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Characterization of the urogenital microbiome in patients with urinary tract infections

Indonesian Journal of Biotechnology · Vol. 27 No. 3 (2022) · hlm. 142–150

DOI
10.22146/ijbiotech.69212
ISSN
2089-2241, 0853-8654
Terbit
2022-09-30
Penerbit
Universitas Gadjah Mada
Bahasa
eng
Lisensi
creativecommons.org/licenses/by-sa/4.0

Abstrak

Standard microbiological culture techniques can only identify a fraction of the urogenital microbiome. Meanwhile, identifying and characterizing infectious microorganisms are very important for the success of diagnosis and treatments, especially for Urinary Tract Infection (UTI) patients. This study aimed to characterize the urogenital microbiome of UTI patients using 16S rRNA gene sequencing. We sequenced two pooled DNA samples from voided urine of UTI patients (21 females and 13 males). To determine the structure and composition of taxa in the samples, 16S rRNA gene sequencing was performed using the Illumina Mi‐Seq paired‐end platform. The most abundant genera were Burkholderia‐Caballeronia‐Paraburkholderia (71%) followed by Prevotella (33%), Escherichia‐Shigella (24%), Klebsiella (23%) and Sneathia (10%). The female microbiome was dominated by Prevotella bivia (28%), Escherichia coli (24%), Sneathia sanguinegens (7%) and Klebsiella pneumoniae (4%). On the other hand, the male microbiome was dominated by K. pneumoniae (23%) and E. coli (2%). K. pneumoniae and E. coli were the most abundant species found in both microbiomes. The 16S rRNA gene sequencing used in this study successfully uncovered the composition of the urogenital microbiome, which might not have been possible with conventional culture methods.

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  • University of Palangka Raya
  • Universitas Gadjah Mada
  • State University of Jakarta
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Rekan penulisOrganisasiArtikel bersama
Purnomo PurnomoAfiliasi tidak diketahui5
Arif muazamAfiliasi tidak diketahui2
Setyorini WidyayantiAfiliasi tidak diketahui2
Adib Fakhruddin YusufAfiliasi tidak diketahui2
Wahyu WilopoAfiliasi tidak diketahui2
Adventus PandaUniversity of Palangka Raya2
Dwi PriyowidodoAfiliasi tidak diketahui2
Tjut Sugandawaty DjohanAfiliasi tidak diketahui2
Ganies Riza AristyaAfiliasi tidak diketahui2
Tuty ArisuryantiAfiliasi tidak diketahui2
Laurentius Hartanto NugrohoAfiliasi tidak diketahui2
KEIKO T. NATSUAKIAfiliasi tidak diketahui2
Eko Agus SuyonoAfiliasi tidak diketahui2
sukirno sukirnoAfiliasi tidak diketahui2
Yekti Asih PurwestriAfiliasi tidak diketahui2
Suharyanto SuharyantoUniversitas Gadjah Mada1
Uni Baroroh HusnudinAfiliasi tidak diketahui1
Rizal Hermawan SetiyobudiAfiliasi tidak diketahui1
Lies Mira YusiatiAfiliasi tidak diketahui1
Widodo WidodoState University of Jakarta1
Asih KurniawatiAfiliasi tidak diketahui1
Ketut Arte WidaneAfiliasi tidak diketahui1
Annisaa WidyasariAfiliasi tidak diketahui1
Bernardinus PratamaAfiliasi tidak diketahui1
Ari MeididitAfiliasi tidak diketahui1
Okta SimonAfiliasi tidak diketahui1
Karmilah KarmilahAfiliasi tidak diketahui1
Vida Rahma LatifahAfiliasi tidak diketahui1
Vivi Indah NurcahyatiAfiliasi tidak diketahui1
Anggun Diyan NurhasanahAfiliasi tidak diketahui1
Adristi Shafa WidyasariAfiliasi tidak diketahui1
Ananto Puradi NainggolanAfiliasi tidak diketahui1
Aldy Riau Wansyah HasibuanAfiliasi tidak diketahui1
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Rindu AurantikaAfiliasi tidak diketahui1

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Sumber metadata: OAI-PMH (metadata jurnal) https://jurnal.ugm.ac.id/ijbiotech/oai, pertama di-harvest 8 Nov 2026, terakhir terlihat 8 Nov 2026.
Metadata asli (oai_dc) 
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	<dc:title xml:lang="en-US">Characterization of the urogenital microbiome in patients with urinary tract infections</dc:title>
	<dc:creator>Nadifah, Fitri</dc:creator>
	<dc:creator>Artama, Wayan Tunas</dc:creator>
	<dc:creator>Daryono, Budi Setiadi</dc:creator>
	<dc:creator>Retnaningrum, Endah</dc:creator>
	<dc:subject xml:lang="en-US">urogenital microbiome; UTIs; 16S rRNA sequencing; bacteria</dc:subject>
	<dc:description xml:lang="en-US">Standard microbiological culture techniques can only identify a fraction of the urogenital microbiome. Meanwhile, identifying and characterizing infectious microorganisms are very important for the success of diagnosis and treatments, especially for Urinary Tract Infection (UTI) patients. This study aimed to characterize the urogenital microbiome of UTI patients using 16S rRNA gene sequencing. We sequenced two pooled DNA samples from voided urine of UTI patients (21 females and 13 males). To determine the structure and composition of taxa in the samples, 16S rRNA gene sequencing was performed using the Illumina Mi‐Seq paired‐end platform. The most abundant genera were Burkholderia‐Caballeronia‐Paraburkholderia (71%) followed by Prevotella (33%), Escherichia‐Shigella (24%), Klebsiella (23%) and Sneathia (10%). The female microbiome was dominated by Prevotella bivia (28%), Escherichia coli (24%), Sneathia sanguinegens (7%) and Klebsiella pneumoniae (4%). On the other hand, the male microbiome was dominated by K. pneumoniae (23%) and E. coli (2%). K. pneumoniae and E. coli were the most abundant species found in both microbiomes. The 16S rRNA gene sequencing used in this study successfully uncovered the composition of the urogenital microbiome, which might not have been possible with conventional culture methods.</dc:description>
	<dc:publisher xml:lang="en-US">Universitas Gadjah Mada</dc:publisher>
	<dc:contributor xml:lang="en-US"></dc:contributor>
	<dc:date>2022-09-30</dc:date>
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	<dc:identifier>https://journal.ugm.ac.id/ijbiotech/article/view/69212</dc:identifier>
	<dc:identifier>10.22146/ijbiotech.69212</dc:identifier>
	<dc:source xml:lang="en-US">Indonesian Journal of Biotechnology; Vol 27, No 3 (2022); 142-150</dc:source>
	<dc:source>2089-2241</dc:source>
	<dc:source>0853-8654</dc:source>
	<dc:language>eng</dc:language>
	<dc:relation>https://journal.ugm.ac.id/ijbiotech/article/view/69212/34774</dc:relation>
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	<dc:relation>https://journal.ugm.ac.id/ijbiotech/article/downloadSuppFile/69212/18408</dc:relation>
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	<dc:relation>https://journal.ugm.ac.id/ijbiotech/article/downloadSuppFile/69212/18410</dc:relation>
	<dc:rights xml:lang="en-US">Copyright (c) 2022 The Author(s)</dc:rights>
	<dc:rights xml:lang="en-US">http://creativecommons.org/licenses/by-sa/4.0</dc:rights>
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