The metagenome of the female upper reproductive tract
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The metagenome of the female upper reproductive tract. / Li, Fei; Chen, Chen; Wei, Weixia; Wang, Zirong; Dai, Juanjuan; Hao, Lilan; Song, Liju; Zhang, Xiaowei; Zeng, Liping; Du, Hui; Tang, Huiru; Liu, Na; Yang, Huanming; Wang, Jian; Madsen, Lise; Brix, Susanne; Kristiansen, Karsten; Xu, Xun; Li, Junhua; Wu, Ruifang; Jia, Huijue.
In: GigaScience, Vol. 7, No. 10, giy107, 2018, p. 1-8.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - The metagenome of the female upper reproductive tract
AU - Li, Fei
AU - Chen, Chen
AU - Wei, Weixia
AU - Wang, Zirong
AU - Dai, Juanjuan
AU - Hao, Lilan
AU - Song, Liju
AU - Zhang, Xiaowei
AU - Zeng, Liping
AU - Du, Hui
AU - Tang, Huiru
AU - Liu, Na
AU - Yang, Huanming
AU - Wang, Jian
AU - Madsen, Lise
AU - Brix, Susanne
AU - Kristiansen, Karsten
AU - Xu, Xun
AU - Li, Junhua
AU - Wu, Ruifang
AU - Jia, Huijue
PY - 2018
Y1 - 2018
N2 - Background: The human uterus is traditionally believed to be sterile, while the vaginal microbiota plays an important role in fending off pathogens. Emerging evidence demonstrates the presence of bacteria beyond the vagina. However, a microbiome-wide metagenomic analysis characterizing the diverse microbial communities has been lacking.Results: We performed shotgun-sequencing of 52 samples from the cervical canal and the peritoneal fluid of Chinese women of reproductive age using the Illumina platform. Direct annotation of sequencing reads identified the taxonomy of bacteria, archaea, fungi and viruses, confirming and extending the results from our previous study. We replicated our previous findings in another 24 samples from the vagina, the cervical canal, the uterus and the peritoneal fluid using the BGISEQ-500 platform revealing that microorganisms in the samples from the same individuals were largely shared in the entire reproductive tract. Human sequences made up more than 99% of the 20GB raw data. After filtering, vaginal microorganisms were well covered in the generated reproductive tract gene catalogue, while the more diverse upper reproductive tract microbiota would require greater depth of sequencing and more samples to meet the full coverage scale.Conclusions: We provide novel detailed data on the microbial composition of a largely unchartered body site, the female reproductive tract. Our results indicated the presence of an intra-individual continuum of microorganisms that gradually changed from the vagina to the peritoneal fluid. This study also provides a framework for understanding the implications of the composition and functional potential of the distinct microbial ecosystems of the female reproductive tract in relation to health and disease.
AB - Background: The human uterus is traditionally believed to be sterile, while the vaginal microbiota plays an important role in fending off pathogens. Emerging evidence demonstrates the presence of bacteria beyond the vagina. However, a microbiome-wide metagenomic analysis characterizing the diverse microbial communities has been lacking.Results: We performed shotgun-sequencing of 52 samples from the cervical canal and the peritoneal fluid of Chinese women of reproductive age using the Illumina platform. Direct annotation of sequencing reads identified the taxonomy of bacteria, archaea, fungi and viruses, confirming and extending the results from our previous study. We replicated our previous findings in another 24 samples from the vagina, the cervical canal, the uterus and the peritoneal fluid using the BGISEQ-500 platform revealing that microorganisms in the samples from the same individuals were largely shared in the entire reproductive tract. Human sequences made up more than 99% of the 20GB raw data. After filtering, vaginal microorganisms were well covered in the generated reproductive tract gene catalogue, while the more diverse upper reproductive tract microbiota would require greater depth of sequencing and more samples to meet the full coverage scale.Conclusions: We provide novel detailed data on the microbial composition of a largely unchartered body site, the female reproductive tract. Our results indicated the presence of an intra-individual continuum of microorganisms that gradually changed from the vagina to the peritoneal fluid. This study also provides a framework for understanding the implications of the composition and functional potential of the distinct microbial ecosystems of the female reproductive tract in relation to health and disease.
U2 - 10.1093/gigascience/giy107
DO - 10.1093/gigascience/giy107
M3 - Journal article
C2 - 30192933
AN - SCOPUS:85054761818
VL - 7
SP - 1
EP - 8
JO - GigaScience
JF - GigaScience
SN - 2047-217X
IS - 10
M1 - giy107
ER -
ID: 211160471