Article
Multidisciplinary Sciences
Christopher J. Anderson, Christopher B. Medina, Brady J. Barron, Laura Karvelyte, Tania Love Aaes, Irina Lambertz, Justin S. A. Perry, Parul Mehrotra, Amanda Goncalves, Kelly Lemeire, Gillian Blancke, Vanessa Andries, Farzaneh Ghazavi, Arne Martens, Geert van Loo, Lars Vereecke, Peter Vandenabeele, Kodi S. Ravichandran
Summary: The study demonstrates how nutrients released from apoptotic cells can promote the growth of Enterobacteriaceae and highlights the role of pyruvate formate-lyase-encoding pflB gene in bacterial colonization in various contexts. These findings provide new insights into host-pathogen interactions and have implications for gut inflammation and chemotherapy treatment.
Review
Biochemistry & Molecular Biology
Karen R. Thomas, Jacob Watt, Chuen Mong J. Wu, Adejoke Akinrinoye, Sairah Amjad, Lucy Colvin, Rachel Cowe, Sylvia H. Duncan, Wendy R. Russell, Patrice Forget
Summary: Opioid use can lead to dysbiosis in the gut microbiome, impacting mental health and potentially leading to conditions such as depression and Parkinson's Disease. Therapeutic interventions, including fecal microbiota transplantation and targeted antibiotic therapy, can influence the gut microbiome and potentially alleviate the effects of opioid-induced dysbiosis.
Article
Gastroenterology & Hepatology
Jianmei Wei, Chunze Zhang, Yunhuan Gao, Yuanyuan Li, Qianjing Zhang, Houbao Qi, Mengli Jin, Xiaorong Yang, Xiaomin Su, Yuan Zhang, Rongcun Yang
Summary: This study investigated the function of CXCL9 in gut epithelial cells and its mechanism of killing E. coli. The findings demonstrated that CXCL9 expressed in gut epithelial cells can kill overgrown E. coli through the aceE pathway to maintain gut homeostasis.
JOURNAL OF CROHNS & COLITIS
(2022)
Review
Immunology
Nahir Garabatos, Pere Santamaria
Summary: The composition of the gut microbiota is closely related to the development of various autoimmune diseases, including inflammatory bowel disease and multiple sclerosis. Antigenic mimicry and the impact on effector and regulatory T cells are important mechanisms involved in this process.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Gastroenterology & Hepatology
Desen Sun, Rongpan Bai, Wei Zhou, Zhengrong Yao, Yaxin Liu, Shasha Tang, Xiaolong Ge, Liang Luo, Chi Luo, Guo-fu Hu, Jinghao Sheng, Zhengping Xu
Summary: This study reveals that angiogenin (ANG) can regulate gut microbiota composition, inhibit intestinal inflammation, and its antimicrobial activity against alpha-Proteobacteria promotes the growth of beneficial Lachnospiraceae strains. The ANG-microbiota axis may be a potential preventive and therapeutic approach for dysbiosis-related gut diseases.
Article
Medicine, Research & Experimental
Danni Yu, Quanhui Dai, Zixiang Wang, Steven X. Hou, Ling V. Sun
Summary: This study aimed to explore the role of ARF1 in intestinal epithelial cells (IECs) and reveal the possible mechanism. The results showed that ARF1 is essential for ISC proliferation and differentiation. Loss of ARF1 increased susceptibility to DSS-induced colitis and gut microbial dysbiosis. Additionally, RNA-seq analysis revealed alterations in multiple metabolic pathways.
Article
Rheumatology
Michele Maria Luchetti, Francesco Ciccia, Chiara Avellini, Devis Benfaremo, Aroldo Rizzo, Tatiana Spadoni, Silvia Svegliati, Daniela Marzioni, Alfredo Santinelli, Andrea Costantini, Nadia Viola, Antonella Berretta, Monia Ciferri, Monica Mattioli Belmonte Cima, Piergiorgio Mosca, Antonio Benedetti, Armando Gabrielli
Summary: The study revealed gut epithelium impairment in SpA-IBD patients leading to bacterial translocation into the bloodstream, immune system activation, and elevated levels of specific soluble biomarkers. The findings suggest that gut dysbiosis may play a role in the pathogenesis of SpA-IBD.
Review
Cell Biology
Shuning Zhang, Soumyajeet Paul, Parag Kundu
Summary: Human beings and their indigenous microbial communities have developed co-evolutionary mechanisms of communication and cooperation. The gastrointestinal tract plays a crucial role in regulating the interaction between the host and gut microbiota, with the transcription factor NF-kappa B playing a key role in host response to microbial cues.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Pharmacology & Pharmacy
Min Gao, Xinhao Duan, Xiang-Ru Liu, Shiyue Luo, Shixin Tang, Hao Nie, Jing Yan, Zhen Zou, Chengzhi Chen, Qi Yin, Jingfu Qiu
Summary: This study revealed that HXZQ exhibited positive impacts on the bacterial diversity and composition of the gut microbiome in healthy adults, and also significantly restored the gut microbial compositions in antibiotic-induced mice models. These results demonstrate the important role of HXZQ in regulating gut microbial community structure.
FRONTIERS IN PHARMACOLOGY
(2022)
Review
Immunology
Walaa K. Mousa, Fadia Chehadeh, Shannon Husband
Summary: The interaction between gut microbes and the immune system plays a crucial role in the development and treatment of systemic autoimmune diseases. Understanding how gut microbes can trigger or protect from these diseases can help us tackle them through dietary and lifestyle changes, microbiome-based therapies, identification of diagnostic biomarkers, and intervention with microbial population changes. Considering the microbiome signature as a key player in systemic autoimmune diseases holds promise in transforming these untreatable diseases into manageable or preventable ones.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Multidisciplinary Sciences
Mark Loftus, Sayf Al-Deen Hassouneh, Shibu Yooseph
Summary: The study analyzes the nature of bacterial associations at the species level in healthy human gut microbiomes, identifying prevalent signature bacterial species that can accurately distinguish between populations. The bacterial association networks reveal conserved associations across populations and a dominance of positive associations over negative associations. Functional analysis suggests that taxonomic variation across human populations does not lead to substantial functional or structural differences.
SCIENTIFIC REPORTS
(2021)
Article
Gastroenterology & Hepatology
Jun Miyoshi, Sawako Miyoshi, Tom O. Delmont, Candace Cham, Sonny T. M. Lee, Aki Sakatani, Karen Yang, Yue Shan, Megan Kennedy, Evan Kiefl, Mahmoud Yousef, Sean Crosson, Mitchell Sogin, Dionysios A. Antonopoulos, A. Murat Eren, Vanessa Leone, Eugene B. Chang
Summary: Early engraftment of a specific Bacteroides strain can help restore gut microbiome development, promote immune tolerance, and reduce the risk of colitis in genetically susceptible hosts.
Article
Immunology
Claudia A. Rivera, Violaine Randrian, Wilfrid Richer, Yohan Gerber-Ferder, Maria-Graciela Delgado, Aleksandra S. Chikina, Annika Frede, Chiara Sorini, Mathieu Maurin, Hana Kammoun-Chaari, Sara M. Parigi, Christel Goudot, Mar Cabeza-Cabrerizo, Sylvain Baulande, Sonia Lameiras, Pierre Guermonprez, Caetano Reis e Sousa, Marc Lecuit, Helene D. Moreau, Julie Helft, Danijela Matic Vignjevic, Eduardo J. Villablanca, Ana-Maria Lennon-Dumenil
Summary: There are two pools of cDC2s in the small intestine, originating from common pre-DC precursors, and their phenotypes are influenced by food-derived retinoic acid.
Article
Biochemistry & Molecular Biology
Wen-zhi Hao, Qing-yu Ma, Gabriel Tao, Jun-qing Huang, Jia-xu Chen
Summary: Oral administration of CF can alleviate depression-like behaviors induced by CUMS, improve colonic inflammation, lower levels of inflammatory cytokines, and restructure the gut microbiome. Therefore, CF administration is a promising nutritional strategy to treat CUMS-induced depression by regulating microbiota and microbial metabolism.
Article
Biochemistry & Molecular Biology
Qiong Wang, Xiaoying Ma
Summary: This study demonstrates that NaB alleviates renal ischemia-reperfusion injury by promoting the transcription of PPAR alpha via downregulation of HES1, thereby inhibiting oxidative stress, inflammation, and apoptosis.
MOLECULAR IMMUNOLOGY
(2022)
Article
Evolutionary Biology
Sean D. Schoville, Sabrina Simon, Ming Bai, Zachary Beethem, Roman Y. Dudko, Monika J. B. Eberhard, Paul B. Frandsen, Simon C. Kuepper, Ryuichiro Machida, Max Verheij, Peter C. Willadsen, Xin Zhou, Benjamin Wipfler
Summary: This study reveals that evolutionary constraints in cold adaptation of Grylloblattodea have led to their relictual status, including the loss of inducible heat shock response under acute heat and cold stress, as well as positive selection on protein-coding genes related to cold adaptation. This suggests that the group has undergone evolutionary trade-offs to survive in cold habitats, making them highly vulnerable to climate change.
EVOLUTIONARY APPLICATIONS
(2021)
Article
Biology
Keith M. Bayless, Michelle D. Trautwein, Karen Meusemann, Seunggwan Shin, Malte Petersen, Alexander Donath, Lars Podsiadlowski, Christoph Mayer, Oliver Niehuis, Ralph S. Peters, Rudolf Meier, Sujatha Narayanan Kutty, Shanlin Liu, Xin Zhou, Bernhard Misof, David K. Yeates, Brian M. Wiegmann
Summary: This study utilized transcriptome data to investigate the phylogenetic relationships of schizophoran flies, supporting the division of most acalyptrate fly groups into four major lineages consistently across analyses. The research revealed the primary branching patterns and highlighted important sister group relationships, laying a foundation for future comparative research.
Article
Evolutionary Biology
Lindsey K. Olsen, Jacqueline Heckenhauer, John S. Sproul, Rebecca B. Dikow, Vanessa L. Gonzalez, Matthew P. Kweskin, Adam M. Taylor, Seth B. Wilson, Russell J. Stewart, Xin Zhou, Ralph Holzenthal, Steffen U. Pauls, Paul B. Frandsen
Summary: Trichoptera (caddisflies) are essential for freshwater ecosystems, with the genetic diversity playing a key role in evolutionary studies. Tube case-making caddisflies have genomes at least three times larger than retreat-making caddisflies, driven in part by expansion of repetitive elements. This suggests caddisflies are a promising model for understanding genome size evolution in diverse insect lineages.
GENOME BIOLOGY AND EVOLUTION
(2021)
Article
Zoology
Ao Zhang, Xin Zhou
Summary: The larvae of Chinese caddisflies Potamyia chinensis and Cheumatopsyche trifascia were successfully associated with identifiable adults using independent DNA markers and nuclear ribosomal genes. The study found congruence between the two markers in defining species boundaries, but D2 failed to differentiate closely related species.
Article
Entomology
Wenjun Zhang, Xue Zhang, Qinzhi Su, Min Tang, Hao Zheng, Xin Zhou
Summary: The study compared the genomes of bee gut bacteria Apibacter with their relatives, revealing a reduction in the Apibacter genome but retention of genes beneficial to the host. Unique genes involved in nitrate respiration were found in microaerobic Apibacter species, suggesting a key role in colonizing bee gut epithelium.
Article
Immunology
Jiayao Ou, Xiaoxing Guan, Jiali Wang, Tianjiao Wang, Bin Zhang, Rong Li, Huji Xu, Xiaoyu Hu, Xue-Kun Guo
Summary: The NELF complex plays a critical role in maintaining epithelial homeostasis in intestinal epithelial cells by sustaining expression of genes related to junctional integrity. Lack of NELF results in impaired barrier integrity and exacerbated inflammation in the intestine, highlighting the importance of elongation in defining the IEC transcriptome.
MUCOSAL IMMUNOLOGY
(2022)
Article
Microbiology
Chengfeng Yang, Qinzhi Su, Min Tang, Shiqi Luo, Hao Zheng, Xue Zhang, Xin Zhou
Summary: This study developed a pipeline to screen for single-copy protein-coding genes that accurately characterize sequence-discrete populations (SDPs) in microbial communities. By evaluating 15 candidate marker genes and testing their efficiency in differentiating SDPs within a specific microbial phylotype, the study demonstrated that single-copy genes recommended by the pipeline could successfully quantify SDPs in both mock samples and real honeybee gut samples, with results consistent with those of metagenomics. The pipeline proposed in this study is expected to accurately quantify diverse bacterial communities at the SDP level.
MICROBIOLOGY SPECTRUM
(2022)
Article
Microbiology
Chenyi Li, Min Tang, Xingan Li, Xin Zhou
Summary: Honey bees face challenges in winter due to low temperatures and dietary shifts. The gut microbiota of winter bees undergoes drastic turnover, with non-core bacterium Bartonella dominating during the season. Bartonella has the ability to utilize diverse energy substrates and provide essential nutrients to the host. The seasonal gut variations may improve the fitness of honey bees.
Article
Zoology
Naotoshi Kuhara, Takao Nozaki, Ao Zhang, Xin Zhou
Summary: We investigated adult specimens of the Mystacides azureus Species Group in Japan and identified three species, including M. azureus, M. rivularis, and M. moritai. The new species, M. rivularis and M. moritai, were described, and we found considerable variation in the morphology of the male tergum X in M. azureus populations in Japan. Through analysis of mitochondrial COI barcodes, we confirmed the species status of these three species and constructed a phylogenetic tree that supported the monophyly of the new species and suggested that the morphological variation within M. azureus was intraspecific in Japanese populations.
Article
Multidisciplinary Sciences
Lizhen Guo, Junbo Tang, Min Tang, Shiqi Luo, Xin Zhou
Summary: A study found that honeybees maintain symbiotic specificity by regulating their immune system to create a hostile gut environment for exotic bacteria, inhibiting their growth through the production of reactive oxygen species (ROS). This suggests that honeybees co-opt existing anti-pathogen mechanisms to establish and maintain symbiosis with specific gut bacteria.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Multidisciplinary Sciences
Fangfang Qu, Wenjia Li, Jian Xu, Ruifang Zhang, Jincan Ke, Xiaodie Ren, Xiaogao Meng, Lexin Qin, Jingna Zhang, Fangru Lu, Xin Zhou, Xi Luo, Zhen Zhang, Minhan Wang, Guangming Wu, Duanqing Pei, Jiekai Chen, Guizhong Cui, Shengbao Suo, Guangdun Peng
Summary: This study presents a three-dimensional spatial transcriptomic atlas of major organs in the mouse embryo at embryonic day 13.5, providing detailed insights into organ development and cellular interactions during mammalian development. By integrating the spatial atlas with single-cell transcriptomic data, the study offers a comprehensive understanding of the dynamic processes involved in organ development, cellular interactions, embryonic axes, and cell fate divergence, which could contribute to precise organ engineering and stem cell-based regenerative medicine.
NATURE COMMUNICATIONS
(2023)
Article
Cell Biology
Xue-Kun Guo, Jiali Wang, Vincent P. van Hensbergen, Jintao Liu, Huji Xu, Xiaoyu Hu
Summary: This study reveals a unique pattern of crypt occupation by mucus-associated biofilms during early colitis, which is genetically dependent on bacterial biofilm-forming capacity and restricted by host epithelial O 1,2-fucosylation. Deficiency in O 1,2-fucosylation leads to increased crypt occupation by biofilms and exacerbated intestinal inflammation. Mechanistically, fucose from biofilm-occupied mucus suppresses biofilm formation and related genes. Additionally, fucose administration ameliorates experimental colitis, suggesting the therapeutic potential of fucose for biofilm-related disorders.
Article
Entomology
Lizhen Guo, Min Tang, Shiqi Luo, Xin Zhou
Summary: In this study, a class of antimicrobial peptides (AMPs) called Cecropin was identified from insect transcriptomes using bioinformatics. The identified Cecropin genes were found in several insects and their antimicrobial activity against bacteria was validated. This study provides a reliable analytical method for the discovery of AMPs, which have promising applications in diverse fields.
Article
Zoology
Lifei Qiu, Jiangxing Dong, Xingan Li, Sajad H. Parey, Ken Tan, Michael Orr, Aquib Majeed, Xue Zhang, Shiqi Luo, Xuguo Zhou, Chaodong Zhu, Ting Ji, Qingsheng Niu, Shanlin Liu, Xin Zhou
Summary: Despite the lack of strategic action plans for the preservation of the Asian honeybee, this study identified eight putative subspecies of the A. cerana based on genome variations. The study suggests that subspecies boundaries should be determined by evolutionary independence, trait distinction, and geographic isolation. These findings are crucial for developing customized conservation strategies and guiding colony introduction and breeding.
ZOOLOGICAL RESEARCH
(2023)
Article
Zoology
Ao Zhang, Xin Zhou
Summary: This molecular association analysis included a total of 45 adult and larval specimens of 6 Chinese Hydromanicus species, revealing deep intraspecific divergences within several species. Illustrated larval descriptions were provided for three associated species, but species in the H. melli Complex cannot be morphologically differentiated from each other.