Article
Biochemistry & Molecular Biology
Casey T. Finnicum, Zahraa Rahal, Maya Hassane, Warapen Treekitkarnmongkol, Ansam Sinjab, Rhiannon Morris, Yuejiang Liu, Elizabeth L. Tang, Sarah Viet, Jason L. Petersen, Philip L. Lorenzi, Lin Tan, Joseph Petrosino, Kristi L. Hoffman, Junya Fujimoto, Seyed Javad Moghaddam, Humam Kadara
Summary: Research has shown that exposure to tobacco carcinogens leads to significant changes in the gut and lung microbiomes, which are associated with the development of lung adenocarcinoma (LUAD) and immunotherapeutic response in human lung cancer patients. Loss of the bacterial growth inhibitor Lcn2 also results in widespread changes in the gut and lung microbiomes. These findings shed light on the role of microbial phenotypes in the development of tobacco-associated LUAD.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Endocrinology & Metabolism
Qing Wang, Qi Wang, Lanbo Zhao, Yadi Bin, Li Wang, Lei Wang, Kailu Zhang, Qiling Li
Summary: The blood microbiome of PCOS patients showed significantly lower alpha diversity, different beta diversity, and significant taxonomic variations compared to healthy controls.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Article
Microbiology
Jason A. Rothman, Jenna L. Riis, Katrina R. Hamilton, Clancy Blair, Douglas A. Granger, Katrine L. Whiteson
Summary: Human oral microbial communities have significant implications for oral and systemic health due to their diversity. Understanding the differences between healthy and dysbiotic oral microbiomes is important, especially within and between families. This study investigates the changes in oral microbiome composition within individuals and the impact of factors such as environmental tobacco smoke exposure, metabolic regulation, inflammation, and antioxidant potential. The findings reveal differences in oral microbiomes between children and caregivers, with shared diversity but distinct differences, and highlight the associations between the oral microbiome and various salivary markers.
Article
Oncology
Biao Yuan, Bin Ma, Jing Yu, Qingkai Meng, Tao Du, Hongyi Li, Yueyan Zhu, Zikui Sun, Siping Ma, Chun Song
Summary: CRC is one of the top five lethal malignant tumors globally and in China, and early diagnosis and treatment are crucial for improving survival rates. The gut microbiome could serve as a potential non-invasive screening tool for CRC, with a few specific bacteria genus identified as effective biomarkers for clinical use. Analysis of gut microbiome composition in CRC patients versus healthy controls showed significant differences, with 13 bacteria identified as biomarkers with high sensitivity and specificity for discriminating CRC patients. This method has the potential to be a non-invasive approach for early diagnosis of CRC.
FRONTIERS IN ONCOLOGY
(2021)
Article
Agriculture, Dairy & Animal Science
Mariya V. Gryaznova, Yuliya D. Dvoretskaya, Mikhail Y. Syromyatnikov, Sergey V. Shabunin, Pavel A. Parshin, Evgeniy V. Mikhaylov, Nikolay A. Strelnikov, Vasily N. Popov
Summary: This study investigated the microbiome composition of different sections of the piglet intestine and found that Lactobacillus was the most common genus in the ileum, while Fusobacterium and Bacteroides dominated in the rectum. Comparing the microbiome composition of healthy and diarrheal piglets revealed a decrease in Lactobacillus and an increase in Escherichia-Shigella, Enterococcus, and a decrease in Bacteroides in diarrheal piglets, indicating their contribution to the development of diarrhea.
Article
Gastroenterology & Hepatology
Stefanie Brezina, Martin Borkovec, Andreas Baierl, Fabienne Bastian, Andreas Futschik, Nikolaus Gasche, Thomas Gruenberger, Michael Hallas, Christian Jannsen, Gernot Leeb, Rebecca Lutz, Barbara Sladek, Andrea Gsur
Summary: The study evaluated the usability of FIT cartridges for microbiome analysis and compared it to Stool Collection and Preservation Tubes. The FIT and Preservation Tube samples had highly similar microbiome profiles, with minor differences between abundances of some bacterial taxa. The results indicate that FIT cartridges are suitable for gut microbiome analysis within CRC screening programs.
Article
Microbiology
Mariya Gryaznova, Mikhail Y. Syromyatnikov, Yulia D. Dvoretskaya, Sergey A. Solodskikh, Nikolay T. Klimov, Vitaliy Mikhalev, Vitaliy Zimnikov, Evgeniy Mikhaylov, Vasily N. Popov
Summary: Mastitis is the most common disease for cattle, with recent studies indicating its multi-agent and microbiome diversity. Specific genera such as Staphylococcus and Streptococcus may be associated with subclinical mastitis, while an increase in abundance of Staphylococcus and Microbacterium genera could be an early sign of infection. This study also identified an increase in certain genera like Colidextribacter, Paeniclostridium, and Turicibacter in cows with mastitis, expanding our understanding of the role of the microbiome in this disease.
Article
Nutrition & Dietetics
Inna Burakova, Yuliya Smirnova, Mariya Gryaznova, Mikhail Syromyatnikov, Pavel Chizhkov, Evgeny Popov, Vasily Popov
Summary: Obesity is causing many concomitant diseases, and new strategies for treatment and prevention are being developed using probiotics to modulate the gut microbiota. A study found an increase in Actinobacteriota and a decrease in Bacteroidota in obese patients taking lactic acid bacteria. Beneficial groups like Bifidobacterium and Lactococcus increased, while harmful groups like Faecalibacterium and Clostridium decreased. Modulating the gut microbiota with lactic acid bacteria may be a way to treat obesity.
Review
Microbiology
Sven Kleine Bardenhorst, Tom Berger, Frank Klawonn, Marius Vital, Andre Karch, Nicole Ruebsamen
Summary: Reproducibility in microbiome studies is hindered by a lack of consensus on data analysis strategies. The complex nature of microbiome data, combined with increasingly sophisticated research questions, requires more advanced analytical methods. Current analysis strategies in microbiome studies show significant heterogeneity, particularly in differential abundance testing, indicating a need for better guidance in analyzing increasingly complex research questions.
Review
Gastroenterology & Hepatology
Yinglin Xia
Summary: Mounting evidence has shown a link between gut microbiome and various cancers, but analyzing microbiome data poses challenges and requires proper statistical methods and normalization. This review provides an overview of the unique characteristics of microbiome data and the available normalization methods in microbiome cancer research using examples. The evaluation of these normalization methods is also comprehensively investigated.
Article
Biochemistry & Molecular Biology
Nabeel Merali, Tarak Chouari, Julien Terroire, Maria-Danae Jessel, Daniel S. K. Liu, James-Halle Smith, Tyler Wooldridge, Tony Dhillon, Jose I. Jimenez, Jonathan Krell, Keith J. Roberts, Timothy A. Rockall, Eirini Velliou, Shivan Sivakumar, Elisa Giovannetti, Ayse Demirkan, Nicola E. Annels, Adam E. Frampton
Summary: The bile microbiome plays an important role in pancreatic ductal adenocarcinoma (PDAC) and can distinguish malignant tumors from benign ones. It was found that the composition of the bile microbiome is altered in patients with PDAC, suggesting that these microbial changes could potentially serve as diagnostic and prognostic biomarkers for PDAC.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biodiversity Conservation
Barbara Zapala, Justyna Pustelnik, Alicja Dudek, Tomasz Milewicz
Summary: The gastrointestinal microbiota, consisting of trillions of microorganisms, is influenced by lifestyle and diet. A study on healthy Polish individuals following a Western diet found stable oral and gut microbiota profiles, with variations between genders.
Article
Genetics & Heredity
Asuka Morikawa, Ayako Kawabata, Katsuhiko Shirahige, Tetsu Akiyama, Aikou Okamoto, Takashi Sutani
Summary: This study analyzed the association between cervicovaginal microbiome and ovarian cancer, finding that ovarian cancer patients had more diversified microbiota compared to healthy controls, and this was associated with major histotypes of epithelial ovarian cancer. This suggests the potential of cervicovaginal microbiome as a biomarker for screening ovarian cancer in premenopausal women.
Review
Agriculture, Dairy & Animal Science
Margaret D. Weinroth, Aeriel D. Belk, Chris Dean, Noelle Noyes, Dana K. Dittoe, Michael J. Rothrock, Steven C. Ricke, Phillip R. Myer, Madison T. Henniger, Gustavo A. Ramirez, Brian B. Oakley, Katie Lynn Summers, Asha M. Miles, Taylor B. Ault-Seay, Zhongtang Yu, Jessica L. Metcalf, James E. Wells
Summary: Microbiome studies in animal science using 16S rRNA gene sequencing are becoming more common. This review serves as a guide for animal scientists less familiar with this method, discussing common issues and considerations in planning such studies.
JOURNAL OF ANIMAL SCIENCE
(2022)
Article
Agriculture, Dairy & Animal Science
Patricia M. Oba, Janelle Kelly, Darcia Kostiuk, Kelly S. Swanson
Summary: Restricted feeding with specially formulated foods can promote safe weight and fat loss, and alter the microbiota of obese dogs. This study demonstrated the effects of controlled feeding on physiological indicators and gut microbiota, proving the effectiveness of restricted feeding in promoting healthy weight loss in obese dogs.
JOURNAL OF ANIMAL SCIENCE
(2023)
Article
Immunology
Liying Yang, Yuhan Hao, Jiyuan Hu, Dervla Kelly, Huilin Li, Stuart Brown, Carley Tasker, Natalie E. Roche, Theresa L. Chang, Zhiheng Pei
EMERGING MICROBES & INFECTIONS
(2019)
Article
Biology
Stuart M. Brown, Hao Chen, Yuhan Hao, Bobby P. Laungani, Thahmina A. Ali, Changsu Dong, Carlos Lijeron, Baekdoo Kim, Claudia Wultsch, Zhiheng Pei, Konstantinos Krampis
Article
Gastroenterology & Hepatology
Gwendolyn Osborne, Fen Wu, Liying Yang, Dervla Kelly, Jiyuan Hu, Huilin Li, Farzana Jasmine, Muhammad G. Kibriya, Faruque Parvez, Ishrat Shaheen, Golam Sarwar, Alauddin Ahmed, Mahbub Eunus, Tariqul Islam, Zhiheng Pei, Habibul Ahsan, Yu Chen
Article
Public, Environmental & Occupational Health
Yaohua Yang, Wei Zheng, Qiu-Yin Cai, Martha J. Shrubsole, Zhiheng Pei, Robert Brucker, Mark D. Steinwandel, Seth R. Bordenstein, Zhigang Li, William J. Blot, Xiao-Ou Shu, Jirong Long
JOURNAL OF EPIDEMIOLOGY AND COMMUNITY HEALTH
(2019)
Article
Multidisciplinary Sciences
Yuhan Hao, Ryan Ruiz, Liying Yang, Antonio Galvao Neto, Milan R. Amin, Dervla Kelly, Stratos Achlatis, Scott Roof, Renjie Bing, Kasthuri Kannan, Stuart M. Brown, Zhiheng Pei, Ryan C. Branski
SCIENTIFIC REPORTS
(2019)
Article
Immunology
Yang Sun, Qian Chen, Ping Lin, Rong Xu, Dongyi He, Weiqing Ji, Yanqin Bian, Yu Shen, Qingtian Li, Chang Liu, Ke Dong, Yi-Wei Tang, Zhiheng Pei, Liying Yang, Hongzhou Lu, Xiaokui Guo, Lianbo Xiao
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2019)
Article
Microbiology
Claire Roubaud-Baudron, Victoria E. Ruiz, Alexander M. Swan, Bruce A. Vallance, Ceren Ozkul, Zhiheng Pei, Jackie Li, Thomas W. Battaglia, Guillermo I. Perez-Perez, Martin J. Blaser
Letter
Microbiology
Yaohua Yang, Wei Zheng, Qiuyin Cai, Martha J. Shrubsole, Zhiheng Pei, Robert Brucker, Mark Steinwandel, Seth R. Bordenstein, Zhigang Li, William J. Blot, Xiao-Ou Shu, Jirong Long
Article
Multidisciplinary Sciences
Ian Ganly, Zhiheng Pei, Yuhan Hao, Yingfei Ma, Matthew Rosenthal, Zhenglin Wu, Jocelyn Migliacci, Bin Huang, Nora Katabi, Wenzhi Tseng, Stuart Brown, Yi-Wei Tang, Liying Yang
Summary: The study aimed to compare HPV genome in patients with OC-SCC to normal patients using metagenomic shotgun sequencing. In 50 OC-SCC cases, tongue was the most common subsite, with only 10% of cases testing positive for HPV, suggesting a rare presence of HPV genotypes in patients with oral cancer.
SCIENTIFIC REPORTS
(2021)
Article
Gastroenterology & Hepatology
Elissa Lin, Xiaoyan Huang, Zhiheng Pei, Jonathan Gross, Violeta Popov
Summary: This case report discusses the effects of intragastric balloon therapy on NASH and demonstrates that improvement in histologic features persists at least 6 months after the therapy. Although data supporting the use of intragastric balloon therapy in treating NASH are limited, this case provides evidence of its potential benefits in improving metabolic parameters and markers of liver fibrosis.
ACG CASE REPORTS JOURNAL
(2021)
Article
Substance Abuse
Rachel Nolan-Kenney, Fen Wu, Jiyuan Hu, Liying Yang, Dervla Kelly, Huilin Li, Farzana Jasmine, Muhammad G. Kibriya, Faruque Parvez, Ishrat Shaheen, Golam Sarwar, Alauddin Ahmed, Mahbub Eunus, Tariqul Islam, Zhiheng Pei, Habibul Ahsan, Yu Chen
NICOTINE & TOBACCO RESEARCH
(2020)