Diversity and Network Structure Analysis of Culturable Bacteria in Sporophore Site Soil of <i>Russula griseocarnosa</i><italic/>

WANG Yinghao; MAN Jiayin; ZHANG Taoxiang; LIAN Chunlan

doi:10.19303/j.issn.1008-0384.2022.004.014

Volume 37 Issue 4

Apr. 2022

Turn off MathJax

Article Contents

Article Navigation > Fujian Journal of Agricultural Sciences > 2022 > 37(4): 529-537

WANG Y H, MAN J Y, ZHANG T X, et al. Diversity and Network Structure Analysis of Culturable Bacteria in Sporophore Site Soil of Russula griseocarnosa [J]. Fujian Journal of Agricultural Sciences，2022，37（4）：529−537 doi: 10.19303/j.issn.1008-0384.2022.004.014

Citation:

WANG Y H, MAN J Y, ZHANG T X, et al. Diversity and Network Structure Analysis of Culturable Bacteria in Sporophore Site Soil of Russula griseocarnosa [J]. Fujian Journal of Agricultural Sciences，2022，37（4）：529−537 doi: 10.19303/j.issn.1008-0384.2022.004.014

Citation:

PDF( 1338 KB)

Diversity and Network Structure Analysis of Culturable Bacteria in Sporophore Site Soil of Russula griseocarnosa

doi: 10.19303/j.issn.1008-0384.2022.004.014

WANG Yinghao^{1, 2
,},
MAN Jiayin^{1, 2},
ZHANG Taoxiang^{1, 2
,
,},
LIAN Chunlan³

1.
College of Forestry, Fujian Agriculture and Forestry University, Fuzhou, Fujian　350002, China
2.
International Joint Laboratory of Forest Symbiology, Fujian Agriculture and Forestry University, Fuzhou, Fujian　350002, China
3.
Asian Natural Environmental Science Center, The University of Tokyo, 1-1-8 Midori-cho, Nishitokyo, Tokyo 188-0002, Japan

Received Date: 2022-03-08
Rev Recd Date: 2022-03-28

Available Online: 2022-04-24

Publish Date: 2022-04-28

Abstract

Abstract

Objective The diversity of culturable bacteria and their inter-species interactions were explored by isolating and culturing sporophore site soil bacteria of R. griseocarnosa. It provides insights into the mycorrhizal helper bacteria which may promote the growth of the mycelium and the formation and differentiation of sporophore of R. griseocarnosa. Methods The bacteria in the sporophore site soil of R. griseocarnosa were isolated and purified by traditional methods of separation and culture using LB and ISP₂ media, and the species of the isolated strains was preliminarily identified by 16S rRNA gene sequence analysis. Interactions between culturable bacterial genera were analyzed using the Bipartite package in R. Results A total of 128 strains of bacteria were isolated from 6 sporophore site soils of R. griseocarnosa, which belonged to 34 OTUs (16 genera of 3 phyla). The three genera with the highest abundance were Bacillus , Burkholderia and Streptomyces. Genus-level-Sample network analysis showed that the distribution of culturable bacteria was randomly nested. Bacillus and Burkholderia are important groups in the community, which have more Effective Partners, Closeness and high Species Strength in the bacterial community. Conclusion There are abundant bacterial resources in the sporophore site soil of R. griseocarnosa. Combining the analysis of bacterial abundance and network structure can predict the interaction between bacteria more clearly.
- Russula griseocarnosa,
- rhizosphere soil,
- culturable bacteria,
- network structure

FullText(HTML)

References(37)

References

[1]	钱建新, 陈仁毅, 张惠兰. 正红菇的生长环境研究 [J]. 福建林业科技, 2003, 30(4):52−54. doi: 10.3969/j.issn.1002-7351.2003.04.015 QIAN J X, CHEN R Y, ZHANG H L. The study on growth environment of Russula vinosa [J]. Journal of Fujian Forestry Science and Technology, 2003, 30(4): 52−54.(in Chinese) doi: 10.3969/j.issn.1002-7351.2003.04.015
[2]	涂育合, 陈永聪, 郑肇快. 正红菇依存森林的群落学特征 [J]. 植物资源与环境学报, 2001, 10(2):26−30. doi: 10.3969/j.issn.1674-7895.2001.02.007 TU Y H, CHEN Y C, ZHENG Z K. Feature of forest community with Russula vinosa lindbl Fr. depending on for existance in Dingban Village of Datian County [J]. Journal of Plant Resources and Environment, 2001, 10(2): 26−30.(in Chinese) doi: 10.3969/j.issn.1674-7895.2001.02.007
[3]	MUNSCH P, ALATOSSAVA T, MARTTINEN N, et al. Pseudomonas costantinii sp. nov., another causal agent of brown blotch disease, isolated from cultivated mushroom sporophores in Finland [J]. International Journal of Systematic and Evolutionary Microbiology, 2002, 52: 1973−1983.
[4]	RALPH N, ANDREJA D P, HOBBS P J, et al. Volatile C8 compounds and pseudomonads influence primordium formation of Agaricus bisporus [J]. Mycologia, 2009, 101(5): 583−591. doi: 10.3852/07-194
[5]	YUN Y B, PARK S W, CHA J S, et al. Biological characterization of various strains of Pseudomonas tolaasii that causes brown blotch disease [J]. Journal of the Korean Society for Applied Biological Chemistry, 2013, 56(1): 41−45. doi: 10.1007/s13765-012-2242-y
[6]	盛江梅, 吴小芹. 菌根真菌与植物根际微生物互作关系研究 [J]. 西北林学院学报, 2007, 22(5):104−108,135. doi: 10.3969/j.issn.1001-7461.2007.05.026 SHENG J M, WU X Q. Interaction between mycorrhizal fungi and rhizosphere microorganisms [J]. Journal of Northwest Forestry University, 2007, 22(5): 104−108,135.(in Chinese) doi: 10.3969/j.issn.1001-7461.2007.05.026
[7]	GARBAYE J. Helper Bacteria - a New Dimension to the Mycorrhizal Symbiosis [J]. New Phytologist, 1994, 128(2): 197−210. doi: 10.1111/j.1469-8137.1994.tb04003.x
[8]	ASPRAY T J, JONES E E, DAVIES M W, et al. Increased hyphal branching and growth of ectomycorrhizal fungus Lactarius rufus by the helper bacterium Paenibacillus sp [J]. Mycorrhiza, 2013, 23(5): 403−410. doi: 10.1007/s00572-013-0483-1
[9]	FOUNOUNE H, DUPONNOIS R, BÂ A M, et al. Mycorrhiza helper bacteria stimulate ectomycorrhizal symbiosis of Acacia holosericea with Pisolithus alba [J]. New Phytologist, 2002, 153(1): 81−89. doi: 10.1046/j.0028-646X.2001.00284.x
[10]	FOUNOUNE H, DUPONNOIS R, MEYER J M, et al. Interactions between ectomycorrhizal symbiosis and fluorescent pseudomonads on Acacia holosericea: Isolation of mycorrhiza helper bacteria (MHB) from a Soudano-Sahelian soil [J]. FEMS Microbiology Ecology, 2002, 41(1): 37−46. doi: 10.1111/j.1574-6941.2002.tb00964.x
[11]	陈克华. 野生正红菇生态增产技术示范 [J]. 福建农业, 2007(12):15. CHEN K H. Demonstration of ecological yield increasing technology of wild Pleurotus ostreatus [J]. Fujian Agriculture, 2007(12): 15.(in Chinese)
[12]	郭永红, 罗孝坤, 弓明钦, 等. 大红菇出菇特性研究 [J]. 中国食用菌, 2011, 30(5):30−33. doi: 10.3969/j.issn.1003-8310.2011.05.012 GUO Y H, LUO X K, GONG M Q, et al. Characteristics research of pruducing mushroom about Russula sanguinea [J]. Edible Fungi of China, 2011, 30(5): 30−33.(in Chinese) doi: 10.3969/j.issn.1003-8310.2011.05.012
[13]	李忠, 钟莹莹, 陈逸湘. 广东梅州野生灰肉红菇资源调查 [J]. 食用菌, 2012, 34(4):8−9. LI Z, ZHONG Y Y, CHEN Y X. Investigation on wild red mushroom resources in Meizhou, Guangdong Province [J]. Edible Fungi, 2012, 34(4): 8−9.(in Chinese)
[14]	肖冬来, 陈丽华, 陈宇航, 等. 正红菇菌根际土壤细菌多样性 [J]. 福建食用菌, 2014, 2(4):66−72. XIAO D L, CHEN L H, CHEN Y H, et al. Bacterial Diversity of Russula griseocarnosa Mycorrhizosphere Soil [J]. Fujian Mushroom Journal, 2014, 2(4): 66−72.(in Chinese)
[15]	肖冬来, 陈丽华, 陈宇航, 等. 利用变性梯度凝胶电泳分析正红菇菌根围土壤真菌群落多样性 [J]. 热带作物学报, 2013, 34(12):2508−2512. XIAO D L, CHEN L H, CHEN Y H, et al. Analysis of fungal diversity of Russula griseocarnosa mycorrhizosphere soil with denaturing gradient gel electrophoresis [J]. Chinese Journal of Tropical Crops, 2013, 34(12): 2508−2512.(in Chinese)
[16]	YU F, LIANG J F, SONG J, et al. Bacterial community selection of Russula griseocarnosa mycosphere soil [J]. Frontiers in Microbiology, 2020, 11: 347. doi: 10.3389/fmicb.2020.00347
[17]	STEFANI F, BELL T H, MARCHAND C, et al. Culture-Dependant and -Independent Methods Capture Different Microbial Community Fractions in Hydrocarbon-Contaminated Soils [J]. PLoS ONE, 2017, 10(6): e0128272.
[18]	SHIRLING E B, GOTTLIEB D. Methods for characterization of Streptomyces species [J]. International Journal of Systematic Bacteriology, 1966, 16(3): 313−340. doi: 10.1099/00207713-16-3-313
[19]	WEISBURG W G, BARNS S M, PELLETIER D A, et al. 16S ribosomal DNA amplification for phylogenetic study [J]. Journal of Bacteriology, 1991, 173(2): 697−703. doi: 10.1128/jb.173.2.697-703.1991
[20]	EDWARDS U, ROGALL T, BLÖCKER H, et al. Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA [J]. Nucleic Acids Research, 1989, 17(19): 7843−7853. doi: 10.1093/nar/17.19.7843
[21]	姜华, 何承刚, 于富强, 等. 松口蘑(Tricholoma matsutake)菌塘土壤可培养细菌多样性 [J]. 生态学杂志, 2015, 34(1):150−156. JIANG H, HE C G, YU F Q, et al. Bacterial diversity cultured from shiros of Tricholoma matsutake [J]. Chinese Journal of Ecology, 2015, 34(1): 150−156.(in Chinese)
[22]	余仲东, 唐光辉, 曹支敏. 陕西小叶杨叶内生真菌群体多样性和结构特征 [J]. 林业科学, 2016, 52(6):86−92. YU Z D, TANG G H, CAO Z M. Diversity and community structure of endophytic fungi in the leaves of Populus simonii in Shaanxi Province [J]. Scientia Silvae Sinicae, 2016, 52(6): 86−92.(in Chinese)
[23]	郑梅霞, 朱育菁, 刘波, 等. 云南苍山芽胞杆菌多样性研究 [J]. 福建农业学报, 2019, 34(1):104−116. ZHENG M X, ZHU Y J, LIU B, et al. Microbial diversity of Bacillus community in soils at Cangshan, Yunnan [J]. Fujian Journal of Agricultural Sciences, 2019, 34(1): 104−116.(in Chinese)
[24]	DORMANN C F, FRÜND J, BLÜTHGEN N, et al. Indices, Graphs and Null Models: Analyzing Bipartite Ecological Networks [J]. The Open Ecology Journal, 2009, 2(1): 7−24. doi: 10.2174/1874213000902010007
[25]	CORE R, RDCT R, TEAM R, et al. A Language and Environment for Statistical Computing [J]. Computing, 2015, 1: 12−21.
[26]	BECKER D M, BAGLEY S T, PODILA G K. Effects of mycorrhizal-associated streptomycetes on growth of Laccaria bicolor, Cenococcum geophilum, and Armillaria species and on gene expression in Laccaria bicolor [J]. Mycologia, 1999, 91(1): 33−40. doi: 10.2307/3761191
[27]	FREY-KLETT P, CHAVATTE M, CLAUSSE M L, et al. Ectomycorrhizal symbiosis affects functional diversity of rhizosphere fluorescent pseudomonads [J]. The New Phytologist, 2005, 165(1): 317−328. doi: 10.1111/j.1469-8137.2004.01212.x
[28]	POOLE E J, BENDING G D, WHIPPS J M, et al. Bacteria associated with Pinus sylvestris-Lactarius rufus ectomycorrhizas and their effects on mycorrhiza formation in vitro [J]. New Phytologist, 2001, 151(3): 743−751. doi: 10.1046/j.0028-646x.2001.00219.x
[29]	安忠琦, 詹伟, 吴庆珊, 等. 金钗石斛根际可培养细菌多样性及抑菌活性研究 [J]. 云南大学学报(自然科学版), 2018, 40(3):586−602. AN Z Q, ZHAN W, WU Q S, et al. Diversity and antimicrobial activities of the cultivable rhizosphric bacteria fom Dendrobium nobile [J]. Journal of Yunnan University (Natural Sciences Edition), 2018, 40(3): 586−602.(in Chinese)
[30]	万山平, 郑毅, 汤利, 等. 攀枝花块菌-华山松菌根根际土壤可培养细菌的多样性研究 [J]. 植物分类与资源学报, 2015, 37(6):861−870. WAN S P, ZHENG Y, TANG L, et al. Diversity of culturable bacteria associated with tuber panzhihuanense-Pinus armandii ectomycorrhizosphere soil [J]. Plant Diversity and Resources, 2015, 37(6): 861−870.(in Chinese)
[31]	BARBIERI E, POTENZA L, ROSSI I, et al. Phylogenetic characterization and in situ detection of a Cytophaga-Flexibacter-Bacteroides phylogroup bacterium in Tuber borchii vittad. Ectomycorrhizal mycelium [J]. Applied and environmental microbiology, 2000, 66(11): 5035−5042. doi: 10.1128/AEM.66.11.5035-5042.2000
[32]	GARBAYE J, DUPONNOIS R, WAHL J L, et al. The bacteria associated with Laccaria laccata ectomycorrhizas or sporocarps: Effect on symbiosis establishment on Douglas fir [J]. Symbiosis, 1990, 9: 267−273.
[33]	GARBAYE J, DUPONNOIS R. Specificity and function of mycorrhization helper bacteria (MHB) associated with the Pseudotsuga menziesii-Laccaria laccata symbiosis [J]. Symbiosis, 1992, 14(1-3): 335−344.
[34]	OH S Y, LIM Y W. Root-associated bacteria influencing mycelial growth of Tricholoma matsutake (pine mushroom) [J]. Journal of Microbiology, 2018, 56(6): 399−407. doi: 10.1007/s12275-018-7491-y
[35]	盛江梅, 吴小芹, 侯亮亮, 等. 一株黑松-美味牛肝菌菌根辅助细菌的筛选及鉴定 [J]. 应用与环境生物学报, 2010, 16(5):701−704. SHENG J M, WU X Q, HOU L L, et al. Isolation and identification of a MHB strain from the rhizosphere soil of Pinus thunbergi inoculated with Boletus edulis [J]. Chinese Journal of Applied & Environmental Biology, 2010, 16(5): 701−704.(in Chinese)
[36]	RIVETT D W, BELL T. Abundance determines the functional role of bacterial phylotypes in complex communities [J]. Nature Microbiology, 2018, 3(7): 767−772. doi: 10.1038/s41564-018-0180-0
[37]	禹飞. 灰肉红菇多组学特征分析及其与根际微生物的互作[D]. 北京: 中国林业科学研究院, 2020. YU F. Multi-omics analysis of Russula griseocarnosa and its interaction with mycosphere microorganisms[D]. Beijing: Chinese Academy of Forestry, 2020. (in Chinese)