Li Ou, Xiao Rong, Sun Lihua, Guan Chenglin, Kong Dedong, Hu Xiufang
College of Life Science, Zhejiang Sci-Tech University, Xiasha, Hangzhou, PR China.
Zhejiang Academy of Medical Sciences, Hangzhou, PR China.
PLoS One. 2017 Sep 20;12(9):e0184717. doi: 10.1371/journal.pone.0184717. eCollection 2017.
As an epiphyte orchid, Dendrobium catenatum relies on microorganisms for requisite nutrients. Metagenome pyrosequencing based on 16S rRNA and nifH genes was used to characterize the bacterial and diazotrophic communities associated with D. catenatum collected from 5 districts in China. Based on Meta-16S rRNA sequencing, 22 bacterial phyla and 699 genera were identified, distributed as 125 genera from 8 phyla and 319 genera from 10 phyla shared by all the planting bases and all the tissues, respectively. The predominant Proteobacteria varied from 71.81% (GZ) to 96.08% (YN), and Delftia (10.39-38.42%), Burkholderia (2.71-15.98%), Escherichia/Shigella (4.90-25.12%), Pseudomonas (2.68-30.72%) and Sphingomonas (1.83-2.05%) dominated in four planting bases. Pseudomonas (17.94-22.06%), Escherichia/Shigella (6.59-11.59%), Delftia (9.65-22.14%) and Burkholderia (3.12-11.05%) dominated in all the tissues. According to Meta-nifH sequencing, 4 phyla and 45 genera were identified, while 17 genera and 24 genera from 4 phyla were shared by all the planting bases and all the tissues, respectively. Burkholderia and Bradyrhizobium were the most popular in the planting bases, followed by Methylovirgula and Mesorhizobium. Mesorhizobium was the most popular in different tissues, followed by Beijerinckia, Xanthobacter, and Burkholderia. Among the genera, 39 were completely overlapped with the results based on the 16S rRNA gene. In conclusion, abundant bacteria and diazotrophs were identified in common in different tissues of D. catenatum from five planting bases, which might play a great role in the supply of nutrients such as nitrogen. The exact abundance of phylum and genus on the different tissues from different planting bases need deeper sequencing with more samples.
作为一种附生兰花，铁皮石斛依赖微生物获取必需营养。基于16S rRNA和nifH基因的宏基因组焦磷酸测序用于表征从中国5个地区采集的铁皮石斛相关的细菌和固氮菌群落。基于Meta-16S rRNA测序，鉴定出22个细菌门和699个属，所有种植基地和所有组织分别共有来自8个门的125个属和来自10个门的319个属。优势变形菌门在71.81%（GZ）至96.08%（YN）之间变化，戴尔福特菌属（10.39 - 38.42%）、伯克霍尔德菌属（2.71 - 15.98%）、埃希氏菌属/志贺氏菌属（4.90 - 25.12%）、假单胞菌属（2.68 - 30.72%）和鞘氨醇单胞菌属（1.83 - 2.05%）在四个种植基地中占主导地位。假单胞菌属（17.94 - 22.06%）、埃希氏菌属/志贺氏菌属（6.59 - 11.59%）、戴尔福特菌属（9.65 - 22.14%）和伯克霍尔德菌属（3.12 - 11.05%）在所有组织中占主导地位。根据Meta-nifH测序，鉴定出4个门和45个属，所有种植基地和所有组织分别共有来自4个门的17个属和24个属。伯克霍尔德菌属和慢生根瘤菌属在种植基地中最常见，其次是甲基弯曲菌属和中生根瘤菌属。中生根瘤菌属在不同组织中最常见，其次是拜耶林克氏菌属、黄色杆菌属和伯克霍尔德菌属。在这些属中，有39个与基于16S rRNA基因的结果完全重叠。总之，在来自五个种植基地的铁皮石斛不同组织中共同鉴定出了丰富的细菌和固氮菌，它们可能在氮等营养物质的供应中发挥重要作用。不同种植基地不同组织上确切的门和属的丰度需要用更多样本进行更深入的测序。
