Article
Microbiology
Pil Soo Kim, Na-Ri Shin, Jae-Bong Lee, Min-Soo Kim, Tae Woong Whon, Dong-Wook Hyun, Ji-Hyun Yun, Mi-Ja Jung, Joon Yong Kim, Jin-Woo Bae
Summary: This study comprehensively characterized gut bacterial communities in fish, revealing that the dominant phyla were Proteobacteria and Firmicutes. The gut microbiota in fish was more strongly influenced by host habitat than by host taxonomy or trophic level.
Article
Microbiology
Yi Xian Er, Soo Ching Lee, Leslie Thian-Lung Than, Azdayanti Muslim, Kin Fon Leong, Zhenli Kwan, Izandis Mohd Sayed, Yvonne Ai-Lian Lim
Summary: Tinea imbricata is a fungal skin disease that affects indigenous populations in specific regions. The control and management of the disease among these communities are challenging due to their remote locations, traditional practices, and malnutrition. Host genetic factors and skin microbiota are thought to play a role in the pathogenesis of the disease, but there is limited research on how they impact disease susceptibility. A comprehensive literature review is needed to improve understanding and find effective treatment options for affected communities. This review aims to present the current status and underlying reasons for the disease's distribution, emphasizing knowledge gaps in host genetics and skin microbiota.
Article
Biotechnology & Applied Microbiology
E. N. Kashinskaya, E. P. Simonov, K. B. Andree, P. G. Vlasenko, O. V. Polenogova, B. A. Kiriukhin, M. M. Solovyev
Summary: The study revealed a weak negative correlation between ulcerations on the skin of Prussian carp and reduction in the abundance of specific taxa. Additionally, the microbiota associated with parasitic crustaceans L. cyprinacea were dominated by unclassified bacteria from Comamonadaceae, Aeromonadaceae families and Vogesella. The results suggest that ectoparasites have the potential to alter skin microbiota and play a role in transmitting secondary bacterial infections in fish.
JOURNAL OF APPLIED MICROBIOLOGY
(2021)
Review
Microbiology
Irati Romero-Garmendia, Koldo Garcia-Etxebarria
Summary: The role of microbiota in colorectal cancer is significant and is associated with interactions with the host and host genetics. Studying these interactions can provide insights into the biological pathways and mechanisms of colorectal cancer, leading to feasible measures for prevention and treatment.
Article
Ecology
Peixin Fan, Corwin D. Nelson, J. Danny Driver, Mauricio A. Elzo, Francisco Penagaricano, Kwangcheol C. Jeong
Summary: Research shows that host genetics has a significant impact on the structure of gut microbiota, with breed composition influencing the core bacterial taxa at different growth stages. Additionally, this study identified specific bacteria associated with breed composition, highlighting the dynamic and lifelong effects of host genetics on gut microbiota.
Article
Ecology
Xiaoxia Deng, Lianfu Chen, Enwei Tian, Dayong Zhang, Tanming Wattana, Hui Yu, Finn Kjellberg, Simon T. Segar
Summary: Researchers aim to study the geographical differences, community composition, and structures of non-pollinating fig wasps and pollinating fig wasps using pan-tropical fig-wasp communities. They found that non-pollinating wasps have more stable distributions across different geographic locations compared to pollinating wasps, but still exhibit differences. The segregation among different non-pollinating wasp species suggests the influence of factors such as resource competition and local adaptation.
JOURNAL OF ANIMAL ECOLOGY
(2021)
Article
Engineering, Environmental
Jun-Nan Huang, Yuan Zhang, Lei Xu, Kai-Xuan He, Bin Wen, Pei-Wen Yang, Jie-Yu Ding, Jing-Ze Li, Huan-Chao Ma, Jian-Zhong Gao, Zai-Zhong Chen
Summary: The exposure of Discus fish to polystyrene microplastics significantly inhibited growth performance and led to changes in microbial community in different tissues. The study also demonstrated tissue-specific effects of microplastics on oxidative stress and enzyme activity, highlighting the potential impacts of microplastics on aquatic organisms.
JOURNAL OF HAZARDOUS MATERIALS
(2022)
Review
Immunology
Xiaoqian Liang, Caixin Ou, Jiayi Zhuang, Jinsheng Li, Fangfei Zhang, Yuanqiu Zhong, Yongfeng Chen
Summary: Psoriasis is a multifactorial immune-mediated disease with incompletely elucidated specific pathogenesis, and the skin microbiota may play a significant role in its provocation or exacerbation, interacting with innate immunity to stimulate T-cell populations and trigger immune cascade responses that ultimately lead to psoriasis.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Microbiology
Weimin Wang, Yukun Zhang, Xiaoxue Zhang, Chong Li, Lvfeng Yuan, Deyin Zhang, Yuan Zhao, Xiaolong Li, Jiangbo Cheng, Changchun Lin, Liming Zhao, Jianghui Wang, Dan Xu, Xiangpeng Yue, Wanhong Li, Xiuxiu Wen, Zhihua Jiang, Xuezhi Ding, Ghasem Hosseini Salekdeh, Fadi Li
Summary: This study reveals the reciprocal interplay among host genetic variations, the rumen microbiota, and the body weight traits of sheep. The findings provide insights into the diverse microbiota characteristics of the rumen and may help in designing precision microbiota management strategies for controlling and manipulating the sheep rumen microbiota to increase productivity.
Review
Immunology
Bhupinder Kapoor, Monica Gulati, Pooja Rani, Reena Gupta
Summary: This study explores the correlation between dysbiosis of gut and skin microbiota and psoriasis, and discusses the potential of bacteriotherapeutic approaches for psoriasis management.
AUTOIMMUNITY REVIEWS
(2022)
Article
Clinical Neurology
Thais Martins-Silva, Angelica Salatino-Oliveira, Julia Pasqualini Genro, Fernando D. T. Meyer, Yan Li, Luis Augusto Rohde, Mara Helena Hutz, Luciana Tovo-Rodrigues
Summary: The study found that certain genetic variants are associated with psychiatric disorders, especially schizophrenia, suggesting that genes related to microbiome composition may affect individual susceptibility to these disorders. Associations with ASD, ADHD, and MDD, while less robust, cannot be entirely dismissed.
PROGRESS IN NEURO-PSYCHOPHARMACOLOGY & BIOLOGICAL PSYCHIATRY
(2021)
Article
Multidisciplinary Sciences
Lucas P. Henry, Marjolein Bruijning, Simon K. G. Forsberg, Julien F. Ayroles
Summary: The article discusses how the microbiome influences host evolution, proposes that integrating microbiome into quantitative genetics can help unravel the complexity of host-microbiome evolution, and describes the two general ways in which the microbiome may affect host evolutionary potential.
NATURE COMMUNICATIONS
(2021)
Review
Genetics & Heredity
Antton Alberdi, Sandra B. Andersen, Morten T. Limborg, Robert R. Dunn, M. Thomas P. Gilbert
Summary: Hologenomic studies integrate host genomes and microbiota metagenomes to explore host-microbiota interactions, which have become a central topic in the biological sciences. Hologenomics offers a feasible approach to overcoming limitations in the study of animal-microbiota interactions and addresses important questions in biology.
NATURE REVIEWS GENETICS
(2022)
Article
Nanoscience & Nanotechnology
Dorelia Lipsa, Ana Ruiz Moreno, Cloe Desmet, Ivana Bianchi, Otmar Geiss, Pascal Colpo, Susanne Bremer-Hoffmann
Summary: This study analysed the impact of fluctuations in the complement system of different individuals on the standardisation of immunological tests. The use of pooled serum was found to lead to an over-or under-estimation of immunological response in individuals with pre-existing pathologies. This calls for a re-evaluation of the current practice of using pooled serum from healthy donors for predicting the immune effects of drugs.
INTERNATIONAL JOURNAL OF NANOMEDICINE
(2023)
Article
Microbiology
Xingkun Jin, Haoyong Zhu, Yan Shi, Ziwei Chen, Yaohui Wang, Jian-Fang Gui, Zhe Zhao
Summary: Through gut microbiota profiling, we found that hybridization and cohabitation of pufferfish can significantly disturb the gut microbiota composition and function. These results enhance our understanding of the complex and dynamic assemblage of the fish holobiont from a microbial perspective and have practical implications for optimizing performance prediction and improving farmed fish production.
Article
Fisheries
Magnus W. Jacobsen, Nana W. Jensen, Rasmus Nygaard, Kim Praebel, Bjarni Jonsson, Nynne Hjort Nielsen, Jose M. Pujolar, Dylan J. Fraser, Louis Bernatchez, Michael M. Hansen
Summary: This study analysed the mitochondrial genomes of different populations of Arctic char, revealing the phylogeographic relationships between different lineages and potential refugia and colonisation routes. The study found a secondary contact zone between Arctic and Atlantic evolutionary lineages in western Greenland, estimated the divergence time of lineages and the time of the most recent common ancestor, and suggested a complex history involving cryptic refugia or multiple recolonisations.
ECOLOGY OF FRESHWATER FISH
(2022)
Article
Biochemistry & Molecular Biology
Seth R. Smith, Eric Normandeau, Haig Djambazian, Pubudu M. Nawarathna, Pierre Berube, Andrew M. Muir, Jiannis Ragoussis, Chantelle M. Penney, Kim T. Scribner, Gordon Luikart, Chris C. Wilson, Louis Bernatchez
Summary: In this study, an annotated, chromosome-anchored genome assembly for Lake Trout was generated using various sequencing techniques, resulting in a highly contiguous assembly. Analysis revealed insights into homeologs resulting from a salmonid-specific autotetraploid event and homologous chromosomes in related taxa, providing valuable resources for future genomic research.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Microbiology
Dennis Nurjadi, Kaan Kocer, Quan Chanthalangsy, Sabrina Klein, Klaus Heeg, Sebastien Boutin
Summary: This study found that the emergence of resistance to Cefiderocol in metallo-beta-lactamase-producing bacteria is facilitated by mutations in the CirA siderophore receptor, which are induced by the New Delhi metallo-beta-lactamase. However, inhibiting the metallo-beta-lactamase activity using dipicolinic acid can successfully prevent the development of Cefiderocol-resistant mutants. Therefore, caution should be taken when using Cefiderocol to treat infections caused by metallo-beta-lactamase-producing bacteria.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2022)
Article
Environmental Sciences
Katja Probst, Sebastien Boutin, Isabel Spaeth, Martin Scherrer, Nicole Henny, Delal Sahin, Alexandra Heininger, Klaus Heeg, Dennis Nurjadi
Summary: The study utilized qPCR to detect carbapenemase-producing bacteria during outbreaks, showing a higher sensitivity compared to culture methods. Environmental screening identified reservoirs of carbapenemase genes, indicating potential sources for new outbreaks. Rapid identification of colonized patients and screening of hospital environment are essential for early patient treatment and infection control.
ENVIRONMENTAL RESEARCH
(2022)
Article
Infectious Diseases
Katharina Last, Philipp M. Lepper, Philipp Jung, Hans-Joachim Schaefers, Sebastien Boutin, Klaus Heeg, Soren L. Becker, Dennis Nurjadi, Cihan Papan
Summary: Clinical and laboratory data on newly described staphylococcal species is rare. Our findings highlight the diagnostic pitfalls pertinent to novel and non-model organisms, in whom the correct identification is dependent on database accuracy.
EUROPEAN JOURNAL OF CLINICAL MICROBIOLOGY & INFECTIOUS DISEASES
(2022)
Article
Environmental Sciences
Chris J. Brauer, Jonathan Sandoval-Castillo, Katie Gates, Michael P. Hammer, Peter J. Unmack, Louis Bernatchez, Luciano B. Beheregaray
Summary: Under climate change, species without the ability to shift their range rely on genetic variation for adaptation. Genomic vulnerability studies often overlook hybridization as a source of adaptive variation. This study found that hybrid populations of rainbowfish showed reduced vulnerability to climate change compared to pure narrow endemics, highlighting the importance of hybrid populations and adaptive introgression in the evolutionary rescue of species with narrow environmental ranges.
NATURE CLIMATE CHANGE
(2023)
Article
Microbiology
Kaan Kocer, Deniz Boudour-Halil, Quan Chanthalangsy, Aline Saehr, Klaus Heeg, Sebastien Boutin, Dennis Nurjadi
Summary: Knowledge on resistance mechanisms toward cefiderocol, a novel siderophore-conjugated cephalosporin antibiotic, is still limited. Our study aimed to investigate the effect of different beta-lactamases on the development of cefiderocol resistance in E.coli. Cefiderocol-resistant isolates emerged only in isolates producing VIM-1 and NDM-5 metallo-beta-lactamase, indicating the importance of these enzymes in facilitating resistance development.
ANTIMICROBIAL AGENTS AND CHEMOTHERAPY
(2023)
Article
Ecology
Florent Sylvestre, Claire Merot, Eric Normandeau, Louis Bernatchez
Summary: Differences between sexes in trait fitness optima can contribute to genetic diversity through balancing selection, but detecting such conflicts is challenging. Recent studies have found that duplications on sexual chromosomes can create misleading signals of intralocus sexual conflicts. In this study, we investigated intralocus sexual conflicts in three-spined sticklebacks and found only two regions that showed potential conflicts and signals of balancing selection. These results suggest that most intralocus sexual conflicts are transient and do not drive long-term balancing selection.
Editorial Material
Biochemistry & Molecular Biology
Sebastien Boutin, Loic Guillot
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Parasitology
Chloe Suzanne Berger, Berenice Bougas, Guillaume Cote, Jean-Francois Dumont, Louis Bernatchez
Summary: The ability to systematically detect parasitic infection, even without visible signs, is crucial for accurate conservation policies. In particular, the nematode Anguillicola crassus poses a potential threat to eel populations. The authors present a real-time PCR-based method to detect A. crassus infection in both final and intermediate hosts. By using this method, they were able to detect the DNA of A. crassus in both zooplankton and individual swim bladders. This method allows for early detection of A. crassus infection in nature, going beyond previous protocols.
PARASITOLOGY RESEARCH
(2023)
Editorial Material
Immunology
Dennis Nurjadi, Jan Tkadlec, Sebastien Boutin, Francois Vandenesch
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2023)
Editorial Material
Respiratory System
Se bastien Boutin, Dennis Nurjadi
JOURNAL OF CYSTIC FIBROSIS
(2023)
Review
Genetics & Heredity
Louis Bernatchez, Anne-Laure Ferchaud, Chloe Suzanne Berger, Clare J. Venney, Amanda Xuereb
Summary: With global climate change causing drastic changes in environmental conditions, it is crucial to understand how organisms respond and adapt to these changes. Recent advancements in genomic, transcriptomic, and epigenomic technologies provide unprecedented insights into the evolutionary processes and molecular mechanisms of adaptation. This review summarizes the methods that utilize omics tools to investigate, monitor, and predict the responses of species and communities to global climate change, highlighting the need for holistic, multi-omics approaches.
NATURE REVIEWS GENETICS
(2023)
Article
Biology
Swantje Enge, Claire Merot, Raimondas Mozuraitis, Violeta Apsegaite, Louis Bernatchez, Gerrit A. Martens, Sandra Radziute, Henrik Pavia, Emma L. Berdan
Summary: In this study, researchers found that a overdominant supergene in seaweed flies strongly modulates male traits but only weakly affects female traits. Gas chromatography-electroantennographic detection revealed that females can sense male traits and there may be differential perception between genotypes. Gene expression analysis showed that candidate genes for trait biosynthesis primarily showed differential expression in males, while odorant detection genes were differentially expressed in both sexes but showed high levels of divergence between supergene haplotypes. The reduced recombination between supergene haplotypes may have led to rapid divergence in mate preferences and increasing linkage between male traits and overdominant loci, helping to maintain the polymorphism despite deleterious effects in homozygotes.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2023)
Article
Microbiology
Dennis Nurjadi, Vanessa M. Eichel, Johannes Poeschl, Christian Gille, Simon Kranig, Klaus Heeg, Sebastien Boutin
Summary: This monocentric observational cohort study conducted in a tertiary neonatal intensive care unit (NICU) in Germany investigated the risk factors and transmission patterns of third-generation cephalosporin-resistant Enterobacterales in newborns. The study found that low birth weight and longer hospitalization were associated with colonization or infection with drug-resistant Enterobacterales. Additionally, whole-genome sequencing revealed multiple transmission clusters within the NICU, highlighting the importance of surveillance and preventive measures in this vulnerable patient group.
MICROBIOLOGY SPECTRUM
(2023)