Article
Biochemistry & Molecular Biology
Tianhua Liao, Sishuo Wang, Eva E. Stueken, Haiwei Luo
Summary: The origin of anaerobic ammonium oxidation bacteria possibly dates back to the early Proterozoic era, and the Great Oxidation Event may have played a significant role in their emergence. The rising levels of atmospheric oxygen, making nitrite increasingly available, are believed to be the potential driving force behind the evolution of anaerobic ammonium oxidation bacteria.
MOLECULAR BIOLOGY AND EVOLUTION
(2022)
Article
Entomology
Roland Bamou, Adama Zan Diarra, Marie Paul Audrey Mayi, Borel Djiappi-Tchamen, Christophe Antonio-Nkondjio, Philippe Parola
Summary: Wolbachia bacteria, which can change host biology and suppress vector population, were found in 8 out of 22 mosquito species collected in Cameroon. Main vectors of diseases like dengue and malaria were not infected, while other species like C. moucheti showed relatively high infection rates. Further characterization of the Wolbachia strains is warranted.
Article
Biodiversity Conservation
Anindita Barua, Tamim Afrin, Anwarul Azim Akhand, Md. Sagir Ahmed
Summary: This study demonstrates the efficiency of partial sequences of COI and 16S rRNA genes in identifying crab species, with COI being more effective in distinguishing closely related species, while 16S rRNA is superior in phylogenetic analysis. The study also reveals a high %GC content in COI compared to 16S rRNA sequences, with a large variation at the 3rd codon position of the COI sequences. Furthermore, molecular phylogenetic analyses based on COI and 16S rRNA sequences support the discrimination of crab species and provide insights into their evolutionary relationships.
CONSERVATION GENETICS RESOURCES
(2021)
Article
Environmental Sciences
Zhenzhen Teng, Yu Zhen, Zhigang Yu, Tiezhu Mi, Tao Cai
Summary: In this study, the community structure and function of denitrifying and anammox microorganisms in the sediments of the Yangtze Estuary and its adjacent sea were analyzed using high-throughput sequencing, qPCR, and isotope techniques. The results showed that denitrification was the dominant contributor to nitrogen removal processes, and sediment Chla was a key factor regulating the rates of denitrification and anammox.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Environmental Sciences
Moonil Kim, Fenghao Cui
Summary: This study used 16S rRNA gene pyrosequencing to identify bacterial communities in wastewater and investigate the evolution of bacterial communities in the Anammox process. Four lab-scale Anammox reactors inoculated with different types of wastewater treatment sludge were operated under identical conditions for over 400 days. The study found that the presence of the Nitrospira genus and symbiotic association with other functional groups can lead to successful nitrogen removal in the Anammox process.
Article
Microbiology
Jiun-Nong Lin, Chung-Hsu Lai, Shang-Yi Lin, Ching-Chi Lee, Nan-Yao Lee, Po-Yu Liu, Chih-Hui Yang, Yi-Han Huang
Summary: This study evaluated the impact of intraspecific diversity among the multiple copies of the 16S rRNA gene on the accuracy of species identification in the genus Elizabethkingia. The results suggest that 16S rRNA gene sequencing should not be considered the gold standard for the accurate identification of Elizabethkingia species.
MICROBIOLOGY SPECTRUM
(2022)
Article
Biotechnology & Applied Microbiology
Suchi Parvin Biki, Shobuz Mahmud, Sumaia Akhter, Md Jiaur Rahman, Jessica J. Rix, Md Adnan Al Bachchu, Maruf Ahmed
Summary: In this study, bacteria were separated from landfill soil and their ability to degrade LDPE was evaluated. Ralstonia sp. strain SKM2 and Bacillus sp. strain SM1 were identified as effective LDPE-degrading microorganisms, causing weight loss and pH changes in the media. Structural changes in LDPE sheet were observed under microscope and FTIR analysis showed alterations in carbon bonds and groups.
ENVIRONMENTAL TECHNOLOGY & INNOVATION
(2021)
Article
Biodiversity Conservation
Denis Davydov, Anna Vilnet, Irina Novakovskaya, Elena Patova
Summary: The strains of Drouetiella species from a terrestrial biotope in the Arctic and Subarctic areas of European Russia were isolated and characterized using an integrative approach. The study showed the morphological plasticity of Drouetiella species and identified a new taxon. The analysis of 16S-23S ITS rRNA sequences revealed differences in length and nucleotide composition, affecting the hypothetical secondary structures of certain helices.
Article
Zoology
Mariastella Colomba, Julia D. Sigwart, Walter Renda, Armando Gregorini, Maurizio Sosso, Bruno Dell'Angelo
Summary: This study used molecular data to examine the genetic structure of Lepidopleurus cajetanus, a shallow water chiton in the Mediterranean. The analysis revealed two main clusters, L. cajetanus s.s. and L. aff. cajetanus. While L. cajetanus s.s. was found throughout the study area, a second distinct lineage was found on the eastern Spanish mainland coast. This finding suggests that L. cajetanus has a more geographically patterned genetic structure than previously thought.
Article
Biotechnology & Applied Microbiology
Ying Yu, Xinmiao Ren, Linyuan Cao, Qingping Liang, Mengshi Xiao, Jiaying Cheng, Shihao Nan, Changliang Zhu, Qing Kong, Xiaodan Fu, Haijin Mou
Summary: This study identified a new strain of bifidobacteria, YY-26, and verified its potential as a probiotic through in vitro experiments, demonstrating its safety, ability to produce beneficial metabolites and extracellular polysaccharides, and antioxidant activity.
JOURNAL OF APPLIED MICROBIOLOGY
(2022)
Review
Infectious Diseases
Javier Millan, Sophia Di Cataldo, Dmitriy V. Volokhov, Daniel J. Becker
Summary: This study focused on the current situation and influencing factors of haemotropic mycoplasmas infections in wildlife, revealing the relationships between infection rate and wild vs. captive hosts, geographical regions, and host orders. The results showed that the infection rate was higher in wild hosts, with little variation in infection rate among different hosts.
TRANSBOUNDARY AND EMERGING DISEASES
(2021)
Article
Biophysics
Tomoyuki Taguchi, Machi Ishikawa, Momoko Ichikawa, Takashi Tadenuma, Yuko Hirakawa, Tomoko Yoshino, Yoshiaki Maeda, Hiyori Takeuchi, Daisuke Nojima, Takeo Tanaami, Tadashi Matsunaga, Tsuyoshi Tanaka
Summary: In this study, a novel DNA microarray system was developed that eliminates the need for labeling, amplification, or washing of target nucleic acid fragments. By using specially designed DNA probes, the system allows for quick and specific detection of DNA and RNA within a short period of time.
BIOSENSORS & BIOELECTRONICS
(2021)
Article
Microbiology
Farnaz Fouladi, Jacqueline B. Young, Anthony A. Fodor
Summary: This study introduces a fast and scalable algorithm for inferring sequence variants in 16S rRNA gene data sets, utilizing a HashMap-based approach and normal distribution combined with LOESS regression. The method is computationally efficient and produces conservative sets of variants well supported by reference databases.
Review
Microbiology
Anna Trego, Ciara Keating, Corine Nzeteu, Alison Graham, Vincent O'Flaherty, Umer Zeeshan Ijaz
Summary: Amplifying short read regions, such as 16S rRNA for prokaryotic species or 18S rRNA for eukaryotic species, is a popular and economical method for studying microbial ecology. This review discusses recent advancements in in situ analytical tools that can provide insights into ecological phenomena, metabolic potential, species interactions, and community dynamics. The incorporation of additional information and modalities can enhance our understanding of how microbial communities respond to changes in ecosystems.
Article
Microbiology
Ashish Verma, Shiva S. Sundharam, Yash Pal, Bhawana Bisht, Pooja Yadav, Srinivasan Krishnamurthi
Summary: SAOS 153DT, a novel Gram-stain-negative, rod-shaped bacterium, shares 99.4% sequence identity with Yangia pacifica DX5-10T. The chemotaxonomic and genomic characteristics support its designation as a novel species within the genus Yangia.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
T. P. Tourova, D. Sh. Sokolova, T. N. Nazina, A. B. Laptev
Summary: This work aimed to detect potential degraders of PET, PS, and steel based on comparison of biofilm communities formed on different materials in various aqueous environments. Results showed that industrial recirculated water was more aggressive towards polymer materials, while sulfur- and iron-oxidizing bacteria were likely involved in steel biocorrosion in seawater.
Article
Microbiology
N. A. Manucharova, M. A. Bolshakova, T. L. Babich, T. P. Tourova, E. M. Semenova, A. S. Yanovich, A. B. Poltaraus, A. L. Stepanov, T. N. Nazina
Summary: This paper investigates the phylogenetic and functional microbial diversity in soils contaminated and uncontaminated with hydrocarbons. It identifies specific bacterial genera with potential functional activity in conversion of nitrogen compounds and degradation of hydrocarbons, and suggests the enrichment of soil with specific degraders as a potential strategy for polluted soils in northern regions.
Article
Microbiology
Ekaterina M. Semenova, Denis S. Grouzdev, Diyana S. Sokolova, Tatiyana P. Tourova, Andrey B. Poltaraus, Natalia Potekhina, Polina N. Shishina, Maria A. Bolshakova, Alexander N. Avtukh, Elena A. Ianutsevich, Vera M. Tereshina, Tamara N. Nazina
Summary: This study aimed to determine the diversity of prokaryotes involved in anaerobic oil degradation in oil fields. A new species Actinotalea subterranea was isolated and characterized, and taxonomic revision of the genera Actinotalea and Pseudactinotalea was proposed based on phylogenomic analysis of Actinobacteria.
Correction
Microbiology
Ekaterina M. Semenova, Denis S. Grouzdev, Diyana S. Sokolova, Tatiyana P. Tourova, Andrey B. Poltaraus, Natalia V. Potekhina, Polina N. Shishina, Maria A. Bolshakova, Alexander N. Avtukh, Elena A. Ianutsevich, Vera M. Tereshina, Tamara N. Nazina
Article
Biochemistry & Molecular Biology
Andrei V. Perepelov, Diyana S. Sokolova, Tatiana P. Tourova, Alexander S. Shashkov, Anastasiya A. Kasimova, Tamara N. Nazina
Summary: In this study, a halotolerant hydrocarbon-oxidizing bacterium Halomonas titanicae TAT1 strain was isolated from a petroleum reservoir, and the O-polysaccharide structure and gene cluster were successfully identified. The O-antigen structure was found to be consistent with the genes in the O-antigen gene cluster of the H. titanicae TAT1 genome.
CARBOHYDRATE RESEARCH
(2022)
Article
Microbiology
T. P. Tourova, D. S. Sokolova, E. M. Semenova, A. P. Ershov, D. S. Grouzdev, T. N. Nazina
Summary: Two halophilic hydrocarbon-oxidizing bacteria strains, Halomonas titanicae TAT1 and Marinobacter lutaoensis KAZ22, isolated from oil fields with mineralized formation water, showed adaptability to different temperatures and salinity levels for growth on oil and degradation of n-alkanes. Genome analysis revealed genes related to osmoprotectant synthesis and reduced surface tension in both strains. The injection of nitrate and H. titanicae TAT1 strain can enhance oil reservoir bioaugmentation, suppress corrosion, and decrease sulfide content, while the injection of M. lutaoensis KAZ22 strain can remediate oil pollution and increase oil recovery from reservoirs.
Article
Microbiology
Ekaterina M. Semenova, Tamara L. Babich, Diyana S. Sokolova, Alexey P. Ershov, Yeva Raievska, Salimat K. Bidzhieva, Alexey L. Stepanov, Maria Korneykova, Vladimir A. Myazin, Tamara N. Nazina
Summary: The development of Arctic regions leads to pollution of marine and coastal environments with oil and petroleum products. This study focused on determining the microbial diversity in seawater, littoral and coastal soil, and isolating oil-degrading bacteria. High-throughput sequencing revealed that bacteria dominated polar communities, while archaea made up less than 2% of the total sequences. The potential functional characteristics of the prokaryotic communities were predicted, indicating their involvement in nitrogen and sulfur cycles as well as the degradation of various hydrocarbons. Furthermore, several bacterial strains capable of growing in seawater and degrading crude oil were isolated.
Article
Microbiology
Tamara L. Babich, Denis S. Grouzdev, Diyana S. Sokolova, Tatyana P. Tourova, Andrey B. Poltaraus, Tamara N. Nazina
Summary: Two bacterial strains, JR1/69-2-13(T) and JR1/69-3-13(T), were isolated from nitrate- and radionuclide-contaminated groundwater in Ozyorsk town, South Urals, Russia. They were identified as new species within the genus Pollutimonas and their genomic analysis revealed molecular mechanisms of adaptation to the polluted environment.
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2023)
Editorial Material
Microbiology
Bo-Zhong Mu, Tamara N. Nazina
Article
Microbiology
T. P. Tourova, D. Sh. Sokolova, E. M. Semenova, D. M. Kireev, A. B. Laptev, T. N. Nazina
Summary: The study aimed to investigate the composition of microbial communities on the surface of PET, PS, and ST materials exposed in a pond near a landfill. The dominant bacteria were found to be capable of degrading polymers and corroding metals. The fungal communities were dominated by saprotrophic species. The effect of the aquatic environment on the fungal community was less significant compared to bacteria.
Article
Green & Sustainable Science & Technology
Tamara N. Nazina, Leyla A. Abukova, Tatiana P. Tourova, Tamara L. Babich, Salimat K. Bidzhieva, Nataliya G. Loiko, Dina S. Filippova, Elisaveta A. Safarova
Summary: The share of molecular hydrogen as green energy is increasing, and the use of existing underground natural gas storage facilities for hydrogen storage is proposed. Microbial diversity in depleted oil and gas fields and deep aquifers were studied, and the effect of hydrogen on microorganisms in underground gas storage was investigated. The findings show that microbial communities in the formation water of depleted oil and gas reservoirs are diverse and include hydrogen-utilizing microorganisms. Microbial communities in aquifers and gas storage facilities are less diverse. Microorganisms in the water of gas storage facilities can affect the water and gas composition, as well as the host rocks and equipment.
Review
Chemistry, Multidisciplinary
Olga Maslova, Olga Senko, Marina A. Gladchenko, Sergey N. Gaydamaka, Elena Efremenko
Summary: Due to environmental problems, it is urgent to improve the processes for processing and purifying hydrocarbon-containing wastes and wastewaters. This review presents the latest developments in nanostructured catalysts made from different materials for purifying oil-polluted wastewaters and eliminating hydrocarbon pollutants. The analysis discusses possible combinations of chemical and biological catalysts for more effective solutions. The possibilities of using nanoparticles or catalytic nanocomposites for advanced oxidation processes and biocatalysts are analyzed.
APPLIED SCIENCES-BASEL
(2023)
Article
Microbiology
T. L. Babich, E. M. Semenova, D. Sh Sokolova, T. P. Tourova, S. Kh Bidzhieva, N. G. Loiko, G. Avdonin, N. Lutsenko, T. N. Nazina
Summary: The study revealed the microbial communities in the subsurface horizons of an uranium deposit in Russia, showing a diverse range of bacteria and fungi that play roles in carbon, nitrogen, sulfur, and metal transformations. Additionally, the presence of fungi with resistance to heavy metals and complex organic substrate utilization capabilities was observed in the rock and reservoir water samples.
Article
Microbiology
T. N. Nazina, L. A. Abukova, T. P. Tourova, T. L. Babich, S. Kh Bidzhieva, D. S. Filippova, E. A. Safarova
Summary: This study focuses on the microbial diversity in samples of reservoir water from underground horizons of Shchelkovo, Kasimov, and Kaluga UGS, revealing a low abundance of cultivated aerobic and anaerobic bacteria. High-throughput sequencing identified a diverse microbial community with potential metabolic abilities in using various substrates.
Article
Microbiology
Diyana S. Sokolova, Ekaterina M. Semenova, Denis S. Grouzdev, Salimat K. Bidzhieva, Tamara L. Babich, Nataliya G. Loiko, Alexey P. Ershov, Vitaly V. Kadnikov, Alexey V. Beletsky, Andrey V. Mardanov, Nurlan S. Zhaparov, Tamara N. Nazina
Summary: The study found that seawater injection and environmental temperature determine the composition and functional activity of prokaryotes in the Uzen oil field.