摘要
卵孢小奥德蘑(Oudemansiella raphanipes)是一种食药兼用的珍稀食用菌,但其易受到异形枝葡霉(Cladobotryum varium)引起的蛛网病侵害。
目的
获得能够生物防控蛛网病且促进卵孢小奥德蘑生长的覆土细菌。
方法
从卵孢小奥德蘑覆土中分离细菌,检测其对卵孢小奥德蘑及蛛网病菌的拮抗活性,筛选出具有防病促生的多功能菌株,并基于基因组数据分析明确其潜在的生物机制。
结果
从覆土中共分离获得90株细菌,其中38株细菌对异形枝葡霉具有明显的抑制活性,且对卵孢小奥德蘑无抑制活性。进一步筛选发现,2株细菌的上清液不仅显著促进卵孢小奥德蘑菌丝的生长,还能显著抑制异形枝葡霉菌丝的生长。基于基因组数据分析,鉴定出上述2株细菌分别为简单近芽孢杆菌(Peribacillus simplex)与根际苍白杆菌(Ochrobactrum rhizosphaerae),且它们含有多种功能基因与次级代谢产物基因簇。
结论
本研究获得2株具有食用菌防病促生功能的细菌,为未来蛛网病的生态防控储备了有益微生物资源。
卵孢小奥德蘑(Oudemansiella raphanipes),俗称黑皮鸡枞,在全球热带和亚热带地区广泛分布,我国主要分布于云、贵、川等
蛛网病是影响食用菌产业健康发展的重要病害之一,其病原菌为枝葡霉属(Cladobotryum)真
覆土是卵孢小奥德蘑栽培中的关键环节,其覆土中蕴含着丰富的有益细菌,构成了潜在的生防菌资源
本研究旨在从卵孢小奥德蘑覆土中筛选、鉴定具有拮抗蛛网病菌菌丝生长,同时能促进其自身菌丝生长的细菌,以储备覆土有益微生物资源,探究覆土微生物的挖掘潜力,为卵孢小奥德蘑蛛网病的科学绿色防控奠定基础。
1 材料与方法
1.1 材料
1.1.1 供试菌株及卵孢小奥德蘑覆土
供试卵孢小奥德蘑菌株HPJZ和异形枝葡霉菌株JZBQA1均为课题组前期分离保
1.1.2 培养基
牛肉膏蛋白胨培养基(g/L):牛肉膏3.0,蛋白胨10.0,NaCl 5.0,琼脂15.0。
LB固体培养基(g/L):胰蛋白胨10.0,酵母提取物5.0,NaCl 10.0,琼脂15.0。
LB液体培养基:LB粉末39.0 g/L,去离子水定容至1 000 mL。
PDA综合培养基:去皮土豆200 g/L煮熟取滤液,葡萄糖20 g/L,琼脂20 g/L,磷酸二氢钾3 g/L,无水硫酸镁1.5 g/L,蛋白胨5 g/L,维生素B1 10 mg/L,去离子水定容至1 000 mL。
1.2 覆土细菌的分离
取3 g土壤加45 mL无菌水制成土壤悬浮液,置于25 ℃、160 r/min培养过夜,将土壤悬浮液稀释至1
1.3 覆土细菌的初步鉴定
将500 μL细菌菌液进行沸水浴5 min灭活,并以此作为DNA模板,使用细菌16S rRNA基因通用引物27F (5′-AGAGTTTGATCCTGGCTCAG-3′)和1492R (5′-CTACGGCTACCTTGTTACGA-3′)进行PCR扩增。PCR反应体系(50 μL):DNA模板4 μL,2×PCR Mix 25 μL,上、下游引物(10 μmol/L)各2 μL,ddH2O 17 μL。PCR反应条件:95 ℃预变性5 min;95 ℃变性30 s,55 ℃退火30 s,72 ℃延伸2 min,35个循环;72 ℃延伸7 min。取5 μL PCR产物经1%琼脂糖凝胶电泳检测后,将合格PCR产物送至北京诺赛基因组研究中心测序。测序结果在GenBank数据库中进行BLAST比对。
1.4 卵孢小奥德蘑蛛网病菌拮抗细菌的筛选
1.4.1 覆土细菌菌体对卵孢小奥德蘑及其蛛网病菌菌丝生长的作用评价
利用打孔器制作直径为10 mm的卵孢小奥德蘑/蛛网病菌接种块,将其接种至PDA平板中央(每个平板含有15 mL PDA培养基),25 ℃恒温培养。取500 μL细菌菌液接种到3 mL LB液体培养基的离心管中,25 ℃、160 r/min培养,定期测量OD600至其达到1.5,将菌液转至1.5 mL离心管中备用。待卵孢小奥德蘑/蛛网病菌菌落生长至直径3 cm时,使用无菌枪头蘸取细菌菌液在平板直径左右两端距菌落1.5 cm的位置划两条直线。每株细菌设置3个重复。以同等条件下蘸取LB液体培养基划线作为对照组,以同等条件下不做处理的平板作为空白对照。观察菌落生长情况,记录卵孢小奥德蘑/蛛网病菌菌落直径,计算抑菌率。抑菌率的计算如
X=(A0-A1)/A0×100% | (1) |
式中:X为抑菌率;A0为对照菌落直径(mm);A1为处理菌落直径(mm)。
1.4.2 细菌上清液对卵孢小奥德蘑及其蛛网病菌菌丝生长的作用评价
取3 mL细菌菌液(OD600为1.5)加入装有50 mL LB液体培养基的250 mL锥形瓶内,25 ℃、160 r/min培养2 d,之后8 000 r/min离心10 min,然后用0.22 μm除菌过滤器获得无菌上清液。取4 mL滤液加入到16 mL PDA培养基中。用直径为10 mm的打孔器获得相同接种量的卵孢小奥德蘑/蛛网病菌菌丝块,接种至平板中央。每隔24 h划线并记录卵孢小奥德蘑及其蛛网病菌菌丝的生长速度,直至菌丝长满平板。菌丝生长速度(V,mm/d)的计算如
V=[(D2-D1)/d] | (2) |
式中:D1为第1次测量的直径(mm);D2为最后一次测量的直径(mm);d为测量天数。
同时,挑取平板上卵孢小奥德蘑及其蛛网病菌的菌丝,制成切片后通过ECLIPSE LV100ND显微镜(Nikon公司)观察,采用NIS-Elements显微成像软件拍照。
1.5 卵孢小奥德蘑蛛网病菌拮抗细菌的生理生化及基因组分析
覆土细菌菌株以平板划线法接种到LB固体培养基上,25 ℃培养48 h后,观察并拍照记录菌落形态。挑取菌体利用革兰氏染色试剂盒(北京索莱宝科技有限公司)进行革兰氏染色,并通过显微镜观察拍照。将菌液与Salkowski试剂(由0.5 mol/L FeCl3和35%高氯酸组成)混合,在黑暗处放置一段时间后观察溶液颜色变化,分析细菌产生植物激素吲哚乙酸(indole-3-acetic acid, IAA)的情况。
采用细菌DNA提取试剂盒(TaKaRa公司)对细菌DNA进行提取,构建细菌基因组文库,利用Illumina测序平台进行测序,并采用从头测序组装(de novo测序组装)。基因组数据已保存于国家微生物科学数据中心(NMDC, http://nmdc.cn),数据编号分别为NMDC60197572和NMDC60197573。对于细菌基因组,利用MAFFT进行序列比对,同时采用最大似然法(maximum-likelihood),利用autoMLST网站(https://automlst.ziemertlab.com)根据基因组中的60个核心基因构建系统发育树,且设置重复检验次数为1 000次循环,以计算自展值(bootstrap value, BP)。利用antiSMASH分析细菌基因组含有的次级代谢产物基因簇,采用生物信息软件Anvi’o v8进行细菌泛基因组分析。
1.6 数据统计
分别使用GraphPad Prism 8.0和OriginPro 2021软件分析数据和绘图。采用单因素方差分析(one-way ANOVA)检验组间差异。显著性差异的定义为P<0.05。
2 结果与分析
2.1 卵孢小奥德蘑覆土中细菌的分离及初步鉴定
从覆土中分离、筛选并保藏不同菌落形态的细菌,共计90株细菌。通过16S rRNA基因序列的初步鉴定,它们分别来自于芽孢杆菌属(Bacillus)、假单胞菌属(Pseudomonas)、微杆菌属(Microbacterium)、节杆菌属(Arthrobacter)等(

图1 卵孢小奥德蘑覆土中分离获得的细菌属水平组成
Figure 1 The composition of the isolated bacteria in casing soil of Oudemansiella raphanipes at the genus level.
2.2 覆土细菌对卵孢小奥德蘑及异形枝葡霉菌丝生长的影响
通过平板对峙培养法检测了90株细菌对卵孢小奥德蘑菌丝生长的影响,结果显示其中 65株细菌对卵孢小奥德蘑菌丝生长无明显抑制活性,25株细菌对卵孢小奥德蘑菌丝生长具有不同程度的抑制作用。卵孢小奥德蘑的菌落直径为36.0-69.2 mm,抑菌率为23.1%-60.0%。如

图2 覆土细菌对卵孢小奥德蘑及其蛛网病菌异形枝葡霉的抑制作用。A:芽孢杆菌11-36对卵孢小奥德蘑HPJZ的抑制作用;B:假单胞菌55-10对于卵孢小奥德蘑HPJZ的抑制作用;C:金黄杆菌26-1对卵孢小奥德蘑HPJZ的抑制作用;D:金黄杆菌26-1对异形枝葡霉菌JZBQA1的抑制作用。
Figure 2 Inhibitory effect of bacteria in casing soil on the mycelial growth of Oudemansiella raphanipes and Cladobotryum varium. A: Antagonism of Bacillus sp. 11-36 on mycelial growth of O. raphanipes HPJZ; B: Antagonism of Pseudomonas sp. 55-10 on mycelial growth of O. raphanipes HPJZ; C: Antagonism of Chryseobacterium sp. 26-1 on mycelial growth of O. raphanipes HPJZ; D: Antagonism of Chryseobacterium sp. 26-1 against mycelial growth of C. varium JZBQA1.
为获得抑制蛛网病菌生长但不影响卵孢小奥德蘑生长的功能细菌,以对卵孢小奥德蘑无明显抑制作用的65株细菌为研究对象,检测其对异形枝葡霉菌丝生长的活性。对峙培养发现,其中的38株细菌抑制异形枝葡霉菌丝的生长,菌落直径范围为34.2-62.0 mm,抑菌率为31.1%-62.0% (

图3 覆土细菌对卵孢小奥德蘑和异形枝葡霉菌丝生长的抑制作用
Figure 3 Inhibition of the bacteria in casing soil on the mycelial growth of Oudemansiella raphanipes and Cladobotryum varium.
2.3 覆土细菌上清液对卵孢小奥德蘑及蛛网病菌生长的影响
在上述研究的基础上,为进一步筛选覆土内促进卵孢小奥德蘑菌丝生长的菌株,检测了上述38株细菌的发酵上清液对卵孢小奥德蘑菌丝生长的影响。结果显示,5株细菌具有显著促进卵孢小奥德蘑菌丝生长的活性(


图4 覆土细菌上清液对卵孢小奥德蘑和异形枝葡霉菌丝生长的影响。A:上清液对卵孢小奥德蘑菌丝生长的影响(*: P<0.05; ***: P<0.001; ****: P<0.000 1);B:上清液对异形枝葡霉菌丝生长的影响(*: P<0.05; **: P<0.01);C:菌株6-22和27-12的上清液对卵孢小奥德蘑和异形枝葡霉菌丝生长的影响。
Figure 4 Effect of supernatant of bacteria in casing soil on the mycelial growth of Oudemansiella raphanipes and Cladobotryum varium. A: Effect of supernatant on the mycelial growth of O. raphanipes (*: P<0.05; ***: P<0.001; ****: P<0.000 1); B: Effect of supernatant on the mycelial growth of C. varium (*: P<0.05; **: P<0.01); C: Effect of supernatant of strains 6-22 and 27-12 on the mycelial growth of O. raphanipes and C. varium.
2.4 潜在生防菌株的鉴定及基因组分析
菌株6-22的菌落近圆形,乳白色,边缘整齐,不透明,表面光滑呈油性,可产生IAA,革兰氏染色显示为革兰氏阳性菌。菌株6-22基因组与简单近芽孢杆菌(Peribacillus simplex) BA2H3基因组平均核苷酸同一性(average nucleotide identity, ANI)相似性达98.4%,系统发育树分析显示,二者也聚类在一起[maximum likelihood bootstrap (MLBP)=100%],综合形态学特征、生理生化特性和系统发育分析结果,鉴定菌株6-22为简单近芽孢杆菌。进一步基因组antiSMASH分析结果显示,菌株6-22含有10个生物合成基因簇(biosynthetic gene clusters, BGCs),这些基因簇包括非核糖体肽(non-ribosomal peptides, NRPs)、III型聚酮合酶(type III polyketide synthases, T3PKS)、萜烯类(terpene)、套索肽(lasso peptide)、铁载体(NI-siderophore)、含唑线性肽[linear azol(in)e-containing peptide, LAP]、β-内酯(betalactone)。通过序列比对分析,结果显示菌株6-22中的套索肽基因簇BGC-1.2与已知的paeninodin基因簇具有100%的相似性,铁载体基因簇BGC-4.1与schizokinen基因簇具有75%的相似性,非核糖体肽基因簇BGC-5.1与koranimine基因簇具有75%的相似性。其余BGCs则未找到与已知次级代谢产物的相似性,这表明菌株6-22可能含有7个新的次级代谢产物基因簇。泛基因组分析显示,菌株6-22含有8个IAA产生相关基因,9个溶磷功能相关基因,7个固氮相关基因以及铁载体基因(

图5 菌株6-22系统发育树及基因组分析。A:菌落形态、革兰氏染色及IAA活性检测;B:系统发育树分析;C:次级代谢产物合成基因簇;D:泛基因组分析。
Figure 5 Phylogenetic tree and genome analysis of strain 6-22. A: Colony morphology, Gram staining, and IAA activity detection; B: Phylogenetic tree analysis; C: Secondary metabolite biosynthesis gene clusters; D: Pangenome analysis.
菌株27-12的菌落近圆形,乳白色,边缘整齐,不透明,表面光滑呈油性,微弱的IAA产生能力,为革兰氏阴性菌。菌株27-12基因组与根际苍白杆菌(Ochrobactrum rhizosphaerae) SJY1基因组ANI相似性达97.0%,且系统发育树上与该菌株聚类在一个分支(MLBP=100%),综合形态学特征、生理生化特性和系统发育分析结果鉴定菌株27-12为根际苍白杆菌。进一步基因组antiSMASH分析结果显示,菌株27-12含有9个BGCs,包括萜烯类、β-内酯、氰化氢(hydrogen-cyanide)、芳基多烯类化合物(arylpolyene)等。序列比对发现9个BGCs均未找到序列相似的已知次级代谢产物,因而初步判定菌株27-12含有的9个BGCs为新的次级代谢产物基因簇。泛基因组分析显示,菌株27-12含有9个IAA产生相关基因,6个溶磷功能相关基因,3个固氮相关基因(

图6 菌株27-12系统发育树及基因组分析。A:菌落形态、革兰氏染色及IAA活性检测;B:系统发育树分析;C:次级代谢产物合成基因簇;D:泛基因组分析。
Figure 6 Phylogenetic tree and genome analysis of strain 27-12. A: Colony morphology, Gram staining, and IAA activity detection; B: Phylogenetic tree analysis; C: Secondary metabolite biosynthesis gene clusters; D: Pangenome analysis.
3 讨论与结论
覆土是卵孢小奥德蘑栽培过程中至关重要的步骤,覆土中栖居着的微生物种类繁多,功能复杂,对食用菌菌丝的生长、子实体的分化和发育具有重要作用,影响其产量和出菇整齐度等特
蛛网病作为食用菌常见的病害之一,目前仍缺乏绿色、安全且具有针对性的生物防控方法。蛛网病生防菌株应具备既不影响食用菌菌丝的正常生长,又能对病原菌表现出特异性的抑制活性。因此,那些具有广谱且强抑菌活性的细菌可能并不适宜合用于食用菌真菌病害的防控。例如,本研究发现Bacillus sp. 11-36和Pseudomonas sp. 55-10对卵孢小奥德蘑和蛛网病菌均具有较强的抑制活性,但它们可能对卵孢小奥德蘑菌丝的生长阶段产生不利影响,因此不适合用于防治卵孢小奥德蘑蛛网病。Büchner等研究表明,贝莱斯芽孢杆菌SZMC 25431具有防控双孢菇绿霉病的应用潜
基因组分析发现,潜在生防菌简单近芽孢杆菌6-22和根际苍白杆菌27-12可产生丰富的次级代谢产物。近芽孢杆菌属(Peribacillus)是2020年从芽孢杆菌属中划分出的新属,其特性与芽孢杆菌非常相
本研究成功筛选出2株针对卵孢小奥德蘑蛛网病的潜在生防菌,这些菌株不仅能有效抑制蛛网病菌菌丝的生长,同时还能促进卵孢小奥德蘑菌丝的生长。因此,它们具有巨大的应用潜力,可作为卵孢小奥德蘑蛛网病的生物防治菌剂进行开发。本研究的结果为未来蛛网病的生态防控提供了宝贵的微生物资源。
作者贡献声明
刘亚勇:数据收集与处理,论文撰写;张涛涛:微生物分离培养;高琳:微生物分离及鉴定;赵娟:课题讨论,论文修改;孟盼盼:微生物基因组测序;李莹菲:微生物分离培养;秦文韬:课题设计,实验指导,论文修改。
利益冲突
公开声明
参考文献
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