What human sperm RNA-Seq tells us about the microbiome

被引:17
作者
Swanson, Grace M. [1 ]
Moskovtsev, Sergey [2 ]
Librach, Clifford [2 ]
Pilsner, J. Richard [3 ]
Goodrich, Robert [1 ]
Krawetz, Stephen A. [1 ]
机构
[1] Wayne State Univ, Ctr Mol Med & Genet, Dept Obstet & Gynecol, Sch Med, 275 E Hancock, Detroit, MI 48202 USA
[2] CReATe Fertil Ctr Res Program, Toronto, ON, Canada
[3] Univ Massachusetts, Dept Environm Hlth Sci, Amherst Sch Publ Hlth & Hlth Sci, Amherst, MA 01003 USA
关键词
Human sperm RNA-seq; Microbiome; Bacterial identification; Microbial RNA; SEMEN; IMPACT; IDENTIFICATION; CONTAMINATION; COLONIZATION; PARAMETERS; HEALTH; DNA;
D O I
10.1007/s10815-019-01672-x
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
Purpose The study was designed to assess the capacity of human sperm RNA-seq data to gauge the diversity of the associated microbiome within the ejaculate. Methods Semen samples were collected, and semen parameters evaluated at time of collection. Sperm RNA was isolated and subjected to RNA-seq. Microbial composition was determined by aligning sequencing reads not mapped to the human genome to the NCBI RefSeq bacterial, viral and archaeal genomes following RNA-Seq. Analysis of microbial assignments utilized phyloseq and vegan. Results Microbial composition within each sample was characterized as a function of microbial associated RNAs. Bacteria known to be associated with the male reproductive tract were present at similar levels in all samples representing 11 genera from four phyla with one exception, an outlier. Shannon diversity index (p < 0.001) and beta diversity (unweighted UniFrac distances, p = 9.99e-4; beta dispersion, p = 0.006) indicated the outlier was significantly different from all other samples. The outlier sample exhibited a dramatic increase in Streptococcus. Multiple testing indicated two operational taxonomic units, S. agalactiae and S. dysgalactiae (p = 0.009), were present. Conclusion These results provide a first look at the microbiome as a component of human sperm RNA sequencing that has sufficient sensitivity to identify contamination or potential pathogenic bacterial colonization at least among the known contributors.
引用
收藏
页码:359 / 368
页数:10
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