Articles

First insights into the molecular basis association between promoter polymorphisms of the IL1B gene and Helicobacter pylori infection in the Sudanese population: computational approach

Helicobacter pylori (H. pylori) infects nearly half of the world’s population with a variation in incidence among different geographic regions. Genetic variants in the promoter regions of the IL1B gene can affect...

Authors: Abeer Babiker Idris, Einas Babiker Idris, Amany Eltayib Ataelmanan, Ali Elbagir Ali Mohamed, Bashir M. Osman Arbab, El-Amin Mohamed Ibrahim and Mohamed A. Hassan

The type VI secretion system of Xanthomonas phaseoli pv. manihotis is involved in virulence and in vitro motility

The type VI protein secretion system (T6SS) is important in diverse cellular processes in Gram-negative bacteria, including interactions with other bacteria and with eukaryotic hosts. In this study we analyze ...

Authors: Nathaly Andrea Montenegro Benavides, Alejandro Alvarez B., Mario L. Arrieta-Ortiz, Luis Miguel Rodriguez-R, David Botero, Javier Felipe Tabima, Luisa Castiblanco, Cesar Trujillo, Silvia Restrepo and Adriana Bernal

Comparison of gut microbiota structure and Actinobacteria abundances in healthy young adults and elderly subjects: a pilot study

The aim was to determine the potential association of the gut microbiota composition, especially the abundance of Actinobacteria, as well as the differentiation of functional and resistance genes with age (young ...

Authors: Jun Li, Haiyan Si, Haitao Du, Hongxia Guo, Huanqin Dai, Shiping Xu and Jun Wan

Environmental parameters and microbial community profiles as indication towards microbial activities and diversity in aquaponic system compartments

An aquaponic system couples cultivation of plants and fish in the same aqueous medium. The system consists of interconnected compartments for fish rearing and plant production, as well as for water filtration,...

Authors: Zala Schmautz, Carlos A. Espinal, Andrea M. Bohny, Fabio Rezzonico, Ranka Junge, Emmanuel Frossard and Theo H. M. Smits

Altered gut microbiota correlate with different immune responses to HAART in HIV-infected individuals

Although gut microbiota dysbiosis has been reported in HIV infected individuals recently, the relationship between the gut microbiota and immune activation in patients with different immune responses to highly...

Authors: Yirui Xie, Jia Sun, Li Wei, Haiyin Jiang, Caiqin Hu, Jiezuan Yang, Ying Huang, Bing Ruan and Biao Zhu

Lifestyle modifications result in alterations in the gut microbiota in obese children

The association between the gut microbiota and pediatric obesity was analyzed in a cross-sectional study. A prospective study of obese children was conducted to assess the gut microbial alterations after a wei...

Authors: Ky Young Cho

A metabolic and physiological design study of Pseudomonas putida KT2440 capable of anaerobic respiration

Pseudomonas putida KT2440 is a metabolically versatile, HV1-certified, genetically accessible, and thus interesting microbial chassis for biotechnological applications. However, its obligate aerobic nature hamper...

Authors: Linde F. C. Kampers, Jasper J. Koehorst, Ruben J. A. van Heck, Maria Suarez-Diez, Alfons J. M. Stams and Peter J. Schaap

Differential production and secretion of potentially toxigenic extracellular proteins from hypervirulent Aeromonas hydrophila under biofilm and planktonic culture

Hypervirulent Aeromonas hydrophila (vAh) is an emerging pathogen in freshwater aquaculture that results in the loss of over 3 million pounds of marketable channel catfish, Ictalurus punctatus, and channel catfish...

Authors: Priscilla C. Barger, Mark R. Liles, Benjamin H. Beck and Joseph C. Newton

Alterations in the intestinal microbiome and mental health status of workers in an underground tunnel environment

Working in an underground tunnel environment is unavoidable in professions such as miners and tunnel workers, and there is a concern about the health of these workers. Few studies have addressed alterations in...

Authors: Zhen-Hua Lu, Yi-Wen Liu, Zhao-Hua Ji, Ting Fu, Min Yan, Zhong-jun Shao and Yong Long

Epidemic and molecular characterization of fluoroquinolone-resistant Shigella dysenteriae 1 isolates from calves with diarrhea

The widespread distribution of antimicrobial-resistant Shigella has become a recurrent challenge in many parts of the developing world. Previous studies indicate that the host of Shigella has expanded from humans...

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

Galectins from Onchocerca ochengi and O. volvulus and their immune recognition by Wistar rats, Gudali zebu cattle and human hosts

During the last two decades research on animal filarial parasites, especially Onchocerca ochengi, infecting cattle in savanna areas of Africa revealed that O. ochengi as an animal model has biological features th...

Authors: Ngwafu Nancy Ngwasiri, Norbert W. Brattig, Dieudonné Ndjonka, Eva Liebau, Archile Paguem, Dustin Leusder, Manchang Tanyi Kingsley, Albert Eisenbarth, Alfons Renz and Achukwi Mbunkah Daniel

Microbiology of secondary infections in Buruli ulcer lesions; implications for therapeutic interventions

Buruli ulcer (BU) is a skin disease caused by Mycobacterium ulcerans and is the second most common mycobacterial disease after tuberculosis in Ghana and Côte d’Ivoire. M. ulcerans produces mycolactone, an immunos...

Authors: Elizabeth Gyamfi, Charles A Narh, Charles Quaye, Adiza Abbass, Bartholomew Dzudzor and Lydia Mosi

Host cell response and distinct gene expression profiles at different stages of Chlamydia trachomatis infection reveals stage-specific biomarkers of infection

Chlamydia trachomatis is the most common sexually transmitted infection and the bacterial agent of trachoma globally. C. trachomatis undergoes a biphasic developmental cycle involving an infectious elementary bod...

Authors: Emmanuel Enoch Dzakah, Liping Huang, Yaohua Xue, Shuai Wei, Xiaolin Wang, Hongliang Chen, Jingwei Shui, Foster Kyei, Farooq Rashid, Heping Zheng, Bing Yang and Shixing Tang

A novel high-content screening approach for the elucidation of C. jejuni biofilm composition and integrity

Campylobacter jejuni is the leading cause of bacterial gastroenteritis worldwide and the main source of infection is contaminated chicken meat. Although this important human pathogen is an obligate microaerophile...

Authors: Matthew V. X. Whelan, Jeremy C. Simpson and Tadhg Ó Cróinín

Screening and quantification of anti-quorum sensing and antibiofilm activity of Actinomycetes isolates against food spoilage biofilm-forming bacteria

Biofilms can form in many industries, one of them is the food industry. The formation of biofilms in this industry could cause immense economic losses and endanger public health. Biofilms formation is mainly t...

Authors: Erika Mulya and Diana Elizabeth Waturangi

Correction to: A network approach to investigating the key microbes and stability of gut microbial communities in a mouse neuropathic pain model

An amendment to this paper has been published and can be accessed via the original article.

Authors: Guo-Jie Brandon-Mong, Grace Tzun-Wen Shaw, Wei-Hsin Chen, Chien-Chang Chen and Daryi Wang

The identification of co-expressed gene modules in Streptococcus pneumonia from colonization to infection to predict novel potential virulence genes

Streptococcus pneumonia (pneumococcus) is a human bacterial pathogen causing a range of mild to severe infections. The complicated transcriptome patterns of pneumococci during the colonization to infection proces...

Authors: Sadegh Azimzadeh Jamalkandi, Morteza Kouhsar, Jafar Salimian and Ali Ahmadi

Correction to: Complete genome analysis of a virulent Vibrio scophthalmi strain VSc190401 isolated from diseased marine fish half-smooth tongue sole, Cynoglossus semilaevis

An amendment to this paper has been published and can be accessed via the original article.

Authors: Zheng Zhang, Yong-xiang Yu, Yin-geng Wang, Xiao Liu, Li-fang Wang, Hao Zhang, Mei-jie Liao and Bin Li

Three redescriptions in Tintinnopsis (Protista: Ciliophora: Tintinnina) from coastal waters of China, with cytology and phylogenetic analyses based on ribosomal RNA genes

The taxonomy of tintinnine ciliates is vastly unresolved because it has traditionally been based on the lorica (a secreted shell) and it has only recently incorporated cytological and molecular information. Tinti...

Authors: Yang Bai, Rui Wang, Wen Song, Lifang Li, Luciana F. Santoferrara and Xiaozhong Hu

Pseudomonas putida as a potential biocontrol agent against Salmonella Java biofilm formation in the drinking water system of broiler houses

Environmental biofilms can induce attachment and protection of other microorganisms including pathogens, but can also prevent them from invasion and colonization. This opens the possibility for so-called bioco...

Authors: Sharon Maes, Koen De Reu, Stephanie Van Weyenberg, Bram Lories, Marc Heyndrickx and Hans Steenackers

Two-weeks repeated-dose oral toxicity study of Pediococcus acidilactici J9 in a mice model

Helicobacter pylori (H. pylori) is an important pathogen that causes chronic gastritis and peptic ulcer, and is related to the development of gastric carcinoma. Several chemicals, including antibiotics, have been...

Authors: Mijung Lee, Jin-Young Chung, Ka Yeun Kim, Wooseok Im and Manho Kim

Standardization of an LNA-based TaqMan assay qPCR analysis for Aspiculuris tetraptera DNA in mouse faeces

Aspiculuris tetraptera, as a parasitic pinworm, is most frequently detected in laboratory mice, and transmission is mediated by the eggs contained in the faeces of infected mice. A highly sensitive and quantitati...

Authors: Keishiro Isayama, Kenji Watanabe, Mariko Okamoto, Tomoaki Murata and Yoichi Mizukami

Altitude influences microbial diversity and herbage fermentation in the rumen of yaks

Rumen microbiota in ruminants are vital for sustaining good rumen ecology, health, and productivity. Currently, limited information is available regarding the response of yaks (Bos grunniens) to fluctuating envir...

Authors: Qingshan Fan, Metha Wanapat, Tianhai Yan and Fujiang Hou

Role of aspartate ammonia-lyase in Pasteurella multocida

Pasteurella multocida is responsible for a highly infectious and contagious disease in birds, leading to heavy economic losses in the chicken industry. However, the pathogenesis of this disease is poorly understo...

Authors: Zui Wang, Li Li, Peng Liu, Chen Wang, Qin Lu, Lina Liu, Xiaozhong Wang, Qingping Luo and Huabin Shao

A comparative study on production of extracellular hydrolytic enzymes of Candida species isolated from patients with surgical site infection and from healthy individuals and their co-relation with antifungal drug resistance

Surgical site infection (SSI) is a crucial dilemma of surgery. Patients with SSIs not only face difficulty in treatment but also bear extra cost with high mortality rate. Resistant strains of Candida have emer...

Authors: Rakhshanda Erum, Farkhunda Samad, Adnan Khan and Shahana Urooj Kazmi

MALDI-TOF mass spectrometry for sub-typing of Streptococcus pneumoniae

Serotyping of Streptococcus pneumoniae is important for monitoring of vaccine impact. Unfortunately, conventional and molecular serotyping is expensive and technically demanding. This study aimed to determine the...

Authors: Sivkheng Kann, Sena Sao, Chanleakhena Phoeung, Youlet By, Juliet Bryant, Florence Komurian-Pradel, Vonthanak Saphonn, Monidarin Chou and Paul Turner

Antimicrobial resistance and metallo-beta-lactamase producing among commensal Escherichia coli isolates from healthy children of Khuzestan and Fars provinces; Iran

The emergence of metallo-β-lactamase (MBL)-producing isolates is alarming since they carry mobile genetic elements with great ability to spread; therefore, early detection of these isolates, particularly their...

Authors: Fahimeh Mahmoodi, Seyedeh Elham Rezatofighi and Mohammad Reza Akhoond

Repeated centrifuging and washing concentrates bacterial samples in peritoneal dialysis for optimal culture: an original article

Bacterial cultures allow the identification of infectious disease pathogens. However, obtaining the results of conventional culture methods is time-consuming, taking at least two days. A more efficient alterna...

Authors: Ni Tien, Bang-Jau You, Hsuan-Jen Lin, Chieh-Ying Chang, Che-Yi Chou, Hsiu-Shen Lin, Chiz-Tzung Chang, Charles C. N. Wang and Hung-Chih Chen

Lower methane emissions were associated with higher abundance of ruminal Prevotella in a cohort of Colombian buffalos

Ruminants burp massive amounts of methane into the atmosphere and significantly contribute to the deposition of greenhouse gases and the consequent global warming. It is therefore urgent to devise strategies t...

Authors: Sandra Bibiana Aguilar-Marin, Claudia Lorena Betancur-Murillo, Gustavo A. Isaza, Henry Mesa and Juan Jovel

Application of Bacillus thuringiensis strains with conjugal and mobilizing capability drives gene transmissibility within Bacillus cereus group populations in confined habitats

Bacillus thuringiensis bacteria share similar genetic, physiological, and biochemical characteristics with other members of the Bacillus cereus group. Their diversity and entomopathogenic origin are related to th...

Authors: Xiaomin Hu, Doudou Huang, Joseph Ogalo, Peiling Geng, Zhiming Yuan, Hairong Xiong, Xiaofu Wan and Jiahui Sun

The Epidome - a species-specific approach to assess the population structure and heterogeneity of Staphylococcus epidermidis colonization and infection

Although generally known as a human commensal, Staphylococcus epidermidis is also an opportunistic pathogen that can cause nosocomial infections related to foreign body materials and immunocompromized patients. I...

Authors: Amalie Katrine Rendboe, Thor Bech Johannesen, Anna Cäcilia Ingham, Emeli Månsson, Søren Iversen, Sharmin Baig, Sofie Edslev, Jørgen Skov Jensen, Bo Söderquist, Paal Skytt Andersen and Marc Stegger

Sulfated vizantin causes detachment of biofilms composed mainly of the genus Streptococcus without affecting bacterial growth and viability

Sulfated vizantin, a recently developed immunostimulant, has also been found to exert antibiofilm properties. It acts not as a bactericide, but as a detachment-promoting agent by reducing the biofilm structura...

Authors: Taisuke Hasegawa, Shoji Takenaka, Masataka Oda, Hisanori Domon, Takumi Hiyoshi, Karin Sasagawa, Tatsuya Ohsumi, Naoki Hayashi, Yasuko Okamoto, Hirofumi Yamamoto, Hayato Ohshima, Yutaka Terao and Yuichiro Noiri

First isolation and whole-genome sequencing of a Shewanella algae strain from a swine farm in Brazil

Infections caused by Shewanella spp. have been increasingly reported worldwide. The advances in genomic sciences have enabled better understanding about the taxonomy and epidemiology of this agent. However, the s...

Authors: Vinicius Buiatte de Andrade Alves, Eneas Carvalho, Paloma Alonso Madureira, Elizangela Domenis Marino, Andreia Cristina Nakashima Vaz, Ana Maria Centola Vidal and Vera Letticie de Azevedo Ruiz

Young «oil site» of the Uzon Caldera as a habitat for unique microbial life

The Uzon Caldera is one of the places on our planet with unique geological, ecological, and microbiological characteristics. Uzon oil is the youngest on Earth. Uzon oil has unique composition, with low proport...

Authors: Sergey E. Peltek, Alla V. Bryanskaya, Yuliya E. Uvarova, Aleksey S. Rozanov, Timofey V. Ivanisenko, Vladimir A. Ivanisenko, Elena V. Lazareva, Olga V. Saik, Vadim M. Efimov, Sergey M. Zhmodik, Oxana P. Taran, Nikolay M. Slynko, Sergey V. Shekhovtsov, Valentin N. Parmon, Nikolay L. Dobretsov and Nikolay A. Kolchanov

Microbiology research at the systems biology and bioinformatics - 2019 (SBB-2019) school

Authors: Yuriy L. Orlov, Alexander N. Ignatov, Elvira R. Galieva and Oxana B. Dobrovolskaya

Virulent secondary metabolites of entomopathogenic bacteria genera, Xenorhabdus and Photorhabdus, inhibit phospholipase A₂ to suppress host insect immunity

Xenorhabdus and Photorhabdus are entomopathogenic bacteria that cause septicemia and toxemia in insects. They produce secondary metabolites to induce host immunosuppression. Their metabolite compositions vary amo...

Authors: Md. Mahi Imam Mollah and Yonggyun Kim

Rhamnolipids and surfactin inhibit the growth or formation of oral bacterial biofilm

Bacteria survive in various environments by forming biofilms. Bacterial biofilms often cause significant problems to medical instruments and industrial processes. Techniques to inhibit biofilm formation are es...

Authors: Ryota Yamasaki, Aki Kawano, Yoshie Yoshioka and Wataru Ariyoshi

Indole-3-lactic acid associated with Bifidobacterium-dominated microbiota significantly decreases inflammation in intestinal epithelial cells

Bifidobacterium longum subsp. infantis (B. infantis) is a commensal bacterium that colonizes the gastrointestinal tract of breast-fed infants. B. infantis can efficiently utilize the abundant supply of oligosacch...

Authors: Amy M. Ehrlich, Alline R. Pacheco, Bethany M. Henrick, Diana Taft, Gege Xu, M. Nazmul Huda, Darya Mishchuk, Michael L. Goodson, Carolyn Slupsky, Daniela Barile, Carlito B. Lebrilla, Charles B. Stephensen, David A. Mills and Helen E. Raybould

Influence of microbiota and metabolites on the quality of tobacco during fermentation

To explore the optimum fermentation conditions for tobacco leaves and also screen the microbiota and metabolites that are beneficial for fermentation.

Authors: Jingjing Li, Yuanyuan Zhao, Yanqing Qin and Hongzhi Shi

The attachment process and physiological properties of Escherichia coli O157:H7 on quartz

Manure application and sewage irrigation release many intestinal pathogens into the soil. After being introduced into the soil matrix, pathogens are commonly found to attach to soil minerals. Although the surv...

Authors: Liliang Wang, Yichao Wu, Peng Cai and Qiaoyun Huang

A longitudinal study on morpho-genetic diversity of pathogenic Rhizoctonia solani from sugar beet and dry beans of western Nebraska

Root and stem rot caused by Rhizoctonia solani is a serious fungal disease of sugar beet and dry bean production in Nebraska. Rhizoctonia root rot and crown rot in sugar beet and dry bean have reduced the yield s...

Authors: Saurav Das, T. Plyler-Harveson, Dipak K. Santra, Bijesh Maharjan, Kathy A. Nielson and Robert M. Harveson

Current knowledge and perspectives of potential impacts of Salmonella enterica on the profile of the gut microbiota

In the past decade, the initial studies of the gut microbiota started focusing on the correlation of the composition of the gut microbiota and the health or diseases of the host, and there are extensive litera...

Authors: Nesreen H. Aljahdali, Yasser M. Sanad, Jing Han and Steven L. Foley

Utilization of different MurNAc sources by the oral pathogen Tannerella forsythia and role of the inner membrane transporter AmpG

The Gram-negative oral pathogen Tannerella forsythia strictly depends on the external supply of the essential bacterial cell wall sugar N-acetylmuramic acid (MurNAc) for survival because of the lack of the common...

Authors: Valentina M. T. Mayer, Markus B. Tomek, Rudolf Figl, Marina Borisova, Isabel Hottmann, Markus Blaukopf, Friedrich Altmann, Christoph Mayer and Christina Schäffer

Transcriptional response of Bacillus megaterium FDU301 to PEG200-mediated arid stress

For microorganisms on a paper surface, the lack of water is one of the most important stress factors. A strain of Bacillus megaterium FDU301 was isolated from plaques on a paper surface using culture medium with ...

Authors: Lei Zhao, Yanjun Zhou, Jianbei Li, Yucheng Xia, Weiyun Wang, Xiuqi Luo, Juan Yin and Jiang Zhong

Antimicrobial activity of omadacycline in vitro against bacteria isolated from 2014 to 2017 in China, a multi-center study

Omadacycline (ZL-2401) is a semi-synthetic derivative of minocycline. It has a broadspectrum activity against Gram-positive and Gram-negative bacteria, and atypical pathogens. The objective of this study was t...

Authors: Meng Xiao, Jing-jing Huang, Ge Zhang, Wen-hang Yang, Fanrong Kong, Timothy Kudinha and Ying-chun Xu

Rapid identification, capsular typing and molecular characterization of Streptococcus pneumoniae by using whole genome nanopore sequencing

Whole genome sequencing has emerged as a useful tool for identification and molecular characterization of pathogens. MinION (Oxford Nanopore) is a real-time third generation sequencer whose portability, afford...

Authors: S. Garcia-Garcia, A. Perez-Arguello, D. Henares, N. Timoneda and C. Muñoz-Almagro

Quantitative microbial risk assessment for waterborne pathogens in a wastewater treatment plant and its receiving surface water body

Access to safe water for drinking and domestic activities remains a challenge in emerging economies like South Africa, forcing resource-limited communities to use microbiologically polluted river water for per...

Authors: Joshua Mbanga, Akebe Luther King Abia, Daniel Gyamfi Amoako and Sabiha. Y. Essack

Genome-based characterization of two Colombian clinical Providencia rettgeri isolates co-harboring NDM-1, VIM-2, and other β-lactamases

Providencia rettgeri is a nosocomial pathogen associated with urinary tract infections and related to Healthcare-Associated Infection (HAI). In recent years isolates producing New Delhi Metallo-β-lactamase (NDM) ...

Authors: Adriana Piza-Buitrago, Verónica Rincón, John Donato, Sandra Yamile Saavedra, Carolina Duarte, Jaime Morero, Laurent Falquet, María Teresa Reguero and Emiliano Barreto-Hernández

The stability of the coiled-coil structure near to N-terminus influence the heat resistance of harpin proteins from Xanthomonas

Heat resistance is a common characteristic of harpins, a class of proteins found in Gram-negative bacteria, which may be related to the stability of coiled-coil (CC) structure. The CC structure is a ubiquitous...

Authors: Yue Liu, Xiaoyun Zhou, Wenbo Liu and Weiguo Miao

Screening of antibiofilm and anti-quorum sensing activty of Actinomycetes isolates extracts against aquaculture pathogenic bacteria

Indonesia is the third largest producer of fish and other aquaculture products in the world, making this industry a major contributor in the economy of Indonesia. However, this industry continually overcome ch...

Authors: Gloria Raissa, Diana Elizabeth Waturangi and Dinamella Wahjuningrum