Status of the Microbial Census

Author:

Schloss Patrick D.1,Handelsman Jo1

Affiliation:

1. Department of Plant Pathology, University of Wisconsin—Madison, Madison, Wisconsin

Abstract

SUMMARY Over the past 20 years, more than 78,000 16S rRNA gene sequences have been deposited in GenBank and the Ribosomal Database Project, making the 16S rRNA gene the most widely studied gene for reconstructing bacterial phylogeny. While there is a general appreciation that these sequences are largely unique and derived from diverse species of bacteria, there has not been a quantitative attempt to describe the extent of sequencing efforts to date. We constructed rarefaction curves for each bacterial phylum and for the entire bacterial domain to assess the current state of sampling and the relative taxonomic richness of each phylum. This analysis quantifies the general sense among microbiologists that we are a long way from a complete census of the bacteria on Earth. Moreover, the analysis indicates that current sampling strategies might not be the most effective ones to describe novel diversity because there remain numerous phyla that are globally distributed yet poorly sampled. Based on the current level of sampling, it is not possible to estimate the total number of bacterial species on Earth, but the minimum species richness is 35,498. Considering previous global species richness estimates of 10 7 to 10 9 , we are certain that this estimate will increase with additional sequencing efforts. The data support previous calls for extensive surveys of multiple chemically disparate environments and of specific phylogenetic groups to advance the census most rapidly.

Publisher

American Society for Microbiology

Subject

Molecular Biology,Microbiology,Infectious Diseases

Reference31 articles.

1. Phylogenetic identification and in situ detection of individual microbial cells without cultivation

2. Baker B. J. G. W. Tyson P. Hugenholtz and J. F. Banfield. 2004. Analysis of genomic shotgun sequence data from an acid mine drainage biofilm community reveals a novel Euryarchaeota . Abstr. 104th Gen. Meet. Am. Soc. Microbiol. 2004 poster 161.

3. Molecular phylogeny of Archaea from soil

4. Chao, A. 1984. Non-parametric estimation of the number of classes in a population. Scand. J. Stat.11:265-270.

5. Cole, J. R., B. Chai, T. L. Marsh, R. J. Farris, Q. Wang, S. A. Kulam, S. Chandra, D. M. McGarrell, T. M. Schmidt, G. M. Garrity, and J. M. Tiedje. 2003. The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res.31:442-443.

Cited by 435 articles. 订阅此论文施引文献 订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献

1. Techniques, procedures, and applications in microbiome analysis;Advances in Genetics;2024

2. DNA technology and meat microbiology testing;Encyclopedia of Meat Sciences;2024

3. Genome Editing for Biotic Stress Resistance in Medicinal Plants;Medicinal Plants: Microbial Interactions, Molecular Techniques and Therapeutic Trends;2023-12-19

4. Reducing Mass Confusion over the Microbiome;Analytical Chemistry;2023-11-07

5. Microbial and Plant-Based Compounds as Alternatives for the Control of Phytopathogenic Bacteria;Horticulturae;2023-10-12

同舟云学术

1.学者识别学者识别

2.学术分析学术分析

3.人才评估人才评估

"同舟云学术"是以全球学者为主线,采集、加工和组织学术论文而形成的新型学术文献查询和分析系统,可以对全球学者进行文献检索和人才价值评估。用户可以通过关注某些学科领域的顶尖人物而持续追踪该领域的学科进展和研究前沿。经过近期的数据扩容,当前同舟云学术共收录了国内外主流学术期刊6万余种,收集的期刊论文及会议论文总量共计约1.5亿篇,并以每天添加12000余篇中外论文的速度递增。我们也可以为用户提供个性化、定制化的学者数据。欢迎来电咨询!咨询电话:010-8811{复制后删除}0370

www.globalauthorid.com

TOP

Copyright © 2019-2024 北京同舟云网络信息技术有限公司
京公网安备11010802033243号  京ICP备18003416号-3