Deep learning enabled integration of tumor microenvironment microbial profiles and host gene expressions for interpretable survival subtyping in diverse types of cancers by Haohong Zhang, Xinghao Xiong, Mingyue Cheng, Lei Ji, Kang Ning

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Physiologically relevant coculture model for oral microbial-host interactions by Zeyang Pang, Nicole M. Cady, Lujia Cen, Thomas M. Schmidt, Xuesong He, Jiahe Li

“…Abstract Understanding microbial-host interactions in the oral cavity is essential for elucidating oral disease pathogenesis and its systemic implications. …”
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An integrated microbiome- and metabolome-genome-wide association study reveals the role of heritable ruminal microbial carbohydrate metabolism in lactation performance in Holstein... by Chenguang Zhang, Huifeng Liu, Xingwei Jiang, Zhihong Zhang, Xinfeng Hou, Yue Wang, Dangdang Wang, Zongjun Li, Yangchun Cao, Shengru Wu, Sharon A. Huws, Junhu Yao

“…Conclusion Our comprehensive study revealed the distinct heritability patterns of rumen microbial composition, function, and metabolism. Additionally, we shed light on the influence of host SNP variants on the rumen microbes with carbohydrate metabolism and their subsequent effects on lactation performance. …”
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Different genotypes regulate the microbial community structure in the soybean rhizosphere by Zheng QU, Yue-han LI, Wei-hui XU, Wen-jing CHEN, Yun-long HU, Zhi-gang WANG

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Breaking Barriers: Candidalysin Disrupts Epithelial Integrity and Induces Inflammation in a Gut-on-Chip Model by Moran Morelli, Karla Queiroz

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Improving genomic prediction accuracy for methane emission and feed efficiency in sheep: integrating rumen microbial PCA with host genomic variation using neural network GBLUP (NN-GBLUP) by Setegn Worku Alemu, Timothy P. Bilton, Patricia L. Johnson, Benjamin J. Perry, Hannah Henry, Ken G. Dodds, John C. McEwan, Suzanne J. Rowe

“…Conclusions Principal Component Analysis reduced the dimensionality of rumen microbiome data while preserving essential biological information. The integration of these PCA-reduced data with host genomic information through an NN-GBLUP model substantially improved genomic prediction accuracy for methane emissions and feed efficiency in sheep. …”
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miMatch: a microbial metabolic background matching tool for mitigating host confounding in metagenomics research by Lei Liu, Suqi Cao, Weili Lin, Zhigang Gao, Liu Yang, Lixin Zhu, Bin Yang, Guoqing Zhang, Ruixin Zhu, Dingfeng Wu

“…The microbial metabolic background, which modulates microbial composition, reflects a cumulative impact of host confounders, serving as an ideal baseline for microbial sample matching. …”
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Probiotic modulation of symbiotic gut microbial–host metabolic interactions in a humanized microbiome mouse model by Francois‐Pierre J Martin, Yulan Wang, Norbert Sprenger, Ivan K S Yap, Torbjörn Lundstedt, Per Lek, Serge Rezzi, Ziad Ramadan, Peter van Bladeren, Laurent B Fay, Sunil Kochhar, John C Lindon, Elaine Holmes, Jeremy K Nicholson

“…Statistical analysis of the compartmental fluctuations in diverse metabolic compartments, including biofluids, tissue and cecal short‐chain fatty acids (SCFAs) in relation to microbial population modulation generated a novel top‐down systems biology view of the host response to probiotic intervention. …”
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A human skin microbiome reference catalog and the skin microbial landscape of plateau adults by Yi Liu, Zhiming Li, Chao Zhang, Bo Li, Weiwei Jiang, Hang Li, Lei Zhang, Hefu Zhen, Shujun Bao, Xiong Li, Yinuo Liu, Xianzhen Chen, Jinxia Du, Jingjing Xia, Jiucun Wang, Ruijin Guo, Yuzhe Sun, Bo Pan, Wenzhi Lei, Liang Xiao, Jin Zhao, Xin Jin, Wenwei Zhang, Xiaogang Liu, Jian Wang, Min Chen, Wanqing Liao, Wenjie Fang, Chao Nie, Weihua Pan

“…Here, we established human skin microbiome genome (HSMG) and protein (HSMP) catalogs by integrating 739 newly sequenced and 2,520 published samples, along with two published microbial genome catalogs. …”
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Host-virus coevolution drives soil microbial function succession along a millennium land reclamation chronosequence by Wenbing Li, Yiling Wang, Kankan Zhao, Linya Xu, Tingfeng Shi, Bin Ma, Xiaofei Lv

“…This study offers novel insights into long-term virus-host interactions, showing how the virome responds to environmental changes, driving shifts in various microbial functions in reclaimed land.…”
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Shenmai injection revives cardiac function in rats with hypertensive heart failure: involvement of microbial-host co-metabolism by Lin Li, Senjie Zhong, Jiahao Ye, Siyuan Hu, Xiajun Xiong, Guangyu Chen, Zhixi Hu

“…Recent research suggests that Traditional Chinese Medicine (TCM) may induce beneficial changes in microbial-host co-metabolism, potentially providing cardiovascular protection. …”
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Integrating microbial communities into algal biotechnology: a pathway to enhanced commercialization by Hari Koneru, Safiatou Bamba, Aksel Bell, Adrian A. Estrada-Graf, Zackary I. Johnson, Zackary I. Johnson

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Proteomics and integrative omic approaches for understanding host–pathogen interactions and infectious diseases by Pierre M Jean Beltran, Joel D Federspiel, Xinlei Sheng, Ileana M Cristea

“…Abstract Organisms are constantly exposed to microbial pathogens in their environments. When a pathogen meets its host, a series of intricate intracellular interactions shape the outcome of the infection. …”
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A novel system to culture human intestinal organoids under physiological oxygen content to study microbial-host interaction. by Tatiana Y Fofanova, Umesh C Karandikar, Jennifer M Auchtung, Reid L Wilson, Antonio J Valentin, Robert A Britton, K Jane Grande-Allen, Mary K Estes, Kristi Hoffman, Sashirekha Ramani, Christopher J Stewart, Joseph F Petrosino

“…Thus, a coculture system that can recreate these contrasting oxygen requirements is critical step towards our understanding microbial-host interactions in the human gut. Here, we demonstrate Intestinal Organoid Physoxic Coculture (IOPC) system, a simple and cost-effective method for coculturing anaerobic intestinal bacteria with human intestinal organoids (HIOs). …”
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Cichlid fishes are promising underutilized models to investigate helminth-host-microbiome interactions by Maarten P. M. Vanhove, Maarten P. M. Vanhove, Stephan Koblmüller, Jorge M. O. Fernandes, Christoph Hahn, Michelle Plusquin, Nikol Kmentová, Nikol Kmentová, Nikol Kmentová

“…We suggest exploring African Great Lake cichlids as model hosts for interactions between microbial diversity, helminth diversity, and host health.…”
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An interactive art activity to promote student reflection and learning about host-microbe interactions by Camila Souza Beraldo

“…To explore how different factors shape host–microbe interactions, I developed the activity MicrobiART, which uses mixed art materials to create analogies that illustrate the dynamic relationships between hosts, microbes, and their environments. …”
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Integrating multi-omics data to reveal the host-microbiota interactome in inflammatory bowel disease by Fengyuan Su, Meng Su, Wenting Wei, Jiayun Wu, Leyan Chen, Xiqiao Sun, Moyan Liu, Shiqiang Sun, Ren Mao, Arno R. Bourgonje, Shixian Hu

“…Finally, we discuss the challenges pertaining to the integration of multi-omics data in order to reveal host-microbiota cross-talk and offer insights into relevant future research directions.…”
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MicroGlycoDB: A database of microbial glycans using Semantic Web technologies by Sunmyoung Lee, Louis-David Leclercq, Yann Guerardel, Christine M. Szymanski, Thomas Hurtaux, Tamara L. Doering, Takane Katayama, Kiyotaka Fujita, Kazuhiro Aoki, Kiyoko F. Aoki-Kinoshita

“…Glycoconjugates are present on microbial surfaces and play critical roles in modulating interactions with the environment and the host. …”
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Host‐Specificity and Network Structure of Tick Microbiota in Co‐Distributed Species From the Iberian Peninsula by Víctor Noguerales, José de laFuente, Sandra Díaz‐Sánchez

“…Here, by integrating high‐throughput DNA sequencing with microbial ecological analyses and network association approaches, we investigate the community composition and structure of microbiota across natural populations of three co‐distributed tick species in the central Iberian Peninsula (Castilla‐La Mancha region). …”
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Integrative multiomics analysis reveals host-microbe-metabolite interplays associated with the aging process in Singaporeans by Liwei Chen, Tingting Zheng, Yifan Yang, Prem Prashant Chaudhary, Jean Pui Yi Teh, Bobby K. Cheon, Daniela Moses, Stephan C. Schuster, Joergen Schlundt, Jun Li, Patricia L. Conway

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