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植物内生菌与其宿主在长期进化过程中形成一种共生或互生的关系,对植物的生长发育、病虫害防治、植物抗性、生物修复等方面都具有积极的作用。为了解植物不同生态位内生菌菌群组成和形成机制,本研究以番茄为材料,通过高通量测序解析番茄植株根、茎和叶3个不同生态位内生菌菌群组成与结构差异。收集番茄根、茎、叶组织样品分别消毒,并分别进行研磨破碎提取基因组DNA,检验合格后送交公司进行16S rDNA序列V5～V7可变区的Illumina Miseq测序和微生物多样性分析。结果表明,植物植株内不同生态位内生细菌菌群结构组成和多样性有一定的差异。其中,根内生菌优势菌群主要由Proteobacteria、Actinobacteria、Firmicutes等组成;茎的优势菌群包括Proteobacteria和Firmicutes等;而叶的优势菌群主要由Proteobacteria等组成。Proteobacteria是番茄根、茎、叶中共有的主要优势内生菌群,但其在3个不同生态位中所占比例大小明显不同。根内生菌具有更高的种群多样性,且与茎和叶相比具有明显的差异性。总体来讲,根和茎内生菌组成和多样性相似度更高,Venn图分析表明根和茎有更多的共有OTU,而根和叶都有较多的特有OTU,表明茎的菌群受根的影响较大,而根和叶的菌群组成有较高的独立性。
Abstract：Plant endophyte,which plays a positive role in plant growth and development,pest control,plant resistance,bioremediation and other aspects,has formed a symbiotic or symbiotic relationship with their host in the long-term evolution process,In this paper,to understand movement of endophyts in plant tissues and their assembly mechanism of endophytic flora,the composition and structure of bacterial endophytic flora of tomato in different parts,roots,stems and leaves were analyzed by using the high-throughput sequencing method.The samples for tomato root,stem and leaf were separately collected and disinfected.The processed samples were ground and broken to extract their genomic DNA.The extracted genomic DNA samples were sent to the company for amplifying the V5-V7 region of bacterial 16 S rDNA and Illumina Miseq sequencing.The results showed that the plant tissues had certain effects on community structure and bacterial diversity of plant endophytic microbiome.Among them,Proteobacteria was the predominant micro flora of endophytes of tomato,and it is the main dominant micro flora shared by roots,stems and leaves.However,the proportions of Proteobacteria were obviously different in three different ecological niches.In addition,Actinobacteria and Firmicutes in tomato root,and Firmicutes in stem,were also among the dominant microflora.Root endophytes had higher population diversity and were obviously different from stem and leaf microbiome.In general,the composition and diversity of endophytic bacteria of roots and stems were more similar.Venn diagram analysis showed that roots and stems share more OTU,while roots and leaves have more unique OUT,suggesting the stem flora was greatly influenced by root,while the composition of root and leaf flora was relatively independent.
Abbamondi G.R.,Tommonaro G.,Weyens N.,Thijs S.,Sillen W.,Gkorezis P.,Iodice C.,Rangel W.M.,Nicolaus B.,and Vangronsveld J.,2016,Plant growth-promoting effects of rhizospheric and endophytic bacteria associated with different tomato cultivars and new tomato hybrids,Chemical&Biological Technologies in Agriculture,3(1):1-10
Ali S.,Charles T.C.,and Glick B.R.,2014,Amelioration of high salinity stress damage by plant growth-promoting bacterial endophytes that contain ACC deaminase,Plant Physiol.Biochem.,80:160-167
Bai Y.,Daniel B.M.,Srinivas G.,Srinivas G.,Garrido-Oter R.,Potthoff E.,Rott M.,Dombrowski M.,Spaepen S.,Remus-Emsermann M.,Bruno H.,Alice C.M.,Julia A.V.,and Schulze-Lefert P.,2015,Functional overlap of the Arabidopsis leaf and root microbiota,Nature,528(7582):364-369
Cao Y.,Tian B.Y.,Ji X.L.,Shang S.H.,Lu C.J.,and Zhang K.Q.,2015,Associated bacteria of different life stages of Meloidogyne incognita using pyrosequencing-based analysis,J.Basic Microbiol.,55(8):950-960
Castanheira N.L.,Dourado A.C.,Pais I.,Semedo J.,Scotti-Campos P.,Borges N.,Carvalho G.Barreto Crespo M.T.,and Fareleira P.,2017,Colonization and beneficial effects on annual ryegrass by mixed inoculation with plant growth promoting bacteria,Microbiol.Res.,198:47-55
Chen J.,Bushman F.D.,Lewis J.D.,Wu G.D.,and Li H.Z.,2013,Structure-constrained sparse canonical correlation analysis with an application to microbiome data analysis,Biostatistics,14(2):244-258
Compant S.,Clément C.,and Sessitsch A.,2010,Plant growth-promoting bacteria in the rhizo-and endosphere of plants:their role,colonization,mechanisms involved and prospects for utilization,Soil Biol.Biochem.,42(5):669-678
Compant S.,Reiter B.,Nowak J.,Sessitsch A.,Clément C.,and Barka E.A.,2005,Endophytic colonization of Vitis vinifera L.by plant growth-promoting bacterium Burkholderia sp.strain Ps JN,Appl.Environ.Microbiol.,71(4):1685-1693
Doty S.L.,Oakley B.,Xin B.,Kang J.W.,Singleton G.,Khan Z.,Vajzovic A.,and Statey J.T.,2009,Diazotrophic endophytes of native black cottonwood and willow,Symbiosis,47 (1):23-33
Edgar R.C.,2010,Search and clustering orders of magnitude faster than BLAST,Bioinformatics,26(19):2460-2461
Edgar R.C.,Haas B.J.,Clemente J.C.,Quince C.,and Knight R.,2011,UCHIME improves sensitivity and speed of chimera detection,Bioinformatics,27(16):2194-2200
Haas B.J.,Gevers D.,Earl A.M.,Feldgarden M.,Ward D.V.,Giannoukos G.,Ciulla D.,Tabbaa D.,Highlander S.K.,Sodergren E.,Methe B.,De Santis T.Z.,Petrosino J.F.,Knight R.,and Birren B.W.,2011,Chimeric 16S r RNA sequence formation and detection in sanger and 454-pyrosequenced PCRamplicons,Genome Res.,21(3):494-504
Hardoim P.R.,van Overbeek L.S.,Berg G.,PirttilA.M.,Compant S.,Campisano A.,D觟ring M.,and Sessitsch A.,2015,The hidden world within plants:ecological and evolutionary considerations for defining functioning of microbial endophytes,Microbiol.Mol.Biol.Rev.,79(3):293-320
Iniguez A.L.,Dong Y.,and Triplett E.W.,2004,Nitrogen fixation in wheat provided by Klebsiella pneumoniae 342,Mol.Plant Microbe Interact.,17(10):1078-1085
Kandel S.L.,Joubert P.M.,and Doty S.L.,2017,Bacterial endophyte colonization and distribution within plants,Microorganisms,5(4):77
Kandel S.L.,Herschberger N.,Kim S.H.,and Doty S.L.,2015,Diazotrophic endophytes of poplar and willow for growth promotion of rice plants in nitrogen-limited conditions,Crop Sci.,55(4):1765-1772
Le i S.N.,Cheng Z.Q.,Xiong J.,Ma R.Q.,and Tian B.Y.,2017,Composition and structure of root endophyte in Brassica chinensis L.infected by clubroot,Zhongguo Nongxue Tongbao (Chinese Agricultural Science Bulletin),33 (33):39-45(雷少楠,程志强,熊娟,马荣琴,田宝玉,2017,患根肿病的上海青根内生菌组成和结构的研究,中国农学通报,33(33):39-45)
Lupwayi N.Z.,Clayton G.W.,Hanson K.G.,Rice W.A.,and Biederbeck V.O.,2004,Endophytic rhizobia in barley,wheat and canola roots,Can.J.Plant Sci.,84(1):37-45
Naveed M.,Mitter B.,Reichenauer T.G.,Wieczorek K.,and Sessitsch A.,2014,Increased drought stress resilience of maize through endophytic colonization by Burkholderia phytofirmans Ps JN and Enterobacter sp.FD17,Environ.Exp.Bot.97:30-39
Ottesen A.R.,Pena A.G.,White J.R.,Pettengill J.B.,Li C.,Allard S.,Rideout S.,Allard M.,Hill T.,Evans P.,Strain E.,Musser S.,Knight R.,and Brown E.,2013,Baseline survey of the anatomical microbial ecology of an important food plant:Solanum lycopersicum (tomato),BMC Microbiology,13:114
Parsek M.R.,and Greenberg E.P.,2000,Acyl-homoserine lactone quorum sensing in gram-negative bacteria:a signaling mechanism involved in associations with higher organisms,Proc.Natl.Acad.Sci.USA,97(16):8789-8793
Piccolo S.L.,Ferraro V.,Alfonzo A.,Settanni L.,and Moschetti B.G.,2010,Presence of endophytic bacteria in Vitis vinifera leaves as detected by fluorescence in situ hybridization,Ann.Microbiol.,60(1):161-167
Prieto P.,SchiliròE.,Maldonado-González M.M.,Valderrama R.,Barroso-Albarracín J.B.,and Mercado-Blanco J.,2011,Root hairs play a key role in the endophytic colonization of olive roots by Pseudomonas spp.with biocontrol activity,Microb.Ecol.,62(2):435-445
Qin S.,Zhang Y.J.,Yuan B.,Xu P.Y.,Xing K.,Wang J.,and Jiang J.H.,2014,Isolation of ACC deaminase-producing habitat-adapted symbiotic bacteria associated with halophyte Limonium sinense (Girard) Kuntze and evaluating their plant growth-promoting activity under salt stress,Plant and Soil,374(1-2):753-766
Quince C.,Lanzen A.,Davenport R.J.,and Turnbaugh P.J.,2011,Removing noise from pyrosequenced amplicons,BMC Bioinformatics,12:38
Rangjaroen C.,Sungthong R.,Rerkasem B.,Teaumroong N.,Noisangiam R.,and Lumyong S.,2017,Untapped endophytic colonization and plant growth-promoting potential of the genus novosphingobium to optimize rice cultivation,Microbes Environ.,32(1):84-87
Reinhold B.,Hurek T.,and Fendrik I.,1987,Cross-reaction of predominant nitrogen-fixing bacteria with enveloped,round bodies in the root interior of kallar grass,Appl.Environ.Microbiol.,53(4):889-891
Riggs P.J.,Chelius M.K.,Iniguez A.L.,Kaeppler S.M.,and Triplett E.,2001,Enhanced maize productivity by inoculation with diazotrophic bacteria,Funct.Plant Biol.,28(9):829-836
Rojas-Tapias D.,Moreno-Galvan A.,Pardo-Diaz S.,Obando M.,Rivera D.,and Bonilla R.,2012,Effect of inoculation with plant growth-promoting bacteria (PGPB) on amelioration of saline stress in maize (Zea mays),Appl.Soil Ecol.,61:264-272
Rosenblueth M.,and Martínez-Romero E.,2006,Bacterial endophytes and their interactions with hosts,Mol.Plant Microbe Interact.,19(8):827-837
Ryan R.P.,Germaine K.,Franks A.,Ryan D.J.,and Dowling D.N.,2008,Bacterial endophytes:recent developments and applications,FEMS Microbiol.Lett.,278(1):1-9
Santi C.,Bogusz D.,and Franche C.,2013,Biological nitrogen fixation in non-legume plants,Ann.Bot.,111(5):743-767
Tian B.Y.,Cao Y.,and Zhang K.Q.,2015,Metagenomic insights into communities,functions of endophytes,and their associates with infection by root-knot nematode,Meloidogyne incognita,in tomato roots,Sci.Rep.,5:17087
Wang M.Q.,Liu H.P.,Han J.C.,and Lu T.,2010,Population dynamics of endophytic bacteria in tomato plant and screening of antagonistic strains,Zhongguo Nongxue Tongbao (Chinese Agricultural Science Bulletin),26(9):277-282 (王美琴,刘慧平,韩巨才,路涛,2010,番茄内生细菌种群动态分析及拮抗菌株的筛选,中国农学通报,26(9):277-282)
Wang S.G.,You X.L.,Che C.X.,Zeng S.,Zhou J.Y.,Li Z.Q.,and He X.Y.,2015,Study of caries microbial community structure and diversity by 16S r RNA high-throughput sequencing,Kouqiang Yixue Yanjiu (Journal of Oral Science Research),31(5):461-465 (王少果,游祥磊,车春晓,曾飒,周建业,李志强,何祥一,2015,16S r RNA高通量测序研究有龋者唾液微生物群落结构及多样性,口腔医学研究,31(5):461-465)
Wu C.L.,2016,Study on population dynamics of endophytic bacteria in processing tomato and inhibitory and growth-promoting effect of endophytic Bacillus,Dissertation for Ph.D.,Shihezi University,Supervisor:Xiang B.C.,pp.34-47 (吴彩兰,2016,加工番茄内生细菌种群动态及内生芽孢杆菌抑菌促生作用研究,博士学位论文,石河子大学,导师:向本春,pp.34-47)
Yaish M.W.,Antony I.,and Glick B.R.,2015,Isolation and characterization of endophytic plant growth-promoting bacteria from date palm tree (Phoenix dactylifera L.) and their potential role in sali nity tolerance,Antonie Van Leeuwenhoek,107(6):1519-1532
基本信息:
DOI：10.13417/j.gab.039.005558
中图分类号:S641.2
引用信息:
[1]张婷,黎烨,熊娟,等.番茄不同生态位内生菌的菌群结构组成和差异性分析[J].基因组学与应用生物学,2020,39(12):5558-5566.DOI:10.13417/j.gab.039.005558.
基金信息:
国家自然科学基金项目(31670125);; 福建省自然科学基金(2017J01625);; 福建师范大学生命科学学院溪源江学者计划(FZSKG2018006)共同资助
2020-12-25
2020-12-25