陈泽斌,李冰,王定康,余磊,徐胜光,任禛,靳松,戴丽君.应用Illumina MiSeq高通量测序技术分析玉米内生细菌多样性[J].,2016,32(2):113-120.
应用Illumina MiSeq高通量测序技术分析玉米内生细菌多样性
Study on the Diversity of Endophytic Bacteria in Maize using Illumina MiSeq High-throughput Sequencing System
投稿时间:2015-04-21  
DOI:10.13982/j.mfst.1673-9078.2016.2.018
中文关键词:  高通量测序  玉米  内生细菌  多样性
英文关键词:high-throughput sequencing  maize  endophytic bacteria  diversity
作者简介:陈泽斌(1985-),男,博士,副教授,主要从事环境微生物的教学及科研工作 通讯作者:李冰(1973-),女,工程师,主要从事安全性评价工作
基金项目:国家自然科学基金项目(41361056);云南省教育厅科学研究项目(2014Y390);云南省高校优势特色重点学科(生态学)建设项目共同资助。
作者单位
陈泽斌 (1.昆明学院农学院,云南昆明 650214)(2.云南省都市特色农业工程技术研究中心,云南昆明 650214) 
李冰 (3.中国科学院昆明动物研究所,云南昆明 650223) 
王定康 (4.昆明学院生命科学与技术系,云南昆明 650214) 
余磊 (1.昆明学院农学院,云南昆明 650214 
徐胜光 (1.昆明学院农学院,云南昆明 650214 
任禛 (1.昆明学院农学院,云南昆明 650214 
靳松 (1.昆明学院农学院,云南昆明 650214 
戴丽君 (5.彭阳县科技服务中心,宁夏固原 756500) 
AuthorInstitution
CHEN Ze-bin (1.Agriculture College, Kunming University, Kunming 650214, China) (2.Engineering Research Center for Characteristics Agriculture of Yunnan Province, Kunming 650214, China) 
LI Bing (3.Kunming Institute of Zoology, the Chinese Academy of Sciences, Kunming 650223, China) 
WANG Ding-kang (4.Life Science and Technology Department, Kunming University, Kunming 650214, China) 
YU Lei (1.Agriculture College, Kunming University, Kunming 650214, China) 
XU Sheng-guang (1.Agriculture College, Kunming University, Kunming 650214, China) 
REN Zhen (1.Agriculture College, Kunming University, Kunming 650214, China) 
JIN Song (1.Agriculture College, Kunming University, Kunming 650214, China) 
DAI Li-jun (5.Technology Service Center of Pengyang, Guyuan 756500, China) 
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中文摘要:
      为了调查玉米内生细菌种类多样性。应用高通量测序技术测定玉米内生细菌的16S rDNA-V4变异区序列,应用Qiime和Mothur等软件整理和统计样品序列数目和操作分类单元(OTUs)数量,分析物种的丰度、分布和Alpha多样性,以及物种丰富度的差异。本研究获得用于分析的有效序列和OTU数为96334/156;稀疏曲线表明测序深度充分,OTU的数量接近于饱和。玉米(样品名YM)的Chao1指数为156.0,Shanno多样性指数为1.211。玉米内生细菌分布于以下6个属:鞘氨醇单胞菌属(Sphingomonas,37.78%)、盐单胞菌属(Halomonas,33.33%)、假单胞菌属(Pseudomonas,13.33%)、希瓦氏菌属(Shewanella,6.67%)、甲基杆菌属(Methylobacterium,4.44%)、土地杆菌属(Pedobacter,4.44%);玉米内生细菌优势菌属为鞘氨醇单胞菌属(Sphingomonas,37.78%)、盐单胞菌属(Halomonas,33.33%)。Illumina MiSeq高通量测序技术为植物内生细菌的研究提供了更加准确、科学的数据资源。
英文摘要:
      To investigate the diversity of the endophytic bacterial communities, high-throughput sequencing technique was used to measure the sequence of 16S rDNA-V4 variable region of endophytic bacteria in maize. QIIME and Mothur software programs were employed to sort and calculate the number of sequences and operational taxonomic units (OTUs) for each sample. Thereafter, the abundance, distribution, and alpha diversity index of species and the differences of species abundance among the samples were analyzed. The number of effective sequences and OTUs for each sample was 96334/156; the rarefaction curves showed a sufficient sequencing depth, and the number of OTUs was close to saturation. The Chao1 and Shannon indices of sample YM were 156.0 and 1.211, respectively. The endophytic bacteria in maize belonged to the following six genera: Sphingomonas (37.78%), Halomonas (33.33%), Pseudomonas (13.33%), Shewanella (6.67%), Methylobacterium (4.44%), and Pedobacter (4.44%). The dominant species were Sphingomonas and Halomonas, and accounted for 37.78% and 33.33%, of the total bacteria identified, respectively. Illumina MiSeq high-throughput sequencing system provides a more accurate andscientific data resource for the study of endophytic bacteria in plants.
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