Systematic and applied microbiology最新文献

{"title":"Description of three new Pseudomonas species isolated from aquarium fish: Pseudomonas auratipiscis sp. nov., Pseudomonas carassii sp. nov. and Pseudomonas ulcerans sp. nov","authors":"Muhammed Duman ,&nbsp;Jorge Lalucat ,&nbsp;Izzet Burcin Saticioglu ,&nbsp;Magdalena Mulet ,&nbsp;Margarita Gomila ,&nbsp;Soner Altun ,&nbsp;Nihed Ajmi ,&nbsp;Elena García-Valdés","doi":"10.1016/j.syapm.2024.126552","DOIUrl":"10.1016/j.syapm.2024.126552","url":null,"abstract":"<div><div><em>Pseudomonas</em> species constitute a significant group of pathogens in aquarium fish and frequently cause haemorrhagic septicaemia. This study conducted a taxonomic characterization of <em>Pseudomonas</em> isolates from aquarium fish exhibiting deep ulceration and general disease signs. A polyphasic approach was employed to ascertain the taxonomic affiliation of the strains. The overall genome relatedness indices of digital DNA–DNA hybridization (dDDH) and average nucleotide identity (ANI) between the strains and the other members of the genus <em>Pseudomonas</em> were found to be below the established thresholds of 70 and 95–96%, respectively. Whole-genome based phylogenetic analysis revealed that strains 119P^T and 120P were closely related to <em>P. arcuscaelestis.</em> Strain 137P^T was related to <em>P. peradeniyensis,</em> while strains 147P^T and 148P were closely related to <em>P. japonica</em>. The morphological, physiological, and biochemical characteristics of the strains and the genome relatedness indices of dDDH and ANI below the established thresholds confirmed the classification of the strains as three novel species. Genome analyses of the strains were also conducted to determine their biosynthesis-related gene clusters, virulence features and ecological distribution patterns. Based on polyphasic characterization, the strains 119P^T, 120P, 137P^T, 147P^T, and 148P are novel species within the genus <em>Pseudomonas</em>, for which the following names are proposed: <em>Pseudomonas auratipiscis</em> sp. nov., with the strain 119P^T as the type strain (=DSM 117162 ^T, =LMG 33381^T); <em>Pseudomonas carassii</em> sp. nov., with the strain 137P^T as the type strain (=DSM 117060^T, =LMG 33378^T); and <em>Pseudomonas ulcerans</em> sp. nov. 147P^T, as the type strain (=DSM 117163^T, =LMG 33377^T).</div></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 6","pages":"Article 126552"},"PeriodicalIF":3.3,"publicationDate":"2024-09-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142327103","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Halorubrum miltondacostae sp. nov., a potential polyhydroxyalkanoate producer isolated from an inland solar saltern in Rio Maior, Portugal","authors":"Luciana Albuquerque ,&nbsp;Tomeu Viver ,&nbsp;Cristina Barroso ,&nbsp;Ricardo Claudino ,&nbsp;Mariana Galvan ,&nbsp;Gabriela Simões ,&nbsp;Alexandre Lobo-da-Cunha ,&nbsp;Conceição Egas","doi":"10.1016/j.syapm.2024.126553","DOIUrl":"10.1016/j.syapm.2024.126553","url":null,"abstract":"<div><p>One hundred and sixty-three extreme halophiles were recovered from a single sample collected from an inland solar saltern in Rio Maior. Based on random amplified polymorphic DNA (RAPD) profiles and partial 16S rRNA gene sequencing 125 isolates were identified as members of the <em>Archaea</em> domain within the genus <em>Halorubrum</em>. Two strains, RMP-11^T and RMP-47, showed 99.1 % sequence similarity with the species <em>Halorubrum californiense</em> based on phylogenetic analysis of the 16S rRNA gene sequence. However, phylogenetic analysis based on five housekeeping genes, <em>atpB</em>, <em>EF-2</em>, <em>glnA</em>, <em>ppsA</em> and <em>rpoB</em>’, showed <em>Halorubrum coriense</em> as the closest related species with 96.7 % similarity. The average nucleotide identity (ANI) of strains RMP-11^T, RMP-47 and species <em>Hrr. coriense</em> were within the range of 90.0–90.5 %, supporting that strains RMP-11^T and RMP-47 represent a novel species of the genus <em>Halorubrum</em>. These strains formed red-pigmented colonies that were able to grow in a temperature range of 25–50 °C. Polyhydroxyalkanoate (PHA) granules were detected in both strains. The polar lipid profile was identical to the neutrophilic species of the genus <em>Halorubrum</em>. The Rio Maior sample from which both strains were isolated was metagenome sequenced. We identified five metagenome-assembled genomes representing novel <em>Halorubrum</em> species but distinct from the species represented by strains RMP-11^T and RMP-47. Based on phylogenetic, phylogenomic, comparative genomics, physiological and chemotaxonomic parameters, we describe a new species of the genus <em>Halorubrum</em> represented by strains RMP-11^T (=CECT 30760^T = DSM 115521^T) and RMP-47 (=CECT 30761 = DSM 115541) for which we propose the name <em>Halorubrum miltondacostae</em> sp. nov.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 6","pages":"Article 126553"},"PeriodicalIF":3.3,"publicationDate":"2024-09-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0723202024000675/pdfft?md5=23869e81b22a25eff38705095178ebb6&pid=1-s2.0-S0723202024000675-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142274040","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Evidence for the occurrence of Acinetobacter faecalis in cattle feces and its emended description","authors":"Martina Kyselková ,&nbsp;Kyriaki Xanthopoulou ,&nbsp;Violetta Shestivska ,&nbsp;Petra Španělová ,&nbsp;Martina Maixnerová ,&nbsp;Paul G. Higgins ,&nbsp;Alexandr Nemec","doi":"10.1016/j.syapm.2024.126545","DOIUrl":"10.1016/j.syapm.2024.126545","url":null,"abstract":"<div><p>This study provides an emended description of <em>Acinetobacter faecalis</em>, a species previously described based on a single isolate (YIM 103518^T) from elephant feces in China. Our emended description is based on 15 novel isolates conspecific with the <em>A. faecalis</em> type strain, obtained from eight cattle farms in the Czech Republic. The <em>A. faecalis</em> strains have relatively small genomes (≈2.5−2.7 Mbp), with a GC content of 36.3−36.7 mol%. Core genome-based phylogenetic analysis showed that the 15 strains, together with the type strain of <em>A. faecalis</em>, form a distinct and internally coherent phylogroup within the genus. Pairwise genomic ANIb values for the 16 <em>A. faecalis</em> strains were 97.32−99.04 %, while ANIb values between the genomes of the 16 strains and those of the other <em>Acinetobacter</em> spp. were ≤ 86.2 %. Analysis of whole-cell MALDI-TOF mass spectra supported the distinctness and cohesiveness of the taxon. The <em>A. faecalis</em> strains could be differentiated from the other validly named <em>Acinetobacter</em> spp. by the absence of hemolytic activity along with their ability to grow at 37 °C and on L-aspartate, ethanol, and L-glutamate but not at 41 °C or on adipate or 2,3-butanediol. Reduced susceptibility to sulfamethoxazole, trimethoprim and/or streptomycin was shown in eight strains, along with the presence of corresponding antibiotic resistance genes. In conclusion, this study provides a comprehensive description of <em>A. faecalis</em> and demonstrates its occurrence in cattle feces. Though the ecological role of <em>A. faecalis</em> remains unknown, our results show its ability to acquire antibiotic resistance genes, likely as an adaptation to antibiotic selection pressure in livestock farms.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126545"},"PeriodicalIF":3.3,"publicationDate":"2024-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142146384","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Corrigendum to “Natronospira bacteriovora sp. nov., and Natronospira elongata sp. nov., extremely salt-tolerant predatory proteolytic bacteria from soda lakes and proposal to classify the genus Natronospira into Natronospiraceae fam. nov., and Natronospirales ord. nov., within the class Gammaproteobacteria” [Syst. Appl. Microbiol. 47 (2024) 126519]","authors":"","doi":"10.1016/j.syapm.2024.126526","DOIUrl":"10.1016/j.syapm.2024.126526","url":null,"abstract":"","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126526"},"PeriodicalIF":3.3,"publicationDate":"2024-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0723202024000407/pdfft?md5=1c6931fd65fca626e93a2216be3cbd1c&pid=1-s2.0-S0723202024000407-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141499081","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Depth-specific distribution of bacterial MAGs in permafrost active layer in Ny Ålesund, Svalbard (79°N)","authors":"Katie Sipes ,&nbsp;Joy Buongiorno ,&nbsp;Andrew D. Steen ,&nbsp;Andrey A. Abramov ,&nbsp;Chukwufumnanya Abuah ,&nbsp;Samantha L. Peters ,&nbsp;Richard J. Gianonne ,&nbsp;Robert L. Hettich ,&nbsp;Julia Boike ,&nbsp;Sarahi L. Garcia ,&nbsp;Tatiana A. Vishnivetskaya ,&nbsp;Karen G. Lloyd","doi":"10.1016/j.syapm.2024.126544","DOIUrl":"10.1016/j.syapm.2024.126544","url":null,"abstract":"<div><p>Arctic soil microbial communities may shift with increasing temperatures and water availability from climate change. We examined temperature and volumetric liquid water content (VWC) in the upper 80 cm of permafrost-affected soil over 2 years (2018–2019) at the Bayelva monitoring station, Ny Ålesund, Svalbard. We show VWC increases with depth, whereas <em>in situ</em> temperature is more stable vertically, ranging from −5°C to 5 °C seasonally. Prokaryotic metagenome-assembled genomes (MAGs) were obtained at 2–4 cm vertical resolution collected while frozen in April 2018 and at 10 cm vertical resolution collected while thawed in September 2019. The most abundant MAGs were <em>Acidobacteriota</em>, <em>Actinomycetota</em>, and <em>Chloroflexota</em>. <em>Actinomycetota</em> and <em>Chloroflexota</em> increase with depth, while <em>Acidobacteriota</em> classes <em>Thermoanaerobaculia</em> Gp7-AA8, <em>Blastocatellia</em> UBA7656, and <em>Vicinamibacteria Vicinamibacterales</em> are found above 6 cm, below 6 cm, and below 20 cm, respectively. All MAGs have diverse carbon-degrading genes, and <em>Actinomycetota</em> and <em>Chloroflexota</em> have autotrophic genes. Genes encoding β -glucosidase, N-acetyl-β-D-glucosaminidase, and xylosidase increase with depth, indicating a greater potential for organic matter degradation with higher VWC. <em>Acidobacteriota</em> dominate the top 6 cm with their classes segregating by depth, whereas <em>Actinomycetota</em> and <em>Chloroflexota</em> dominate below ∼6 cm. This suggests that <em>Acidobacteriota</em> classes adapt to lower VWC at the surface, while <em>Actinomycetota</em> and <em>Chloroflexota</em> persist below 6 cm with higher VWC. This indicates that VWC may be as important as temperature in microbial climate change responses in Arctic mineral soils. Here we describe MAG-based Seqcode type species in the <em>Acidobacteriota</em>, <em>Onstottus arcticum, Onstottus frigus</em>, and <em>Gilichinskyi gelida</em> and in the <em>Actinobacteriota</em>, <em>Mayfieldus profundus</em>.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 6","pages":"Article 126544"},"PeriodicalIF":3.3,"publicationDate":"2024-08-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142274061","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Harmonious naming across nomenclature codes exemplified by the description of bacterial isolates from the mammalian gut","authors":"Thomas C.A. Hitch ,&nbsp;David Wylensek ,&nbsp;Kevin Bisdorf ,&nbsp;Eva M. Buhl ,&nbsp;Nicole Treichel ,&nbsp;Birte Abt ,&nbsp;Jörg Overmann ,&nbsp;Thomas Clavel","doi":"10.1016/j.syapm.2024.126543","DOIUrl":"10.1016/j.syapm.2024.126543","url":null,"abstract":"<div><p>A dual system for naming prokaryotes is currently in place based on the well-established International Code of Nomenclature of Prokaryotes (ICNP) and the newly created Code of Nomenclature of Prokaryotes Described from Sequence Data (SeqCode). Whilst recent creation of the SeqCode opened an avenue to accelerate the naming of uncultured taxa, the existence of two codes increases the risk of species being assigned multiple validly published names. In this work we present a workflow that aims to limit conflicts by firstly naming novel cultured taxa under the SeqCode, and secondly under the ICNP, enhancing the traceability of the taxa across the two codes. To exemplify this workflow, we describe four novel taxa isolated from the intestine of pigs: <em>Intestinicryptomonas porci</em> gen. nov., sp. nov. (strain CLA-KB-P66^T, genome accession GCA_033971905.1^TS) within a novel family, <em>Intestinicryptomonaceae</em>; <em>Grylomicrobium aquisgranensis</em> gen. nov., sp. nov. (CLA-KB-P133^T, GCA_033971865.1^TS); <em>Absicoccus intestinalis</em> sp. nov. (CLA-KB-P134^T, GCA_033971885.1^TS); and <em>Mesosutterella porci</em> sp. nov. (oilRF-744- wt-GAM-9^T, GCF_022134585.1^TS).</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126543"},"PeriodicalIF":3.3,"publicationDate":"2024-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142009495","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Atacama desert is a source of new Micromonospora strains: description of Micromonospora sicca sp. nov","authors":"Lorena Carro ,&nbsp;Patrycja Golińska ,&nbsp;Zaki Saati-Santamaría ,&nbsp;José M. Igual ,&nbsp;Hans-Peter Klenk ,&nbsp;Michael Goodfellow","doi":"10.1016/j.syapm.2024.126542","DOIUrl":"10.1016/j.syapm.2024.126542","url":null,"abstract":"<div><p>Several strains were isolated from subsurface soil of the Atacama Desert and were previously assigned to the <em>Micromonospora</em> genus. A polyphasic study was designed to determine the taxonomic affiliation of isolates 4G51^T, 4G53, and 4G57. All the strains showed chemotaxonomic properties in line with their classification in the genus <em>Micromonospora</em>, including <em>meso</em>-diaminopimelic acid in the cell wall peptidoglycan, MK-9(H₄) as major respiratory quinone, <em>iso</em>-C_15:0 and <em>iso</em>-C_16:0 as major fatty acids and diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol as major polar lipids. The 16S rRNA gene sequences of strains 4G51^T, 4G53, and 4G57 showed the highest similarity (97.9 %) with the type strain of <em>Micromonospora costi</em> CS1-12^T, forming an independent branch in the phylogenetic gene tree. Their independent position was confirmed with genome phylogenies, being most closely related to the type strain of <em>Micromonospora kangleipakensis</em>. Digital DNA-DNA hybridization and average nucleotide identity analyses between the isolates and their closest phylogenomic neighbours confirmed that they should be assigned to a new species within the genus <em>Micromonospora</em> for which the name <em>Micromonospora sicca</em> sp. nov. (4G51^T=PCM 3031^T=LMG 30756^T) is proposed.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126542"},"PeriodicalIF":3.3,"publicationDate":"2024-08-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0723202024000560/pdfft?md5=882c4ab4f7ab19cc401a795d2201ae08&pid=1-s2.0-S0723202024000560-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141907761","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Ignisphaera cupida sp. nov., a hyperthermophilic hydrolytic archaeon from a hot spring of Uzon (Kamchatka), and emended description of the genus Ignisphaera","authors":"Olga A. Podosokorskaya,&nbsp;Alexander G. Elcheninov,&nbsp;Alexandra A. Klyukina,&nbsp;Alexander Y. Merkel","doi":"10.1016/j.syapm.2024.126541","DOIUrl":"10.1016/j.syapm.2024.126541","url":null,"abstract":"<div><p>A novel strictly anaerobic hyperthermophilic archaeon, strain 4213-co^T, was isolated from a terrestrial hot spring in the Uzon Caldera, Kamchatka (Russian Federation). Coccoid cells were present singly, in pairs, or aggregates, and occasionally were motile. The strain grew at 75–100 °C and within a pH range of 5.4–8.2 with the optimum at 92 °C and pH 6.4–6.7. Strain 4213-co^T was a chemoorganoheterotroph, growing on proteinaceous substrates and mono-, di- and polysaccharides (starch, guar gum, xanthan gum). It did not require sodium chloride for growth. The complete genome of strain 4213-co^T was 1.74 Mbp in size; its G+C content was 36.18 %. Genome analysis allowed to identify 25 genes encoding glycosidases involved in polysaccharide hydrolysis as well as genes of ADP-forming acetate-CoA ligase, lactate dehydrogenase and two [NiFe] hydrogenases responsible for acetate, lactate and hydrogen formation during fermentation. Moreover gene cluster encoding archaellum subunits was found. According to the phylogenomic analysis strain 4213-co^T formed a species-level phylogenetic lineage within <em>Ignisphaera</em> genus. Our phylogenomic analysis also supports the delineation of the <em>Ignisphaera</em> genus into a separate family <em>Ignisphaeraceae</em>, as recently published. Here we propose a novel species <em>Ignisphaera cupida</em>, sp. nov. with type strain 4213-co^T (=JCM 39446^T=VKM B-3715^T=UQM 41593^T). Ecogenomic analysis showed that representatives of the <em>Ignisphaera</em> are thermophilic archaea, the majority of them were found in terrestrial hot springs and deep-sea hydrothermal vents. This study allowed a better understanding of physiology and ecology of <em>Ignisphaeraceae</em> – a rather understudied archaeal group.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126541"},"PeriodicalIF":3.3,"publicationDate":"2024-07-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141846051","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative genomics of the carmine cochineal symbiont Candidatus Dactylopiibacterium carminicum reveals possible protection to the host against viruses via CRISPR/Cas","authors":"Rafael Bustamante-Brito ,&nbsp;Arturo Vera-Ponce de León ,&nbsp;Mónica Rosenblueth ,&nbsp;Esperanza Martínez-Romero","doi":"10.1016/j.syapm.2024.126540","DOIUrl":"10.1016/j.syapm.2024.126540","url":null,"abstract":"<div><p>We present new genomes from the bacterial symbiont <em>Candidatus</em> Dactylopiibacterium carminicum obtained from non-domesticated carmine cochineals belonging to the scale insect <em>Dactylopius</em> (Hemiptera: Coccoidea: Dactylopiidae). As <em>Dactylopiibacterium</em> has not yet been cultured in the laboratory, metagenomes and metatranscriptomics have been key in revealing putative symbiont functions. <em>Dactylopiibacterium</em> is a nitrogen-fixing beta-proteobacterium that may be vertically transmitted and shows differential gene expression inside the cochineal depending on the tissue colonized. Here we found that all cochineal species tested had <em>Dactylopiibacterium carminicum</em> which has a highly conserved genome. All <em>Dactylopiibacterium</em> genomes analyzed had genes involved in nitrogen fixation and plant polymer degradation. <em>Dactylopiibacterium</em> genomes resemble those from free-living plant bacteria, some found as endophytes. Notably, we found here a new putative novel function where the bacteria may protect the insect from viruses, since all <em>Dactylopiibacterium</em> genomes contain CRISPRs with a spacer matching nucleopolyhedrovirus that affects insects.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126540"},"PeriodicalIF":3.3,"publicationDate":"2024-07-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141789101","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phylogenetically diverse bacterial species produce histamine","authors":"Kristen A. Engevik ,&nbsp;Amber Hazzard ,&nbsp;Brenton Puckett ,&nbsp;Kathleen M. Hoch ,&nbsp;Sigmund J. Haidacher ,&nbsp;Anthony M. Haag ,&nbsp;Jennifer K. Spinler ,&nbsp;James Versalovic ,&nbsp;Melinda A. Engevik ,&nbsp;Thomas D. Horvath","doi":"10.1016/j.syapm.2024.126539","DOIUrl":"10.1016/j.syapm.2024.126539","url":null,"abstract":"<div><p>Histamine is an important biogenic amine known to impact a variety of patho-physiological processes ranging from allergic reactions, gut-mediated anti-inflammatory responses, and neurotransmitter activity. Histamine is found both endogenously within specialized host cells and exogenously in microbes. Exogenous histamine is produced through the decarboxylation of the amino acid L-histidine by bacterial-derived histidine decarboxylase enzymes. To investigate how widespread histamine production is across bacterial species, we examined 102,018 annotated genomes in the Integrated Microbial Genomes Database and identified 3,679 bacterial genomes (3.6 %) which possess the enzymatic machinery to generate histamine. These bacteria belonged to 10 phyla: Bacillota, Bacteroidota, Actinomycetota, Pseudomonadota, Lentisphaerota, Fusobacteriota, Armatimonadota, Cyanobacteriota, Thermodesulfobacteriota, and Verrucomicrobiota. The majority of the identified bacteria were terrestrial or aquatic in origin, although several bacteria originated in the human gut microbiota. We used liquid chromatography-tandem mass spectrometry (LC-MS/MS)-based targeted metabolomics to confirm our genome discoveries correlated with L-histidine-to-histamine conversion in a chemically defined bacterial growth medium by a cohort of select environmental and human gut bacteria. We found that environmental microbes <em>Vibrio harveyi, Pseudomonas fluorescens</em> and <em>Streptomyces griseus</em> generated considerable levels of histamine (788 – 8,730 ng/mL). Interestingly, we found higher concentrations of histamine produced by gut-associated <em>Fusobacterium varium, Clostridium perfringens, Limosilactobacillus reuteri</em> and <em>Morganella morganii</em> (8,510––82,400 ng/mL)<em>.</em> This work expands our knowledge of histamine production by diverse microbes.</p></div>","PeriodicalId":22124,"journal":{"name":"Systematic and applied microbiology","volume":"47 5","pages":"Article 126539"},"PeriodicalIF":3.3,"publicationDate":"2024-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.sciencedirect.com/science/article/pii/S0723202024000535/pdfft?md5=73cbb46d8f8d02364e67433dffcaa85a&pid=1-s2.0-S0723202024000535-main.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141727883","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}