Article
Microbiology
Inhyup Kim, Geeta Chhetri, Jiyoun Kim, Yoonseop So, Taegun Seo
Summary: Two Gram stain-negative bacterial strains, Jin1(T) and Jin2(T), were isolated from artificial pond water in the Republic of Korea. Phylogenetic analysis and gene sequence similarities confirmed that Jin1 represents a novel species of the genus Chryseolinea, while Jin2 represents a novel species of the genus Piscinibacter.
CURRENT MICROBIOLOGY
(2023)
Article
Microbiology
Geeta Chhetri, Jiyoun Kim, Inhyup Kim, Minchung Kang, Taegun Seo
Summary: This study identified a novel motile bacterium, Limnohabitans radicicola sp. nov., isolated from rice plant roots, which represents a new species within the genus Limnohabitans based on phylogenetic, phenotypic, chemotaxonomic, and genotypic data analysis. (163 characters)
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Multidisciplinary Sciences
Rika Kudo, Ryota Yamano, Juanwen Yu, Shotaro Koike, Alfabetian Harjuno Condro Haditomo, Mayanne A. M. de Freitas, Jiro Tsuchiya, Sayaka Mino, Fabiano Thompson, Jesus L. Romalde, Hisae Kasai, Yuichi Sakai, Tomoo Sawabe
Summary: Strain PT1(T), a rod-shaped bacterium isolated from laboratory-reared larvae of sea cucumber Apostichopus japonicus, demonstrated similarities to Neptuniibacter marinus ATR 1.1(T) and Neptuniibacter caesariensis MED92(T) with sequence similarities of 98.2% and 98.1%, respectively, based on the analysis of 16S rRNA gene nucleotide sequences. However, the average nucleotide identity (ANI) and in silico DNA-DNA hybridization (DDH) values among these three strains were below 95% and 70%, confirming the novel status of PT1(T). Based on the genomic approach, a new species, Neptuniibacter victor sp. nov., is proposed for PT1(T).
Article
Multidisciplinary Sciences
Ryota Yamano, Juanwen Yu, Alfabetian Harjuno Condro Haditomo, Chunqi Jiang, Sayaka Mino, Jesus L. Romalde, Kyuhee Kang, Yuichi Sakai, Tomoo Sawabe
Summary: This study isolated a Gram-negative, aerobic bacterium named PTE2(T) from laboratory-reared Japanese sea cucumber larvae. Phylogenetic analysis revealed that PTE2(T) was closely related to Thalassotalea sediminis N211(T), but had some differences, indicating the novelty of this strain. Based on genome-based taxonomic approaches, PTE2(T) is proposed as a new species, Thalassotalea hakodatensis sp. nov.
Article
Microbiology
Ju Hye Baek, Dong Min Han, Jeong Min Kim, Baolei Jia, Ji Young Jung, Che Ok Jeon
Summary: Two Gram-stain-negative, facultative aerobic, catalase- and oxidase-positive, and non-motile rod bacteria, strains BLT and W38(T), were isolated from soil and freshwater, respectively. They belong to a novel genus Tahibacter and are named Tahibacter soli and Tahibacter amnicola.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Microbiology
Maripat Xamxidin, Xinpeng Huang, Xiangwei Yang, Tao Wang, Can Chen, Min Wu
Summary: A novel bacterium, strain YS8-69(T), was isolated from a lake in Xinjiang Uygur Autonomous Region, China. Comparative analysis of the 16S rRNA gene sequence revealed that it belongs to the genus Limnobacter with the highest similarities to Limnobacter alexandrii LZ-4(T), Limnobacter thiooxidans DSM 13612(T), Limnobacter humi NBRC 111650(T), and Limnobacter litoralis KP1-19(T). Based on physiological, chemotaxonomic, genotypic characteristics, and phylogenetic results, it is proposed as a new species, Limnobacter parvus sp. nov.
CURRENT MICROBIOLOGY
(2023)
Article
Microbiology
Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Minchung Kang, Taegun Seo
Summary: Strain KVB11(T) isolated from the root of Setaria viridis near Dongguk University is identified as a novel species of the genus Taibaiella, named Taibaiella lutea. Phylogenetic and phylogenomic analysis based on 16S rRNA gene sequences and genomic sequences showed that this strain forms a distinct branch within the genus Taibaiella.
CURRENT MICROBIOLOGY
(2021)
Article
Multidisciplinary Sciences
Lyudmila Romanenko, Nadezhda Otstavnykh, Valeriya Kurilenko, Peter Velansky, Viacheslav Eremeev, Valery Mikhailov, Marina P. Isaeva
Summary: This research report describes the isolation of two novel strains, Profundicola chukchiensis, from the bottom sediments of the Chukchi Sea in the Arctic Ocean, Russia. These strains exhibit unique physiological and genetic characteristics that distinguish them from other known strains, leading to their classification as a novel genus and species.
Article
Multidisciplinary Sciences
Lyudmila Romanenko, Nadezhda Otstavnykh, Valeriya Kurilenko, Peter P. Velansky, Viacheslav Eremeev, Valery Mikhailov, Marina Isaeva
Summary: Two Gram-negative, halophilic strains, KMM 9713 and KMM 9724(T), were isolated from Chukchi Sea sediments in the Arctic Ocean, Russia. These strains belong to a novel genus and species, Profundicola chukchiensis gen. nov., sp. nov., based on phylogenetic and phenotypic characteristics. The strains showed distinct 16S rRNA gene sequence similarity to Ornithobacterium rhinotracheale DSM 15997(T) and Empedobacter genus members.
Article
Microbiology
Dong Wang, Lei Dong, Neeli Habib, Feng Liu, Sohail Ahmad Jan, Jian-Yu Jiao, Min Xiao, Nimaichand Salam, Wen-Jun Li
Summary: A novel species of the genus Sphingosinicella, designated Sphingosinicella terrae sp. nov., was isolated from a desert soil sample. It showed close phylogenetic relationships to Sphingosinicella ginsenosidimutans BS1(T), Sphingomonas deserti GL-C-18(T), and Sphingosinicella humi QZX222(T).
CURRENT MICROBIOLOGY
(2022)
Article
Microbiology
Nusratgul Anwar, Yanghui Ye, Can Chen, Tursunay Mamtimin, Ruijun Wang, Erkin Rahman, Min Wu
Summary: During a study on the microorganism diversity of Populus euphratica at Ebinur lake wetland nature reserve in Xinjiang Uyghur Autonomous Region, PR China, a novel bacterium designated as Nesterenkonia ebinurensis sp. nov. was isolated from resin on the trees. The isolate exhibited unique growth conditions and distinctive chemical characteristics, suggesting it represents a new species within the Nesterenkonia genus.
CURRENT MICROBIOLOGY
(2021)
Article
Microbiology
Qing Xu, Yuxiao Zhang, Xing Wang, Gejiao Wang
Summary: A soil bacterium, designated XQ2(T), isolated from Lang Mountain in Hunan province, P. R. China, is proposed as a novel species of the genus Hyphomicrobium and named Hyphomicrobium album sp. nov. based on phenotypic, chemotaxonomic and phylogenetic characteristics. The type strain is XQ2(T) (= KCTC 82378(T) = CCTCC AB 2020178(T)), and the genus description is emended.
ARCHIVES OF MICROBIOLOGY
(2021)
Article
Microbiology
Woohyun Kim, Seonghan Jang, Namyi Chae, Mincheol Kim, Jung-Yong Yeh, Sanghee Kim, Yung Mi Lee
Summary: A new species of bacterium, named Hymenobacter canadensis, was isolated from freshwater in Cambridge Bay, Canada. This bacterium differs significantly from the closely related Hymenobacter yonginensis and is proposed as a novel species based on genetic and physiological characteristics.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Microbiology
Jia-Hong Wu, Ya-Xiu You, Chiu-Chung Young, Soon-Wo Kwon, Wen-Ming Chen
Summary: This study described two novel species within the genus Flavobacterium isolated from freshwater habitats in Taiwan, named Flavobacterium lotistagni and Flavobacterium celericrescens. Through phenotypic and genotypic analysis, it was concluded that these two strains should be classified as separate species within the same genus.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
Wen-Ming Chen, Ting-Hsuan Chang, Che-Chia Yang, Der-Shyan Sheu, Li-Cheng Jheng, Shih-Yi Sheu
Summary: Two bacterial strains isolated from freshwater habitats in Taiwan, named HSP-20(T) and CCP-1(T), were characterized as novel species within the genus Rhodobacter based on their phenotypic and genotypic properties and phylogenetic analysis. The names proposed for these novel species are Rhodobacter amnigenus sp. nov. and Rhodobacter ruber sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
Alexandra Pitt, Ulrike Koll, Johanna Schmidt, Martin W. Hahn
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2020)
Article
Evolutionary Biology
Matthias Hoetzinger, Alexandra Pitt, Andrea Huemer, Martin W. Hahn
Summary: Investigating gene flow and population structure in a widespread species of pelagic freshwater bacteria revealed high recombination efficacy and genomic differences that varied with spatial distance at different scales. Effective gene flow across a wide geographic range maintains species coherence in European P. paneuropaeus.
GENOME BIOLOGY AND EVOLUTION
(2021)
Review
Engineering, Environmental
M. Sagova-Mareckova, J. Boenigk, A. Bouchez, K. Cermakova, T. Chonova, T. Cordier, U. Eisendle, T. Elersek, S. Fazi, T. Fleituch, L. Fruhe, M. Gajdosova, N. Graupner, A. Haegerbaeumer, A. -M. Kelly, J. Kopecky, F. Leese, P. Noges, S. Orlic, K. Panksep, J. Pawlowski, A. Petrusek, J. J. Piggott, J. C. S. Rusch, R. Salis, J. Schenk, K. Simek, A. Stovicek, D. A. Strand, M. I. Vasquez, T. Vralstad, S. Zlatkovic, M. Zupancic, T. Stoeck
Summary: The importance and potential of utilizing microbes as bioindicators in water quality monitoring are discussed in this review. Molecular methods have revealed microbial diversity and new metabolic pathways, which can improve our understanding of environmental processes, serving as a solid foundation for novel monitoring programs. Microbial community dynamics are highlighted as a missing link essential for comprehending rapid changes in aquatic ecosystem structure and function, suggesting they should be addressed in future environmental monitoring of freshwater ecosystems.
Review
Microbiology
Kasia Piwosz, Indranil Mukherjee, Michaela M. Salcher, Vesna Grujcic, Karel Simek
Summary: Phagotrophic protists play a crucial role in aquatic food webs, and microscopy-based molecular techniques such as CARD-FISH provide reliable ecological information on specific lineages. Recent findings challenge the simplistic notion that flagellates are predominantly bacterivores, revealing them to be omnivores ingesting prokaryotes and other protists. This suggests a need for an updated model of microbial food webs in pelagic environments, incorporating at least two additional trophic levels in the nanoplankton size fraction.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Microbiology
Tanja Shabarova, Michaela M. Salcher, Petr Porcal, Petr Znachor, Jiri Nedoma, Hans-Peter Grossart, Jaromir Seda, Josef Hejzlar, Karel Simek
Summary: The study shows that flooding events result in washed-out organisms and increased nutrient load, but microbial communities can recover to predisturbance state within two weeks. However, reassembly of phytoplankton and zooplankton takes longer. Dissolved nutrient release is associated with inflow rates and community recovery.
NATURE MICROBIOLOGY
(2021)
Article
Microbiology
Alexandra Pitt, Johanna Schmidt, Ulrike Koll, Martin W. Hahn
Summary: Strain 15G-AUS-rot(T) is a novel actinobacterial strain isolated from Austria, with distinct genetic and morphological characteristics.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
Martin W. Hahn, Alexandra Pitt, Ulrike Koll, Johanna Schmidt, Julia A. Maresca, Meina Neumann-Schaal
Summary: The aerobic chemoorganotrophic actinobacterial strain MWH-Mo1T isolated from a freshwater lake has small cell sizes and genome size, with similarities to A. minutum but differences in nucleotide identity. The strain has adaptations to the diurnal light cycle and unique protection against predation, showcasing its distinctive characteristics.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Martin W. Hahn, Andrea Huemer, Alexandra Pitt, Matthias Hoetzinger
Summary: The study utilized a protein-encoding gene to reveal hidden ecological patterns within a single operational taxonomic unit, leading to the detection of 600 species-like taxa in 99 freshwater habitats. It showed how environmental conditions shape bacterial communities and identified a surprising compositional separation of Polynucleobacter communities in habitats with different levels of calcium ions. This new approach opens up a window to explore the incredible diversity of free-living bacteria and investigate the impact of environmental conditions on bacterial evolution.
MOLECULAR ECOLOGY RESOURCES
(2021)
Article
Microbiology
Karel Simek, Indranil Mukherjee, Jiri Nedoma, Caio Cesar Pires Paula, Jitka Jezberova, Dagmara Sirova, Jaroslav Vrba
Summary: The study found that aplastidic cryptophytes and ciliates are major protistan bacterivores in hypertrophic freshwater lakes, with HNF contributing more to total protist-induced bacterial mortality rates. During summer phytoplankton blooms, Kinetoplastea also play an important role in consuming bacteria.
ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Ecology
Galina Prokopchuk, Tomas Korytar, Valeria Juricova, Jovana Majstorovic, Ales Horak, Karel Simek, Julius Lukes
Summary: Diplonemids are a common group of heterotrophic planktonic microeukaryotes in the world ocean, and they play an important role in marine ecosystems. Research has shown that they can switch dietary patterns and distinguish between food quality and edibility. They possess an opportunistic lifestyle that gives them an advantage in food-limited marine environments.
Article
Microbiology
Alexandra Pitt, Ulrike Koll, Johanna Schmidt, Meina Neumann-Schaal, Jacqueline Wolf, Sophia Krausz, Martin W. Hahn
Summary: Two bacterial strains isolated from freshwater habitats near Salzburg, Austria were identified as new species of the genus Aquirufa through genome-based phylogenetic reconstructions. They exhibited distinct phenotypic and genomic features compared to other members of the genus.
ARCHIVES OF MICROBIOLOGY
(2022)
Article
Microbiology
Martin W. Hahn, Alexandra Pitt, Johanna Schmidt, Antonio Camacho
Summary: This study characterized 14 strains of freshwater bacteria through genomic, phylogenetic, and phenotypic analyses. The results indicate that these strains represent 14 new species.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Microbiology
Martin W. Hahn, Alexandra Pitt, Johanna Schmidt, Ulrike Koll, Jacqueline Wolf, William B. Whitman, Paul L. E. Bodelier, Meina Neumann-Schaal
Summary: This study presents two strains affiliated with the GKS98 cluster. Phylogenetic analysis suggests that these strains are closely related to the family Alcaligenaceae and previously described species Orrella amnicola and Orrella marina. Based on the phylogenomic trees and other characteristics, the authors propose the establishment of new genera Zwartia gen. nov. and Jezberella gen. nov., and the reclassification of Orrella amnicola into the new genus Sheuella gen. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Ecology
Karel Simek, Indranil Mukherjee, Tiberiu Szoke-Nagy, Markus Haber, Michaela M. Salcher, Rohit Ghai
Summary: Morphologically indistinguishable aplastidic cryptophytes were found to be ubiquitous and prominent protistan bacterivores in freshwater ecosystems, playing important roles in carbon flow. These heterotrophic cryptophytes were generally smaller and more abundant than their chloroplast-bearing counterparts, and their diversity has been largely undiscovered.
Article
Microbiology
Vinicius S. S. Kavagutti, Paul-Adrian Bulzu, Cecilia M. M. Chiriac, Michaela M. M. Salcher, Indranil Mukherjee, Tanja Shabarova, Vesna Grujcic, Maliheh Mehrshad, Vojtech Kasalicky, Adrian-Stefan Andrei, Jitka Jezberova, Jaromir Seda, Pavel Rychtecky, Petr Znachor, Karel Simek, Rohit Ghai
Summary: This study performed high-resolution sampling of the spring bloom in a freshwater reservoir and identified previously unknown microbial taxa using metagenome-assembled genomes. The recovered genomes provide insights into the distributional dynamics and doubling times of microbial lineages during the bloom. Additionally, the study uncovered the presence of aplastidic cryptophytes and giant viruses, offering new understanding of plankton dynamics.