Contamination in Low Microbial Biomass Microbiome Studies: Issues and Recommendations

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   Nisreen DaifAllah AL-Hmoud, Mu’men Alrwashdeh, Farès Khoury, Amani Abdien, Ahmad Hayek, Ghadeer Alzghoul, Ahmad Islaieh, Cally E Erickson, Andrew W. Bartlow, Jennifer C. Owen et al. · 2025 · Integrative and Comparative Biology
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   María González-Rovira, José Antonio Sainz‐Bueno, Lutgardo García‐Díaz, Cristina Martínez-Pancorbo, Javier Sánchez, Gabriel Gutiérrez, Kristina Magoutas, A. Mesías-Pérez, Encarnación Mellado, Matthew S. Payne et al. · 2025 · medRxiv
6. Insights into the relationship between nasal bacterial composition and susceptibility to early-life respiratory disease: a pilot observational study
   Jose Antonio Caparros-Martin, Elizabeth Kicic‐Starcevich, Patricia Agudelo‐Romero, David G. Hancock, Thomas Iosifidis, Yuliya V. Karpievitch, David Martino, Guicheng Zhang, Desiree T Silva, Anthony Bosco et al. · 2025 · medRxiv
7. Current State of Metagenomics for Infectious Diseases Diagnosis
   LingHui David Su, Patrick Benoit, Evann E. Hilt, Catherine Anne Hogan · 2025 · Advances in Molecular Pathology
8. Evaluation of shotgun metagenomics as a diagnostic tool for infectious gastroenteritis
   Kjersti Haugum, Anuradha Ravi, Jan Egil Afset, Christina Gabrielsen · 2025 · PLoS ONE
9. Investigation of co-existing bacteria in platelets by employing long-term culturomics and metagenomics
   Qiqi Wang, Mengyi Zhao, Anqing Liu, Yuwei Zhao, Zhenxin Fan, Yang Huang, Zhan Gao, Miao He · 2025 · Frontiers in Cellular and Infection Microbiology
10. Reproducible Community States Resolve the Nasopharyngeal Diversity Paradox
    Kuncheng Song, Hayden N. Brochu, Monica Bustos, Qimin Zhang, Martia J Thomas, Ayla B. Harris, Crystal R. Icenhour, Stanley I. Letovsky, Lakshmanan K. Iyer · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
11. Infection of Cerebrospinal Fluid Drainage Devices
    Kathryn B. Whitlock, Christopher E. Pope, Paul G. Hodor, David L. Limbrick, Patrick J. McDonald, Jason Scott Hauptman, Lucas R. Hoffman, Tamara D. Simon, on behalf of the Cerebrospinal FLuId MicroBiota in Shunts (CLIMB) Study Group · 2025 · Surgical Infections
12. Biodiversity
    2023 · CSIRO Publishing eBooks
13. SIMPLseq: a high-sensitivity Plasmodium falciparum genotyping and PCR contamination tracking tool
    Philipp Schwabl, Jorge-Eduardo Amaya-Romero, Katrina Kelley, Paulo Manrique, Sean C. Murphy, Peter D. Crompton, Daniel E. Neafsey · 2025 · medRxiv
14. Unveiling the Human Nasopharyngeal Microbiome Compendium: Systematic Characterization of Community Architecture and Function Through a Comprehensive Meta-Analysis
    Kuncheng Song, Hayden N. Brochu, Monica Bustos, Qimin Zhang, Crystal R. Icenhour, Stanley I. Letovsky, Lakshmanan K. Iyer · 2025 · Research Square
15. Diversity and Activity of Bacterioplankton in Shallow Lakes During Cyanobacterial Blooms
    Emilia Jankowiak, Ewa Anna Dembowska, Marta Małecka-Adamowicz, Łukasz Kubera · 2025 · Water
16. Circulating microbiome profiling in transjugular intrahepatic portosystemic shunt patients: 16S rRNA vs. shotgun sequencing
    Jingxiang Zhang, Xiaoshuang Xu, Lei Chen, Xincheng Yang, Júlio Ken Matsubara, Yuyao Tian, Jiahua Liu, Xiaoxu Jin, He Chang, Menghui Xu et al. · 2025 · Frontiers in Medicine
17. Metax: A Coverage-Informed Probabilistic Framework for Accurate Cross-Domain Taxon Profiling
    Zhi-Luo Deng, Nasim Safaei, Alice Carolyn McHardy · 2025 · bioRxiv (Cold Spring Harbor Laboratory)
18. Additional file 4 of Signatures of landscape and captivity in the gut microbiota of Southern Hairy-nosed Wombats (Lasiorhinus latifrons)
    Raphael Eisenhofer, Helgen, Kristofer M., Taggart, David · 2021 · Figshare
19. Additional file 2 of Using strain-resolved analysis to identify contamination in metagenomics data
    Yue Clare Lou, Jordan Hoff, Matthew R. Olm, West-Roberts, Jacob, Spencer Diamond, Brian Firek, Michael J. Morowitz, Jillian F. Banfield · 2023 · Figshare
20. Additional file 12 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
21. Additional file 2 of Repeatability and reproducibility assessment in a large-scale population-based microbiota study: case study on human milk microbiota
    Shirin Moossavi, Kelsey B. Fehr, Khafipour, Ehsan, Meghan B. Azad · 2021 · Figshare
22. Additional file 2 of The lower airways microbiota and antimicrobial peptides indicate dysbiosis in sarcoidosis
    Kristel Svalland Knudsen, Sverre Lehmann, Nielsen, Rune, Solveig Tangedal, Paytuvi-Gallart, Andreu, Walter Sanseverino, Einar Marius Hjellestad Martinsen, Hiemstra, Pieter S., Tomas Eagan · 2022 · Figshare
23. Additional file 8 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
24. Additional file 2 of Metagenomic analysis of healthy and diseased peri-implant microbiome under different periodontal conditions: a cross-sectional study
    Song, Liang, Feng, Ziying, Qianrong Zhou, Wu, Xingwen, Zhang, Limin, Yang Sun, Li, Ruixue, Chen, Huijuan, Fei Yang, Yu, Youcheng · 2024 · Figshare
25. Additional file 4 of Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA
    Yacine Amar, Ilias Lagkouvardos, Silva, Rafaela L., Oluwaseun Ayodeji Ishola, Foesel, Bärbel U., Susanne Kublik, Anne Schöler, Sebastian Niedermeier, Rachela Bleuel, Alexander Zink et al. · 2021 · Figshare
26. Additional file 2 of Toward efficient and high-fidelity metagenomic data from sub-nanogram DNA: evaluation of library preparation and decontamination methods
    Wang, Chun, Zhang, Li, Jiang, Xuan, Ma, Wentai, Geng, Hui, Xue Wang, Li, Mingkun · 2022 · Figshare
27. Additional file 2 of Differences in airway microbiome and metabolome of single lung transplant recipients
    Sharma, Nirmal S., Vestal, Grant, Wille, Keith, Kapil Patel, Cheng, Feng, Srinivas M. Tipparaju, Sultan Tousif, Mudassir Meraj Banday, Xu, Xin, Wilson, Landon et al. · 2020 · Figshare
28. Additional file 6 of Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA
    Yacine Amar, Ilias Lagkouvardos, Silva, Rafaela L., Oluwaseun Ayodeji Ishola, Foesel, Bärbel U., Susanne Kublik, Anne Schöler, Sebastian Niedermeier, Rachela Bleuel, Alexander Zink et al. · 2021 · Figshare
29. Additional file 6 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
30. Additional file 2 of N/S element transformation modulating lithospheric microbial communities by single-species manipulation
    Shun Yao, Tianzhi Jin, Zhang, Lu, Zhang, Yong, Chen, Rui, Qian Wang, Mingjie Lv, Chuxiao Hu, Ma, Ting, Xia, Wenjie · 2024 · Figshare
31. Additional file 1 of Using strain-resolved analysis to identify contamination in metagenomics data
    Yue Clare Lou, Jordan Hoff, Matthew R. Olm, Jacob A. West-Roberts, Spencer Diamond, Brian Firek, Michael J. Morowitz, Jillian F. Banfield · 2023 · Figshare
32. Additional file 1 of Microbiota of the prostate tumor environment investigated by whole-transcriptome profiling
    Paul Vinu Salachan, Martin Rasmussen, Jacob Fredsøe, Ulhøi, Benedicte, Michael Borre, Karina Dalsgaard Sørensen · 2022 · Figshare
33. Additional file 1 of Metagenomic analysis of healthy and diseased peri-implant microbiome under different periodontal conditions: a cross-sectional study
    Song, Liang, Feng, Ziying, Qianrong Zhou, Wu, Xingwen, Zhang, Limin, Yang Sun, Ruixue Li, Chen, Huijuan, Fei Yang, Yu, Youcheng · 2024 · Figshare
34. Additional file 5 of Endometrial microbiota composition is associated with reproductive outcome in infertile patients
    Inmaculada Moreno, Iolanda Garcia-Grau, David Pérez-Villaroya, Marta Gonzáléz-Monfort, Bahçeci, Mustafa, Marcelo J. Barrionuevo, Sagiri Taguchi, Elena Puente, Michael DiMattina, Mei Wei Lim et al. · 2022 · Figshare
35. Additional file 2 of Quantitative microbial population study reveals geographical differences in bacterial symbionts of Ixodes ricinus
    Aleksandra I. Krawczyk, Lisa Röttjers, Manoj Fonville, Katsuhisa Takumi, Willem Takken, Karoline Faust, Hein Sprong · 2022 · Figshare
36. Additional file 1 of Host reproductive cycle influences the pouch microbiota of wild southern hairy-nosed wombats (Lasiorhinus latifrons)
    Sesilje Weiss, Taggart, David, Ian Smith, Helgen, Kristofer M., Raphael Eisenhofer · 2021 · Figshare
37. Additional file 3 of Fine scale transitions of the microbiota and metabolome along the gastrointestinal tract of herbivorous fishes
    Wesley J. Sparagon, Emily C. Gentry, Jeremiah J. Minich, Lisa Vollbrecht, Lieve M. L. Laurens, Eric E. Allen, Neil Anthony Sims, Dorrestein, Pieter C., Linda Wegley Kelly, Nelson, Craig E. · 2022 · Figshare
38. Additional file 1 of Signatures of landscape and captivity in the gut microbiota of Southern Hairy-nosed Wombats (Lasiorhinus latifrons)
    Raphael Eisenhofer, Helgen, Kristofer M., Taggart, David · 2021 · Figshare
39. Additional file 1 of Microbial signatures and continuum in endometrial cancer and benign patients
    Anita Semertzidou, Eilbhe Whelan, Ann Smith, Sherrianne Ng, Roberts, Lauren, Jan Joris Brosens, Marchesi, Julian R., Phillip R. Bennett, David A. MacIntyre, Kyrgiou, Maria · 2024 · Figshare
40. Additional file 3 of The bacterial density of clinical rectal swabs is highly variable, correlates with sequencing contamination, and predicts patient risk of extraintestinal infection
    Rishi Chanderraj, Christopher A. Brown, Kevin J. Hinkle, Nicole R. Falkowski, Woods, Robert J., Dickson, Robert P. · 2022 · Figshare
41. Additional file 2 of Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA
    Yacine Amar, Ilias Lagkouvardos, Silva, Rafaela L., Oluwaseun Ayodeji Ishola, Foesel, Bärbel U., Susanne Kublik, Anne Schöler, Sebastian Niedermeier, Rachela Bleuel, Alexander Zink et al. · 2021 · Figshare
42. Additional file 2 of Multi-factorial examination of amplicon sequencing workflows from sample preparation to bioinformatic analysis
    Travis J. De Wolfe, Wright, Erik S. · 2023 · Figshare
43. Additional file 1 of Differential response of digesta- and mucosa-associated intestinal microbiota to dietary insect meal during the seawater phase of Atlantic salmon
    Li, Yanxian, Bruni, Leonardo, Alexander Jaramillo-Torres, Karina Gajardo, Trond M. Kortner, Åshild Krogdahl · 2021 · Figshare
44. Additional file 1 of Peripheral blood mononuclear cells (PBMC) microbiome is not affected by colon microbiota in healthy goats
    Ainize Peña‐Cearra, Alejandro Belanche, Monika González-Lopez, Lavín, José Luis, Pascual-Itoiz, Miguel Ángel, Elisabeth Jiménez, Héctor Rodrı́guez, Aransay, Ana Mª., Juan Anguíta, Yáñez-Ruiz, David R. et al. · 2021 · Figshare
45. Additional file 4 of Detection of cell-free microbial DNA using a contaminant-controlled analysis framework
    Enrique Zozaya‐Valdés, Stephen Q. Wong, Jeanette Raleigh, Athena Hatzimihalis, Sarah Ftouni, Papenfuss, Anthony T., Sandhu, Shahneen, Mark A. Dawson, Dawson, Sarah-Jane · 2021 · Figshare
46. Additional file 1 of N/S element transformation modulating lithospheric microbial communities by single-species manipulation
    Shun Yao, Tianzhi Jin, Zhang, Lu, Zhang, Yong, Chen, Rui, Qian Wang, Mingjie Lv, Chuxiao Hu, Ma, Ting, Xia, Wenjie · 2024 · Figshare
47. Additional file 1 of Performance evaluation of high-volume electret filter air samplers in aerosol microbiome research
    Kari Oline Bøifot, Jostein Gohli, Gunnar Skogan, Marius Dybwad · 2020 · Figshare
48. Additional file 11 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
49. Additional file 2 of Dancing the Nanopore limbo – Nanopore metagenomics from small DNA quantities for bacterial genome reconstruction
    Sophie A. Simon, Schmidt, Katharina, Lea Griesdorn, André Soares, Till L. V. Bornemann, Alexander J. Probst · 2024 · Figshare
50. Additional file 3 of Signatures of landscape and captivity in the gut microbiota of Southern Hairy-nosed Wombats (Lasiorhinus latifrons)
    Raphael Eisenhofer, Helgen, Kristofer M., Taggart, David · 2021 · Figshare
51. Additional file 4 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
52. Additional file 5 of Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA
    Yacine Amar, Ilias Lagkouvardos, Silva, Rafaela L., Oluwaseun Ayodeji Ishola, Foesel, Bärbel U., Susanne Kublik, Anne Schöler, Sebastian Niedermeier, Rachela Bleuel, Alexander Zink et al. · 2021 · Figshare
53. Additional file 1 of Human breast microbiome correlates with prognostic features and immunological signatures in breast cancer
    Alice Tzeng, Naseer Sangwan, Margaret R. Jia, Liu, Chin-Chih, Karen S. Keslar, Erinn P. Downs-Kelly, Robert L. Fairchild, Zahraa Al‐Hilli, Grobmyer, Stephen R., Charis Eng · 2021 · Figshare
54. Additional file 1 of Dancing the Nanopore limbo – Nanopore metagenomics from small DNA quantities for bacterial genome reconstruction
    Sophie A. Simon, Schmidt, Katharina, Lea Griesdorn, André Soares, Till L. V. Bornemann, Alexander J. Probst · 2024 · Figshare
55. Additional file 3 of N/S element transformation modulating lithospheric microbial communities by single-species manipulation
    Shun Yao, Tianzhi Jin, Zhang, Lu, Zhang, Yong, Chen, Rui, Qian Wang, Mingjie Lv, Chuxiao Hu, Ma, Ting, Wenjie Xia · 2024 · Figshare
56. Additional file 2 of Peripheral blood mononuclear cells (PBMC) microbiome is not affected by colon microbiota in healthy goats
    Ainize Peña‐Cearra, Alejandro Belanche, Monika González-Lopez, Lavín, José Luis, Pascual-Itoiz, Miguel Ángel, Jiménez, Elisabeth, Héctor Rodrı́guez, Aransay, Ana Mª., Juan Anguíta, Yáñez-Ruiz, David R. et al. · 2021 · Figshare
57. Additional file 1 of Benchmarking MicrobIEM – a user-friendly tool for decontamination of microbiome sequencing data
    Claudia Hülpüsch, Luise Rauer, Thomas Nußbaumer, Vera Schwierzeck, Madhumita Bhattacharyya, Veronika Erhart, Traidl-Hoffmann, Claudia, Matthias Reiger, Avidan Uriel Neumann · 2023 · Figshare
58. Additional file 7 of Differences in airway microbiome and metabolome of single lung transplant recipients
    Sharma, Nirmal S., Vestal, Grant, Wille, Keith, Kapil Patel, Cheng, Feng, Srinivas M. Tipparaju, Sultan Tousif, Mudassir Meraj Banday, Xu, Xin, Wilson, Landon et al. · 2020 · Figshare
59. Additional file 8 of Endometrial microbiota composition is associated with reproductive outcome in infertile patients
    Inmaculada Moreno, Iolanda Garcia-Grau, David Pérez-Villaroya, Marta Gonzáléz-Monfort, Bahçeci, Mustafa, Marcelo J. Barrionuevo, Sagiri Taguchi, Elena Puente, Michael DiMattina, Mei Wei Lim et al. · 2022 · Figshare
60. Additional file 1 of The lower airways microbiota and antimicrobial peptides indicate dysbiosis in sarcoidosis
    Kristel Svalland Knudsen, Sverre Lehmann, Nielsen, Rune, Solveig Tangedal, Paytuvi-Gallart, Andreu, Walter Sanseverino, Einar Marius Hjellestad Martinsen, Hiemstra, Pieter S., Tomas Eagan · 2022 · Figshare
61. Additional file 1 of On the effect of inheritance of microbes in commensal microbiomes
    Román Zapién-Campos, Florence Bansept, Michael Sieber, Arne Traulsen · 2022 · Figshare
62. Additional file 7 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
63. Additional file 1 of Sarcoptic mange changes bacterial and fungal microbiota of bare-nosed wombats (Vombatus ursinus)
    Christina Næsborg‐Nielsen, Raphael Eisenhofer, Tamieka A. Fraser, Wilkinson, Vicky, Christopher Paul Burridge, Carver, Scott · 2022 · Figshare
64. Additional file 1 of Differences in airway microbiome and metabolome of single lung transplant recipients
    Sharma, Nirmal S., Vestal, Grant, Wille, Keith, Kapil Patel, Cheng, Feng, Srinivas M. Tipparaju, Sultan Tousif, Mudassir Meraj Banday, Xu, Xin, Wilson, Landon et al. · 2020 · Figshare
65. Additional file 1 of INSaFLU-TELEVIR: an open web-based bioinformatics suite for viral metagenomic detection and routine genomic surveillance
    João Dourado Santos, Daniel Sobral, Miguel M. Pinheiro, Joana Isidro, Carlijn Bogaardt, Pinto, Miguel, Rodrigo Eusébio, André Santos, Rafael Mamede, Daniel L. Horton et al. · 2024 · Figshare
66. Additional file 9 of Differences in airway microbiome and metabolome of single lung transplant recipients
    Sharma, Nirmal S., Vestal, Grant, Wille, Keith, Kapil Patel, Cheng, Feng, Srinivas M. Tipparaju, Sultan Tousif, Banday, Mudassir M., Xu, Xin, Landon Wilson et al. · 2020 · Figshare
67. Additional file 9 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
68. Additional file 5 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
69. Additional file 6 of Endometrial microbiota composition is associated with reproductive outcome in infertile patients
    Inmaculada Moreno, Iolanda Garcia-Grau, David Pérez-Villaroya, Marta Gonzáléz-Monfort, Bahçeci, Mustafa, Marcelo J. Barrionuevo, Sagiri Taguchi, Elena Puente, Michael DiMattina, Mei Wei Lim et al. · 2022 · Figshare
70. Additional file 7 of Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA
    Yacine Amar, Ilias Lagkouvardos, Silva, Rafaela L., Oluwaseun Ayodeji Ishola, Foesel, Bärbel U., Susanne Kublik, Anne Schöler, Sebastian Niedermeier, Rachela Bleuel, Zink, Alexander et al. · 2021 · Figshare
71. Additional file 2 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
72. Additional file 3 of Much ado about nothing? Off-target amplification can lead to false-positive bacterial brain microbiome detection in healthy and Parkinson’s disease individuals
    Janis R. Bedarf, Naiara Beraza, Hassan Khazneh, Ezgi Özkurt, Baker, David, Borger, Valeri, Wüllner, Ullrich, Hildebrand, Falk · 2021 · Figshare
73. Additional file 7 of Endometrial microbiota composition is associated with reproductive outcome in infertile patients
    Inmaculada Moreno, Iolanda Garcia-Grau, David Pérez-Villaroya, Marta Gonzáléz-Monfort, Bahçeci, Mustafa, Marcelo J. Barrionuevo, Sagiri Taguchi, Elena Puente, Michael DiMattina, Mei Wei Lim et al. · 2022 · Figshare
74. Additional file 2 of The bacterial density of clinical rectal swabs is highly variable, correlates with sequencing contamination, and predicts patient risk of extraintestinal infection
    Rishi Chanderraj, Christopher A. Brown, Kevin J. Hinkle, Nicole R. Falkowski, Woods, Robert J., Dickson, Robert P. · 2022 · Figshare
75. Additional file 1 of Exploring breast tissue microbial composition and the association with breast cancer risk factors
    Rana German, Natascia Marino, Christopher M. Hemmerich, Ram Podicheti, Douglas B. Rusch, Leah T. Stiemsma, Hongyu Gao, Xiaoling Xuei, Pam Rockey, Anna Maria Storniolo · 2024 · Figshare
76. Additional file 3 of Pre-digest of unprotected DNA by Benzonase improves the representation of living skin bacteria and efficiently depletes host DNA
    Yacine Amar, Ilias Lagkouvardos, Silva, Rafaela L., Oluwaseun Ayodeji Ishola, Foesel, Bärbel U., Susanne Kublik, Anne Schöler, Sebastian Niedermeier, Rachela Bleuel, Zink, Alexander et al. · 2021 · Figshare
77. Additional file 1 of Biological observations in microbiota analysis are robust to the choice of 16S rRNA gene sequencing processing algorithm: case study on human milk microbiota
    Shirin Moossavi, Faisal Atakora, Kelsey B. Fehr, Khafipour, Ehsan · 2020 · Figshare
78. Additional file 3 of Differences in airway microbiome and metabolome of single lung transplant recipients
    Sharma, Nirmal S., Vestal, Grant, Wille, Keith, Kapil Patel, Cheng, Feng, Srinivas M. Tipparaju, Sultan Tousif, Mudassir Meraj Banday, Xu, Xin, Wilson, Landon et al. · 2020 · Figshare
79. Additional file 1 of Detection of cell-free microbial DNA using a contaminant-controlled analysis framework
    Enrique Zozaya‐Valdés, Stephen Q. Wong, Jeanette Raleigh, Athena Hatzimihalis, Sarah Ftouni, Papenfuss, Anthony T., Sandhu, Shahneen, Mark A. Dawson, Dawson, Sarah-Jane · 2021 · Figshare
80. Additional file 2 of Signatures of landscape and captivity in the gut microbiota of Southern Hairy-nosed Wombats (Lasiorhinus latifrons)
    Raphael Eisenhofer, Helgen, Kristofer M., Taggart, David · 2021 · Figshare
81. Additional file 2 of Exploring breast tissue microbial composition and the association with breast cancer risk factors
    Rana German, Natascia Marino, Christopher M. Hemmerich, Ram Podicheti, Douglas B. Rusch, Leah T. Stiemsma, Hongyu Gao, Xiaoling Xuei, Pam Rockey, Anna Maria Storniolo · 2024 · Figshare
82. Additional file 1 of Maternal effects drive intestinal development beginning in the embryonic period on the basis of maternal immune and microbial transfer in chickens
    Gong, Haizhou, Taiping Wang, Min Wu, Qianran Chu, 兰海楠, Lang, Wuying, Lingyu Zhu, Song, Yang, Zhou, Yujie, Qiongyi Wen et al. · 2023 · Figshare
83. Survival implications of the age-associated tumor and normal adjacent tissue microbiome among colorectal cancer patients
    Maria F. Gomez Morales, Stephanie Hogue, Scott Pitcher, Daniel K. Jeong, Ivana Radosavljevic, Amalia J. Stefanou, Seth I. Felder, Jessica R. Burns, Scot E. Dowd, Emily Vogtmann et al. · 2025 · Gut Pathogens
84. THE ROLE OF THE ENDOMETRIAL MICROBIOME IN INFERTILITY AND REPRODUCTIVE HEALTH: CURRENT EVIDENCE AND FUTURE DIRECTIONS
    Klaudia Dybalska, Mateusz Kęska, Michael Platschek, Anna Barbara Tuleja, Michał Drabik, Julia Kosmulska, Maksym Sikora, Sylwia Wiktoria Kolano, Jakub Nowak, Karol Józef Szkarłat · 2025 · International Journal of Innovative Technologies in Social Science
85. Host-Filtered Blood Nucleic Acids for Pathogen Detection: Shared Background, Sparse Signal, and Methodological Limits
    Zhaoxia Wang, Guangchan Chen, Mei Yang, Saihua Wang, Jiahui Fang, Ce Shi, Yuying Gu, Zhongping Ning · 2026 · Pathogens
86. Evaluation of the diagnostic value of metagenomic next-generation sequencing for zoonotic cestode Spirometra mansoni infection
    Si Si Ru, Wen Jung Li, Jie Hao, Cheng Yue Cao, Li Ma, Xi Zhang · 2026 · Food and Waterborne Parasitology
87. Микробиота мочевыводящих путей: состав, методы выявления и изучения
    С.А. Костюк, Руденкова Татьяна Владимировна, Алкаралех А. Х., A. A. Gavrusev · 2025 · Репродуктивное здоровье Восточная Европа
88. Intracellular microbial signals in the gastrointestinal tract of dairy cattle
    Lianbin Xu, Senlin Zhu, Hui‐Zeng Sun, Yunan Yan, Xiaowen Wang, Xiuli Li, Dengpan Bu · 2026 · Microbiome
89. Microbial communities in filth flies collected from dairy and poultry farms for supplemental animal feed
    Morgan Olmstead, Kortnee Van Nest, Sabrina E. Swistek, Lee W. Cohnstaedt, Brenda Oppert, Phillip T. Shults · 2025 · Journal of Economic Entomology
90. Spatial and temporal patterns of public transit aerobiomes
    Russell J. S. Orr, Ola Brønstad Brynildsrud, Kari Oline Bøifot, Jostein Gohli, Gunnar Skogan, Frank J. Kelly, Mark Hernandez, Klas I. Udekwu, Patrick K. H. Lee, Christopher E. Mason et al. · 2026 · Microbiome
91. Undergraduate student practicals generate high-quality data for microbiome research
    Isabella Wilson, Tahlia Perry, Frank Grützner · 2026 · Journal of Microbiology and Biology Education
92. Mitigation and detection of putative microbial contaminant reads from long-read metagenomic datasets
    Stefany Ayala-Montaño, Ayorinde O. Afolayan, Raisa Kociurzynski, Ulrike Löber, Sandra Reuter · 2026 · Microbial Genomics
93. Leaf Microbiome Differences Between Winter (Invasive) and Summer (Non-invasive) Annual Growth forms of Anthemis cotula L.: Insights into Invasiveness
    Iqra Bashir, Zafar A. Reshi · 2026 · Research Square
94. Distinguishing the significance of blood microbes in epithelial ovarian cancer
    Diane E. Mahoney, Prabhakar Chalise, Dong Pei, Rachel Griffard-Smith, Trisha Home, Harsh B. Pathak, Shahid Umar, Andrew Godwin · 2026 · Gut Microbes Reports
95. Deciphering the Arterial and Venous Blood Bacterial DNA Profile: Pioneering Insights into Coronary Heart Disease Etiology and Progression
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