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Translational Metagenomics

Section edited by Souhaila Al Khodor

© Kateryna_Kon / stock.adobe.comThe Translational Metagenomics section aims to embrace studies addressing the role of the human microbiome in health and disease. This section encompasses studies about the development and application of metagenomics, metatranscriptomics, microbial metabolomics or novel bioinformatics tools used to improve our knowledge on the microbiome. 

The Translational Metagenomics section is especially interested in studies that go beyond description of the microbial composition and include experimental models used to support the proposed role of the microbiome in human health and diseases. In addition, studies about metagenomics integration with other omics are highly recommended. Studies of pathogens interaction with the host will not be considered.

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  1. Acute pancreatitis and non-alcoholic fatty liver disease are both serious diseases in the digestive system. The pathogenesis of both diseases is extremely complex closely and it related to gut microbiota, infl...

    Authors: Congzhi Yan, Jingxia Bao and Jinji Jin
    Citation: Journal of Translational Medicine 2024 22:179
  2. Human health is seriously threatened by antibiotic-induced intestinal disorders. Herein, we aimed to determine the effects of Autoinducer-2 (AI-2) combined with Lactobacillus rhamnosus GG (LGG) on the intestinal ...

    Authors: Riqiang Hu, Ting Yang, Qing Ai, Yuan Shi, Yanchun Ji, Qian Sun, Bei Tong, Jie Chen and Zhengli Wang
    Citation: Journal of Translational Medicine 2024 22:177
  3. The global incidence of Chronic Kidney Disease (CKD) is steadily escalating, with discernible linkage to the intricate terrain of intestinal microecology. The intestinal microbiota orchestrates a dynamic equil...

    Authors: Meng He, Wenqian Wei, Yichen Zhang, Zhouxia Xiang, Dan Peng, Ayijiaken Kasimumali and Shu Rong
    Citation: Journal of Translational Medicine 2024 22:172
  4. Adenomatous polyps (APs) with inflammation are risk factors for colorectal cancer. However, the role of inflammation-related gut microbiota in promoting the progression of APs is unknown.

    Authors: Shoujuan Yu, Xifan Wang, Ziyang Li, Dekui Jin, Mengyang Yu, Jingnan Li, Yixuan Li, Xiaoxue Liu, Qi Zhang, Yinghua Liu, Rong Liu, Xiaoyu Wang, Bing Fang, Chengying Zhang, Ran Wang and Fazheng Ren
    Citation: Journal of Translational Medicine 2024 22:169
  5. Previous studies have shown that changes in the microbial community of the female urogenital tract are associated with Human papillomavirus (HPV) infection. However, research on this association was mostly foc...

    Authors: Yong-Hong Dong, Yu-Hua Luo, Chen-Jian Liu, Wen-Yu Huang, Lin Feng, Xing-Yuan Zou, Jin-Yan Zhou and Xiao-Ran Li
    Citation: Journal of Translational Medicine 2024 22:125
  6. Interindividual variation characterizes the relief experienced by constipation-predominant irritable bowel syndrome (IBS-C) patients following linaclotide treatment. Complex bidirectional interactions occur be...

    Authors: Jianyun Zhou, Haoqi Wei, An Zhou, Xu Xiao, Xia Xie, Bo Tang, Hui Lin, Li Tang, Ruiping Meng, Xiaoying Yuan, Jing Zhang, Cheng Huang, Baobao Huang, Xiping Liao, Tingting Zhong, Suyu He…
    Citation: Journal of Translational Medicine 2024 22:98
  7. Recent research increasingly highlights a strong correlation between gut microbiota and the risk of gastrointestinal diseases. However, whether this relationship is causal or merely coincidental remains uncert...

    Authors: Kaiwen Wu, Qiang Luo, Ye Liu, Aoshuang Li, Demeng Xia and Xiaobin Sun
    Citation: Journal of Translational Medicine 2024 22:92
  8. Various clinical similarities are present in ischemic (ICM) and idiopathic dilated cardiomyopathy (IDCM), leading to ambiguity on some occasions. Previous studies have reported that intestinal microbiota appea...

    Authors: Yusheng Wang, Yandan Xie, Gehendra Mahara, Yanling Xiong, Yalan Xiong, Qifang Zheng, Jianqin Chen, Wei Zhang, Honghao Zhou and Qing Li
    Citation: Journal of Translational Medicine 2024 22:89
  9. Necrotic enteritis (NE) is a severe intestinal infection that affects both humans and poultry. It is caused by the bacterium Clostridium perfringens (CP), but the precise mechanisms underlying the disease pathoge...

    Authors: Hemlata Gautam, Lisanework E. Ayalew, Noor Ahmad Shaik, Iresha Subhasinghe, Shelly Popowich, Betty Chow-Lockerbie, Alexa Dixon, Khawaja Ashfaque Ahmed, Suresh K. Tikoo and Susantha Gomis
    Citation: Journal of Translational Medicine 2024 22:80
  10. Gut microbiota alterations have been implicated in sepsis and related infectious diseases, but the causal relationship and underlying mechanisms remain unclear.

    Authors: Sha Yang, Jing Guo, Zhuo Kong, Mei Deng, Jingjing Da, Xin Lin, Shuo Peng, Junwu Fu, Tao Luo, Jun Ma, Hao Yin, Lin Liu, Jian Liu, Yan Zha, Ying Tan and Jiqin Zhang
    Citation: Journal of Translational Medicine 2024 22:10
  11. Prenatal exposure to intrauterine inflammation (IUI) is a crucial event in preterm birth (PTB) pathophysiology, increasing the incidence of neurodevelopmental disorders. Gut microbiota and metabolite profile a...

    Authors: Bei Jia, Lijun Tang, Huibing Liu, Wenqian Chen, Qian Chen, Mei Zhong and Ailan Yin
    Citation: Journal of Translational Medicine 2024 22:7
  12. Microbiota alterations are linked with gastric cancer (GC). However, the relationship between the oral microbiota (especially oral fungi) and GC is not known. In this study, we aimed to apply 2b-RAD sequencing...

    Authors: Shengfu He, Yating Sun, Weijie Sun, Mingyang Tang, Bao Meng, Yanyan Liu, Qinxiang Kong, Yongxiang Li, Jiawen Yu and Jiabin Li
    Citation: Journal of Translational Medicine 2023 21:831
  13. Precancerous lesions of cervical cancer exhibit characteristics indicative of natural progression. To prevent overtreatment of patients whose cervical intraepithelial neoplasia (CIN) in regression and to predi...

    Authors: Yiran Liu, Shuzhen Wang, Jun Liu, Mingrui Su, Xiaoli Diao, Xiaolong Liang, Jianxin Zhang, Qiuxi Wang and Yuxin Zhan
    Citation: Journal of Translational Medicine 2023 21:816
  14. Accumulating evidence supports the significant role of human microbiome in development and therapeutic response of tumors. Circulating microbial DNA is non-invasive and could show a general view of the microbi...

    Authors: Xiaohan Zhou, Liting You, Zhaodan Xin, Huiting Su, Juan Zhou and Ying Ma
    Citation: Journal of Translational Medicine 2023 21:800
  15. Breast milk (BM) provides complete nutrition for infants for the first six months of life and is essential for the development of the newborn’s immature immune and digestive systems. While BM was conventionall...

    Authors: Parul Singh, Noora Al Mohannadi, Selvasankar Murugesan, Fajr Almarzooqi, Basirudeen Syed Ahamed Kabeer, Alexandra Katharina Marr, Tomoshige Kino, Tobias Brummaier, Annalisa Terranegra, Rose McGready, François Nosten, Damien Chaussabel and Souhaila Al Khodor
    Citation: Journal of Translational Medicine 2023 21:784
  16. Sepsis is a life-threatening organ dysfunction caused by abnormal immune responses to various, predominantly bacterial, infections. Different bacterial infections lead to substantial variation in disease manif...

    Authors: Ping Sun, Mintian Cui, Jiongjie Jing, Fanyu Kong, Shixi Wang, Lunxian Tang, Junling Leng and Kun Chen
    Citation: Journal of Translational Medicine 2023 21:777
  17. Early availability of pathogen identification in urinary tract infections (UTIs) has critical importance in disease management. Metagenomic next-generation sequencing (mNGS) has the potential to transform how ...

    Authors: Ye Wang, Ting Chen, Shengwei Zhang, Lei Zhang, Qian Li, Qingyu Lv, Decong Kong, Hua Jiang, Yuhao Ren, Yongqiang Jiang, Yan Li, Wenhua Huang and Peng Liu
    Citation: Journal of Translational Medicine 2023 21:762
  18. For many years, the role of the microbiome in tumor progression, particularly the tumor microbiome, was largely overlooked. The connection between the tumor microbiome and the tumor genome still requires furth...

    Authors: Shi-Wei Guan, Quan Lin, Xi-Dong Wu and Hai-Bo Yu
    Citation: Journal of Translational Medicine 2023 21:537
  19. There are many studies indicating that alterations in the abundance of certain gut microbiota are associated with colorectal cancer (CRC). However, a causal relationship has not been identified due to confound...

    Authors: Yaoxian Xiang, Chan Zhang, Jing Wang, Yurong Cheng, Li Wang, Yingying Tong and Dong Yan
    Citation: Journal of Translational Medicine 2023 21:535
  20. Insulin has been reported to exhibit anti-inflammatory activities in the context of bowel inflammation. However, the role of the interaction between insulin and the microbiota in gut health is unclear. Our goa...

    Authors: Shuying He, Jiating Li, Zirong Yao, Zixian Gao, Yonghong Jiang, Xueqing Chen and Liang Peng
    Citation: Journal of Translational Medicine 2023 21:498
  21. The prevalence of hypertension in Qatar is 33 percent of the adult population. It is postulated that the salivary microbiome can regulate blood pressure (BP). However, limited investigations exist to prove thi...

    Authors: Selvasankar Murugesan and Souhaila Al Khodor
    Citation: Journal of Translational Medicine 2023 21:454
  22. Recent studies have uncovered that the microbiota in patients with head and neck cancers is significantly altered and may drive cancer development. However, there is limited data to explore the unique microbio...

    Authors: Shuting Yu, Junru Chen, Yan Zhao, Fangxu Yan, Yue Fan, Xin Xia, Guangliang Shan, Peng Zhang and Xingming Chen
    Citation: Journal of Translational Medicine 2023 21:438
  23. The human gut microbiota (GM) is involved in the pathogenesis of hypertension (HTN), and could be affected by various factors, including sex and geography. However, available data directly linking GM to HTN ba...

    Authors: Jing Lv, Jihan Wang, Yan Yu, Mengyao Zhao, Wenjuan Yang, Junye Liu, Yan Zhao, Yanjie Yang, Guodong Wang, Lei Guo and Heping Zhao
    Citation: Journal of Translational Medicine 2023 21:429
  24. The purpose of this study was to describe the changes in the gut microbiome of patients with cirrhosis and hepatic encephalopathy (HE), as well as quantify the variations in short-chain fatty acid (SCFA) and t...

    Authors: Qiang Wang, Chengxin Chen, Shi Zuo, Kun Cao and Haiyang Li
    Citation: Journal of Translational Medicine 2023 21:395
  25. Gestational diabetes mellitus (GDM) is a common complication of pregnancy that has been associated with an increased risk of obesity and diabetes in the offspring. Pregnancy is accompanied by tightly regulated...

    Authors: Parul Singh, Duaa Ahmed Idris Elhaj, Ibrahim Ibrahim, Hala Abdullahi and Souhaila Al Khodor
    Citation: Journal of Translational Medicine 2023 21:364
  26. Lipid A is the primary immunostimulatory part of the lipopolysaccharide (LPS) molecule. The inflammatory response of LPS varies and depends upon the number of acyl chains and phosphate groups in lipid A which ...

    Authors: Maryia Khomich, Huang Lin, Andrei Malinovschi, Susanne Brix, Lucia Cestelli, Shyamal Peddada, Ane Johannessen, Carsten Eriksen, Francisco Gomez Real, Cecilie Svanes and Randi Jacobsen Bertelsen
    Citation: Journal of Translational Medicine 2023 21:354
  27. Gut microbiota is closely related to human health and disease because, together with their metabolites, gut microbiota maintain normal intestinal peristalsis. The use of antibiotics or opioid anesthetics, or b...

    Authors: TianRong Ma, XiaoLei Xue, Hui Tian, XinXiu Zhou, JunKe Wang, ZhiWen Zhao, MingFei Wang, JiYuan Song, RenXiang Feng, Leping Li, Changqing Jing and Feng Tian
    Citation: Journal of Translational Medicine 2023 21:349
  28. Icariin (ICA), an active ingredient extracted from Epimedium species, has shown promising results in the treatment of Alzheimer's disease (AD), although its potential therapeutic mechanism remains largely unknown...

    Authors: Yuqing Liu, Hongli Li, Xiaowei Wang, Jianhua Huang, Di Zhao, Yejun Tan, Zheyu Zhang, Zhen Zhang, Lemei Zhu, Beibei Wu, Zhibao Chen and Weijun Peng
    Citation: Journal of Translational Medicine 2023 21:277
  29. The pathogenesis of interstitial cystitis/bladder pain syndrome (IC/BPS) has not been elucidated, but urinary microorganisms and metabolites have been shown to be closely associated with the inflammatory respo...

    Authors: Zhenming Zheng, Jintao Hu, Wenshuang Li, Kaiqun Ma, Caixia Zhang, Kuiqing Li and Yousheng Yao
    Citation: Journal of Translational Medicine 2023 21:266
  30. Lactobacillus has been demonstrated to serve a protective role in intestinal injury. However, the relationship between Lactobacillus murinus (L. murinus)-derived tryptophan metabolites and intestinal ischemia/rep...

    Authors: Fang-Ling Zhang, Xiao-Wei Chen, Yi-Fan Wang, Zhen Hu, Wen-Juan Zhang, Bo-Wei Zhou, Peng-Fei Ci and Ke-Xuan Liu
    Citation: Journal of Translational Medicine 2023 21:264
  31. The human body is colonized by abundant and diverse microorganisms, collectively known as the microbiome. The oral cavity has more than 700 species of bacteria and consists of unique microbiome niches on mucos...

    Authors: Xiaoyan Huang, Xiangyu Huang, Yi Huang, Jiarong Zheng, Ye Lu, Zizhao Mai, Xinyuan Zhao, Li Cui and Shaohong Huang
    Citation: Journal of Translational Medicine 2023 21:211
  32. Temozolomide (TMZ) is the preferred chemotherapy strategy for glioma therapy. As a second-generation alkylating agent, TMZ provides superior oral bio-availability. However, limited response rate (less than 50%...

    Authors: Xiaoying Hou, Hongzhi Du, Yufei Deng, Haiping Wang, Jinmi Liu, Jialu Qiao, Wei Liu, Xiji Shu, Binlian Sun and Yuchen Liu
    Citation: Journal of Translational Medicine 2023 21:198
  33. Suboptimal maternal oral health during pregnancy is potentially associated with adverse birth outcomes and increased dental caries risks in children. This study aimed to assess the oral microbiome and immune r...

    Authors: Tong Tong Wu, Michael Sohn, Samantha Manning, Robert Beblavy, Steven Gill, Sally Quataert, Shruti Vasani, Hoonji Jang, Yan Zeng, Jennifer Bruno, Adriana Vazquez, Kevin Fiscella and Jin Xiao
    Citation: Journal of Translational Medicine 2023 21:172
  34. The realization of the “microbiota–gut–brain” axis plays a critical role in neuropsychiatric disorders, particularly depression, is advancing rapidly. Matrine is a natural bioactive compound, which has been fo...

    Authors: Ming Zhang, Aoqiang Li, Qifang Yang, Jingyi Li, Lihua Zheng, Guannan Wang, Ying Sun, Yanxin Huang, Muqing Zhang, Zhenbo Song and Lei Liu
    Citation: Journal of Translational Medicine 2023 21:145
  35. Gut mycobiota plays a crucial role in benign liver diseases; however, its correlation with hepatocellular carcinoma (HCC) remains elusive. This study aimed to elucidate fungal differences in patients with HCC-...

    Authors: Lilong Zhang, Chen Chen, Dongqi Chai, Chunlei Li, Zhendong Qiu, Tianrui Kuang, Li Liu, Wenhong Deng and Weixing Wang
    Citation: Journal of Translational Medicine 2023 21:126
  36. Gut dysbacteriosis has been reported as one of the etiologies for irritable bowel syndrome (IBS). However, the association between gut microbiota and IBS is still inconclusive.

    Authors: Han Chen, Rong Ou, Nana Tang, Wei Su, Ruoyun Yang, Xin Yu, Guoxin Zhang, Jianhua Jiao and Xiaoying Zhou
    Citation: Journal of Translational Medicine 2023 21:117
  37. Alterations in oral microbiota in patients with systemic lupus erythematosus (SLE) is less evaluated. The aim of this study was to compare the characteristics of the oral microbiome in SLE patients and healthy...

    Authors: Jinyan Guo, Guangying Cui, Wei Huang, Zhaohui Zheng, Tianfang Li, Guanmin Gao, Zhen Huang, Yuwei Zhan, Suying Ding, Shengyun Liu, Zujiang Yu and Zhigang Ren
    Citation: Journal of Translational Medicine 2023 21:95
  38. Gut microbiota plays a critical role in the onset and development of depression, but the underlying molecular mechanisms are unclear. This study was conducted to observe the characteristics of gut microbiota, ...

    Authors: Jing Xie, Qi Zhong, Wen-tao Wu and Jian-jun Chen
    Citation: Journal of Translational Medicine 2023 21:93
  39. Intratumoral microbial communities have been recently discovered to exist in a variety of cancers and have been found to be intricately involved in tumour progression. Therefore, investigating the profiles and...

    Authors: Yuting He, Qiyao Zhang, Xiao Yu, Shuijun Zhang and Wenzhi Guo
    Citation: Journal of Translational Medicine 2023 21:68
  40. Features of the gut microbiota have been associated with several chronic diseases and longevity in preclinical models as well as in observational studies. Whether these relations underlie causal effects in hum...

    Authors: Eloi Gagnon, Patricia L. Mitchell, Hasanga D. Manikpurage, Erik Abner, Nele Taba, Tõnu Esko, Nooshin Ghodsian, Sébastien Thériault, Patrick Mathieu and Benoit J. Arsenault
    Citation: Journal of Translational Medicine 2023 21:60
  41. Necrotizing enterocolitis (NEC) is a devastating gastrointestinal disease with high morbidity and mortality, affecting preterm infants especially those with very low and extremely low birth weight. β-glucan ha...

    Authors: Xingdao Zhang, Yuni Zhang, Yu He, Xingwang Zhu, Qing Ai and Yuan Shi
    Citation: Journal of Translational Medicine 2023 21:14
  42. Antibody-mediated rejection (AMR) remains one of the major barriers for graft survival after kidney transplantation. Our previous study suggested a gut microbiota dysbiosis in kidney transplantation recipients...

    Authors: Xin Li, Ruoying Li, Bingqing Ji, Lili Zhao, Junpeng Wang and Tianzhong Yan
    Citation: Journal of Translational Medicine 2022 20:614
  43. Integrative analysis approaches of metagenomics and metabolomics have been widely developed to understand the association between disease and the gut microbiome. However, the different profiling patterns of di...

    Authors: Lanlan Zhao, Cheng Wang, Shanxin Peng, Xiaosong Zhu, Ziyi Zhang, Yanyan Zhao, Jinling Zhang, Guoping Zhao, Tao Zhang, Xueyuan Heng and Lei Zhang
    Citation: Journal of Translational Medicine 2022 20:459
  44. Globally, gastric cancer is the third most common cancer and the third leading cause of cancer death. Proximal and distal gastric cancers have distinct clinical and biological behaviors. The microbial composit...

    Authors: Yan Yang, Daofeng Dai, Wen Jin, Yingying Huang, Yingzi Zhang, Yiran Chen, Wankun Wang, Wu Lin, Xiangliu Chen, Jing Zhang, Haohao Wang, Haibin Zhang and Lisong Teng
    Citation: Journal of Translational Medicine 2022 20:439
  45. The pathogenesis of kidney stone disease (KSD) is not fully understood, and potential contributing factors remain to be explored. Several studies have revealed that the urinary microbiome (urobiome) of stone f...

    Authors: Sen-Yuan Hong, Yuan-Yuan Yang, Jin-Zhou Xu, Qi-Dong Xia, Shao-Gang Wang and Yang Xun
    Citation: Journal of Translational Medicine 2022 20:431
  46. In recent years, there has been a greater emphasis on the impact of microbial populations inhabiting the gastrointestinal tract on human health and disease. According to the involvement of microbiota in modula...

    Authors: Hourieh Sadrekarimi, Zhanna R. Gardanova, Morteza Bakhshesh, Farnoosh Ebrahimzadeh, Amirhossein Fakhre Yaseri, Lakshmi Thangavelu, Zahra Hasanpoor, Firoozeh Abolhasani Zadeh and Mohammad Saeed Kahrizi
    Citation: Journal of Translational Medicine 2022 20:301
  47. Chronic obstructive pulmonary disease (COPD), a prevalent, progressive respiratory disease, has become the third leading cause of death globally. Increasing evidence suggests that intestinal and pulmonary micr...

    Authors: Yu Jia, Tiantian He, Di Wu, Jiabing Tong, Jie Zhu, Zegeng Li and Jingcheng Dong
    Citation: Journal of Translational Medicine 2022 20:281