Diversity of the midstream urine microbiome in adults with chronic kidney disease
International Urology and Nephrology Apr 18, 2018
Kramer H, et al. - The characteristics of the midstream urine microbiome were investigated in adults with stage 3–5 non-dialysis-dependent chronic kidney disease (CKD). The midstream voided urine microbiome is diverse among the older adults with stage 3–5 non-dialysis-dependent CKD. Greater microbiome diversity was observed in association with higher estimated glomerular filtration rate [eGFR].
Methods
- From outpatient nephrology clinics, researchers recruited patients with non-dialysis-dependent CKD (estimated glomerular filtration rate [eGFR] < 60 ml/min/1.73 m2) and diuretic use.
- Using the clean-catch method, they collected midstream voided urine specimens.
- Determination of the bacterial composition was performed via sequencing the hypervariable (V4) region of the bacterial 16S ribosomal RNA gene.
- Inclusion of extraction negative controls (no urine) was performed to assess the contribution of extraneous DNA from possible sources of contamination.
- With the inverse Simpson, Chao and Shannon indices, they determined midstream urine microbiome diversity.
- Further examination of the diversity measures was performed via demographic characteristics and via comorbidities.
Results
- The cohort included 41 women and 36 men with detectable bacterial DNA in their urine samples [mean age was 71.5 years (standard deviation [SD] 7.9 years) (range 60–91 years)].
- White (68.0%) comprised the majority of the cohort; a substantial minority of the cohort consisted of African-American (29.3%).
- Findings revealed the mean eGFR of 27.2 (SD 13.6) ml/min/1.73 m2.
- Circumcision was noted in most men (72.2%) and 16.6% reported a remote history of prostate cancer.
- In this study, many midstream voided urine specimens were dominated (> 50% reads) by the genera Corynebacterium (n = 11), Staphylococcus (n = 9), Streptococcus (n = 7), Lactobacillus (n = 7), Gardnerella (n = 7), Prevotella (n = 4), Escherichia_Shigella (n = 3), and Enterobacteriaceae (n = 2); the rest lacked a dominant genus.
- High levels of diversity was noted in the samples, as measured by the inverse Simpson [7.24 (95% CI 6.76, 7.81)], Chao [558.24 (95% CI 381.70, 879.35)], and Shannon indices [2.60 (95% CI 2.51, 2.69)].
- In participants with urgency urinary incontinence and higher estimated glomerular filtration rate (eGFR), higher diversity measures were generally noted.
- Microbiome diversity was significantly associated with estimated eGFR after controlling for demographics and diabetes status(P < 0.05).
Only Doctors with an M3 India account can read this article. Sign up for free or login with your existing account.
4 reasons why Doctors love M3 India
-
Exclusive Write-ups & Webinars by KOLs
-
Daily Quiz by specialty
-
Paid Market Research Surveys
-
Case discussions, News & Journals' summaries