Articles

Infants with cystic fibrosis have altered fecal functional capacities with potential clinical and metabolic consequences

Infants with cystic fibrosis (CF) suffer from gastrointestinal (GI) complications, including pancreatic insufficiency and intestinal inflammation, which have been associated with impaired nutrition and growth....

Authors: Alexander Eng, Hillary S. Hayden, Christopher E. Pope, Mitchell J. Brittnacher, Anh T. Vo, Eli J. Weiss, Kyle R. Hager, Daniel H. Leung, Sonya L. Heltshe, Daniel Raftery, Samuel I. Miller, Lucas R. Hoffman and Elhanan Borenstein

Saline and alkaline stresses alter soil properties and composition and structure of gene-based nitrifier and denitrifier communities in a calcareous desert soil

Saline and alkaline stresses damages the health of soil systems. Meanwhile, little is known about how saline or alkaline stress affects soil nitrifier and denitrifier communities. Therefore, we compared the re...

Authors: Jiaxin Guo, Yongxue Zhou, Huijuan Guo and Wei Min

The Mesorhizobium huakuii transcriptional regulator AbiEi plays a critical role in nodulation and is important for bacterial stress response

Bacterial abortive infection (Abi) systems are type IV toxin–antitoxin (TA) system, which could elicit programmed cell death and constitute a native survival strategy of pathogenic bacteria under various stres...

Authors: Xiaohong Chen, Aiqi Hu, Qian Zou, Sha Luo, Hetao Wu, Chunlan Yan, Tao Liu, Donglan He, Xiaohua Li and Guojun Cheng

Elucidating bacterial adhesion to mucosal surface by an original AFM approach

Fish skin represents an ancient vertebrate mucosal surface, sharing characteristics with other mucosal surfaces including those of the intestine. The skin mucosa is continuously exposed to microbes in the surr...

Authors: Karen Dunker, Sol Gomez de la Torre Canny, Catherine Taylor Nordgård, Etienne Dague, Cécile Formosa-Dague, Ingrid Bakke and Marit Sletmoen

Diversity and flexibility of algal symbiont community in globally distributed larger benthic foraminifera of the genus Amphistegina

Understanding the specificity and flexibility of the algal symbiosis-host association is fundamental for predicting how species occupy a diverse range of habitats. Here we assessed the algal symbiosis diversit...

Authors: Martina Prazeres, T. Edward Roberts, Shadrina Fildzah Ramadhani, Steve S. Doo, Christiane Schmidt, Marleen Stuhr and Willem Renema

An optimised protocol for detection of SARS-CoV-2 in stool

SARS-CoV-2 has been detected in stool samples of COVID-19 patients, with potential implications for faecal-oral transmission. Compared to nasopharyngeal swab samples, the complexity of the stool matrix poses a...

Authors: Tianqi Li, Enriqueta Garcia-Gutierrez, Daniel A. Yara, Jacob Scadden, Jade Davies, Chloe Hutchins, Alp Aydin, Justin O’Grady, Arjan Narbad, Stefano Romano and Lizbeth Sayavedra

Correction to: Prevalence and mechanisms of antibiotic resistance in Escherichia coli isolated from mastitic dairy cattle in Canada

Authors: Satwik Majumder, Dongyun Jung, Jennifer Ronholm and Saji George

Investigating the effect of an identified mutation within a critical site of PAS domain of WalK protein in a vancomycin-intermediate resistant Staphylococcus aureus by computational approaches

Vancomycin-intermediate resistant Staphylococcus aureus (VISA) is becoming a common cause of nosocomial infections worldwide. VISA isolates are developed by unclear molecular mechanisms via mutations in several g...

Authors: Neda Baseri, Shahin Najar-Peerayeh and Bita Bakhshi

Genetic fingerprinting and aflatoxin production of Aspergillus section Flavi associated with groundnut in eastern Ethiopia

Aspergillus species cause aflatoxin contamination in groundnut kernels, being a health threat in agricultural products and leading to commodity rejection by domestic and international markets. Presence of Aspergi...

Authors: Abdi Mohammed, Paola C. Faustinelli, Alemayehu Chala, Mashilla Dejene, Chemeda Fininsa, Amare Ayalew, Chris O. Ojiewo, David A. Hoisington, Victor S. Sobolev, Jaime Martínez-Castillo and Renee S. Arias

Associations between the gut microbiome and metabolome in early life

The infant intestinal microbiome plays an important role in metabolism and immune development with impacts on lifelong health. The linkage between the taxonomic composition of the microbiome and its metabolic ...

Authors: Quang P. Nguyen, Margaret R. Karagas, Juliette C. Madan, Erika Dade, Thomas J. Palys, Hilary G. Morrison, Wimal W. Pathmasiri, Susan McRitche, Susan J. Sumner, H. Robert Frost and Anne G. Hoen

Emerging MDR-Mycobacterium avium subsp. avium in house-reared domestic birds as the first report in Egypt

Avian tuberculosis is a chronic and zoonotic disease that affects a wide variety of birds, mammals, and humans. This study aimed to estimate the frequency of Mycobacterium avium subsp. avium in some domestic bird...

Authors: Abdelazeem M. Algammal, Hany R. Hashem, Amenah S. Al-otaibi, Khyreyah J. Alfifi, Esraa M. El-dawody, Eman Mahrous, Helal F. Hetta, Ali W. El-Kholy, Hazem Ramadan and Reham M. El-Tarabili

Evaluation of the Genmark ePlex® and QIAstat-Dx® respiratory pathogen panels in detecting bacterial targets in lower respiratory tract specimens

The ePlex® and QIAstat-Dx® respiratory pathogen panels detect multiple respiratory pathogens, mainly viruses but also Legionella pneumophila, Mycoplasma pneumoniae and Bordetella pertussis. The assays have been m...

Authors: Suzanne A. V. van Asten, Stefan A. Boers, Jolanda D. F. de Groot, R. Schuurman and Eric C. J. Claas

Mother-to-infant transmission of the carcinogenic colibactin-producing bacteria

The Escherichia coli strain that is known to produce the genotoxic secondary metabolite colibactin is linked to colorectal oncogenesis. Therefore, understanding the properties of such colibactin-positive E. coli ...

Authors: Yuta Tsunematsu, Koji Hosomi, Jun Kunisawa, Michio Sato, Noriko Shibuya, Emiko Saito, Haruka Murakami, Yuko Yoshikawa, Yuji Iwashita, Noriyuki Miyoshi, Michihiro Mutoh, Hideki Ishikawa, Haruhiko Sugimura, Motohiko Miyachi, Keiji Wakabayashi and Kenji Watanabe

Inhibition of Streptococcus mutans biofilms with bacterial-derived outer membrane vesicles

Biofilms are microbial communities surrounded by a self-produced extracellular matrix which protects them from environmental stress. Bacteria within biofilms are 10- to 1000-fold more resistant to antibiotics,...

Authors: Yihui Wang, Joseph P. Hoffmann, Sarah M. Baker, Kerstin Höner zu Bentrup, William C. Wimley, Joseph A. Fuselier, Jacob P. Bitoun and Lisa A. Morici

Correction to: Human microbiota modulation via QseC sensor kinase mediated in the Escherichia coli O104:H4 outbreak strain infection in microbiome model

Authors: Tamara Renata Machado Ribeiro, Mateus Kawata Salgaço, Maria Angela Tallarico Adorno, Miriam Aparecida da Silva, Roxane Maria Fontes Piazza, Katia Sivieri and Cristiano Gallina Moreira

Induction of amylase and protease as antibiofilm agents by starch, casein, and yeast extract in Arthrobacter sp. CW01

In unfavourable environment, such as nutrient limitation, some bacteria encased themselves into a three dimensional polymer matrix called biofilm. The majority of microbial infections in human are biofilm rela...

Authors: Jeffrine Solihin, Diana Elizabeth Waturangi and Tresnawati Purwadaria

Skin microbiota dynamics following B. subtilis formulation challenge: an in vivo study in mice

Modulating the microbiota is a leading-edge strategy for the restoration and maintenance of a healthy, balanced environment. The use of health-promoting bacteria has demonstrated some potential benefits as an ...

Authors: Veronica Moskovicz, Rina Ben-El, Guy Horev and Boaz Mizrahi

Increased gene expression and copy number of mutated bla_KPC lead to high-level ceftazidime/avibactam resistance in Klebsiella pneumoniae

Resistance to ceftazidime-avibactam was reported, and it is important to investigate the mechanisms of ceftazidime/avibactam resistance in K. pneumoniae with mutations in bla_KPC.

Authors: Lingxiao Sun, Haibo Li, Qi Wang, Yingmei Liu and Bin Cao

Construction and preservation of a stable and highly expressed recombinant Helicobacter pylori vacuolating cytotoxin A with apoptotic activity

H. pylori is closely related to the occurrence and development of various digestive gastritis, peptic ulcer and mucosa-associated lymphoid tissue (MALT) lymphoma. H. pylori is also a class I carcinogen of gastric...

Authors: Ling-Zhi Yuan, Xiao Shi, Dan Tang, Shao-Peng Zheng, Zhi-Ming Xiao and Fen Wang

Comparison of targeted metagenomics and IS-Pro methods for analysing the lung microbiome

Targeted metagenomics and IS-Pro method are two of the many methods that have been used to study the microbiome. The two methods target different regions of the 16 S rRNA gene. The aim of this study was to com...

Authors: T Goolam Mahomed, RPH Peters, GHJ Pretorius, A Goolam Mahomed, V Ueckermann, MM Kock and MM Ehlers

Scattered migrating colony formation in the filamentous cyanobacterium, Pseudanabaena sp. NIES-4403

Bacteria have been reported to exhibit complicated morphological colony patterns on solid media, depending on intracellular, and extracellular factors such as motility, cell propagation, and cell-cell interact...

Authors: Hiroki Yamamoto, Yuki Fukasawa, Yu Shoji, Shumpei Hisamoto, Tomohiro Kikuchi, Atsuko Takamatsu and Hideo Iwasaki

Disturbed microbial ecology in Alzheimer’s disease: evidence from the gut microbiota and fecal metabolome

Gut microbiota (GMB) alteration has been reported to influence the Alzheimer’s disease (AD) pathogenesis through immune, endocrine, and metabolic pathways. This study aims to investigate metabolic output of th...

Authors: Jianxiong Xi, Ding Ding, Huiwei Zhu, Ruru Wang, Feng Su, Wanqing Wu, Zhenxu Xiao, Xiaoniu Liang, Qianhua Zhao, Zhen Hong, Hua Fu and Qianyi Xiao

Premature neonatal gut microbial community patterns supporting an epithelial TLR-mediated pathway for necrotizing enterocolitis

Necrotising enterocolitis (NEC) is a devastating bowel disease, primarily affecting premature infants, with a poorly understood aetiology. Prior studies have found associations in different cases with an overa...

Authors: Alexander G. Shaw, Kathleen Sim, Graham Rose, David J. Wooldridge, Ming-Shi Li, Raju V. Misra, Saheer Gharbia and J. Simon Kroll

Prevalence and molecular characterization of group B streptococcus in pregnant women from hospitals in Ohangwena and Oshikoto regions of Namibia

The main purpose of this study was to investigate the prevalence rate, antimicrobial susceptibility patterns and molecular characteristics of Streptococcus agalactiae isolated from pregnant women at 35 weeks of g...

Authors: Erastus Lafimana Haimbodi, Munyaradzi Mukesi and Sylvester Rodgers Moyo

Analysis of the assessment of antimicrobial susceptibility. Non-typhoid Salmonella in meat and meat products as model (systematic review)

The scientific publications of antimicrobial susceptibilities and resistance must be precise, with interpretations adjusted to the standard. In this frame, knowledge of antimicrobial resistance is fundamental ...

Authors: Sandra M. Rincón-Gamboa, Raúl A. Poutou-Piñales and Ana K. Carrascal-Camacho

Prevalence and mechanisms of antibiotic resistance in Escherichia coli isolated from mastitic dairy cattle in Canada

Bovine mastitis is the most common infectious disease in dairy cattle with major economic implications for the dairy industry worldwide. Continuous monitoring for the emergence of antimicrobial resistance (AMR...

Authors: Satwik Majumder, Dongyun Jung, Jennifer Ronholm and Saji George

Comparison of three amplicon sequencing approaches to determine staphylococcal populations on human skin

Staphylococci are important members of the human skin microbiome. Many staphylococcal species and strains are commensals of the healthy skin microbiota, while few play essential roles in skin diseases such as ...

Authors: Charlotte Marie Ahle, Kristian Stødkilde-Jørgensen, Anja Poehlein, Wolfgang R. Streit, Jennifer Hüpeden and Holger Brüggemann

Putative mobilized colistin resistance genes in the human gut microbiome

The high incidence of bacterial genes that confer resistance to last-resort antibiotics, such as colistin, caused by mobilized colistin resistance (mcr) genes, poses an unprecedented threat to human health. Under...

Authors: Bruno G. N. Andrade, Tobias Goris, Haithem Afli, Felipe H. Coutinho, Alberto M. R. Dávila and Rafael R. C. Cuadrat

Weight shapes the intestinal microbiome in preterm infants: results of a prospective observational study

The intestinal microbiome in preterm infants differs markedly from term infants. It is unclear whether the microbiome develops over time according to infant specific factors.

Authors: Fardou H. Heida, Elisabeth M. W. Kooi, Josef Wagner, Thi-Yen Nguyen, Jan B. F. Hulscher, Anne G. J. F. van Zoonen, Arend F. Bos, Hermie J. M. Harmsen and Marcus C. de Goffau

Colorectal cancer treatment using bacteria: focus on molecular mechanisms

Colorectal cancer which is related to genetic and environmental risk factors, is among the most prevalent life-threatening cancers. Although several pathogenic bacteria are associated with colorectal cancer et...

Authors: Sara Ebrahimzadeh, Hossein Ahangari, Alireza Soleimanian, Kamran Hosseini, Vida Ebrahimi, Tohid Ghasemnejad, Saiedeh Razi Soofiyani, Vahideh Tarhriz and Shirin Eyvazi

Genomic analysis of group B Streptococcus from milk demonstrates the need for improved biosecurity: a cross-sectional study of pastoralist camels in Kenya

Streptococcus agalactiae (Group B Streptococcus, (GBS)) is the leading cause of mastitis (inflammation of the mammary gland) among dairy camels in Sub-Saharan Africa, with negative implications for milk productio...

Authors: Dinah Seligsohn, Chiara Crestani, Taya L. Forde, Erika Chenais and Ruth N. Zadoks

Diversity of culturable bacteria endowed with antifungal metabolites biosynthetic characteristics associated with tea rhizosphere soil of Assam, India

Rhizosphere soil is a crucial niche for the diverse beneficial microbial communities in plant-microbe interactions. This study explores the antagonistic potential and diversity of the rhizosphere soil bacteria...

Authors: Jintu Dutta and Debajit Thakur

Detection of Legionella species, the influence of precipitation on the amount of Legionella DNA, and bacterial microbiome in aerosols from outdoor sites near asphalt roads in Toyama Prefecture, Japan

Legionellosis is caused by the inhalation of aerosolized water contaminated with Legionella bacteria. In this study, we investigated the prevalence of Legionella species in aerosols collected from outdoor sites n...

Authors: Jun-ichi Kanatani, Masanori Watahiki, Keiko Kimata, Tomoko Kato, Kaoru Uchida, Fumiaki Kura, Junko Amemura-Maekawa and Junko Isobe

Virulence factors and molecular characteristics of Shigella flexneri isolated from calves with diarrhea

The natural hosts of Shigella are typically humans and other primates, but it has been shown that the host range of Shigella has expanded to many animals. Although Shigella is becoming a major threat to animals, ...

Authors: Zhen Zhu, Weiwei Wang, Mingze Cao, Qiqi Zhu, Tenghe Ma, Yongying Zhang, Guanhui Liu, Xuzheng Zhou, Bing Li, Yuxiang Shi and Jiyu Zhang

A multi-country study using MALDI-TOF mass spectrometry for rapid identification of Burkholderia pseudomallei

Burkholderia pseudomallei is the bacterial causative agent of melioidosis, a difficult disease to diagnose clinically with high mortality if not appropriately treated. Definitive diagnosis requires isolation and ...

Authors: Wanitda Watthanaworawit, Tamalee Roberts, Jill Hopkins, Ian Gassiep, Robert Norton, Matthew T. Robinson, Joy Silisouk, Poda Sar, Sena Sao, Premjit Amornchai, Direk Limmathurotsakul, Vanaporn Wuthiekanun, Francois Nosten, Andrew J. H. Simpson, Paul Turner and Clare L. Ling

Benzylpenicillin-producing Trichophyton erinacei and methicillin resistant Staphylococcus aureus carrying the mecC gene on European hedgehogs – A pilot-study

A high carriage rate of methicillin-resistant Staphylococcus aureus with the mecC gene (mecC-MRSA) has been described among Wild European hedgehogs (Europeaus erineaus). Due to this frequent occurrence, it has be...

Authors: Faruk Dube, Robert Söderlund, Matilda Lampinen Salomonsson, Karin Troell and Stefan Börjesson

AgNP-PVP-meglumine antimoniate nanocomposite reduces Leishmania amazonensis infection in macrophages

Leishmaniasis is an infectious disease caused by parasites of the genus Leishmania and presents different clinical manifestations. The adverse effects, immunosuppression and resistant strains associated with this...

Authors: Ana Patricia Cacua Gélvez, José Antonio Picanço Diniz Junior, Rebecca Thereza Silva Santa Brígida and Ana Paula Drummond Rodrigues

WGS based analysis of acquired antimicrobial resistance in human and non-human Acinetobacter baumannii isolates from a German perspective

Acinetobacter baumannii ability to develop and acquire resistance makes it one of the most critical nosocomial pathogens globally. Whole-genome sequencing (WGS) was applied to identify the acquired or mutational ...

Authors: Gamal Wareth, Christian Brandt, Lisa D. Sprague, Heinrich Neubauer and Mathias W. Pletz

Dysbiosis of intestinal microbiota in early life aggravates high-fat diet induced dysmetabolism in adult mice

Accumulating evidence have shown that the intestinal microbiota plays an important role in prevention of host obesity and metabolism disorders. Recent studies also demonstrate that early life is the key time f...

Authors: Z. H. Miao, W. X. Zhou, R. Y. Cheng, H. J. Liang, F. L. Jiang, X. Shen, J. H. Lu, M. Li and F. He

Characterization of resistance mechanisms of Enterobacter cloacae Complex co-resistant to carbapenem and colistin

The emergence of carbapenem-resistant and colistin-resistant ECC pose a huge challenge to infection control. The purpose of this study was to clarify the mechanism of the carbapenems and colistin co-resistance...

Authors: Shixing Liu, Renchi Fang, Ying Zhang, Lijiang Chen, Na Huang, Kaihang Yu, Cui Zhou, Jianming Cao and Tieli Zhou

Assessment of the sanitary quality of ready to eat sesame, a low moisture street food from Burkina Faso

Microbial contamination of edible low moisture food poses a significant public health risk for human. In this study, the microbial quality of sweet dehulled sesame seed croquettes, salted dehulled sesame seed ...

Authors: Muller K. A. Compaoré, Bazoin Sylvain Raoul Bazie, Marguerite E. M. Nikiema, Virginie Marie Dakené, René Dembélé, Dissinviel Stéphane Kpoda, Elie Kabré and Nicolas Barro

Effects of rhizosphere fungi on the chemical composition of fruits of the medicinal plant Cinnamomum migao endemic to southwestern China

This study examined how rhizosphere fungi influence the accumulation of chemical components in fruits of a small population species of Cinnamomum migao.

Authors: Jingzhong Chen, Xiaolong Huang, Bingli Tong, Deng Wang, Jiming Liu, Xiaofeng Liao and Qingwen Sun

Comparison of two commercial recirculated aquacultural systems and their microbial potential in plant disease suppression

Aquaponics are food production systems advocated for food security and health. Their sustainability from a nutritional and plant health perspective is, however, a significant challenge. Recirculated aquacultur...

Authors: Sammar Khalil, Preeti Panda, Farideh Ghadamgahi, AnnaKarin Rosberg and Ramesh R Vetukuri

Characterization of fungal microbial diversity in healthy and diarrheal Tibetan piglets

Diarrhea is an important ailment limiting the production of the Tibetan pig industry. Dynamic balance of the intestinal microbiota is important for the physiology of the animal. The objective of this work was ...

Authors: Qinghui Kong, Suozhu Liu, Aoyun Li, Yaping Wang, Lihong Zhang, Mudassar Iqbal, Tariq Jamil, Zhenda Shang, Lang-sizhu Suo and Jiakui Li

Emergence of a mupirocin-resistant, methicillin-susceptible Staphylococcus aureus clone associated with skin and soft tissue infections in Greece

Staphylococcus aureus causes various infections, including skin and soft tissue infections (SSTIs). In this study, methicillin-susceptible S. aureus (MSSA) from SSTIs among patients in three tertiary-care hospita...

Authors: Nikolaos Giormezis, Anastassios Doudoulakakis, Katerina Tsilipounidaki, Maria Militsopoulou, George Kalogeras, Vasiliki Stamouli, Fevronia Kolonitsiou, Efthimia Petinaki, Evangelia Lebessi and Iris Spiliopoulou

Pre-processing tissue specimens with a tissue homogenizer: clinical and microbiological evaluation

Tissues are valuable specimens in diagnostic microbiology because they are often obtained by invasive methods, and effort should thus be taken to maximize microbiological yield. The objective of this study was...

Authors: Erlangga Yusuf, Marieke Pronk and Mireille van Westreenen

The infant gut resistome is associated with E. coli and early-life exposures

The human gut microbiome harbors a collection of bacterial antimicrobial resistance genes (ARGs) known as the resistome. The factors associated with establishment of the resistome in early life are not well un...

Authors: Rebecca M. Lebeaux, Modupe O. Coker, Erika F. Dade, Thomas J. Palys, Hilary G. Morrison, Benjamin D. Ross, Emily R. Baker, Margaret R. Karagas, Juliette C. Madan and Anne G. Hoen

Composition and diversity of gut microbiota in Pomacea canaliculata in sexes and between developmental stages

The apple snail, Pomacea canaliculata, is one of the world’s 100 worst invasive alien species and vector of some pathogens relevant to human health.

Authors: Lian Chen, Shuxian Li, Qi Xiao, Ying Lin, Xuexia Li, Yanfu Qu, Guogan Wu and Hong Li

Candida albicans and Candida glabrata triosephosphate isomerase – a moonlighting protein that can be exposed on the candidal cell surface and bind to human extracellular matrix proteins

Triosephosphate isomerase (Tpi1) is a glycolytic enzyme that has recently been reported also to be an atypical proteinaceous component of the Candida yeast cell wall. Similar to other known candidal “moonlighting...

Authors: Dorota Satala, Grzegorz Satala, Marcin Zawrotniak and Andrzej Kozik

Lactiplantibacillus plantarum strains isolated from spontaneously fermented cocoa exhibit potential probiotic properties against Gardnerella vaginalis and Neisseria gonorrhoeae

Probiotics are important tools in therapies against vaginal infections and can assist traditional antibiotic therapies in restoring healthy microbiota. Recent research has shown that microorganisms belonging t...

Authors: Nathan das Neves Selis, Hellen Braga Martins de Oliveira, Hiago Ferreira Leão, Yan Bento dos Anjos, Beatriz Almeida Sampaio, Thiago Macêdo Lopes Correia, Carolline Florentino Almeida, Larissa Silva Carvalho Pena, Mariane Mares Reis, Thamara Louisy Santos Brito, Laís Ferraz Brito, Guilherme Barreto Campos, Jorge Timenetsky, Mariluze Peixoto Cruz, Rachel Passos Rezende, Carla Cristina Romano…