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. 2024 Mar 19;3(2):e182.
doi: 10.1002/imt2.182. eCollection 2024 Apr.

The Microbiome Protocols eBook initiative: Building a bridge to microbiome research

Yunyun Gao  1 , Kai Peng  2 , Defeng Bai  1 , Xiao-Ye Bai  3 , Yujing Bi  4 , Anqi Chen  5 , Baodong Chen  6 , Feng Chen  7 , Juan Chen  8 , Lei Chen  9 , Tong Chen  10 , Wei Chen  11 , Xu Cheng  1 , Yanfen Cheng  12 , Jie Cui  13 , Jingjing Dai  14 , Junbiao Dai  1 , Zhaolai Dai  15 , Ye Deng  6 , Yi-Zhen Deng  16 , Wei Ding  17 , Zhencheng Fang  18 , Wei Fu  6 , Hanbing Gao  19 , Shaohua Gu  20 , Xue Guo  6 , Xuguang Guo  21 , Dongfei Han  22 , Lele He  23 , Yatao He  24 , Hui-Yu Hou  1 , Baolei Jia  25 , Gengjie Jia  1 , Shuo Jiao  26 , Wei Jin  12 , Feng Ju  27 , Zhicheng Ju  28 , Siyuan Kong  1 , Canhui Lan  29   30 , Bing Li  31 , Da Li  32 , Diyan Li  33 , Jingdi Li  34 , Meng Li  35 , Qi Li  36 , Qiang Li  37 , Wen-Jun Li  38 , Xiaofang Li  39 , Xuemeng Li  40 , Yahui Li  1 , You-Gui Li  41 , Zhibin Liang  42 , Ning Ling  43 , Fufeng Liu  44 , Qing Liu  32 , Shuang-Jiang Liu  32 , Hongye Lu  45 , Qi Lu  46 , Guangwen Luo  1 , Hao Luo  1 , Yuheng Luo  47 , Hujie Lyu  48 , Chuang Ma  49 , Liyuan Ma  50 , Tengfei Ma  43 , Jinfeng Ni  51 , Ziqin Pang  52 , Xiaojing Qiang  53 , Yuan Qin  54 , Qingyue Qu  55 , Chao Ran  56 , Shuqiang Ren  1 , Haitao Shang  57 , Luyang Song  58 , Linyang Sun  59 , Weimin Sun  60 , Liping Tang  55 , Jian Tian  61 , Kai Wang  62 , Mengzhi Wang  63 , Ming-Ke Wang  64 , Tao Wang  33 , Xiao-Yan Wang  65 , Yao Wang  1 , Yiwen Wang  1 , Youshan Wang  66 , Hailei Wei  67 , Hong Wei  68 , Zhong Wei  12 , Tao Wen  12 , Jiqiu Wu  69 , Linhuan Wu  70 , Linkun Wu  71 , Jiao Xi  72 , Bo Xie  73 , Guofang Xu  74 , Jun Xu  75 , Shanshan Xu  76 , Qing Xue  12 , Liping Yan  77 , Haifei Yang  78 , Jun Yang  79 , Junbo Yang  1 , Ruifu Yang  4 , Yalin Yang  56 , Ying-Jie Yang  80 , Xiaofang Yao  81 , Yanpo Yao  82 , Salsabeel Yousuf  1 , Ke Yu  83 , Zhengrong Yuan  77 , Zhilin Yuan  84 , Dong Zhang  77 , Tianyuan Zhang  1   85 , Weipeng Zhang  17 , Yunzeng Zhang  63 , Zhaonan Zhang  86 , Zhen Zhang  56 , Zhi-Feng Zhang  87 , Shengguo Zhao  61 , Wei Zhao  88 , Maosheng Zheng  89 , Ziqiang Zheng  90 , Xin Zhou  32 , Yuanping Zhou  40 , Zhigang Zhou  56 , Mo Zhu  91 , Yong-Guan Zhu  92 , Haiyan Chu  93 , Yang Bai  94 , Yong-Xin Liu  1
Affiliations

The Microbiome Protocols eBook initiative: Building a bridge to microbiome research

Yunyun Gao et al. Imeta. .

Abstract

The Microbiome Protocols eBook (MPB) serves as a crucial bridge, filling gaps in microbiome protocols for both wet experiments and data analysis. The first edition, launched in 2020, featured 152 meticulously curated protocols, garnering widespread acclaim. We now extend a sincere invitation to researchers to participate in the upcoming 2nd version of MPB, contributing their valuable protocols to advance microbiome research.

PubMed Disclaimer

Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Microbiome Protocols eBook (MPB)—Building a bridge to microbiome research. The establishment and optimization of a variety of microbiome protocols make it possible to study the microbiome of humans, animals, plants, and the environment. (A) Sequencing technology, wet‐lab experiments, and data analysis methods link the microbiome with its host or environment. (B) The publication views and downloads of each protocol published in MPB, until 19th January 2024. (C) The 12 most popular publications in MPB. (D) The 10 key recruitment focuses for the 2nd edition of the MPB. Vector for the 3rd generation culturome is modified from Zhang et al. [9]. AMF, arbuscular mycorrhizal fungi; DNCI, dispersal‐niche continuum index; FMT, fecal microbiota transplantation; QC, quality control; SEM, structure equation modeling.
See this image and copyright information in PMC

References

    1. Berg, Gabriele , Rybakova Daria, Fischer Doreen, Cernava Tomislav, Vergès Marie‐Christine Champomier, Charles Trevor, Chen Xiaoyulong, et al. 2020. “Microbiome Definition Re‐Visited: Old Concepts and New Challenges.” Microbiome 8: 103. 10.1186/s40168-020-00875-0 - DOI - PMC - PubMed
    1. Almeida, Alexandre , Nayfach Stephen, Boland Miguel, Strozzi Francesco, Beracochea Martin, Shi Zhou Jason, Pollard Katherine S., et al. 2020. “A Unified Catalog of 204,938 Reference Genomes From the Human Gut Microbiome.” Nature Biotechnology 39: 105–114. 10.1038/s41587-020-0603-3 - DOI - PMC - PubMed
    1. Chen, Congying , Zhou Yunyan, Fu Hao, Xiong Xinwei, Fang Shaoming, Jiang Hui, Wu Jinyuan, et al. 2021. “Expanded Catalog of Microbial Genes and Metagenome‐Assembled Genomes From the Pig Gut Microbiome.” Nature Communications 12: 1106. 10.1038/s41467-021-21295-0 - DOI - PMC - PubMed
    1. Liu, Yong‐Xin , Qin Yuan, and Bai Yang. 2019. “Reductionist Synthetic Community Approaches in Root Microbiome Research.” Current Opinion in Microbiology 49: 97–102. 10.1016/j.mib.2019.10.010 - DOI - PubMed
    1. Nayfach, Stephen , Roux Simon, Seshadri Rekha, Udwary Daniel, Varghese Neha, Schulz Frederik, Wu Dongying, et al. 2021. “A Genomic Catalog of Earth's Microbiomes.” Nature Biotechnology 39: 499–509. 10.1038/s41587-020-0718-6 - DOI - PMC - PubMed