Article
Microbiology
Juste Azelyte, Alejandra Wu-Chuang, Apolline Maitre, Rita Ziegyte, Lourdes Mateos-Hernandez, Dasiel Obregon, Vaidas Palinauskas, Alejandro Cabezas-Cruz
Summary: Avian malaria infection does not significantly change the alpha and beta diversity of the bird gut microbiome, but it does alter the composition and abundance of certain bacterial taxa. The progression of microbiome structural states differs between infected and uninfected birds. Infection by avian malaria parasites is associated with the presence of specific metabolic pathways and the abundance of these pathways changes over the course of infection.
Review
Immunology
Sara Federici, Samuel P. Nobs, Eran Elinav
Summary: Bacteriophages, as potential treatments against antibiotic-resistant bacterial infections, have gained renewed interest in utilizing them as therapeutic vectors and modulators of the human microbiome, with advancements in understanding their mechanisms through next-generation sequencing. The narrow host range, antibacterial repertoire, and ease of manipulation of phages offer promising possibilities for targeted modulation of pathogenic, commensal, and pathobiont microbiome members for impacting mammalian physiology and immunity.
CELLULAR & MOLECULAR IMMUNOLOGY
(2021)
Review
Immunology
Christina Tsigalou, Afroditi Paraschaki, Nicola Luigi Bragazzi, K. Aftzoglou, Eugenia Stavropoulou, Z. Tsakris, S. Vradelis, Elisavet Bezirtzoglou
Summary: Intestinal microorganisms are critical for host immunity and maintaining internal balance. Changes in gut bacterial composition have been linked with the development of various diseases. This review aims to provide an overview of the gut microbiota (GM) in surgical disease, with a focus on the alterations of GM in patients undergoing different types of surgery and the impact of peri-operative interventions on GM. The review also explores the role of GM in the development of post-operative complications, such as anastomotic leak. However, further research is needed to investigate the synthesis of GM before and after surgery, in order to assess GM-targeted measures and reduce surgery complications.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Howard Junca, Dietmar H. Pieper, Eva Medina
Summary: The human microbiome has been widely studied for its potential clinical interventions, and disruptions in the microbiota have been associated with various pathological conditions. Microbiome transplantation, such as fecal microbiome transplantation, has shown success in treating certain diseases and is being explored in other areas, such as vaginal disorders and skin pathologies.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2022)
Review
Nutrition & Dietetics
Eliane B. Wiedmer, Isabelle Herter-Aeberli
Summary: Obesity is a global health issue with complex pathophysiology. Dysbiosis, an imbalance in the gut microbiome, is suggested to contribute to obesity. Maternal dysbiosis during pregnancy increases the child's risk of obesity, resulting in an intergenerational cycle. Modulating the gut microbiome through interventions like pre- and probiotics shows potential in reducing the child's obesity risk, although more research is needed.
FRONTIERS IN NUTRITION
(2022)
Article
Immunology
Vaidas Palinauskas, Lourdes Mateos-Hernandez, Alejandra Wu-Chuang, Jose de la Fuente, Juste Azelyte, Dasiel Obregon, Alejandro Cabezas-Cruz
Summary: This paper proposes the hypothesis that gut microbiota diversity shapes the immune response and resistance to avian malaria. The authors also suggest that anti-alpha-Gal antibodies are transmitted from mother to eggs for early malaria protection in chicks. They provide preliminary data showing the presence of bacterial alpha 1,3GT genes in the gut microbiome of birds and the induction of anti-alpha-Gal antibodies upon avian malaria infection.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Endocrinology & Metabolism
Marzena Gajecka, Pawel Gutaj, Katarzyna Jaskiewicz, Malgorzata Rydzanicz, Tomasz Szczapa, Dorota Kaminska, Grzegorz Kosewski, Juliusz Przyslawski, Rafal Ploski, Ewa Wender-Ozegowska
Summary: This study quantitatively and functionally examined the microbiota in maternal-neonatal dyads from gravidae with type 1 diabetes and explored the impact of pregnancy-specific factors on the microbiomes. It found that type 1 diabetes and certain confounding factors can influence the neonatal microbiomes.
Review
Microbiology
Michael Bonkowski, Mika Tarkka, Bahar S. Razavi, Hannes Schmidt, Evgenia Blagodatskaya, Robert Koller, Peng Yu, Claudia Knief, Frank Hochholdinger, Doris Vetterlein
Summary: The formation of microbial communities on plant roots is a complex and predictable process that plays a crucial role in plant-microbe relationships. By studying dynamic root traits in maize, insights can be gained into how root growth influences the assembly of microbiomes.
FRONTIERS IN MICROBIOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Sally Temraz, Farah Nassar, Firas Kreidieh, Deborah Mukherji, Ali Shamseddine, Rihab Nasr
Summary: Disruptions in the human gut microbiome may be associated with a cycle of hepatocyte injury and regeneration characteristic of chronic liver disease, and can promote the development of hepatocellular carcinoma by inducing genetic and epigenetic changes. The gut microbiome affects host metabolism and immune response, potentially influencing the efficacy of immunotherapy and chemotherapy for liver cancer.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Microbiology
Fengfei Sun, Junfeng Chen, Kai Liu, Meizhen Tang, Yuewei Yang
Summary: This article summarizes the existing knowledge of gut microbiota in captive and wild birds, highlighting the lack of research on the gut microbiota of wild birds. The article also discusses research hotspots and directions, aiming to contribute to the field of avian microbiology in the future.
FRONTIERS IN MICROBIOLOGY
(2022)
Review
Genetics & Heredity
Erin E. Bolte, David Moorshead, Kjersti M. Aagaard
Summary: In the early 20th century, maternal and child healthcare was mainly provided by family members and untrained birth attendants. Later research linked adverse health outcomes to poverty and poor nutrition. Recent studies have shown the importance of early life exposures in relation to common diseases. The developing brain, immune system, and metabolic physiology are particularly vulnerable to poor nutrition and stressful environments from pregnancy to 3 years of age. Evidence suggests that certain environmental exposures during pregnancy and lactation can modify our microbiome and increase the risk of childhood and adult diseases.
Article
Microbiology
Audet-Gilbert Emie, Sylvain Francois-etienne, Bouslama Sidki, Derome Nicolas
Summary: The study demonstrates that in the interaction between clownfish and anemone, both remote and physical contact lead to a gradual convergence of their skin microbiota, which persists even after separation. The restructuring of microbiota may be associated with the recruitment of specific bacterial strains.
Review
Nutrition & Dietetics
Aneesa Z. Zaidi, Sophie E. Moore, Sandra G. Okala
Summary: Maternal nutritional supplementation during pregnancy and lactation may alter the infant gut or breastmilk microbiota. Probiotic supplementation generally results in probiotic colonization of infant gut microbiota.
Article
Microbiology
Alexander S. F. Berry, Meghann K. Pierdon, Ana M. Misic, Megan C. Sullivan, Kevin O'Brien, Ying Chen, Samuel J. Murray, Lydia A. Ramharack, Robert N. Baldassano, Thomas D. Parsons, Daniel P. Beiting
Summary: The study reveals that parity is an important factor modulating the gut microbiome during pregnancy, impacting the community of bacteria that colonize the offspring gut early in life, potentially influencing host metabolism. The results underscore the importance of considering parity in human microbiome studies during pregnancy and in infants.
Review
Nutrition & Dietetics
Saurabh Kadyan, Aditya Sharma, Bahram H. Arjmandi, Prashant Singh, Ravinder Nagpal
Summary: Dietary pulses, such as dry beans and lentils, are a good source of fiber and can easily be incorporated into regular diets to improve gut health. The resistant starch derived from pulses plays a crucial role in shaping the gut microbiota and promoting metabolic health. However, more research is needed to explore the potential benefits of pulses and their resistant starch on aging-associated gut health.
Article
Nutrition & Dietetics
Els van der Goot, Stefanie N. Vink, Danique van Vliet, Francjan J. van Spronsen, Joana Falcao Salles, Eddy A. van der Zee
Summary: Phenylketonuria (PKU) is a metabolic disorder that causes cognitive and psychological deficits. This study investigated the effects of dietary phenylalanine (Phe) restriction on gut microbiome composition in mice and found that the severity of the restriction influenced the changes in the microbiome. The study highlights the importance of considering dietary effects on the microbiome when optimizing the Phe-restricted diet for PKU patients.
FRONTIERS IN NUTRITION
(2022)
Article
Soil Science
Yujia Luo, H. Pieter J. van Veelen, Siyu Chen, Valentina Sechi, Annemiek ter Heijne, Adrie Veeken, Cees J. N. Buisman, T. Martijn Bezemer
Summary: Composts are important soil amendments that affect soil microbiome and crop growth. This study found that the presence of microorganisms in compost has a greater impact on the soil microbial community than the abiotic properties of compost. The use of sterile composts enhanced the positive effects of compost on plant growth.
Article
Biochemistry & Molecular Biology
Yi Yu, Marianne van der Zwaag, Jouke Jan Wedman, Hjalmar Permentier, Niels Plomp, Xiu Jia, Bart Kanon, Ellie Eggens-Meijer, Girbe Buist, Hermie Harmsen, Jan Kok, Joana Falcao Salles, Bregje Wertheim, Susan J. Hayflick, Erick Strauss, Nicola A. Grzeschik, Hein Schepers, Ody C. M. Sibon
Summary: Coenzyme A (CoA) is essential for metabolism and protein acetylation. Current knowledge suggests that each cell obtains CoA through biosynthesis, but recent studies have shown the presence of additional CoA-generating mechanisms, indicating a more complex system for CoA homeostasis. In this study, researchers discovered pathways for CoA generation through inter-organismal flows of CoA precursors. Fruit flies with a genetic block in CoA biosynthesis were used to demonstrate that progeny can obtain CoA precursors from maternal sources for survival during embryonal and early larval development. Later in life, the microbiome can provide necessary CoA building blocks to the host, enabling normal development to continue. This study reveals the presence of stable, long-lasting CoA precursor flows between living organisms, indicating complex strategies for maintaining CoA homeostasis.
Article
Plant Sciences
Xuhui Deng, Na Zhang, Yuchan Li, Chengzhi Zhu, Baoyuan Qu, Hongjun Liu, Rong Li, Yang Bai, Qirong Shen, Joana Falcao Salles
Summary: Stimulating the development of soil suppressiveness against certain pathogens through the manipulation of the rhizosphere microbiome has been shown to be an effective way to reduce pesticide use in agriculture. In this study, we investigated the mechanisms behind the suppression of bacterial wilt disease in tomato plants by the rhizosphere microbiome. We found that changes in community composition, rather than the abundance of biocontrol strains, were responsible for the disease suppressiveness observed in long-term field experiments with bio-organic fertilizers. Metagenomics analysis revealed that certain families of bacteria, such as Sphingomonadaceae and Xanthomonadaceae, were enriched in the rhizosphere when pathogen invasion occurred. Further experiments confirmed that these bacteria were able to significantly reduce pathogen abundance and increase the abundance of genes associated with nonribosomal peptide synthesis. Our findings suggest that priming the soil microbiome with bio-organic fertilizers can promote the development of reactive bacterial communities in the rhizosphere, which contribute to disease suppression.
Article
Multidisciplinary Sciences
Panji Cahya Mawarda, Sarah L. Lakke, Jan Dirk van Elsas, Joana Falcao Salles
Summary: The introduction of microbial inoculants into the soil can affect the succession process of native soil communities, especially in highly diverse communities. Even if the invader is not successful, the resident bacterial communities exhibit patterns of secondary succession.
Article
Entomology
Kiran Gurung, Stefanie Nicoline Vink, Joana Falcao Salles, Bregje Wertheim
Summary: The bacterial and fungal communities of the invasive fly D. suzukii and the fruits it infests vary, with fruit types showing different microbial compositions. Bacteria communities of flies remain relatively uniform regardless of fruit source, while fungal communities show a larger resemblance between wild flies and the fruits they develop on. The flies may have formed persistent associations with some bacteria and transmit these across generations.
JOURNAL OF PEST SCIENCE
(2023)
Article
Microbiology
Panji Cahya Mawarda, Cyrus A. Mallon, Xavier Le Roux, Jan Dirk van Elsas, Joana Falcao Salles
Summary: Microbial diversity can restrict the invasion and impact of alien microbes into soils via resource competition. Spore-forming bacteria with better resource use capacity are more likely to survive and affect bacterial community niches, especially in less diverse communities.
FEMS MICROBIOLOGY ECOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Pina Brinker, Fangying Chen, Yacine Ben Chehida, Leo W. Beukeboom, Michael C. Fontaine, Joana Falcao Salles
Summary: This study investigated the influence of host genotype, environmental conditions, and the endosymbiont Wolbachia on the bacterial communities of the parasitic wasp Asobara japonica. It was found that the bacterial communities in asexual wasps were highly similar due to the strong effect of Wolbachia, while in sexual wasps, the bacterial communities appeared primarily shaped by a combination of population structure and environmental conditions.
Article
Environmental Sciences
Ademir Sergio Ferreira Araujo, Xiu Jia, Ana Roberta Lima Miranda, Arthur Prudencio de Araujo Pereira, Vania Maria Maciel Melo, Sandra Mara Barbosa Rocha, Romario Martins Costa, Talyta Carine da Silva Saraiva, Lucas William Mendes, Joana Falcao Salles
Summary: This study investigated the impact of different concentrations of composted tannery sludge on bacterial communities. It found that rare bacterial communities were more sensitive to the sludge application, with certain genera increasing in abundance under higher concentrations.
Review
Microbiology
Magdalena Frac, Emilia Silja Hannula, Marta Belka, Joana Falcao Salles, Malgorzata Jedryczka
Summary: The soil microbiome plays a key role in ecosystem processes, particularly in sustainable agriculture and soil remediation. Although there is limited research on soil fungal communities compared to soil bacteria, fungi are crucial for matter and energy cycling, plant health, and biogeochemical cycles.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
H. Pieter J. van Veelen, Juan Diego Ibanez-Alamo, Nicholas P. C. Horrocks, Arne Hegemann, Henry K. Ndithia, Mohammed Shobrak, B. Irene Tieleman
Summary: In this study, the cloacal gut microbiota of closely-related songbird species inhabiting different geographic regions were investigated. The results showed that geographical location and host species had significant influences on the diversity, co-occurrence, abundance, and community composition of the gut microbiota. The findings suggest that host-associated microbiota follow large-scale macro-ecological patterns, contrasting with previous studies on free-living microbes.
Article
Microbiology
Maurine W. Dietz, Kevin D. Matson, Maaike A. Versteegh, Marco van der Velde, Henk K. Parmentier, Joop. A. J. Arts, Joana F. Salles, B. Irene Tieleman
Summary: This study investigated the differences in gut bacterial community in homing pigeons during summer and winter, and found that temperature is a driving factor for the seasonal variation of gut microbiota. The study also found correlations between gut microbiota and metabolism and immune indices.
Article
Microbiology
H. Pieter J. van Veelen, Joana Falcao Salles, Kevin D. Matson, G. Sander van Doorn, Marco van der Velde, B. Irene Tieleman
Summary: The microbial environment of birds can shape maternal effects on egg immune function. Maternal regulation of yolk IgY levels based on cues from the parental microbial environment may prove important for offspring to thrive in the anticipated microbial environment.
Article
Microbiology
Joao Pereira, Yuniki Mediayati, H. Pieter J. van Veelen, Hardy Temmink, Tom Sleutels, Bert Hamelers, Annemiek ter Heijne
Summary: This study investigates the electron balance of bioanodes under intermittent anode potential regimes. The use of a transparent non-capacitive electrode and intermittent anode potential resulted in the diversion of electrons to planktonic cells and the accumulation of electrons in the form of soluble extracellular polymeric substances (EPS).