Article
Microbiology
Philippe Normand, Imen Nouioui, Meina Neumann-Schaal, Aude Herrera-Belaroussi, Danis Abrouk, Spandana Vemulapally, Trina Guerra, Dittmar Hahn
Summary: A new Frankia strain, named Frankia umida sp. nov., was isolated, which has the ability to produce hyphae and N-2-fixing vesicles on the root nodules of Alnus glutinosa.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Microbiology
Fede Berckx, Cyndi Mae Bandong, Daniel Wibberg, Jorn Kalinowski, Joost Willemse, Andreas Brachmann, Jessica Simbahan, Katharina Pawlowski
Summary: A novel species of Streptomyces, named Streptomyces coriariae sp. nov., was isolated from the root nodules of a Coriaria intermedia plant along Halsema Highway in Luzon, Philippines. The strain CMB-FB showed high sequence similarity to several known Streptomyces species based on 16S rRNA gene sequence analysis. The isolate also displayed characteristic features such as major menaquinones, polar lipid profile, diagnostic diamino acid of the peptidoglycan, and major fatty acids.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Microbiology
Junjie Zhang, Shanshan Peng, Mitchell Andrews, Chunzeng Liu, Yimin Shang, Shuo Li, Entao Wang, Xiaoxia Zhang
Summary: Three fast-growing rhizobial strains isolated from effective nodules of common vetch were characterized using a polyphasic approach. Phylogenetic analysis revealed a novel rhizobial species, Rhizobium changzhiense sp. nov., represented by strain WYCCWR 11279(T).
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
Zeng-hong Gao, Qiu-mei Zhang, Ying-ying Lv, You-qi Wang, Bing-nan Zhao, Li-hong Qiu
Summary: Three novel bacterial strains were isolated from forest soil in Dinghushan Biosphere Reserve, Guangdong Province, China. Based on phenotypic, phylogenetic, genomic analyses and chemotaxonomic data, the strains represent two new species of the genus Paraburkholderia and one novel species in the genus Burkholderia.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
Peter Kaempfer, Stefanie P. Glaeser, Andre Lipski, John A. McInroy, Dominique Clermont, Alexis Criscuolo
Summary: In this study, a Gram-positive aerobic, endospore-forming bacterium isolated from the rhizosphere of maize was taxonomically characterized as a novel species of the genus Sutcliffiella, named Sutcliffiella rhizosphaerae sp. nov., based on phylogenetic analysis and DNA-DNA hybridization. The strain showed high similarity with Sutcliffiella zhanjiangensis (98.7%) and distinct differences from other closely related species of the genus Sutcliffiella.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Microbiology
Peter Kaempfer, Stefanie P. Glaeser, Hans-Juergen Busse, John A. McInroy, Dominique Clermont, Alexis Criscuolo
Summary: A novel bacterium belonging to the genus Pseudoneobacillus was isolated from the rhizosphere of maize roots, showing similarities to Neobacillus species but with distinct differences. Therefore, we propose the name Pseudoneobacillus rhizosphaerae gen. nov., sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Microbiology
Lei Sun, Panpan Wang, Dongfang Zhao, Jiashuo Wang, Qiji Wu, Lin Liu, Zhitang Lyu
Summary: Strain R196(T) is a novel species of the genus Paenibacillus, named Paenibacillus cymbidii sp. nov., with distinctive cellular polar lipids and respiratory quinone composition. The genome of R196T contains 7617 predicted protein-coding genes, with a DNA G+C content of 57.7 mol%.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Carina M. Hall, Anthony L. Baker, Jason W. Sahl, Mark Mayo, Holger C. Scholz, Mirjam Kaestli, James Schupp, Madison Martz, Erik W. Settles, Joseph D. Busch, Lindsay Sidak-Loftis, Astrid Thomas, Lisa Kreutzer, Enrico Georgi, Herbert P. Schweizer, Jeffrey M. Warner, Paul Keim, Bart J. Currie, David M. Wagner
Summary: Distinct Burkholderia strains were isolated from soil samples collected in northern Australia, and were identified as two novel species within the Burkholderia pseudomallei complex. These species, named Burkholderia mayonis sp. nov. and Burkholderia savannae sp. nov., display unique genomic characteristics and biochemical profiles. The discovery of these new species expands our understanding of this significant bacterial complex.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Microbiology
Diego M. Roldan, Andres Costa, Stanislava Kralova, Hans-Juergen Busse, Vanesa Amarelle, Elena Fabiano, Rodolfo Javier Menes
Summary: Based on the study of strain UY79(T), it is considered to be a novel species of the genus Paenibacillus and is named Paenibacillus farraposensis sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Michal Warabieda, Nemanja Kuzmanovic, Pawel Trzcinski, Joanna Pulawska
Summary: Three plant rhizogenic strains O132T, O115 and O34 isolated from Cucumis sp. L. are classified as a novel species, Agrobacterium cucumeris, based on their genetic sequences, DNA-DNA hybridization, and physiological characteristics compared with their closest relatives in the genus Agrobacterium. These strains belong to the separate sub-clade biovar 1 within the genus Agrobacterium.
SYSTEMATIC AND APPLIED MICROBIOLOGY
(2023)
Article
Microbiology
Antonio Castellano-Hinojosa, David Correa-Galeote, Martha-Helena Ramirez-Bahena, German Tortosa, Jesus Gonzalez-Lopez, Eulogio J. Bedmar, Alvaro Peix
Summary: Two endophytic strains, MOVP5T and MOPV6, isolated from nodules of Phaseolus vulgaris plants in Southeastern Spain, represent a potential new species of Agrobacterium based on genetic and phenotypic analysis. The strains show distinct differences from all known genomovars of Agrobacterium, supporting their classification as a novel species Agrobacterium leguminum sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Ivana Rajnovic, Martha-Helena Ramirez-Bahena, Sanja Kajic, Jose M. Igual, Alvaro Peix, Encarna Velazquez, Sanja Sikora
Summary: This study identified a symbiotic relationship between nodulated legume and strains of genus Rhizobium in Croatia. The analysis revealed that these strains are closely related to species from the Rhizobium leguminosarum phylogenetic complex. Based on genetic and phenotypic analyses, two novel species within the genus Rhizobium were proposed and named Rhizobium croatiense and Rhizobium redzepovicii.
SYSTEMATIC AND APPLIED MICROBIOLOGY
(2022)
Article
Microbiology
You Ju Ham, Ji Won Jeong, Dong Hyeon Lee, Seung Bum Kim
Summary: Two novel species of Paenibacillus were isolated from plant roots, showing potential plant-growth-promoting characteristics. They were named Paenibacillus artemisiicola sp. nov. and Paenibacillus lignilyticus sp. nov.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2022)
Article
Environmental Sciences
Ya-Ping Sun, Bei-Bei Wang, Zhang-Ping Wu, Xi-Wen Zheng, Jing Hou, Heng-Lin Cui
Summary: Five novel halophilic archaeal strains were isolated from coastal saline sediments and sea salt in China. They demonstrated typical morphology and growth characteristics and showed high similarities with existing species. However, based on genetic and phylogenetic analyses, it is confirmed that these strains represent five new species. This is the first report of a novel haloarchaeon isolated from a marine intertidal zone.
FRONTIERS IN MARINE SCIENCE
(2023)
Article
Genetics & Heredity
Hairui Wang, Yixin Gu, Guilan Zhou, Xiaoli Chen, Xin Zhang, Zhujun Shao, Maojun Zhang
Summary: In 2019, two different bacterial isolates were obtained from the fecal samples of separate dogs in Beijing, China. These isolates exhibit unique morphological and genetic characteristics, suggesting that they represent a novel species within the genus Helicobacter.
FRONTIERS IN GENETICS
(2023)
Article
Biodiversity Conservation
Timothy Weekers, Leon Marshall, Nicolas Leclercq, Thomas J. Wood, Diego Cejas, Bianca Drepper, Michael Garratt, Louise Hutchinson, Stuart Roberts, Jordi Bosch, Laura Roquer-Beni, Patrick Lhomme, Denis Michez, Jean-Marc Molenberg, Guy Smagghe, Peter Vandamme, Nicolas J. Vereecken
Summary: This study investigates the impact of variables such as climate, landscape composition, management practices, and wild bee pollination on commercial apple production. The results show that apple yields are mainly influenced by management practices, not the contribution of managed honey bees. Wild bee diversity is negatively correlated with honey bee dominance but promotes apple quality. Thus, harnessing wild bee diversity can be a nature-based solution and a substitute for an exclusive reliance on honey bees in apple production.
ECOLOGICAL INDICATORS
(2022)
Article
Biotechnology & Applied Microbiology
Sarah Vanwijnsberghe, Charlotte Peeters, Margo Cnockaert, Evelien De Canck, Peter Vandamme
Summary: Through gene sequence analysis and biological characteristic analysis, two new Paraburkholderia species closely related to P. sartisoli were discovered and proposed for naming.
SYSTEMATIC AND APPLIED MICROBIOLOGY
(2022)
Article
Microbiology
David Laureys, Frederic Leroy, Peter Vandamme, Luc De Vuyst
Summary: This study found that the backslopping time and rinsing of grains during water kefir fermentation have significant effects on the relative abundance of microbial communities and metabolites. Additionally, the temperature and rinsing of grains also affect the volumetric production rates of metabolites.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Bram Danneels, Monique Blignaut, Guillaume Marti, Simon Sieber, Peter Vandamme, Marion Meyer, Aurelien Carlier
Summary: The symbiotic relationships between plants of the Rubiaceae and Primulaceae families and Burkholderia bacteria are unique and intimate. This study assembled and analyzed 17 new endophyte genomes, revealing that all endophytes, despite their taxonomic diversity, contained gene clusters linked to the production of specialized metabolites. Acquisition of secondary metabolite gene clusters through horizontal gene transfer is proposed to be a prerequisite for the evolution of a stable association between these endophytes and their hosts.
ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Amanda Hettiarachchi, Margo Cnockaert, Marie Joossens, David Laureys, Jessika De Clippeleer, Nicolas J. Vereecken, Denis Michez, Guy Smagghe, Dirk C. de Graaf, Peter Vandamme
Summary: This study analyzed the cultivable bacterial communities of different compartments in the invasive insect Vespa velutina, as well as the nest samples, using both cultivation and 16S rRNA amplicon sequencing. The bacterial symbionts in Vespa velutina were dominated by Convivina, Fructobacillus, Lactiplantibacillus, Lactococcus, Sphingomonas, and Spiroplasma. Lactococcus lactis and Lactiplantibacillus plantarum were generalist core lactic acid bacteria (LAB) symbionts, while Convivina species and Fructobacillus fructosus were highly specialized core LAB symbionts with reduced genome sizes. Sphingomonas and Spiroplasma were non-LAB core symbionts, but they were not isolated. Convivina bacteria were particularly enriched in the hornet crop and included Convivina intestini, a species adapted to amino acid metabolism, and Convivina praedatoris sp. nov., which was adapted to carbohydrate metabolism.
INSECT MOLECULAR BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Tina Tuerlings, Amanda Hettiarachchi, Marie Joossens, Benoit Geslin, Nicolas J. J. Vereecken, Denis Michez, Guy Smagghe, Peter Vandamme
Summary: The study characterized the gut microbiota of invasive bee Megachile sculpturalis from native and invaded regions. The microbiota communities in bees from invaded regions were similar and different from those in Japan. Core amplicon sequence variants (ASVs) represented micro-organisms commonly present in bee-associated niches. The absence of known bee pathogens and presence of microparasite infections suggest a potential role of pathogen pressure and natural enemies in the invasion success of M. sculpturalis.
INSECT MOLECULAR BIOLOGY
(2023)
Article
Food Science & Technology
Louise Vermote, Jonas De Roos, Margo Cnockaert, Peter Vandamme, Stefan Weckx, Luc De Vuyst
Summary: Belgian lambic beers are produced using traditional craftsmanship, relying on wooden barrels for spontaneous fermentation and maturation. These barrels play a crucial role in establishing a stable microbial ecosystem, minimizing batch-to-batch variations, and preventing flavor deviations. They provide an inoculation source of necessary microorganisms and a microaerobic environment for successful lambic beer production.
INTERNATIONAL JOURNAL OF FOOD MICROBIOLOGY
(2023)
Article
Microbiology
Juan Guzman, Miyoung Won, Anja Poehlein, Atena Sadat Sombolestani, Daniela Mayorga-Ch, David Laureys, Jessika De Clippeleer, Peter Kaempfer, Rolf Daniel, Andreas Vilcinskas, Peter Vandamme, Soon- Wo Kwon
Summary: In this study, two strains of bacteria were isolated from wasps in Germany and Korea. Molecular and phenotypic analysis showed that these strains are closely related to known species but also have distinct characteristics. Therefore, it is proposed to name these strains Aristophania vespae.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Peter Vandamme, Charlotte Peeters, Amanda Hettiarachchi, Margo Cnockaert, Aurelien Carlier
Summary: Strain LMG 31809 T was isolated from a top soil sample in Belgium and classified as a rare biosphere bacterium that occurs at low abundances in multiple soil and water ecosystems. It represents a new species within a new genus, Govania unica gen. nov., sp. nov, belonging to the class Alphaproteobacteria. The strain is strictly aerobic and uses organic acids and possibly aromatic compounds as growth substrates. Its whole-genome sequence has a size of 3.21 Mbp with a G + C content of 58.99 mol%.
SYSTEMATIC AND APPLIED MICROBIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Nanzhen Qiao, Julia Bechtner, Margo Cnockaert, Eliza Depoorter, Christian Diaz-Munoz, Peter Vandamme, Luc De Vuyst, Michael G. Ganzle
Summary: This study characterized the genus Periweissella through phylogenetic analysis and genomic analysis, revealing its evolutionary relationship with closely related genera Weissella and Furfurilactobacillus. The study also determined the genetic and physiological traits of the genus. Results showed that Periweissella is the link between rod-shaped heterofermentative lactobacilli and the coccoid Leuconostoc clade, and it is the only heterofermentative genus in the Lactobacillaceae that comprises predominantly motile strains.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Ecology
Amanda Hettiarachchi, Margo Cnockaert, Marie Joossens, Antoine Gekiere, Ivan Meeus, Nicolas J. Vereecken, Denis Michez, Guy Smagghe, Peter Vandamme
Summary: We characterized the microbial communities in different parts of four wild solitary bee species and found that the dominant bacteria were endosymbionts such as Wolbachia and Spiroplasma. Other bacterial and yeast genera were associated with environmental sources. The bacterial communities varied between bee species, gut compartments, and ovaries, suggesting a selective process influenced by floral and host traits. Many of the gut symbionts identified in this study exhibited metabolic versatility.
Article
Biotechnology & Applied Microbiology
Atena Sadat Sombolestani, Dries Bongaerts, Eliza Depoorter, Ilse Cleenwerck, Anneleen D. Wieme, Scott J. Britton, Stefan Weckx, Luc De Vuyst, Peter Vandamme
Summary: Polyphasic taxonomic and comparative genomic analyses revealed a novel species among acetic acid bacteria, named Brytella acorum gen. nov., sp. nov., represented by lambic beer isolates including strain LMG 32668T and the kombucha isolate LMG 32879. This species has Acidomonas methanolica as its closest phylogenomic neighbor and possesses metabolic characteristics typical of acetic acid bacteria. The absence of glycolysis pathway and the presence of both aerobic respiration and oxidative fermentation for energy metabolism are notable features. Antibiotic resistance genes and virulence factors are absent.
SYSTEMATIC AND APPLIED MICROBIOLOGY
(2023)
Article
Biology
Luc Cornet, Benoit Durieu, Frederik Baert, Elizabet D'hooge, David Colignon, Loic Meunier, Valerian Lupo, Ilse Cleenwerck, Heide-Marie Daniel, Leen Rigouts, Damien Sirjacobs, Stephane Declerck, Peter Vandamme, Annick Wilmotte, Denis Baurain, Pierre Becker
Summary: A bioinformatics toolbox called GEN-ERA has been developed by the Belgian Coordinated Collections of Microorganisms. It allows researchers to perform robust phylogenomic analyses on bacteria and small eukaryotes without specific training in bioinformatics. The toolbox provides workflows for genome downloading, quality assessment, contamination estimation, tree reconstruction, average nucleotide identity comparisons, and metabolic modeling. It has been tested on various microorganisms and used in a case study on Gloeobacterales for microbial taxonomy.
Article
Microbiology
Juliana Botero, Atena Sadat Sombolestani, Margo Cnockaert, Charlotte Peeters, Wim Borremans, Luc De Vuyst, Nicolas J. Vereecken, Denis Michez, Guy Smagghe, German Bonilla-Rosso, Philipp Engel, Peter Vandamme
Summary: This study provides insights into the diversity and function of Commensalibacter bacteria in various insect species. Through analysis of their whole-genome sequences, it was found that Commensalibacter strains can be classified into four species, which share similar genetic pathways for central metabolism. However, there are differences in genome size, G+C content, amino acid metabolism, and carbohydrate-utilizing enzymes among these species. Notably, the study on the Western honey bee symbiont, C. melissae, revealed its unique characteristics such as reduced genome size and a large number of species-specific gene clusters.
Article
Environmental Sciences
Leon Marshall, Nicolas Leclercq, Timothy Weekers, Insafe El Abdouni, Luisa G. Carvalheiro, Michael Kuhlmann, Denis Michez, Pierre Rasmont, Stuart P. M. Roberts, Guy Smagghe, Peter Vandamme, Thomas Wood, Nicolas J. Vereecken
Summary: Visitation by wild bee species is essential for apple production, but they are vulnerable to climate change. We modeled the distribution range shifts of key apple-pollinating bee species under different climate change scenarios and found that overall contractions in range are limited. However, under the worst-case scenario, some countries such as France and Italy may experience significant loss in bee populations and potential pollination services. Climate change is not the only threat to apple pollination, and future deficits will also depend on orchard management and ecological infrastructure.
GLOBAL ENVIRONMENTAL CHANGE-HUMAN AND POLICY DIMENSIONS
(2023)