of endophytes in the bark of Korla pear

doi:10.3969/j.issn.1004-1524.20240294

Acta Agriculturae Zhejiangensis ›› 2024, Vol. 36 ›› Issue (11): 2546-2557.DOI: 10.3969/j.issn.1004-1524.20240294

• Plant Protection • Previous Articles Next Articles

Structural diversity and influencing factors of endophytes in the bark of Korla pear

TANG Li^a^,^b^,^c(), LI Linfeng^a^,^b^,^c, CUI Baofeng^a^,^b^,^c, LIU Zhenya^a^,^b^,^c, LI Yapeng^a^,^b^,^c, ZHANG Wangbin^a^,^b^,^c^,^*()

a. National and Local Joint Engineering Laboratory of High-Efficiency and High-Quality Cultivation and Deep Processing Technology of Southern Xinjiang Characteristic Fruit Trees, Tarim University, Alar 843300, Xinjiang, China
b. Key Laboratory of Southern Xinjiang Agricultural Pest Control Corps, Tarim University, Alar 843300, Xinjiang, China
c. Alar Crop Pest Science Observation and Experiment Station of Ministry of Agriculture and Rural Affairs, Tarim University, Alar 843300, Xinjiang, China

Received:2024-03-29 Online:2024-11-25 Published:2024-11-27

Abstract

Abstract:

In this study, the composition structure and influencing factors of endophytic bacteria in the bark of Korla pear were studied by high-throughput sequencing method, aiming to find out the diversity and community structure of endophyte, as well as the effects of rot disease and nutrient elements on endophyte. The results showed that endophytes were distributed in 67 phyla and 555 genera, while fungi were distributed in 9 phyla and 405 genera. At the genus level, the dominant bacteria were Escherichia, Acetobacter, Streptomyces and Salinicoccus. The dominant endophytic fungi were Puccinia, Rhizophagus and Rhizopus. The endophyte in Korla pear bark were significantly affected by Valsa canker and nutrients. Nitrogen, phosphorus and potassium had different correlations with some endophytes. The functions of endophytes in the bark of Korla pear were mainly annotated into three major pathways: metabolism, organic system, and environmental information processing. The abundance of three pathways in diseased bark was higher than that in healthy bark. In this study, the community structure and diversity of endophyte in the bark of Korla pear in Xinjiang were identified, and there were certain differences between the bark with Valsa canker and the healthy bark. There were some interactions between endophyte and nutrient elements, and there were some beneficial microorganisms in the bark.

Key words: Korla pear, tree bark, endophyte, valsa canker, nutritive element

CLC Number:

S436

TANG Li, LI Linfeng, CUI Baofeng, LIU Zhenya, LI Yapeng, ZHANG Wangbin. Structural diversity and influencing factors of endophytes in the bark of Korla pear[J]. Acta Agriculturae Zhejiangensis, 2024, 36(11): 2546-2557.

Figures/Tables 12

Table 1 Data of endophytic microbes of Korla pear bark by metagenomic sequencing

样本 Sample	插入大小 Insert size/bp	原始数据 Raw data	有效数据 Clean data	质量分数Q20 Clean Q20/%	质量分数Q30 Clean Q30/%	GC含量 GC content/%	有效性 Effective/%
KP0	350	6 665.52	6 660.34	96.66	91.06	38.20	99.92
KP1	350	6 106.29	6 101.78	96.53	90.81	37.78	99.93
KP2	350	6 514.40	6 510.31	96.92	91.60	37.81	99.94
KP3	350	6 661.18	6 656.69	96.52	90.78	38.14	99.93
KP4	350	6 440.61	6 434.68	96.33	90.42	38.51	99.91
JH0	350	6 624.55	6 618.93	96.27	90.72	39.66	99.92
JD1	350	6 872.69	6 864.09	97.31	92.61	43.51	99.88
JH1	350	6 885.70	6 876.14	97.44	93.12	40.30	99.86

Fig.1 The histogram of phylum in Korla pear(Top10) KP0, KP1, KP2, KP3, KP4, KP5 are the healthy bark of Korla pear in the same orchard. The same as below.

Fig.2 Histogram of relative abundance of endophytes in the bark of Korla pear(Top10)

Fig.3 KEGG annotates statistical charts

Table 2 Analysis of Alpha diversity of endophytes in the bark of Korla pear

样本 Sample	种类 Observed species	香农指数 Shannon	辛普森指数 Simpson	Chao指数 Chao1	样本覆盖度 Goods coverage
JH0	955	5.42	0.94	963.75	0.99
JH1	1 160	5.53	0.95	1 163.50	0.99
JD1	1 107	4.53	0.89	1 110.47	0.99

Fig.4 Histogram of relative abundance of endophytes in diseased and healthy bark of Korla pear at phyla level (Top10) JH0, completely healthy Korla pear bark without obvious disease; JD1, Bark of diseased part of Korla pear with obvious Valsa canker; JH1, Bark from healthy parts of Korla pear with obvious canker. The same as below.

Fig.5 Histogram of relative abundance of endophytes in diseased and healthy bark of Korla pear at genus level (Top10)

Fig.6 Generic horizontal relative abundance clustering heat map Heatmap vertical clustering indicates the clustering of microbial abundance in different samples, while horizontal clustering indicates the clustering of the abundance of a certain species in different samples.

Fig.7 Clustering tree based on Bray-Curtis distance On the left side of the figure is the Bray-Curtis distance clustering tree structure; The layer on the right is the functional relative abundance distribution of each sample at the first level.

Table 3 Analysis of nitrogen, phosphorus and potassium in bark of healthy Korla pear %

样本 Sample	氮含量 Nitrogen content	磷含量 Phosphorus content	钾含量 Potassium content
KP0	1.12 a	0.05 a	0.20 a
KP1	1.22 a	0.05 a	0.19 a
KP2	1.19 a	0.04 a	0.20 a
KP3	1.18 a	0.03 a	0.18 a
KP4	1.11 a	0.03 a	0.20 a

Table 4 Analysis of nitrogen, phosphorus and potassium content in diseased and healthy bark of Korla pear %

样本 Sample	氮含量 Nitrogen content	磷含量 Phosphorus content	钾含量 Potassium content
JH0	0.93 a	0.05 a	0.52 a
JH1	1.01 a	0.05 a	0.62 a
JD1	0.71 b	0.06 a	0.31 b

Fig.8 RDA analysis based on OTU level A, RDA analysis of endophytic bacteria with Top10 relative abundance; B, RDA analysis of endophytic fungi with Top10 relative abundance.

References 31

[20]	ZHANG Q, QIAN S Y. Progress in research on alkaloids and pharmacological activities from Streptomyces[J]. Natural Product Research and Development, 2019, 31(8): 1461-1473. (in Chinese with English abstract)
[21]	贺赛雅, 袁加升, 周星海, 等. 生防链霉菌菌株S16鉴定和防蔬菜根肿病的潜力评价[J]. 植物病理学报, 2024, 54(2): 410-418.
	HE S Y, YUAN J S, ZHOU X H, et al. Identification of Streptomyces strain S16 and evaluating its biocontrol potential against Plasmodiophora brassicae[J]. Acta Phytopathologica Sinica, 2024, 54(2): 410-418. (in Chinese with English abstract)
[22]	欧阳建鑫, 李伟, 操瑜. 藏南谷地湿地植物丛枝菌根真菌群落结构随海拔变化的驱动因素初探[J]. 植物科学学报, 2024, 42(1): 34-42.
	OUYANG J X, LI W, CAO Y. Preliminary study on factors driving arbuscular mycorrhizal fungi diversity with elevation in the South-Tibet River Basin[J]. Plant Science Journal, 2024, 42(1): 34-42. (in Chinese with English abstract)
[23]	田方, 陈锡, 钟理, 等. 丛枝菌根真菌对白刺花苗期抗旱酶系及生理特性的影响[J]. 西北农业学报, 2022, 31(12): 1625-1634.
[1]	ANCHEEVA E, DALETOS G, PROKSCH P. Bioactive secondary metabolites from endophytic fungi[J]. Current Medicinal Chemistry, 2020, 27(11): 1836-1854.
[2]	杨镇, 曹君. 植物内生菌及其次级代谢产物的研究进展[J]. 微生物学杂志, 2016, 36(4): 1-6.
[23]	TIAN F, CHEN X, ZHONG L, et al. Effect of arbuscular mycorrhizal fungi on eenzyme system and biochemical indexes of drought resistance in Sophora davidii[J]. Acta Agriculturae Boreali-occidentalis Sinica, 2022, 31(12): 1625-1634. (in Chinese with English abstract)
[24]	REN F, DONG W, YAN D H. Endophytic bacterial communities of Jingbai Pear trees in North China analyzed with Illumina sequencing of 16S rDNA[J]. Archives of Microbiology, 2019, 201(2): 199-208.
[2]	YANG Z, CAO J. Research progress of endophytic fungi and their secondary metabolites[J]. Journal of Microbiology, 2016, 36(4): 1-6. (in Chinese with English abstract)
[3]	RUDGERS J A, FISCHER S, CLAY K. Managing plant symbiosis: fungal endophyte genotype alters plant community composition[J]. Journal of Applied Ecology, 2010, 47(2): 468-477.
[25]	SHEN S Y, FULTHORPE R. Seasonal variation of bacterial endophytes in urban trees[J]. Frontiers in Microbiology, 2015, 6: 427.
[26]	SANTHANAM R, LUU V T, WEINHOLD A, et al. Native root-associated bacteria rescue a plant from a sudden-wilt disease that emerged during continuous cropping[J]. Proceedings of the National Academy of Sciences of the United States of America, 2015, 112: 5013-5020.
[4]	TRIVEDI P, LEACH J E, TRINGE S G, et al. Plant-microbiome interactions: from community assembly to plant health[J]. Nature Reviews Microbiology, 2020, 18(11): 607-621.
[5]	BERENDSEN R L, VISMANS G, YU K, et al. Disease-induced assemblage of a plant-beneficial bacterial consortium[J]. The ISME Journal, 2018, 12: 1496-1507.
[6]	JONES P, GARCIA B J, FURCHES A, et al. Plant host-associated mechanisms for microbial selection[J]. Frontiers in Plant Science, 2019, 10: 862.
[7]	RAJANIEMI T K. Why does fertilization reduce plant species diversity? Testing three competition-based hypotheses[J]. Journal of Ecology, 2002, 90(2): 316-324.
[8]	DICKSON T L, FOSTER B L. Fertilization decreases plant biodiversity even when light is not limiting[J]. Ecology Letters, 2011, 14(4): 380-388.
[9]	宋博, 艾米都拉·克尤木, 朱晓锋, 等. 库尔勒香梨腐烂病发生及防治药剂筛选[J]. 新疆农业科学, 2020, 57(8): 1527-1534.
	SONG B, AIMIDULA K, ZHU X F, et al. Occurrence of fragrant pear Valsa canker in Korla and its fungicide screening[J]. Xinjiang Agricultural Sciences, 2020, 57(8): 1527-1534. (in Chinese with English abstract)
[10]	邓力, 唐冰沣, 黄文政, 等. 一株白木香不同组织内生菌的分离鉴定与多样性分析[J]. 安徽农业科学, 2023, 51(20): 6-10, 18.
	DENG L, TANG B F, HUANG W Z, et al. Isolation, identification and diversity analysis of endophytic bacteria in different tissues of Aquilaria sinensis[J]. Journal of Anhui Agricultural Sciences, 2023, 51(20): 6-10, 18. (in Chinese with English abstract)
[11]	乔梦吉, 陈柏旭, 符韵林. 5种楠木木材DNA的提取与条形码鉴定[J]. 西南林业大学学报(自然科学), 2019, 39(3): 141-148.
	QIAO M J, CHEN B X, FU Y L. DNA extraction and DNA barcoding identification of 5 wood species of Phoebe spp. and Machilus spp[J]. Journal of Southwest Forestry University(Natural Sciences), 2019, 39(3): 141-148. (in Chinese with English abstract)
[12]	赵玲云, 范东颖, 李燕芳, 等. 枝干树皮宏基因组DNA的提取[J]. 生物技术通报, 2016, 32(1): 74-79.
	ZHAO L Y, FAN D Y, LI Y F, et al. The extraction of metagenom DNA in branch bark[J]. Biotechnology Bulletin, 2016, 32(1): 74-79. (in Chinese with English abstract)
[13]	鲍士旦. 土壤农化分析[M}. 北京: 中国农业出版社,1981:29.
[14]	GOYAL S, SINGH P, SENGUPTA S, et al. DNA-Aptamer-based qPCR using Light-Up dyes for the detection of nucleic acids[J]. ACS Omega, 2023, 8(49):47277-47282.
[15]	程欢, 张东华, 张俊忠, 等. 苹果砧木T337不同组织内生菌群落及其功能预测[J]. 江苏农业科学, 2022, 50(14): 144-154.
	CHENG H, ZHANG D H, ZHANG J Z, et al. Endophytic microbial community analysis and function prediction in different tissue parts of apple rootstock T337[J]. Jiangsu Agricultural Sciences, 2022, 50(14): 144-154. (in Chinese with English abstract)
[16]	PAN J Y, DONG Q L, WEN H B, et al. Composition and diversity of endophytic rhizosphere microbiota in apple tree with different ages[J]. Molecular Biotechnology, 2023: 31.
[17]	池景良, 郝敏, 王志学, 等. 解磷微生物研究及应用进展[J]. 微生物学杂志, 2021, 41(1): 1-7.
	CHI J L, HAO M, WANG Z X, et al. Advances in research and application of phosphorus-solubilizing microorganism[J]. Journal of Microbiology, 2021, 41(1): 1-7. (in Chinese with English abstract)
[18]	郭振华, 陈立红. 阿尔山不同时期落叶松根际土壤固氮菌的多样性研究[J]. 西北植物学报, 2019, 39(4): 729-739.
	GUO Z H, CHEN L H. Community structure and diversity of culturable nitrogen fixing bacteria from Larix gmelinii rhizosphere soil at different stages in Arxan[J]. Acta Botanica Boreali-Occidentalia Sinica, 2019, 39(4): 729-739. (in Chinese with English abstract)
[19]	KUMAR P, DUBEY S K A R. Diversity of bacilli from disease suppressive soil and their role in plant growth promotion and yield enhancement[J]. New York Science Journal, 2012, 5(1): 90-111.
[20]	张权, 钱声艳. 链霉菌来源生物碱及药理活性研究进展[J]. 天然产物研究与开发, 2019, 31(8): 1461-1473.
[27]	贺璐, 马杰, 傅淋, 等. 卷丹百合根腐病植株与健康植株根际土壤真菌群落结构差异[J]. 西南农业学报, 2023, 36(11): 2419-2425.
	HE L, MA J, FU L, et al. Differences on rhizosphere soil fungal community structure between root rot plants and healthy plants of Lilium lancifolium[J]. Southwest China Journal of Agricultural Sciences, 2023, 36(11): 2419-2425. (in Chinese with English abstract)
[28]	陈晓芳, 张翔宇, 柳敏, 等. 根腐病半夏内生菌群及其土壤微生物群落分析[J]. 中药材, 2023, 46(10): 2399-2407.
	CHEN X F, ZHANG X Y, LIU M, et al. Analysis of endophytic flora and soil microbial community of pinellia root rot[J]. Journal of Chinese Medicinal Materials, 2023, 46(10): 2399-2407. (in Chinese)
[29]	WANG X L, WEI J L, HUANG L L, et al. Re-evaluation of pathogens causing Valsa canker on apple in China[J]. Mycologia, 2011, 103(2): 317-324.
[30]	LIU Y J, SHI G X, MAO L, et al. Direct and indirect influences of 8 yr of nitrogen and phosphorus fertilization on Glomeromycota in an alpine meadow ecosystem[J]. The New Phytologist, 2012, 194(2): 523-535.
[31]	LI T, ZHOU Y Q, YANG F, et al. Impact of environmental factors on the diversity of nitrogen-removal bacteria in wetlands in the sanmenxia reservoir of the yellow river[J]. Journal of Soils and Sediments, 2023, 23(1): 512-525.

Structural diversity and influencing factors of endophytes in the bark of Korla pear

RichHTML

PDF (PC)

Knowledge

Abstract

Cite this article

share this article

Figures/Tables 12

References 31

Related Articles 3

Recommended Articles

Metrics

Comments

[1]	QIAO Hongyong, YUAN Tao, ZHAO Xinyong, YANG Huiyan. Characteristics of endophyte’s community changes of Paeonia suffruticosa cv. Lu He Hong fine root in different plant ages [J]. Acta Agriculturae Zhejiangensis, 2024, 36(1): 115-126.
[2]	DENG Zhenshan, WEI Tingting, SU Rui, GAO Fei, LIU Yuzhen, CHEN Bangkai, MO Darui, HE Xi, XU Hongxia. Isolation of an endophytic bacterial strain with antifungal activity from wild jujube [J]. , 2017, 29(12): 2068-2076.
[3]	GONG Na;YANG Zhen;WANG Na;LI Xue-long;XIAO Jun;CHEN Xun;YANG Tao*. Grey correlation analysis of the soybeans main properties impacted by secondary metabolites of endophyte [J]. , 2013, 25(5): 0-937.