Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

Zheng Sun; Xudong Liu; Gongchao Jing; Yuzhu Chen; Shuaiming Jiang; Meng Zhang; Jiquan Liu; Jian Xu; Xiaoquan Su

doi:10.1016/j.jgg.2021.12.011

Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

doi: 10.1016/j.jgg.2021.12.011

1. Single-Cell Center, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Science, Qingdao, Shandong 266101, China;
2. College of Computer Science and Technology, Qingdao University, Qingdao, Shandong 266071, China;
3. Department of Endocrinology, Hainan General Hospital, School of Food Science and Engineering, Hainan University, Haikou, Hainan 570228, China;
4. Key Laboratory of Dairy Biotechnology and Engineering, Inner Mongolia Agricultural University, Huhehot, Inner Mongolia 010018, China;
5. Procter & Gamble Singapore Innovation Center 138589, Singapore;
6. Single-Cell Center, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Science, Qingdao, Shandong 266101, China;
7. College of Computer Science and Technology, Qingdao University, Qingdao, Shandong 266071, China

基金项目:

Gamble Singapore Innovation Center for the support in data arrangement.

D Program of China, grants 31771463 and 32070086 from the National Nature Science Foundation of China. J.X. acknowledges the support of P&

G-CAS Collaborative Research fund. We thank Xiaoqian Fan from Shouguang Hosptial of T.C.M for the artificial curation of disease information, and Tzehau Lam from Procter &

X.S. acknowledges the support of grant 2021YFF0704500 from National Key R&

详细信息

通讯作者:
Xiaoquan Su,E-mail:suxq@qdu.edu.cn

计量
- 文章访问数: 628
- HTML全文浏览量: 265
- PDF下载量: 185
- 被引次数: 0
出版历程
- 收稿日期: 2021-10-29
- 录用日期: 2021-12-20
- 修回日期: 2021-12-20
- 刊出日期: 2022-01-10

Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

1. Single-Cell Center, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Science, Qingdao, Shandong 266101, China;
2. College of Computer Science and Technology, Qingdao University, Qingdao, Shandong 266071, China;
3. Department of Endocrinology, Hainan General Hospital, School of Food Science and Engineering, Hainan University, Haikou, Hainan 570228, China;
4. Key Laboratory of Dairy Biotechnology and Engineering, Inner Mongolia Agricultural University, Huhehot, Inner Mongolia 010018, China;
5. Procter & Gamble Singapore Innovation Center 138589, Singapore;
6. Single-Cell Center, Qingdao Institute of BioEnergy and Bioprocess Technology, Chinese Academy of Science, Qingdao, Shandong 266101, China;
7. College of Computer Science and Technology, Qingdao University, Qingdao, Shandong 266071, China

Funds:

Gamble Singapore Innovation Center for the support in data arrangement.

D Program of China, grants 31771463 and 32070086 from the National Nature Science Foundation of China. J.X. acknowledges the support of P&

G-CAS Collaborative Research fund. We thank Xiaoqian Fan from Shouguang Hosptial of T.C.M for the artificial curation of disease information, and Tzehau Lam from Procter &

X.S. acknowledges the support of grant 2021YFF0704500 from National Key R&

摘要

HTML全文

参考文献(20)

Bielaszewska, M., Mellmann, A., Zhang, W., Kock, R., Fruth, A., Bauwens, A., Peters, G.,Karch, H., 2011. Characterisation of the escherichia coli strain associated with an outbreak of haemolytic uraemic syndrome in Germany, 2011:a microbiological study. Lancet Infect. Dis. 11, 671-676

Dunn, R.R., Fierer, N., Henley, J.B., Leff, J.W.,Menninger, H.L., 2013. Home life:factors structuring the bacterial diversity found within and between homes. PLoS One 8, e64133

Gao, Z., Tseng, C.-h., Pei, Z.,Blaser, M.J., 2007. Molecular analysis of human forearm superficial skin bacterial biota. Proc. Natl. Acad. Sci. U.S.A. 104, 2927-2932

Grice, E.A.,Segre, J.A., 2011. The skin microbiome. Nat. Rev. Microbiol. 9, 244-253

Huang, S., Li, R., Zeng, X., He, T., Zhao, H., Chang, A., Bo, C., Chen, J., Yang, F.,Knight, R., 2014. Predictive modeling of gingivitis severity and susceptibility via oral microbiota. ISME J. 8, 1768-1780

Jing, G., Liu, L., Wang, Z., Zhang, Y., Qian, L., Gao, C., Zhang, M., Li, M., Zhang, Z.,Liu, X., 2021a. Microbiome search engine 2:a platform for taxonomic and functional search of global microbiomes on the whole-microbiome level. mSystems 6, e00943-00920

Jing, G., Zhang, Y., Cui, W., Liu, L., Xu, J.,Su, X., 2021b. Meta-apo improves accuracy of 16s-amplicon-based prediction of microbiome function. BMC Genom. 22, 1-11

Jing, G., Zhang, Y., Liu, L., Wang, Z., Sun, Z., Knight, R., Su, X.,Xu, J., 2021c. A scale-free, fully connected global transition network underlies known microbiome diversity. mSystems 6, e00394-00321

Lax, S., Nagler, C.R.,Gilbert, J.A., 2015. Our interface with the built environment:immunity and the indoor microbiota. Trends Immunol. 36, 121-123

Lax, S., Sangwan, N., Smith, D., Larsen, P., Handley, K.M., Richardson, M., Guyton, K., Krezalek, M., Shogan, B.D.,Defazio, J., 2017. Bacterial colonization and succession in a newly opened hospital. Sci. Transl. Med. 9

Lax, S., Smith, D.P., Hampton-Marcell, J., Owens, S.M., Handley, K.M., Scott, N.M., Gibbons, S.M., Larsen, P., Shogan, B.D.,Weiss, S., 2014. Longitudinal analysis of microbial interaction between humans and the indoor environment. Science 345, 1048-1052

Miao, J., Han, N., Qiang, Y., Zhang, T., Li, X.,Zhang, W., 2017. 16spip:a comprehensive analysis pipeline for rapid pathogen detection in clinical samples based on 16s metagenomic sequencing. BMC Bioinf. 18, 255-259

Quast, C., Pruesse, E., Yilmaz, P., Gerken, J., Schweer, T., Yarza, P., Peplies, J.,Glockner, F.O., 2012. The silva ribosomal rna gene database project:improved data processing and web-based tools. Nucleic Acids Res. 41, D590-D596

Sawyer, C., Vishram, B., Jenkins, C., Jorgensen, F., Byrne, L., Mikhail, A., Dallman, T., Carroll, K., Ahyow, L., Vahora, Q., et al., 2021. Epidemiological investigation of recurrent outbreaks of haemolytic uraemic syndrome caused by shiga toxin-producing escherichia coli serotype o55:H7 in england, 2014-2018. Epidemiology 149

Su, X., 2021. Elucidating the beta-diversity of the microbiome:from global alignment to local alignment. mSystems 6, e00363-00321

Su, X., Wang, X., Jing, G.,Ning, K., 2014. Gpu-meta-storms:computing the structure similarities among massive amount of microbial community samples using gpu. Bioinformatics 30, 1031-1033

Sun, Z., Huang, S., Zhu, P., Yue, F., Zhao, H., Yang, M., Niu, Y., Jing, G., Su, X.,Li, H., 2019. A microbiome-based index for assessing skin health and treatment effects for atopic dermatitis in children. mSystems 4, e00293-00219

Teng, F., Yang, F., Huang, S., Bo, C., Xu, Z.Z., Amir, A., Knight, R., Ling, J.,Xu, J., 2015. Prediction of early childhood caries via spatial-temporal variations of oral microbiota. Cell Host Microbe 18, 296-306

Tringe, S.G., Zhang, T., Liu, X., Yu, Y., Lee, W.H., Yap, J., Yao, F., Suan, S.T., Ing, S.K.,Haynes, M., 2008. The airborne metagenome in an indoor urban environment. PLoS One 3, e1862

Zhao, N., Cao, J., Xu, J., Liu, B., Liu, B., Chen, D., Xia, B., Chen, L., Zhang, W., Zhang, Y., et al., 2021. Targeting rna with next- and third-generation sequencing improves pathogen identification in clinical samples. Adv. Sci. 8, 2102593

施引文献

资源附件(0)

访问统计

点击查看大图

计量

文章访问数: 628
HTML全文浏览量: 265
PDF下载量: 185
被引次数: 0

姓名
邮箱
手机号码
标题
留言内容
验证码

留言板

Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

doi: 10.1016/j.jgg.2021.12.011

通讯作者:
Xiaoquan Su,E-mail:suxq@qdu.edu.cn

计量

Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

计量

目录

留言板

Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

doi: 10.1016/j.jgg.2021.12.011

通讯作者: Xiaoquan Su,E-mail:suxq@qdu.edu.cn

计量

出版历程

Comprehensive understanding to the public health risk of environmental microbes via a microbiome-based index

计量

出版历程

目录

通讯作者:
Xiaoquan Su,E-mail:suxq@qdu.edu.cn