Skip Navigation
Skip to contents

Journal of Microbiology : Journal of Microbiology

OPEN ACCESS
SEARCH
Search

Articles

Page Path
HOME > J. Microbiol > Volume 52(5); 2014 > Article
Research Support, Non-U.S. Gov't
Variations in 16S rRNA-based Microbiome Profiling between Pyrosequencing Runs and between Pyrosequencing Facilities
Minseok Kim , Zhongtang Yu
Journal of Microbiology 2014;52(5):355-365.
DOI: https://doi.org/10.1007/s12275-014-3443-3
Published online: April 11, 2014
Department of Animal Sciences, The Ohio State University, Columbus, OH, USADepartment of Animal Sciences, The Ohio State University, Columbus, OH, USA
Corresponding author:  Zhongtang Yu , Tel: +1-614-292-3057, 
Received: 21 August 2013   • Revised: 15 November 2013   • Accepted: 25 November 2013
next
  • 61 Views
  • 0 Download
  • 32 Crossref
  • 32 Scopus

Citations

Citations to this article as recorded by  Crossref logo
  • Analysis of Alterations in Intestinal Flora in Chinese Elderly with Cardiovascular Disease and Its Association with Trimethylamine
    Yannan He, Song Chen, Yuling Xue, Han Lu, Ziteng Li, Xianxian Jia, Yibing Ning, Qingbin Yuan, Shijie Wang
    Nutrients.2024; 16(12): 1864.     CrossRef
  • The association between the respiratory tract microbiome and clinical outcomes in patients with COPD
    Suyun Yu, Huiping Zhang, Liping Wan, Min Xue, Yunfeng Zhang, Xiwen Gao
    Microbiological Research.2023; 266: 127244.     CrossRef
  • SVep1, a temperate phage of human oral commensal Streptococcus vestibularis
    Miaomiao Wu, Yanpeng Zhu, Yuhui Yang, Yali Gong, Zongyue Chen, Binyou Liao, Yu Xiong, Xia Zhou, Yan Li
    Frontiers in Microbiology.2023;[Epub]     CrossRef
  • Influence of dietary organic trace minerals on enteric methane emissions and rumen microbiota of heat-stressed dairy steers
    A-Rang Son, Mahfuzul Islam, Seon-Ho Kim, Sung-Sill Lee, Sang-Suk Lee
    Journal of Animal Science and Technology.2023; 65(1): 132.     CrossRef
  • Gut microbiota is a potential goalkeeper of dyslipidemia
    Lirong Lei, Ning Zhao, Lei Zhang, Jiamei Chen, Xiaomin Liu, Shenghua Piao
    Frontiers in Endocrinology.2022;[Epub]     CrossRef
  • Analyzing the Complicated Connection Between Intestinal Microbiota and Cardiovascular Diseases
    Tanishq Kumar, Rajoshee R Dutta, Vivek R Velagala, Benumadhab Ghosh, Abhay Mudey
    Cureus.2022;[Epub]     CrossRef
  • Seasonal Influence on Rumen Microbiota, Rumen Fermentation, and Enteric Methane Emissions of Holstein and Jersey Steers under the Same Total Mixed Ration
    Mahfuzul Islam, Seon-Ho Kim, A-Rang Son, Sonny C. Ramos, Chang-Dae Jeong, Zhongtang Yu, Seung Ha Kang, Yong-Il Cho, Sung-Sill Lee, Kwang-Keun Cho, Sang-Suk Lee
    Animals.2021; 11(4): 1184.     CrossRef
  • Active Rumen Bacterial and Protozoal Communities Revealed by RNA-Based Amplicon Sequencing on Dairy Cows Fed Different Diets at Three Physiological Stages
    Lucia Bailoni, Lisa Carraro, Marco Cardin, Barbara Cardazzo
    Microorganisms.2021; 9(4): 754.     CrossRef
  • Holstein and Jersey Steers Differ in Rumen Microbiota and Enteric Methane Emissions Even Fed the Same Total Mixed Ration
    Mahfuzul Islam, Seon-Ho Kim, Sonny C. Ramos, Lovelia L. Mamuad, A-Rang Son, Zhongtang Yu, Sung-Sil Lee, Yong-Il Cho, Sang-Suk Lee
    Frontiers in Microbiology.2021;[Epub]     CrossRef
  • Ruminal resistome of dairy cattle is individualized and the resistotypes are associated with milking traits
    Ming-Yuan Xue, Yun-Yi Xie, Yi-Fan Zhong, Jian-Xin Liu, Le Luo Guan, Hui-Zeng Sun
    Animal Microbiome.2021;[Epub]     CrossRef
  • Host genetics influence the rumen microbiota and heritable rumen microbial features associate with feed efficiency in cattle
    Fuyong Li, Changxi Li, Yanhong Chen, Junhong Liu, Chunyan Zhang, Barry Irving, Carolyn Fitzsimmons, Graham Plastow, Le Luo Guan
    Microbiome.2019;[Epub]     CrossRef
  • Invited review: Application of meta-omics to understand the dynamic nature of the rumen microbiome and how it responds to diet in ruminants
    R.J. Gruninger, G.O. Ribeiro, A. Cameron, T.A. McAllister
    Animal.2019; 13(9): 1843.     CrossRef
  • Testing culture purity in prokaryotes: criteria and challenges
    Alexander V. Pinevich, Eugeny E. Andronov, Elizaveta V. Pershina, Agnia A. Pinevich, Helena Y. Dmitrieva
    Antonie van Leeuwenhoek.2018; 111(9): 1509.     CrossRef
  • Rumen microbiome in dairy calves fed copper and grape-pomace dietary supplementations: Composition and predicted functional profile
    Filippo Biscarini, Fiorentina Palazzo, Federica Castellani, Giulia Masetti, Lisa Grotta, Angelo Cichelli, Giuseppe Martino, Juan J Loor
    PLOS ONE.2018; 13(11): e0205670.     CrossRef
  • Ruminal methane emissions, metabolic, and microbial profile of Holstein steers fed forage and concentrate, separately or as a total mixed ration
    Rajaraman Bharanidharan, Selvaraj Arokiyaraj, Eun Bae Kim, Chang Hyun Lee, Yang Won Woo, Youngjun Na, Danil Kim, Kyoung Hoon Kim, Alex V. Chaves
    PLOS ONE.2018; 13(8): e0202446.     CrossRef
  • Investigation of the core microbiome in main soil types from the East European plain
    Elizaveta V. Pershina, Ekaterina A. Ivanova, Ilia O. Korvigo, Evgeny L. Chirak, Nurlan H. Sergaliev, Evgeny V. Abakumov, Nikolai A. Provorov, Evgeny E. Andronov
    Science of The Total Environment.2018; 631-632: 1421.     CrossRef
  • Does intra-ruminal nitrogen recycling waste valuable resources? A review of major players and their manipulation
    Thomas Hartinger, Nina Gresner, Karl-Heinz Südekum
    Journal of Animal Science and Biotechnology.2018;[Epub]     CrossRef
  • Assessment of Rumen Microbiota from a Large Dairy Cattle Cohort Reveals the Pan and Core Bacteriomes Contributing to Varied Phenotypes
    Mingyuan Xue, Huizeng Sun, Xuehui Wu, Le Luo Guan, Jianxin Liu, Hideaki Nojiri
    Applied and Environmental Microbiology.2018;[Epub]     CrossRef
  • Metatranscriptomic Profiling Reveals Linkages between the Active Rumen Microbiome and Feed Efficiency in Beef Cattle
    Fuyong Li, Le Luo Guan, Andrew J. McBain
    Applied and Environmental Microbiology.2017;[Epub]     CrossRef
  • Impact of micro‐environmental changes on respiratory tract infections with intracellular bacteria
    Kensuke Shima, Jonas Coopmeiners, Simon Graspeuntner, Klaus Dalhoff, Jan Rupp
    FEBS Letters.2016; 590(21): 3887.     CrossRef
  • Diversity at low abundance: The phenomenon of the rare bacterial biosphere
    M. Yu. Skopina, A. A. Vasileva, E. V. Pershina, A. V. Pinevich
    Microbiology.2016; 85(3): 272.     CrossRef
  • Intestinal Microbiota of Broiler Chickens As Affected by Litter Management Regimens
    Lingling Wang, Mike Lilburn, Zhongtang Yu
    Frontiers in Microbiology.2016;[Epub]     CrossRef
  • Taxonomic Assessment of Rumen Microbiota Using Total RNA and Targeted Amplicon Sequencing Approaches
    Fuyong Li, Gemma Henderson, Xu Sun, Faith Cox, Peter H. Janssen, Le Luo Guan
    Frontiers in Microbiology.2016;[Epub]     CrossRef
  • The Bacteriomes of Ileal Mucosa and Cecal Content of Broiler Chickens and Turkeys as Revealed by Metagenomic Analysis
    Shan Wei, Michael Lilburn, Zhongtang Yu
    International Journal of Microbiology.2016; 2016: 1.     CrossRef
  • Effects of Specimen Collection Methodologies and Storage Conditions on the Short-Term Stability of Oral Microbiome Taxonomy
    Ting Luo, Usha Srinivasan, Kirtana Ramadugu, Kerby A. Shedden, Katherine Neiswanger, Erika Trumble, Jiean J. Li, Daniel W. McNeil, Richard J. Crout, Robert J. Weyant, Mary L. Marazita, Betsy Foxman, S.-J. Liu
    Applied and Environmental Microbiology.2016; 82(18): 5519.     CrossRef
  • The Characterization of Novel Tissue Microbiota Using an Optimized 16S Metagenomic Sequencing Pipeline
    Jérôme Lluch, Florence Servant, Sandrine Païssé, Carine Valle, Sophie Valière, Claire Kuchly, Gaëlle Vilchez, Cécile Donnadieu, Michael Courtney, Rémy Burcelin, Jacques Amar, Olivier Bouchez, Benjamin Lelouvier, Markus M. Heimesaat
    PLOS ONE.2015; 10(11): e0142334.     CrossRef
  • RUMINANT NUTRITION SYMPOSIUM: Use of genomics and transcriptomics to identify strategies to lower ruminal methanogenesis1,2,3
    T. A. McAllister, S. J. Meale, E. Valle, L. L. Guan, M. Zhou, W. J. Kelly, G. Henderson, G. T. Attwood, P. H. Janssen
    Journal of Animal Science.2015; 93(4): 1431.     CrossRef
  • Library preparation methodology can influence genomic and functional predictions in human microbiome research
    Marcus B. Jones, Sarah K. Highlander, Ericka L. Anderson, Weizhong Li, Mark Dayrit, Niels Klitgord, Martin M. Fabani, Victor Seguritan, Jessica Green, David T. Pride, Shibu Yooseph, William Biggs, Karen E. Nelson, J. Craig Venter
    Proceedings of the National Academy of Sciences.2015; 112(45): 14024.     CrossRef
  • Role of the normal gut microbiota
    Sai Manasa Jandhyala
    World Journal of Gastroenterology.2015; 21(29): 8787.     CrossRef
  • RUMINANT NUTRITION SYMPOSIUM: How to use data on the rumen microbiome to improve our understanding of ruminant nutrition1,2
    J. L. Firkins, Z. Yu
    Journal of Animal Science.2015; 93(4): 1450.     CrossRef
  • Effect of Haylage and Monensin Supplementation on Ruminal Bacterial Communities of Feedlot Cattle
    Minseok Kim, Tara L. Felix, Steve C. Loerch, Zhongtang Yu
    Current Microbiology.2014; 69(2): 169.     CrossRef
  • Development of a phylogenetic microarray for comprehensive analysis of ruminal bacterial communities
    M. Kim, L. Wang, M. Morrison, Z. Yu
    Journal of Applied Microbiology.2014; 117(4): 949.     CrossRef
  • Cite this Article
    Cite this Article
    export Copy Download
    Close
    Download Citation
    Download a citation file in RIS format that can be imported by all major citation management software, including EndNote, ProCite, RefWorks, and Reference Manager.

    Format:
    • RIS — For EndNote, ProCite, RefWorks, and most other reference management software
    • BibTeX — For JabRef, BibDesk, and other BibTeX-specific software
    Include:
    • Citation for the content below
    Variations in 16S rRNA-based Microbiome Profiling between Pyrosequencing Runs and between Pyrosequencing Facilities
    J. Microbiol. 2014;52(5):355-365.   Published online April 11, 2014
    Close
Related articles

Journal of Microbiology : Journal of Microbiology
TOP